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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FLUOROACETATE DEHALOGENASE RPA1163 - HIS280ASN/FLUOROACETATE - COCRYSTALLIZED - SINGLE PROTOMER REACTED WITH LIGAND
 
Authors :  P. Mehrabi, T. H. Kim, S. R. Prosser, E. F. Pai
Date :  19 May 16  (Deposition) - 01 Feb 17  (Release) - 01 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.54
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Homodimer, Hydrolase, Dehalogenase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. H. Kim, P. Mehrabi, Z. Ren, A. Sljoka, C. Ing, A. Bezginov, L. Ye, R. Pomes, R. S. Prosser, E. F. Pai
The Role Of Dimer Asymmetry And Protomer Dynamics In Enzyme Catalysis.
Science V. 355 2017
PubMed-ID: 28104837  |  Reference-DOI: 10.1126/SCIENCE.AAG2355

(-) Compounds

Molecule 1 - FLUOROACETATE DEHALOGENASE
    Chains: A
    EC Number: 3.8.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPA1163
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS (STRAIN ATCC BAA-98 / CGA009)
    Organism Taxid: 258594
    Strain: ATCC BAA-98 / CGA009
 
Molecule 2 - FLUOROACETATE DEHALOGENASE
    Chains: B
    EC Number: 3.8.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPA1163
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS (STRAIN ATCC BAA-98 / CGA009)
    Organism Taxid: 258594
    Strain: ATCC BAA-98 / CGA009

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ASB1Mod. Amino AcidASPARTIC ACID-4-CARBOXYMETHYL ESTER
2CL1Ligand/IonCHLORIDE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP B:110 , ARG B:111 , ARG B:114binding site for residue CL B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5K3F)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Phe A:40 -Pro A:41
2Ala A:163 -Pro A:164
3Phe B:40 -Pro B:41
4Ala B:163 -Pro B:164

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K3F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K3F)

(-) Exons   (0, 0)

(no "Exon" information available for 5K3F)

(-) 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:297
                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee......eeeeeee...eeeee.....hhhhhh.hhhhhh...eeeee................hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee...hhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhh.hhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee..hhhhh..hhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k3f A   4 LADLFPGFGSEWINTSSGRIFARVGGDGPPLLLLHGFPQTHVMWHRVAPKLAERFKVIVADLPGYGWSDMPESDEQHTPYTKRAMAKQLIEAMEQLGHVHFALAGHdRGARVSYRLALDSPGRLSKLAVLDILPTYEYWQRMNRAYALKIYHWSFLAQPAPLPENLLGGDPDFYVKAKLASWTRAGDLSAFDPRAVEHYRIAFADPMRRHVMCEDYRAGAYADFEHDKIDVEAGNKIPVPMLALWGASGIAQSAATPLDVWRKWASDVQGAPIESGNFLPEEAPDQTAEALVRFFSA 300
                                    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       
                                                                                                                                    110-ASB                                                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:293
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee......eeeeeee...eeeee.....hhhhhh.hhhhhhh..eeeee................hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee...hhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhh.hhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee.....hhhhhhh.....eeeeee....hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k3f B   3 DLADLFPGFGSEWINTSSGRIFARVGGDGPPLLLLHGFPQTHVMWHRVAPKLAERFKVIVADLPGYGWSDMPESDEQHTPYTKRAMAKQLIEAMEQLGHVHFALAGHDRGARVSYRLALDSPGRLSKLAVLDILPTYEYWQRMNRAYALKIYHWSFLAQPAPLPENLLGGDPDFYVKAKLASWTRAGDLSAFDPRAVEHYRIAFADPMRRHVMCEDYRAGAYADFEHDKIDVEAGNKIPVPMLALWGASGAATPLDVWRKWASDVQGAPIESGNFLPEEAPDQTAEALVRFFS 299
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252|      266       276       286       296   
                                                                                                                                                                                                                                                                                   252|                                          
                                                                                                                                                                                                                                                                                    257
   Legend:   → Mismatch (orange background)
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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 5K3F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K3F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K3F)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        DEHA_RHOPA | Q6NAM1: 3r3u 3r3v 3r3w 3r3x 3r3y 3r3z 3r40 3r41 5k3a 5k3b 5k3c 5k3d 5k3e 5swn 5t4t

(-) Related Entries Specified in the PDB File

5k3a 5k3b 5k3c 5k3d 5k3e