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(-) Description

Title :  STRUCTURE OF APO BRADAVIDIN2 (FORM B)
 
Authors :  O. Livnah, A. Meir
Date :  07 Aug 12  (Deposition) - 19 Jun 13  (Release) - 10 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.69
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Bradavidin, Avidin, Oligomeric State, Streptavidin, High Affinity Systems, Lipocalin Fold, Beta Barrel, Biotin Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Leppiniemi, A. Meir, N. Kahkonen, S. Kukkurainen, J. A. Maatta, M. Ojanen, J. Janis, M. S. Kulomaa, O. Livnah, V. P. Hytonen
The Highly Dynamic Oligomeric Structure Of Bradavidin Ii Is Unique Among Avidin Proteins.
Protein Sci. V. 22 980 2013
PubMed-ID: 23661323  |  Reference-DOI: 10.1002/PRO.2281

(-) Compounds

Molecule 1 - BRADAVIDIN 2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-AI
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 19-130
    Gene: BLL1558
    Organism Scientific: BRADYRHIZOBIUM JAPONICUM
    Organism Taxid: 224911
    Strain: USDA 110
    Synonym: BLL1558 PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4GGT)

(-) Sites  (0, 0)

(no "Site" information available for 4GGT)

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:44 -A:69
2B:44 -B:69

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:9 -Pro A:10
2Ala B:9 -Pro B:10

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GGT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GGT)

(-) Exons   (0, 0)

(no "Exon" information available for 4GGT)

(-) 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:105
                                                                                                                                         
               SCOP domains d4ggta_ A: automated matches                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....eeeeeehhh.eeeeeee...........eeeeeeeee..eeeeeeeehhhheeeeeee.....eeeeeeeeee......eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 4ggt A   7 LPAPSYWKNERGSELLIWSANSGTIQGTFTNHAQGFACQGIPYPAAGSVSPTGLYFVVTFAQCNSFTRWVGTIKGSQMPTSWTLFYVNKGKPSRLKGGDIFTRVW 112
                                    16        26        36        46        56        66        76        86      ||97       107     
                                                                                                                 93|                 
                                                                                                                  95                 


Chain B from PDB  Type:PROTEIN  Length:106
                                                                                                                                          
               SCOP domains d4ggtb_ B: automated matches                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....eeeeeehhh.eeeeeee...........eeeeeeeee..eeeeeeee....eeeeeee.....eeeeeeeeeee.....eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 4ggt B   7 LPAPSYWKNERGSELLIWSANSGTIQGTFTNHAQGFACQGIPYPAAGSVSPTGLYFVVTFAQCNSFTRWVGTIKGSQMPTSWTLFYVDNKGKPSRLKGGDIFTRVW 112
                                    16        26        36        46        56        66        76        86        96       106
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GGT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GGT)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4GGT)

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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 4ggt)
 
  Cis Peptide Bonds
    Ala A:9 - Pro A:10   [ RasMol ]  
    Ala B:9 - Pro B:10   [ RasMol ]  
 
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  4ggt
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  Q89U61_BRADU | Q89U61
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 Related Entries

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

UniProtKB/TrEMBL
        Q89U61_BRADU | Q89U61: 4ggr 4ggz

(-) Related Entries Specified in the PDB File

2y32 4ggr 4ggz