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(-) Description

Title :  CRYSTAL STRUCTURE OF PROBABLE HAD FAMILY HYDROLASE FROM PSEUDOMONAS FLUORESCENS PF-5
 
Authors :  Y. Patskovsky, R. Toro, J. Freeman, S. Miller, J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  22 Mar 10  (Deposition) - 07 Apr 10  (Release) - 07 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Had Family Hydrolase, Structural Genomics, Psi, Protein Structure Initiative, New York Structural Genomix Research Consortium, Nysgxrc, Hydrolase, New York Sgx Research Center For Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Patskovsky, R. Toro, J. Freeman, S. Miller, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Had Family Hydrolase From Pseudomonas Fluorescens Pf-5
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYDROLASE, HALOACID DEHALOGENASE-LIKE FAMILY
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GenePFL_5400
    Organism ScientificPSEUDOMONAS FLUORESCENS
    Organism Taxid220664
    StrainPF-5 / ATCC BAA-477

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:94 , LYS A:127 , PHE A:155 , HOH A:352 , HOH A:411BINDING SITE FOR RESIDUE GOL A 206
2AC2SOFTWAREPHE A:24 , ILE A:39 , LEU A:40 , HOH A:331 , HOH A:399 , HOH A:403BINDING SITE FOR RESIDUE GOL A 207

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3M9L)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Lys A:127 -Pro A:128

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3M9L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3M9L)

(-) Exons   (0, 0)

(no "Exon" information available for 3M9L)

(-) 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    
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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:201
 aligned with Q4K5L5_PSEF5 | Q4K5L5 from UniProtKB/TrEMBL  Length:197

    Alignment length:201
                                                                                                                                                                                                                              197    
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190      |  - 
         Q4K5L5_PSEF5     1 MSLSEIKHWVFDMDGTLTIAVHDFAAIREALSIPAEDDILTHLAALPADESAAKHAWLLEHERDLAQGSRPAPGAVELVRELAGRGYRLGILTRNARELAHVTLEAIGLADCFAEADVLGRDEAPPKPHPGGLLKLAEAWDVSPSRMVMVGDYRFDLDCGRAAGTRTVLVNLPDNPWPELTDWHARDCAQLRDLLSA----   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------HAD_2-3m9lA01 A:19-170                                                                                                                                  ------------------------------- Pfam domains
         Sec.struct. author .hhhhh.eeee......eeeeehhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee..hhhhhhhhhhhh..eeeee...hhhhhhhhhhhh.hhhhhhhh.ee..........hhhhhhhhhhh..hhh.eeeee.hhhhhhhhhhhh.eeee.......hhhhh.ee..hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3m9l A   1 mSLSEIKHWVFDmDGTLTIAVHDFAAIREALSIPAEDDILTHLAALPADESAAKHAWLLEHERDLAQGSRPAPGAVELVRELAGRGYRLGILTRNARELAHVTLEAIGLADCFAEADVLGRDEAPPKPHPGGLLKLAEAWDVSPSRmVmVGDYRFDLDCGRAAGTRTVLVNLPDNPWPELTDWHARDCAQLRDLLSAEGHH 201
                            |       10  |     20        30        40        50        60        70        80        90       100       110       120       130       140      |150       160       170       180       190       200 
                            |          13-MSE                                                                                                                               147-MSE                                                  
                            1-MSE                                                                                                                                             149-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 3M9L)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3M9L)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: HAD (186)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q4K5L5_PSEF5 | Q4K5L5)
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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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 Related Entries

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        Q4K5L5_PSEF5 | Q4K5L52ybd 3r09

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