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(-) Description

Title :  CRYSTAL STRUCTURE OF A BENZOATE COENZYME A LIGASE WITH 2-FUROIC ACID
 
Authors :  S. Strom, M. Nosrati, C. Thornburg, K. D. Walker, J. H. Geiger
Date :  18 Oct 14  (Deposition) - 30 Sep 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.76
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Substrate Specificity, Kinetics, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. K. Thornburg, S. Wortas-Strom, M. Nosrati, J. H. Geiger, K. D. Walke
Kinetically And Crystallographically Guided Mutations Of A Benzoate Coa Ligase (Bada) Elucidate Mechanism And Expand Substrate Permissivity.
Biochemistry V. 54 6230 2015
PubMed-ID: 26378464  |  Reference-DOI: 10.1021/ACS.BIOCHEM.5B00899

(-) Compounds

Molecule 1 - BENZOATE-COENZYME A LIGASE
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneBADA
    Organism ScientificRHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid1076

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B
Biological Unit 3 (1x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1FOA2Ligand/Ion2-FUROIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1FOA1Ligand/Ion2-FUROIC ACID
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1FOA1Ligand/Ion2-FUROIC ACID
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1FOA2Ligand/Ion2-FUROIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:228 , ALA A:302 , GLY A:303 , GLY A:327 , SER A:328 , HIS A:333 , ILE A:334 , LYS A:427 , HOH A:1308BINDING SITE FOR RESIDUE FOA A 1000
2AC2SOFTWARETYR B:228 , ALA B:302 , GLY B:303 , ILE B:326 , GLY B:327 , SER B:328 , HIS B:333 , ILE B:334 , LYS B:427 , HOH B:1154 , HOH B:1275BINDING SITE FOR RESIDUE FOA B 1000

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4RM3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4RM3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RM3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RM3)

(-) Exons   (0, 0)

(no "Exon" information available for 4RM3)

(-) 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:518
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhh......eeee....eeehhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh...eeee..hhhhhhhhhhhh......eeee..........eehhhhhhh..............eeeeeee.......eeeeeehhhhhhhhhhh...........eeee.....hhhhhhhhhhhhhhhh.eee......hhhhhhhhhh.........eeeehhhhhhhhhh.....hhhhh...eeee.....hhhhhhhhhhhhh..eeeeee......eeee............ee....eeeee...........eeeeeee..........hhhhhhhhee..eeeeeeeeee.....eeeeee....eee..eeehhhhhhhhhh....eeeeeeeeee.....eeeeeeeee......hhhhhhhhhhhhhhhhhh..eeee............hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rm3 A   5 AVTPPPEKFNFAEHLLQTNRVRPDKTAFVDDISSLSFAQLEAQTRQLAAALRAIGVKREERVLLLMLDGTDWPVAFLGAIYAGIVPVAVNTLLTADDYAYMLEHSRAQAVLVSGALHPVLKAALTKSDHEVQRVIVSRPAAPLEPGEVDFAEFVGAHAPLEKPAATQADDPAFWLYSSGSTGRPKGVVHTHANPYWTSELYGRNTLHLREDDVCFSAAKLFFAYGLGNALTFPMTVGATTLLMGERPTPDAVFKRWLGGVGGVKPTVFYGAPTGYAGMLAAPNLPSRDQVALRLASSAGEALPAEIGQRFQRHFGLDIVDGIGSTEMLHIFLSNLPDRVRYGTTGWPVPGYQIELRGDGGGPVADGEPGDLYIHGPSSATMYWGNRAKSRDTFQGGWTKSGDKYVRNDDGSYTYAGRTDDMLKVSGIYVSPFEIEATLVQHPGVLEAAVVGVADEHGLTKPKAYVVPRPGQTLSETELKTFIKDRLAPYKYPRSTVFVAELPKTATGKIQRFKLREGV 522
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514        

Chain B from PDB  Type:PROTEIN  Length:519
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhh......eeee....eeehhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh.....eeeee.........eeehhhhhhh..............eeeeeee.......eeeeeehhhhhhhhhhh...........eeee.....hhhhhhhhhhhhhhhh.eee......hhhhhhhhhh.........eeeehhhhhhhhhh.....hhhhh...eeee.....hhhhhhhhhhhhh..eeeeee......eeee............ee....eeeee...........eeeeeee......ee..hhhhhhhhee..eeeeeeeeee.....eeeeee....eee..eeehhhhhhhhhh....eeeeeeeeee.....eeeeeeeee.......hhhhhhhhhhhhhhhhh..eeee............hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rm3 B   6 VTPPPEKFNFAEHLLQTNRVRPDKTAFVDDISSLSFAQLEAQTRQLAAALRAIGVKREERVLLLMLDGTDWPVAFLGAIYAGIVPVAVNTLLTADDYAYMLEHSRAQAVLVSGALHPVLKAALTKSDHEVQRVIVSRPAAPLEPGEVDFAEFVGAHAPLEKPAATQADDPAFWLYSSGSTGRPKGVVHTHANPYWTSELYGRNTLHLREDDVCFSAAKLFFAYGLGNALTFPMTVGATTLLMGERPTPDAVFKRWLGGVGGVKPTVFYGAPTGYAGMLAAPNLPSRDQVALRLASSAGEALPAEIGQRFQRHFGLDIVDGIGSTEMLHIFLSNLPDRVRYGTTGWPVPGYQIELRGDGGGPVADGEPGDLYIHGPSSATMYWGNRAKSRDTFQGGWTKSGDKYVRNDDGSYTYAGRTDDMLKVSGIYVSPFEIEATLVQHPGVLEAAVVGVADEHGLTKPKAYVVPRPGQTLSETELKTFIKDRLAPYKYPRSTVFVAELPKTATGKIQRFKLREGVLG 524
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515         

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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 4RM3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RM3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RM3)

(-) Gene Ontology  (5, 5)

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q93TK0_RHOPL | Q93TK04rmn 4zjz
UniProtKB/TrEMBL
        Q93TK0_RHOPL | Q93TK04eat 4rlf 4rlq 4rm2

(-) Related Entries Specified in the PDB File

2v7b 4eat 4rlf 4rlq 4rm2