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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF BRADAVIDIN
 
Authors :  J. Leppiniemi, T. Gronroos, M. S. Johnson, M. S. Kulomaa, V. P. Hytonen, T. T. Airenne
Date :  17 Dec 10  (Deposition) - 28 Dec 11  (Release) - 06 Jun 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.78
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Biotin-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Leppiniemi, T. Gronroos, J. A. E. Maatta, M. S. Johnson, M. S. Kulomaa, V. P. Hytonen, T. T. Airenne
Structure Of Bradavidin - C-Terminal Residues Act As Intrinsic Ligands.
Plos One V. 7 35962 2012
PubMed-ID: 22574129  |  Reference-DOI: 10.1371/JOURNAL.PONE.0035962

(-) Compounds

Molecule 1 - BLR5658 PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 26-163
    Organism Scientific: BRADYRHIZOBIUM JAPONICUM
    Organism Taxid: 375
    Other Details: AUTHORS REPORT RESIDUES 1-25 ARE A SIGNAL PEPTIDE THAT IS ABSENT IN CRYSTALLIZED FORM
    Synonym: BRADAVIDIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2Y32)

(-) Sites  (0, 0)

(no "Site" information available for 2Y32)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:39 -A:69
2B:39 -B:69
3C:39 -C:69
4D:39 -D:69

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Y32)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Y32)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Y32)

(-) Exons   (0, 0)

(no "Exon" information available for 2Y32)

(-) Sequences/Alignments

Asymmetric/Biological 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:137
 aligned with Q89IH6_BRADU | Q89IH6 from UniProtKB/TrEMBL  Length:163

    Alignment length:137
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       
         Q89IH6_BRADU    26 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 162
               SCOP domains d2y32a_ A: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....eeeeeee.....eeeeeee............eeeeeeeee....eeeeeeeee....eeeeeeee......eeeeeeeee........eeeeeeeeeeee..hhhhh................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y32 A   1 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 137
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       


Chain B from PDB  Type:PROTEIN  Length:137
 aligned with Q89IH6_BRADU | Q89IH6 from UniProtKB/TrEMBL  Length:163

    Alignment length:137
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       
         Q89IH6_BRADU    26 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 162
               SCOP domains d2y32b_ B: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....eeeeeee.....eeeeeee............eeeeeeeee....eeeeeeeee....eeeeeeee......eeeeeeeee........eeeeeeeeeeee..hhhhh................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y32 B   1 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 137
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       


Chain C from PDB  Type:PROTEIN  Length:138
 aligned with Q89IH6_BRADU | Q89IH6 from UniProtKB/TrEMBL  Length:163

    Alignment length:138
                                    35        45        55        65        75        85        95       105       115       125       135       145       155        
         Q89IH6_BRADU    26 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTKK 163
               SCOP domains d2y32c_ C: automated matches                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eee.....eeeeeee.....eeeeeee............eeeeeeeee....eeeeeeeee....eeeeeeee......eeeeeeeee........eeeeeeeeeeee......................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2y32 C   1 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTKK 138
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        


Chain D from PDB  Type:PROTEIN  Length:137
 aligned with Q89IH6_BRADU | Q89IH6 from UniProtKB/TrEMBL  Length:163

    Alignment length:137
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       
         Q89IH6_BRADU    26 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 162
               SCOP domains d2y32d_ D: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....eeeeeee.....eeeeeee...........eeeeeeeeee....eeeeeeeee....eeeeeeee......eeeeeeeee........eeeeeeeeeeee..hhhhh................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y32 D   1 QSVNWTWTNQYGSTLAITSFNSNTGAITGTYTNNAANSCDEGKPQGVTGWLAYGNTGTAISFSVNFLGCGSTTVWTGQLNNATGFQGLWYLSLAEAVAWNGISAGADTFTFSSGDKALLTKSGVDLKAGSEKLSNTK 137
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Y32)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2Y32)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2Y32)

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  2y32
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 Related Entries

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

UniProtKB/TrEMBL
        Q89IH6_BRADU | Q89IH6: 4bbo

(-) Related Entries Specified in the PDB File

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