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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ADENINE DEAMINASE
 
Authors :  R. Sugadev, D. Kumaran, S. K. Burley, S. Swaminathan, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  13 Sep 06  (Deposition) - 17 Oct 06  (Release) - 30 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Tim Barrel, Binuclear Zinc, Adenine Complex, Amidohydrolase, 9295A, Adenine Deaminase, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. Sugadev, D. Kumaran, S. K. Burley, S. Swaminathan
Crystal Structure Of An Adenine Deaminase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ADENINE DEAMINASE
    ChainsA
    EC Number3.5.4.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorBC-PSGX3(BC)
    Expression System Vector TypePLASMID
    Organism ScientificENTEROCOCCUS FAECALIS
    Organism Taxid1351

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1ADE1Ligand/IonADENINE
2KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MSE7Mod. Amino AcidSELENOMETHIONINE
4ZN2Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:60 , HIS A:62 , TYR A:70 , KCX A:154 , ASP A:272 , ZN A:401 , HOH A:1115BINDING SITE FOR RESIDUE ZN A 400
2AC2SOFTWAREKCX A:154 , HIS A:188 , HIS A:211 , ZN A:400 , ADE A:1114 , HOH A:1115BINDING SITE FOR RESIDUE ZN A 401
3AC3SOFTWARETYR A:70 , GLN A:125 , ARG A:156 , HIS A:188 , ZN A:401 , HOH A:1115BINDING SITE FOR RESIDUE ADE A 1114

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ICS)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Ala A:192 -Pro A:193
2Pro A:193 -Pro A:194
3Gly A:281 -Pro A:282

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2ICS)

(-) 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:368
 aligned with DEACT_ENTFA | Q837K0 from UniProtKB/Swiss-Prot  Length:369

    Alignment length:368
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361        
          DEACT_ENTFA     2 DYDLLIKNGQTVNGMPVEIAIKEKKIAAVAATISGSAKETIHLEPGTYVSAGWIDDHVHCFEKMALYYDYPDEIGVKKGVTTVIDAGTTGAENIHEFYDLAQQAKTNVFGLVNISKWGIVAQDELADLSKVQASLVKKAIQELPDFVVGIKARMSRTVIGDNGITPLELAKQIQQENQEIPLMVHIGSAPPHLDEILALMEKGDVLTHCFNGKENGILDQATDKIKDFAWQAYNKGVVFDIGHGTDSFNFHVAETALREGMKAASISTDIYIRNRENGPVYDLATTMEKLRVVGYDWPEIIEKVTKAPAENFHLTQKGTLEIGKDADLTIFTIQAEEKTLTDSNGLTRVAKEQIRPIKTIIGGQIYDN 369
               SCOP domains d2icsa1 A:4-54,A:322-371                           d2icsa2 A:55-321 Putative adenine deaminase EF0837                                                                                                                                                                                                                         d2icsa1 A:4-54,A:322-371                           SCOP domains
               CATH domains 2icsA01 A:4-54,A:322-371                           2icsA02 A:55-321 Metal-dependent hydrolases                                                                                                                                                                                                                                2icsA01 A:4-54,A:322-371                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.....eeeeeee..eeeeee......eeeeee.....eeee.eeeeee...........hhhhhhhhh.eeeeeee......hhhhhhhhhhh...eeeeeee.............hhhhhhhhhhhhhhhhh...eeeeeeeehhhhhh...hhhhhhhhhhhhh.....eeeee.....hhhhhhhhh....eee..........ee....eehhhhhhhhhh..eee........hhhhhhhhhhh...........hhhhhhh....hhhhhhhhhhhhh.hhhhhhhh.hhhhhhhh...............eeeeeeeeeeeeee.....eeeeeeeeeeeeeee..eeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ics A   4 DYDLLIKNGQTVNGmPVEIAIKEKKIAAVAATISGSAKETIHLEPGTYVSAGWIDDHVHCFEKmALYYDYPDEIGVKKGVTTVIDAGTTGAENIHEFYDLAQQAKTNVFGLVNISKWGIVAQDELADLSKVQASLVKKAIQELPDFVVGIkARmSRTVIGDNGITPLELAKQIQQENQEIPLmVHIGSAPPHLDEILALmEKGDVLTHCFNGKENGILDQATDKIKDFAWQAYNKGVVFDIGHGTDSFNFHVAETALREGmKAASISTDIYIRNRENGPVYDLATTmEKLRVVGYDWPEIIEKVTKAPAENFHLTQKGTLEIGKDADLTIFTIQAEEKTLTDSNGLTRVAKEQIRPIKTIIGGQIYDN 371
                                    13    |   23        33        43        53        63   |    73        83        93       103       113       123       133       143       153|  |   163       173       183  |    193       203       213       223       233       243       253       263|      273       283      |293       303       313       323       333       343       353       363        
                                         18-MSE                                           67-MSE                                                                                154-KCX                         186-MSE          203-MSE                                                      264-MSE                   290-MSE                                                                             
                                                                                                                                                                                   157-MSE                                                                                                                                                                                                                  

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (DEACT_ENTFA | Q837K0)
molecular function
    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:0016810    hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds    Catalysis of the hydrolysis of any carbon-nitrogen bond, C-N, with the exception of peptide bonds.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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