Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Theoretical Model
collapse expand < >
Image Theoretical Model
Theoretical Model  (Jmol Viewer)

(-) Description

Title :  PENTAMERIC SINGLE DOMAIN ANTIBODY 1V5
 
Authors :  J. Zhang, N. H. Khieu, J. -R. Brisson, R. Mackenzie
Date :  09 Jul 03  (Deposition) - 23 Oct 03  (Release) - 15 Jan 04  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B,C,D,E
Keywords :  Single Domain Antibody, Oligomerization, Verotoxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Zhang, J. Tanha, T. Hirama, N. H. Khieu, R. To, H. Tong-Sevinc, E. Stone, J. -R. Brisson, C. R. Mackenzie
Pentamerization Of Single-Domain Antibodies From Phage Libraries: A Novel Strategy For The Rapid Generation Of High-Avidity Antibody Reagents
J. Mol. Biol. V. 335 49 2004
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PENTAMERIC SINGLE DOMAIN ANTIBODY 1V5
    Chains: A, B, C, D, E
    Engineered: YES
    Fragment: VEROTOXIN 1 B SUBUNIT, RESIDUES 1-69, SINGLE DOMAIN ANTIBODY, RESIDUES 75-190
    Organism Scientific: ESCHERICHIA COLI, LLAMA GLAMA

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OJF)

(-) Sites  (0, 0)

(no "Site" information available for 1OJF)

(-) SS Bonds  (10, 10)

Theoretical Model
No.Residues
1A:4 -A:57
2A:96 -A:170
3B:4 -B:57
4B:96 -B:170
5C:4 -C:57
6C:96 -C:170
7D:4 -D:57
8D:96 -D:170
9E:4 -E:57
10E:96 -E:170

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1OJF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OJF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OJF)

(-) Exons   (0, 0)

(no "Exon" information available for 1OJF)

(-) Sequences/Alignments

Theoretical Model
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeee.....eeeee..eeee....hhhhhhhhhhhh..eeeee.......ee..eeeee.........eeee.eee......eeeee..........eeeee.......eeeeee..........hhhhhh.eeeee....eeeee....hhhhheeeeeee.......eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf A   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190


Chain A from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeee.....eeeee..eeee....hhhhhhhhhhhh..eeeee.......ee..eeeee.........eeee.eee......eeeee..........eeeee.......eeeeee..........hhhhhh.eeeee....eeeee....hhhhheeeeeee.......eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf A   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190


Chain A from PDB  Type:PROTEIN  Length:190
 aligned with STXB_SHIDS | Q32GM0 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_SHIDS    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeee.....eeeee..eeee....hhhhhhhhhhhh..eeeee.......ee..eeeee.........eeee.eee......eeeee..........eeeee.......eeeeee..........hhhhhh.eeeee....eeeee....hhhhheeeeeee.......eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf A   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190


Chain B from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eeeeee.....eeeee..eeeee..hhhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf B   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70B||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70B||||                                                                                                                    
                                                                                                71B|||                                                                                                                    
                                                                                                 72B||                                                                                                                    
                                                                                                  73B|                                                                                                                    
                                                                                                   74B                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eeeeee.....eeeee..eeeee..hhhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf B   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70B||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70B||||                                                                                                                    
                                                                                                71B|||                                                                                                                    
                                                                                                 72B||                                                                                                                    
                                                                                                  73B|                                                                                                                    
                                                                                                   74B                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:190
 aligned with STXB_SHIDS | Q32GM0 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_SHIDS    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eeeeee.....eeeee..eeeee..hhhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf B   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70B||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70B||||                                                                                                                    
                                                                                                71B|||                                                                                                                    
                                                                                                 72B||                                                                                                                    
                                                                                                  73B|                                                                                                                    
                                                                                                   74B                                                                                                                    


Chain C from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...eeee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf C   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70C||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70C||||                                                                                                                    
                                                                                                71C|||                                                                                                                    
                                                                                                 72C||                                                                                                                    
                                                                                                  73C|                                                                                                                    
                                                                                                   74C                                                                                                                    


Chain C from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...eeee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf C   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70C||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70C||||                                                                                                                    
                                                                                                71C|||                                                                                                                    
                                                                                                 72C||                                                                                                                    
                                                                                                  73C|                                                                                                                    
                                                                                                   74C                                                                                                                    


Chain C from PDB  Type:PROTEIN  Length:190
 aligned with STXB_SHIDS | Q32GM0 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_SHIDS    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...eeee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf C   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70C||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70C||||                                                                                                                    
                                                                                                71C|||                                                                                                                    
                                                                                                 72C||                                                                                                                    
                                                                                                  73C|                                                                                                                    
                                                                                                   74C                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......eee.eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf D   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70D||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70D||||                                                                                                                    
                                                                                                71D|||                                                                                                                    
                                                                                                 72D||                                                                                                                    
                                                                                                  73D|                                                                                                                    
                                                                                                   74D                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......eee.eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf D   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70D||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70D||||                                                                                                                    
                                                                                                71D|||                                                                                                                    
                                                                                                 72D||                                                                                                                    
                                                                                                  73D|                                                                                                                    
                                                                                                   74D                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:190
 aligned with STXB_SHIDS | Q32GM0 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_SHIDS    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......eee.eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh.eeee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf D   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70D||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70D||||                                                                                                                    
                                                                                                71D|||                                                                                                                    
                                                                                                 72D||                                                                                                                    
                                                                                                  73D|                                                                                                                    
                                                                                                   74D                                                                                                                    


