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(-) Description

Title :  CRYSTAL STRUCTURE OF RHIZAVIDIN
 
Authors :  O. Livnah, A. Meir
Date :  14 Oct 08  (Deposition) - 23 Dec 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
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)
Biol. Unit 4:  B (1x),D (1x),E (1x),F (1x)
Biol. Unit 5:  A  (1x)
Biol. Unit 6:  B  (1x)
Biol. Unit 7:  C  (1x)
Biol. Unit 8:  D  (1x)
Biol. Unit 9:  E  (1x)
Biol. Unit 10:  F  (1x)
Keywords :  High Affinity, Rhizavidin, Biotin, Avidin, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Meir, S. H. Helppolainen, E. Podoly, H. R. Nordlund, V. P. Hytonen, J. A. Maatta, M. Wilchek, E. A. Bayer, M. S. Kulomaa, O. Livnah
Crystal Structure Of Rhizavidin: Insights Into The Enigmati High-Affinity Interaction Of An Innate Biotin-Binding Protein Dimer.
J. Mol. Biol. V. 386 379 2009
PubMed-ID: 19111749  |  Reference-DOI: 10.1016/J.JMB.2008.11.061

(-) Compounds

Molecule 1 - RHIZAVIDIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RHE_PD00032
    Organism Scientific: RHIZOBIUM ETLI
    Organism Taxid: 347834
    Strain: CFN 42

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF
Biological Unit 4 (1x):  B (1x) D (1x)E (1x)F (1x)
Biological Unit 5 (1x): A     
Biological Unit 6 (1x):  B    
Biological Unit 7 (1x):   C   
Biological Unit 8 (1x):    D  
Biological Unit 9 (1x):     E 
Biological Unit 10 (1x):      F

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3EW1)

(-) Sites  (0, 0)

(no "Site" information available for 3EW1)

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:50 -A:79
2B:50 -B:79
3C:50 -C:79
4D:50 -D:79
5E:50 -E:79
6F:50 -F:79

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EW1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EW1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EW1)

(-) Exons   (0, 0)

(no "Exon" information available for 3EW1)

(-) 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:134
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:134
                                    30        40        50        60        70        80        90       100       110       120       130       140       150    
         Q8KKW2_RHIEC    21 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 154
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhh...eeeeee....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee...eeeeeeeeeeeeeeee..eeeeeeeeeeeee....eeeeeeeeeeeee..ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 A   1 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 134
                                    10        20        30        40        50        60        70        80        90       100       110       120       130    


Chain B from PDB  Type:PROTEIN  Length:135
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:135
                                    30        40        50        60        70        80        90       100       110       120       130       140       150     
         Q8KKW2_RHIEC    21 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 155
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhheeeeeee....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee...eeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeeeeeeeeeeee..ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 B   1 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     


Chain C from PDB  Type:PROTEIN  Length:135
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:135
                                    30        40        50        60        70        80        90       100       110       120       130       140       150     
         Q8KKW2_RHIEC    21 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 155
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhh..eeeeee....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee...eeeeeeeeeeeeeeee..eeeeeeeeeeeee....eeeeeeeeeeeee..ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 C   1 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     


Chain D from PDB  Type:PROTEIN  Length:135
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:135
                                    30        40        50        60        70        80        90       100       110       120       130       140       150     
         Q8KKW2_RHIEC    21 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 155
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.eeeeeee....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeeeee....eeeeeeeeeeeee..ee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 D   1 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKD 135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     


Chain E from PDB  Type:PROTEIN  Length:129
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:129
                                    35        45        55        65        75        85        95       105       115       125       135       145         
         Q8KKW2_RHIEC    26 FKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 154
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.eeeeeee....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee...eeeeeeeeeeeeeeee..eeeeeeeeeeeeee..eeeeeeeeeeeeee..ee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 E   6 FKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 134
                                    15        25        35        45        55        65        75        85        95       105       115       125         


Chain F from PDB  Type:PROTEIN  Length:134
 aligned with Q8KKW2_RHIEC | Q8KKW2 from UniProtKB/TrEMBL  Length:155

    Alignment length:134
                                    30        40        50        60        70        80        90       100       110       120       130       140       150    
         Q8KKW2_RHIEC    21 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 154
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.hhhhhh.eeeeee.....eeeeee....eeeeeee...........eeeeeeeee..eeeeeeeee...eeeeeeeeeeeeeeee..eeeeeeeeeeeee....eeeeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ew1 F   1 FDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLK 134
                                    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  (0, 0)

(no "SCOP Domain" information available for 3EW1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EW1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EW1)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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 Related Entries

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        Q8KKW2_RHIEC | Q8KKW2: 3ew2

(-) Related Entries Specified in the PDB File

3ew2