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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE PYRIMIDINE-SPECIFIC RIBONUCLEOSIDE HYDROLASE (RIHA) PROTEIN FROM SHEWANELLA LOIHICA PV-4 (SHEW_0697, TARGET PSI-029635) WITH DIVALENT CATION AND PEG 400 BOUND AT THE ACTIVE SITE
 
Authors :  D. M. Himmel, R. Bhosle, R. Toro, B. Hillerich, A. Gizzi, S. Garforth, A. M. K. Chan, J. Lafluer, H. Patel, B. Matikainen, S. Chamala, S. Lim, A. C G. Villegas, B. Evans, J. Love, A. Fiser, R. D. Seidel, J. B. Bonanno, S. New York Structural Genomics Research Consortium (Nysgrc)
Date :  22 Oct 14  (Deposition) - 12 Nov 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Hydrolase, Pyrimidine-Specific, Protein Structure Initiative, Psi, Divalent Cation Binding Site, Structural Genomics, New York Structural Genomics Research Consortium, Nysgrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. M. Himmel, R. Bhosle, R. Toro, B. Hillerich, A. Gizzi, S. Garforth, A. Kar, M. K. Chan, J. Lafluer, H. Patel, B. Matikainen, S. Chamala, S. Lim, A. Celikgil, G. Villegas, B. Evans, J. Love, A. Fiser, R. D. Seidel, J. B. Bonanno, S. C. Almo
Crystal Structure Of A Putative Pyrimidine-Specific Ribonucleoside Hydrolase (Riha) Protein From Shewanella Loihica Pv-4 (Shew_0697, Target Psi-029635) With Divalent Cation And Peg 400 Bound At The Active Site
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PYRIMIDINE-SPECIFIC RIBONUCLEOSIDE HYDROLASE RIHA
    Chains: A
    EC Number: 3.2.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: RIHA, SHEW_0697
    Organism Scientific: SHEWANELLA LOIHICA
    Organism Taxid: 323850
    Strain: ATCC BAA-1088 / PV-4
    Synonym: CYTIDINE/URIDINE-SPECIFIC HYDROLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
2CA1Ligand/IonCALCIUM ION
3MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 36)
No.NameCountTypeFull Name
11PE4Ligand/IonPENTAETHYLENE GLYCOL
2CA-1Ligand/IonCALCIUM ION
3MSE32Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:56 , ASP A:61 , SER A:170 , ASP A:287 , HOH A:598 , HOH A:678 , HOH A:747binding site for residue CA A 401
2AC2SOFTWAREASN A:85 , VAL A:202 , ASN A:204 , LEU A:235 , TRP A:278 , PHE A:280 , HIS A:286binding site for residue 1PE A 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4WR2)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) Sequences/Alignments

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Chain A from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeee..hhhhhhhhhhhh....eeeeeeee.....hhhhhhhhhhhhhhhh......eee...........................hhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhh.eeeeeee.............hhhhhhhhhhhhhhhhh...eeeehhhhhh..eehhhhhhhhhh..hhhhhhhhhhhhhhhhhh.hhhhh...ee..hhhhhhhhhh...eeeeee.eee..........eee...........eeeeeeehhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wr2 A  40 KAIRPLASATPIILDCDPGHDDAISLILALSSERLNPLAVTTSAGNQTPDKTLNNALRILTLLNRADmPVAGGAVKPLARELIIAGPKLPDPSFDPLTQNAIELmAEKVRQSAVPVTLVPSGPLTNIALFIANYPELHSKVERIVLmGGAAGVGNWTPAAEFNIFVDPEAADmVFKSGIPITmCGLDVTHEAQImDEDIERIRAIPNPVAQCVAELLDFFmIYHRDPKWGFTGAPLHDPCTIAWLLKPELFTAQECWVGVETKGEYTQGmTVVDRYQLTGKTANATVLFDLDRQGFVDLIVDCLSAYN 357
                                    49        59        69        79        89        99       109       119    || 139       149    |  159       169       179       189      |199       209       219  |    229  |    239    |  249       259       269|      279       289       299       309       319       329       339       349        
                                                                                             107-MSE          124|                154-MSE                                   196-MSE                   222-MSE   232-MSE     244-MSE                   270-MSE                                          319-MSE                                  
                                                                                                               135
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4WR2)

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (8, 8)

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