Chain E from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf E   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70E||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70E||||                                                                                                                    
                                                                                                71E|||                                                                                                                    
                                                                                                 72E||                                                                                                                    
                                                                                                  73E|                                                                                                                    
                                                                                                   74E                                                                                                                    


Chain E from PDB  Type:PROTEIN  Length:190
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf E   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70E||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70E||||                                                                                                                    
                                                                                                71E|||                                                                                                                    
                                                                                                 72E||                                                                                                                    
                                                                                                  73E|                                                                                                                    
                                                                                                   74E                                                                                                                    


Chain E from PDB  Type:PROTEIN  Length:190
 aligned with STXB_SHIDS | Q32GM0 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:190
                                                                                               89                                                                                                                         
                                    30        40        50        60        70        80        |-         -         -         -         -         -         -         -         -         -         -         -         -
           STXB_SHIDS    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR-------------------------------------------------------------------------------------------------------------------------   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eee.....eeeee..eeeee...hhhhhhhhhhhhh.eeeee.......ee..eeeee.........eeee.ee.......eeeee..........eeeee.......eeeeee..........hhhhhh..eee.....eeeee....hhhhheeeeeee.......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ojf E   1 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFRGGGGSDVQLQASGGGSVQAGDSLRLSCAASGRPFSSFAMGWFRQAPGKEREFVAAISASGGETYYTGSLKGRFTISRDNAKNTVYLQMDSLKPEDTGVYYCAATINGAARRGQGTQVTVSS 190
                                    10        20        30        40        50        60       70E||||    80        90       100       110       120       130       140       150       160       170       180       190
                                                                                               70E||||                                                                                                                    
                                                                                                71E|||                                                                                                                    
                                                                                                 72E||                                                                                                                    
                                                                                                  73E|                                                                                                                    
                                                                                                   74E
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1OJF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1OJF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1OJF)

(-) Gene Ontology  (4, 10)

Theoretical Model(hide GO term definitions)
Chain A,B,C,D,E   (STXB_SHIDS | Q32GM0)
biological process
    GO:0019836    hemolysis by symbiont of host erythrocytes    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0044177    host cell Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic host cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack.

Chain A,B,C,D,E   (STXB_BPH30 | P69178)
biological process
    GO:0019836    hemolysis by symbiont of host erythrocytes    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain A,B,C,D,E   (STXB_BPH19 | P69179)
biological process
    GO:0019836    hemolysis by symbiont of host erythrocytes    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

 Visualization

(-) Interactive Views

Theoretical Model
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 1ojf)
 
  Sites
(no "Sites" information available for 1ojf)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1ojf)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Theoretical Model PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1ojf
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  STXB_BPH19 | P69179
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  STXB_BPH30 | P69178
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  STXB_SHIDS | Q32GM0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  STXB_BPH19 | P69179
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  STXB_BPH30 | P69178
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  STXB_SHIDS | Q32GM0
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        STXB_BPH19 | P69179: 1bos 1c48 1c4q 1cqf 1czg 1czw 1d1i 1d1k 1qnu 2c5c 2xsc 4ull
        STXB_BPH30 | P69178: 1bos 1c48 1c4q 1cqf 1czg 1czw 1d1i 1d1k 2c5c 2xsc 4ull

(-) Related Entries Specified in the PDB File

1bos SHIGA-LIKE TOXIN COMPLEXED WITH ITS RECEPTOR
1bov VEROTOXIN-1 (B-OLIGOMER, ALSO CALLED SHIGA- LIKE TOXIN-1)
1c48 MUTATED SHIGA-LIKE TOXIN B SUBUNIT (G62T)
1c4q MUTATED SHIGA-LIKE TOXIN B SUBUNIT (F30A/ W34A) COMPLEXED WITH RECETOR GB3 ANALOGUE
1cqf THE COMPLEX OF THE MUTATED SHIGA TOXIN B SUBUNIT AND GB3 TRISACCHARIDE
1czg STRUCTURE OF THE G62T MUTANT OF SHIGA-LIKE TOXIN I B SUBUNIT
1czw STRUCTURE OF THE W34A MUTANT OF SHIGA-LIKE TOXIN I B SUBUNIT
1d1i MUTATED SHIGA-LIKE TOXIN B SUBUNIT (W34A) COMPLEXED WITH RECEPTOR GB3 ANALOGUE
1d1k MUTATED SHIGA-LIKE TOXIN B SUBUNIT (D17E/ W34A) COMPLEXED WITH RECEPTOR GB3 ANALOGUE
1qnu SHIGA-LIKE TOXIN I B SUBUNIT COMPLEXED WITH THE BRIDGED-STARFISH INHIBITOR
4ull SOLUTION NMR STRUCTURE OF VEROTOXIN-1 B- SUBUNIT FROM E. COLI, 5 STRUCTURES