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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ENOLASE FROM AGROBACTERIUM TUMEFACIENS (EFI TARGET EFI-502087) NO MG
 
Authors :  M. W. Vetting, J. T. Bouvier, S. R. Wasserman, L. L. Morisco, H. J. Imker, J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Date :  23 Aug 11  (Deposition) - 14 Sep 11  (Release) - 12 Oct 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Keywords :  Enolase, Dehydratase, Enzyme Function Initiative, Efi, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. W. Vetting, J. T. Bouvier, S. R. Wasserman, L. L. Morisco, H. J. Imker J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Crystal Structure Of An Enolase From Agrobacterium Tumefaciens (Efi Target Efi-502087) No Mg
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MANDELATE RACEMASE
    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: AGR_L_1470, ATU4120
    Organism Scientific: AGROBACTERIUM TUMEFACIENS
    Organism Taxid: 176299
    Strain: C58

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 16)

Asymmetric Unit (3, 16)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2GOL7Ligand/IonGLYCEROL
3PO47Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 56)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL28Ligand/IonGLYCEROL
3PO428Ligand/IonPHOSPHATE ION

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:68 , TYR A:91 , SER A:93 , LEU A:94 , HOH A:445 , HOH A:475 , HOH A:777 , HIS B:54 , PRO B:56 , SER B:57 , HOH B:774BINDING SITE FOR RESIDUE PO4 A 373
02AC2SOFTWAREASP A:77 , ASP A:80 , HOH A:391 , HOH A:594 , HOH A:818 , HIS B:128 , HOH B:626BINDING SITE FOR RESIDUE PO4 A 374
03AC3SOFTWAREHIS A:12 , HIS A:29 , LYS A:369 , HOH A:392 , HOH A:393 , HOH A:484 , HOH A:695BINDING SITE FOR RESIDUE PO4 A 375
04AC4SOFTWAREHIS A:54 , PRO A:56 , SER A:57 , HOH A:480 , CYS B:68 , TYR B:91 , SER B:93 , LEU B:94 , HOH B:584 , HOH B:618 , HOH B:775BINDING SITE FOR RESIDUE PO4 A 376
05AC5SOFTWARETYR A:69 , ALA A:89 , GLN A:95 , GLY A:98 , ARG A:99 , ALA A:100 , THR A:103 , HIS A:104 , GOL A:378 , HOH A:414BINDING SITE FOR RESIDUE PO4 A 377
06AC6SOFTWARETRP A:85 , ARG A:90 , GLN A:95 , HIS A:104 , THR A:259 , GLU A:287 , PO4 A:377 , TRP B:233 , HOH B:432BINDING SITE FOR RESIDUE GOL A 378
07AC7SOFTWAREARG A:134 , GLY A:137 , VAL A:138 , GLU A:139 , THR A:324 , HOH A:793 , HOH A:815 , HOH A:817BINDING SITE FOR RESIDUE GOL A 379
08AC8SOFTWAREPRO A:180 , ASN A:181 , ARG A:215 , PHE A:216 , ALA A:219 , ASP A:224 , HOH A:689BINDING SITE FOR RESIDUE GOL A 380
09AC9SOFTWARETYR A:226 , TYR A:274 , THR A:324BINDING SITE FOR RESIDUE CL A 381
10BC1SOFTWAREHIS A:128 , ASP B:77 , ASP B:80 , HOH B:412 , HOH B:544 , HOH B:573 , HOH B:639 , HOH B:892BINDING SITE FOR RESIDUE PO4 B 373
11BC2SOFTWARETYR B:69 , ALA B:89 , GLN B:95 , GLY B:98 , ARG B:99 , ALA B:100 , THR B:103 , HIS B:104 , GOL B:375 , HOH B:697BINDING SITE FOR RESIDUE PO4 B 374
12BC3SOFTWARETRP A:233 , HOH A:814 , TRP B:85 , GLN B:95 , HIS B:104 , GLU B:287 , PO4 B:374 , HOH B:609BINDING SITE FOR RESIDUE GOL B 375
13BC4SOFTWAREARG B:134 , GLY B:137 , GLU B:139 , THR B:324 , HOH B:427 , HOH B:613 , HOH B:909BINDING SITE FOR RESIDUE GOL B 376
14BC5SOFTWAREPRO B:180 , ASN B:181 , ARG B:215 , PHE B:216 , ALA B:219 , ASP B:224 , HOH B:701BINDING SITE FOR RESIDUE GOL B 377
15BC6SOFTWARETRP B:30 , HIS B:305 , ALA B:306 , MET B:309 , HOH B:474 , HOH B:568 , HOH B:720BINDING SITE FOR RESIDUE GOL B 378
16BC7SOFTWARETYR B:226 , TYR B:274 , THR B:324BINDING SITE FOR RESIDUE CL B 379

