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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX OF A HYDROXYPROLINE EPIMERASE (TARGET EFI-506499, PSEUDOMONAS FLUORESCENS PF-5) WITH TRANS-4-HYDROXY-L-PROLINE
 
Authors :  M. W. Vetting, R. Toro, R. Bhosle, N. F. Al Obaidi, L. L. Morisco, S. R. Wa S. Sojitra, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. M. Stead, B. Hillerich, J. Love, R. D. Seidel, H. J. Imker, J. A. Gerlt, S Enzyme Function Initiative (Efi)
Date :  17 Feb 13  (Deposition) - 13 Mar 13  (Release) - 13 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Epimerase, Putative Hydroxyproline Epimerase, Enzyme Function Initiative, Efi, Structural Genomics, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. W. Vetting, R. Toro, R. Bhosle, N. F. Al Obaidi, L. L. Morisco, S. R. Wasserman, S. Sojitra, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. Hammonds, M. Stead, B. Hillerich, J. Love, R. D. Seidel, H. J. Imker, J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Crystal Structure Of The Complex Of A Hydroxyproline Epimerase (Target Efi-506499, Pseudomonas Fluorescens Pf-5) With Trans-4-Hydroxy-L-Proline
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PROLINE RACEMASE FAMILY PROTEIN
    Chains: A, B
    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: PFL_1412
    Organism Scientific: PSEUDOMONAS PROTEGENS
    Organism Taxid: 220664
    Strain: PF-5

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1HYP2Mod. Residue4-HYDROXYPROLINE
2NA2Ligand/IonSODIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:85 , CYS A:88 , GLY A:89 , HIS A:90 , HIS A:208 , CYS A:226 , ASP A:232 , CYS A:236 , GLY A:237 , THR A:238 , HOH A:516BINDING SITE FOR RESIDUE HYP A 401
2AC2SOFTWAREASP A:215 , ALA A:218 , HOH A:581 , HOH A:777 , HOH A:825 , HOH A:826BINDING SITE FOR RESIDUE NA A 402
3AC3SOFTWARELEU B:85 , CYS B:88 , GLY B:89 , HIS B:90 , HIS B:208 , CYS B:226 , ASP B:232 , CYS B:236 , GLY B:237 , THR B:238 , HOH B:513BINDING SITE FOR RESIDUE HYP B 401
4AC4SOFTWAREASP B:215 , ALA B:218 , HOH B:565 , HOH B:690 , HOH B:699 , HOH B:713BINDING SITE FOR RESIDUE NA B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4J9X)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:52 -Pro A:53
2Glu B:52 -Pro B:53

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4J9X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4J9X)

(-) Exons   (0, 0)

(no "Exon" information available for 4J9X)

(-) 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:310
                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4j9xa_ A: automated matches                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeeeee........hhhhhhhhhhhhhhhhhhhhhh........eeeeee........eeeeee........hhhhhhhhhhhhhhh.....eeeeee.....eeeee.....eeee....eeeeeeeeeee...eeeeeeeee...eeeee.......hhhhhhhhhhhhhhhhhhhhhh...hhhhh...eeeeee......eeeeee..........hhhhhhhhhhhhhhh........eeee.....eeeeeeeee..eeeeeeee.eeeeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j9x A   1 MKKITVIDSHTGGEPTRLVIDGFPDLGRGSMAERLQILEREHDQWRRACVLEPRGSDVLVGALLCQPQAGDACAGVIFFNNSGYLGMCGHGTIGLVRSLYHLGRIDQGVHRIETPVGTVEATLHEDLSVSVRNVPAYRYRTQVMLQLPGHGKVHGDIAWGGNWFFLISDHGQRIALDNVEALTHYTRDVRQALEAAGITGAEGGVIDHIELFADDPQADSRNFVLCPGKAYDRSPCGTGTSAKLACLAADGKLAPGQAWRQASVIGSQFSAHYEKVGEQLIPILRGSAHISAEATLLLDDSDPFVWGIGS 310
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310


Chain B from PDB  Type:PROTEIN  Length:310
                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4j9xb_ B: automated matches                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeeeee........hhhhhhhhhhhhhhhhhhhhhh........eeeeee........eeeeee........hhhhhhhhhhhhhhh.....eeeeeee..eeeeeee.....eeee....eeeeeeeeeee...eeeeeeeee...eeeee.......hhhhhhhhhhhhhhhhhhhhhh...hhhhh...eeeeeeee..eeeeeeee..........hhhhhhhhhhhhhhh........eeee.....eeeeeeeee..eeeeeeee.eeeeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j9x B   1 MKKITVIDSHTGGEPTRLVIDGFPDLGRGSMAERLQILEREHDQWRRACVLEPRGSDVLVGALLCQPQAGDACAGVIFFNNSGYLGMCGHGTIGLVRSLYHLGRIDQGVHRIETPVGTVEATLHEDLSVSVRNVPAYRYRTQVMLQLPGHGKVHGDIAWGGNWFFLISDHGQRIALDNVEALTHYTRDVRQALEAAGITGAEGGVIDHIELFADDPQADSRNFVLCPGKAYDRSPCGTGTSAKLACLAADGKLAPGQAWRQASVIGSQFSAHYEKVGEQLIPILRGSAHISAEATLLLDDSDPFVWGIGS 310
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4J9X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4J9X)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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  4j9x
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 Related Entries

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UniProtKB/Swiss-Prot
        4HYPE_PSEF5 | Q4KGU2: 4j9w

(-) Related Entries Specified in the PDB File

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