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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CYTIDINE DEAMINASE FROM BACILLUS ANTHRACIS
 
Authors :  R. Zhang, G. Joachimiak, R. Wu, S. Patterson, P. Gornicki, A. Joachimia Center For Structural Genomics (Mcsg)
Date :  01 Nov 07  (Deposition) - 04 Dec 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Cytidine Deaminase, Bacillus Anthracis, Structural Genomics, Psi-2, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, G. Joachimiak, R. Wu, S. Patterson, P. Gornicki, A. Joachimiak
The Crystal Structure Of The Cytidine Deaminase From Bacillus Anthracis.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE BLASTICIDIN S DEAMINASE
    Chains: A, B, C, D
    EC Number: 3.5.4.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PDM68
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: BAS3426, BA_3696, GBAA3696
    Organism Scientific: BACILLUS ANTHRACIS
    Organism Taxid: 1392
    Strain: AMES / ISOLATE PORTON

 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 3B8F)

(-) Sites  (0, 0)

(no "Site" information available for 3B8F)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:52 -A:92
2B:52 -B:92
3C:52 -C:92
4D:52 -D:92

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu D:1 -Asn D:2

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3B8F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3B8F)

(-) Exons   (0, 0)

(no "Exon" information available for 3B8F)

(-) 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:141
 aligned with Q81Y61_BACAN | Q81Y61 from UniProtKB/TrEMBL  Length:142

    Alignment length:141
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141 
         Q81Y61_BACAN     2 NIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b8fA00 A:2-142 Cytidine Deaminase, domain 2                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh....eeeeeeee....eeee......hhhhh...hhhhhhhhhhhh..eeeeeeeee.......ee...hhhhhhhhhhhh...eee.........eeehhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b8f A   2 NIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141 


Chain B from PDB  Type:PROTEIN  Length:142
 aligned with Q81Y61_BACAN | Q81Y61 from UniProtKB/TrEMBL  Length:142

    Alignment length:142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140  
         Q81Y61_BACAN     1 MNIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b8fB00 B:1-142 Cytidine Deaminase, domain 2                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....eeeeeeee....eeee......hhhhh...hhhhhhhhhhhh..eeeeeeeee.......ee...hhhhhhhhhhhh...eee.........eeehhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b8f B   1 LNIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140  


Chain C from PDB  Type:PROTEIN  Length:140
 aligned with Q81Y61_BACAN | Q81Y61 from UniProtKB/TrEMBL  Length:142

    Alignment length:140
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141
         Q81Y61_BACAN     2 NIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWST 141
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b8fC00 C:2-141 Cytidine Deaminase, domain 2                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh....eeeeeeee....eeee......hhhhh...hhhhhhhhhhhh..eeeeeeeee.......ee...hhhhhhhhhhhh...eee.........eeehhhhh..hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b8f C   2 NIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWST 141
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141


Chain D from PDB  Type:PROTEIN  Length:142
 aligned with Q81Y61_BACAN | Q81Y61 from UniProtKB/TrEMBL  Length:142

    Alignment length:142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140  
         Q81Y61_BACAN     1 MNIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b8fD00 D:1-142 Cytidine Deaminase, domain 2                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....eeeeeeee....eeee......hhhhh...hhhhhhhhhhhh..eeeeeeeee.......ee...hhhhhhhhhhhh...eee.........eeehhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b8f D   1 LNIEQQLYDVVKQLIEQRYPNDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPCGVCQERLFYWGPEVQCAITNAKQDIIFKPLKELQPYHWTEAYHDEMVKEWSTR 142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140
   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 3B8F)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3B8F)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q81Y61_BACAN | Q81Y61)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004126    cytidine deaminase activity    Catalysis of the reaction: cytidine + H2O = uridine + NH3.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016814    hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines    Catalysis of the hydrolysis of any non-peptide carbon-nitrogen bond in a cyclic amidine, a compound of the form R-C(=NH)-NH2.
biological process
    GO:0017001    antibiotic catabolic process    The chemical reactions and pathways resulting in the breakdown of antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
    GO:0009972    cytidine deamination    The removal of amino group in the presence of water.

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