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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE NUCLEOSIDE-DIPHOSPHATE-SUGAR EPIMERASE FROM AGROBACTERIUM TUMEFACIENS
 
Authors :  R. Zhang, X. Xu, H. Zheng, A. Savchenko, A. Edwards, A. Joachimiak, Midw Center For Structural Genomics (Mcsg)
Date :  20 Jul 06  (Deposition) - 22 Aug 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Nucleoside-Diphosphate-Sugar Epimerase, Agrobacterium Tumefaciens, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, X. Xu, H. Zheng, A. Savchenko, A. Edwards, A. Joachimiak
The Crystal Structure Of The Nucleoside-Diphosphate-Sugar Epimerase From Agrobacterium Tumefaciens
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NUCLEOSIDE-DIPHOSPHATE-SUGAR EPIMERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: AGR_C_4963, ATU2738
    Organism Scientific: AGROBACTERIUM TUMEFACIENS
    Organism Taxid: 176299
    Strain: STR. C58
    Synonym: AGR_C_4963P

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 7)

Asymmetric Unit (1, 7)
No.NameCountTypeFull Name
1MSE7Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 14)
No.NameCountTypeFull Name
1MSE14Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2HRZ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ala A:141 -Pro A:142
2Tyr A:145 -Pro A:146
3Cys A:190 -Ile A:191

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2HRZ)

(-) 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:342
 aligned with A9CHF5_AGRFC | A9CHF5 from UniProtKB/TrEMBL  Length:328

    Alignment length:342
                                          1                                                                                                                                                                                                                                                                                                                                       
                                     -    |    6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326  
         A9CHF5_AGRFC     - --------------MHIAIIGAAGMVGRKLTQRLVKDGSLGGKPVEKFTLIDVFQPEAPAGFSGAVDARAADLSAPGEAEKLVEARPDVIFHLAAIVSGEAELDFDKGYRINLDGTRYLFDAIRIANGKDGYKPRVVFTSSIAVFGAPLPYPIPDEFHTTPLTSYGTQKAICELLLSDYSRRGFFDGIGIRLPTICIRPGKPNAAASGFFSNILREPLVGQEAVLPVPESIRHWHASPRSAVGFLIHGAMIDVEKVGPRRNLSMPGLSATVGEQIEALRKVAGEKAVALIRREPNEMIMRMCEGWAPGFEAKRARELGFTAESSFEEIIQVHIEDELGGSLK 328
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains -------------2hrzA01 A:8-186,A:232-259,A:292-314 NAD(P)-binding Rossmann-like Domain                                                                                                            2hrzA02 A:187-231,A:260-290,A:315-336        2hrzA01                     2hrzA02                        -2hrzA01                2hrzA02                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..............eeeeee...hhhhhhhhhhhhhhhee..eeeeeeeeee............eeeeee......hhhhhhhhh...eeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhh.................hhhhhhhhhhhhhhhhhhhh...eeeeeee.ee.........hhhhhhhhhhhhhhh...eee......eeeeehhhhhhhhhhhhhhhhhhhhh...eee...eeeehhhhhhhhhhhhhhhhhh.eee..hhhhhhhhh.......hhhhhhh......hhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2hrz A  -5 HHHSSGRENLYFQGmHIAIIGAAGmVGRKLTQRLVKDGSLGGKPVEKFTLIDVFQPEAPAGFSGAVDARAADLSAPGEAEKLVEARPDVIFHLAAIVSGEAELDFDKGYRINLDGTRYLFDAIRIANGKDGYKPRVVFTSSIAVFGAPLPYPIPDEFHTTPLTSYGTQKAICELLLSDYSRRGFFDGIGIRLPTICIRPGKPNAAASGFFSNILREPLVGQEAVLPVPESIRHWHASPRSAVGFLIHGAmIDVEKVGPRRNLSmPGLSATVGEQIEALRKVAGEKAVALIRREPNEmImRmCEGWAPGFEAKRARELGFTAESSFEEIIQVHIEDELGGSLK 336
                                     4    |   14    |   24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254   |   264       274       284      |294|      304       314       324       334  
                                          9-MSE    19-MSE                                                                                                                                                                                                                          244-MSE       258-MSE                          291-MSE                                         
                                                                                                                                                                                                                                                                                                                                    293-MSE                                       
                                                                                                                                                                                                                                                                                                                                      295-MSE
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  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 2HRZ)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (A9CHF5_AGRFC | A9CHF5)
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:0050662    coenzyme binding    Interacting selectively and non-covalently with a coenzyme, any of various nonprotein organic cofactors that are required, in addition to an enzyme and a substrate, for an enzymatic reaction to proceed.

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  Cis Peptide Bonds
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