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(-) Description

Title :  P. PUTIDA MANDELATE RACEMASE CO-CRYSTALLIZED WITH 3,3,3-TRIFLUORO-2-HYDROXY-2-(TRIFLUOROMETHYL) PROPIONIC ACID
 
Authors :  A. D. Lietzan, M. St. Maurice
Date :  21 Jun 12  (Deposition) - 26 Jun 13  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.68
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Keywords :  Enolase Superfamily Enzyme, Isomerase-Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Nagar, A. D. Lietzan, M. St Maurice, S. L. Bearne
Potent Inhibition Of Mandelate Racemase By A Fluorinated Substrate-Product Analogue With A Novel Binding Mode.
Biochemistry V. 53 1169 2014
PubMed-ID: 24472022  |  Reference-DOI: 10.1021/BI401703H

(-) Compounds

Molecule 1 - MANDELATE RACEMASE
    Chains: A, B
    EC Number: 5.1.2.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-52B(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MDLA
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Synonym: MR

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (4x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1BFM2Ligand/Ion3,3,3-TRIFLUORO-2-HYDROXY-2-(TRIFLUOROMETHYL)PROPANOICACID
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1BFM8Ligand/Ion3,3,3-TRIFLUORO-2-HYDROXY-2-(TRIFLUOROMETHYL)PROPANOICACID
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:195 , GLU A:221 , GLU A:247 , BFM A:402 , HOH A:730 , HOH A:732 , HOH A:733BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREVAL A:22 , THR A:24 , VAL A:29 , PHE A:52 , LYS A:166 , ASN A:197 , GLU A:247 , HIS A:297 , LEU A:298 , LEU A:319 , MG A:401 , HOH A:732 , HOH A:733 , HOH A:750 , LEU B:93BINDING SITE FOR RESIDUE BFM A 402
3AC3SOFTWAREASP B:195 , GLU B:221 , GLU B:247 , BFM B:402 , HOH B:681 , HOH B:682 , HOH B:687BINDING SITE FOR RESIDUE MG B 401
4AC4SOFTWARELEU A:93 , VAL B:22 , THR B:24 , VAL B:29 , PHE B:52 , LYS B:166 , ASN B:197 , GLU B:247 , HIS B:297 , LEU B:298 , LEU B:319 , MG B:401 , HOH B:682 , HOH B:687 , HOH B:689 , HOH B:690BINDING SITE FOR RESIDUE BFM B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FP1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FP1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FP1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FP1)

(-) Exons   (0, 0)

(no "Exon" information available for 4FP1)

(-) 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:357
                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4fp1a1 A:3-132 automated matches                                                                                                 d4fp1a2 A:133-359 automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee.....eee..eee..eeeeeeeeee....eeeeeee..hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh..hhhhhh......eeeeee...hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh....ee......hhhhhhhhhh.....eee.....hhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhh......eee............eee..eee...........hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fp1 A   3 EVLITGLRTRAVNVPLAYPVHTAVGTVGTAPLVLIDLATSAGVVGHSYLFAYTPVALKSLKQLLDDMAAMIVNEPLAPVSLEAMLAKRFCLAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDGVKLATERAVTAAELGFRAVKTKIGYPALDQDLAVVRSIRQAVGDDFGIMVDYNQSLDVPAAIKRSQALQQEGVTWIEEPTLQHDYEGHQRIQSKLNVPVQMGENWLGPEEMFKALSIGACRLAMPDAMKIGGVTGWIRASALAQQFGIPMSSHLFQEISAHLLAATPTAHWLERLDLAGSVIEPTLTFEGGNAVIPDLPGVGIIWREKEIGKYLV 359
                                    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       262       272       282       292       302       312       322       332       342       352       


Chain B from PDB  Type:PROTEIN  Length:357
                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4fp1b1 B:3-132 automated matches                                                                                                 d4fp1b2 B:133-359 automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee.....eee..eee..eeeeeeeeee....eeeeeee..hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh..hhhhhh......eeeeee...hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh...ee......hhhhhhhhhhh....eee.....hhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhh......eee............eee..eee...........hhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fp1 B   3 EVLITGLRTRAVNVPLAYPVHTAVGTVGTAPLVLIDLATSAGVVGHSYLFAYTPVALKSLKQLLDDMAAMIVNEPLAPVSLEAMLAKRFCLAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDGVKLATERAVTAAELGFRAVKTKIGYPALDQDLAVVRSIRQAVGDDFGIMVDYNQSLDVPAAIKRSQALQQEGVTWIEEPTLQHDYEGHQRIQSKLNVPVQMGENWLGPEEMFKALSIGACRLAMPDAMKIGGVTGWIRASALAQQFGIPMSSHLFQEISAHLLAATPTAHWLERLDLAGSVIEPTLTFEGGNAVIPDLPGVGIIWREKEIGKYLV 359
                                    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       262       272       282       292       302       312       322       332       342       352
   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  (2, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FP1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FP1)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        MANR_PSEPU | P11444: 1dtn 1mdl 1mdr 1mns 1mra 2mnr 3uxk 3uxl 4hnc 4m6u 4x2p

(-) Related Entries Specified in the PDB File

3uxk
3uxl
4fp0 P. PUTIDA MANDELATE RACEMASE CO-CRYSTALLIZED WITH BENZILIC ACID