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(-) Description

Title :  CRYSTAL STRUCTURE OF APO SHWANAVIDIN (P1 FORM)
 
Authors :  O. Livnah, A. Meir
Date :  19 Jul 11  (Deposition) - 11 Apr 12  (Release) - 13 Jun 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.07
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  High Affinity Systems, Avidin, Streptavidin, Biotin, Shwanavidin, Biotin-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Meir, E. A. Bayer, O. Livnah
Structural Adaptation Of A Thermostable Biotin-Binding Protein In A Psychrophilic Environment.
J. Biol. Chem. V. 287 17951 2012
PubMed-ID: 22493427  |  Reference-DOI: 10.1074/JBC.M112.357186

(-) Compounds

Molecule 1 - AVIDIN/STREPTAVIDIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SDEN_0912
    Organism Scientific: SHEWANELLA DENITRIFICANS
    Organism Taxid: 318161
    Strain: OS217 / ATCC BAA-1090 / DSM 15013

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3SZH)

(-) Sites  (0, 0)

(no "Site" information available for 3SZH)

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:45 -A:74
2B:45 -B:74
3C:45 -C:74
4D:45 -D:74
5E:45 -E:74
6F:45 -F:74

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SZH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SZH)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SZH)

(-) Exons   (0, 0)

(no "Exon" information available for 3SZH)

(-) Sequences/Alignments

Asymmetric Unit
   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:115
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:117
                                    54        64        74        84        94       104       114       124       134       144       154       
         Q12QS6_SHEDO    45 QELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQTS 161
               SCOP domains d3szha_ A: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.....eeeeeee....eeeeeee............eeeeeeee..eeeeeeeee....eeeeeeeeeeeee.--...eeeeeeeeee....hhhhheeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh A   5 QELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYIN--GQGKISTLWQLVVNGSSSPSQILKGQDVFSQTS 121
                                    14        24        34        44        54        64        74        84 |  |   94       104       114       
                                                                                                            86 89                                


Chain B from PDB  Type:PROTEIN  Length:116
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:118
                                    52        62        72        82        92       102       112       122       132       142       152        
         Q12QS6_SHEDO    43 MAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 160
               SCOP domains d3szhb_ B: automated matches                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee.....eeeeeee....eeeeeee............eeeeeeee..eeeeeeeee....eeeeeeeeeeeee.--...eeeeeeeeee....hhhhheeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh B   3 MAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYIN--GQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 120
                                    12        22        32        42        52        62        72        82   |  | 92       102       112        
                                                                                                              86 89                               


Chain C from PDB  Type:PROTEIN  Length:117
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:119
                                    51        61        71        81        91       101       111       121       131       141       151         
         Q12QS6_SHEDO    42 LMAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 160
               SCOP domains d3szhc_ C: automated matches                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee....eeeeeee....eeeeeee....-.......eeeeeeee..eeeeeeeee....eeeeeeeeeeeeee.-..eeeeeeeeeee....hhhhheeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh C   2 AMAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAA-FACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINT-GQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 120
                                    11        21        31        41 |      51        61        71        81     | |91       101       111         
                                                                  41 |                                          87 |                               
                                                                    43                                            89                               


Chain D from PDB  Type:PROTEIN  Length:116
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:118
                                    52        62        72        82        92       102       112       122       132       142       152        
         Q12QS6_SHEDO    43 MAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 160
               SCOP domains d3szhd_ D: automated matches                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee....eeeeeee....eeeeeee....-......eeeeeeeee..eeeeeeeee....eeeeeeeeeeeeee.-..eeeeeeeeeee....hhhhheeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh D   3 MAQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAA-FACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINT-GQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 120
                                    12        22        32        |-|       52        62        72        82    | | 92       102       112        
                                                                 41 |                                          87 |                               
                                                                   43                                            89                               


Chain E from PDB  Type:PROTEIN  Length:116
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:117
                                    53        63        73        83        93       103       113       123       133       143       153       
         Q12QS6_SHEDO    44 AQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 160
               SCOP domains d3szhe_ E: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee....eeeeeee....eeeeeee....-......eeeeeeeee..eeeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeeee....hhhhheeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh E   4 AQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAA-FACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 120
                                    13        23        33       |43        53        63        73        83        93       103       113       
                                                                41 |                                                                             
                                                                  43                                                                             


Chain F from PDB  Type:PROTEIN  Length:117
 aligned with Q12QS6_SHEDO | Q12QS6 from UniProtKB/TrEMBL  Length:172

    Alignment length:117
                                    53        63        73        83        93       103       113       123       133       143       153       
         Q12QS6_SHEDO    44 AQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 160
               SCOP domains d3szhf_ F: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee....eeeeeee....eeeeeee............eeeeeeee..eeeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeeee....hhhhheeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3szh F   4 AQELTAMSAWVNQDGSTLYINSINAQGELTGSYINRAAGFACQNSPYPVNGWVFGTAISFSTKWLNSVESCNSITSWSGFYINTGGQGKISTLWQLVVNGSSSPSQILKGQDVFSQT 120
                                    13        23        33        43        53        63        73        83        93       103       113
   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  (1, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SZH)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SZH)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3SZH)

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 Related Entries

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

UniProtKB/TrEMBL
        Q12QS6_SHEDO | Q12QS6: 3szi 3szj 3t2w 3t2x

(-) Related Entries Specified in the PDB File

3ew1 CRYSTAL STRUCTURE OF RHIZAVIDIN
3ew2 CRYSTAL STRUCTURE OF RHIZAVIDIN-BIOTIN COMPLEX
3szi
3szj
3t2w
3t2x