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3TJ4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3TJ4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3TJ4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3TJ4)

(-) Exons   (0, 0)

(no "Exon" information available for 3TJ4)

(-) 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:360
 aligned with Q7CU39_AGRFC | Q7CU39 from UniProtKB/TrEMBL  Length:372

    Alignment length:372
                                    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       320       330       340       350       360       370  
         Q7CU39_AGRFC     1 MKITAVEPFILHLPLTSESISDSTHSITHWGVVGAKITTSDGIEGYGFTGTHAHLPSDRLITSCISDCYAPLLLGEDASDHSRLWTKLARYPSLQWVGRAGITHLALAAVDVALWDIKAKKAGVPLWHYLGGARTAGVEAYNTDIGWLSFTLEDLLAGSARAVEEDGFTRLKIKVGHDDPNIDIARLTAVRERVDSAVRIAIDGNGKWDLPTCQRFCAAAKDLDIYWFEEPLWYDDVTSHARLARNTSIPIALGEQLYTVDAFRSFIDAGAVAYVQPDVTRLGGITEYIQVADLALAHRLPVVPHAGEMSQVHVHLSYWHPASTILEYIPWIKDHFEEPIHVRDGVYKRPEQPGASTTPLAESFTRYGKAVK 372
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeeeee..------------..eeeeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.......eeeee........hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhh....eeeee......hhhhhhhhhhhh...eee.....hhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhh.............hhhhhhhhh.....eee...hhhhh.....ee..ee............hhhhhhhhee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3tj4 A   1 MKITAVEPFILHLPL------------THWGVVGAKITTSDGIEGYGFTGTHAHLPSDRLITSCISDCYAPLLLGEDASDHSRLWTKLARYPSLQWVGRAGITHLALAAVDVALWDIKAKKAGVPLWHYLGGARTAGVEAYNTDIGWLSFTLEDLLAGSARAVEEDGFTRLKIKVGHDDPNIDIARLTAVRERVDSAVRIAIDGNGKWDLPTCQRFCAAAKDLDIYWFEEPLWYDDVTSHARLARNTSIPIALGEQLYTVDAFRSFIDAGAVAYVQPDVTRLGGITEYIQVADLALAHRLPVVPHAGEMSQVHVHLSYWHPASTILEYIPWIKDHFEEPIHVRDGVYKRPEQPGASTTPLAESFTRYGKAVK 372
                                    10    |    -       |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       320       330       340       350       360       370  
                                         15           28                                                                                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:360
 aligned with Q7CU39_AGRFC | Q7CU39 from UniProtKB/TrEMBL  Length:372

    Alignment length:372
                                    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       320       330       340       350       360       370  
         Q7CU39_AGRFC     1 MKITAVEPFILHLPLTSESISDSTHSITHWGVVGAKITTSDGIEGYGFTGTHAHLPSDRLITSCISDCYAPLLLGEDASDHSRLWTKLARYPSLQWVGRAGITHLALAAVDVALWDIKAKKAGVPLWHYLGGARTAGVEAYNTDIGWLSFTLEDLLAGSARAVEEDGFTRLKIKVGHDDPNIDIARLTAVRERVDSAVRIAIDGNGKWDLPTCQRFCAAAKDLDIYWFEEPLWYDDVTSHARLARNTSIPIALGEQLYTVDAFRSFIDAGAVAYVQPDVTRLGGITEYIQVADLALAHRLPVVPHAGEMSQVHVHLSYWHPASTILEYIPWIKDHFEEPIHVRDGVYKRPEQPGASTTPLAESFTRYGKAVK 372
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeeeee..------------..eeeeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.......eeeee........hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhh....eeeee......hhhhhhhhhhhh...eee.....hhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhh.............hhhhhhhhh.....eee...hhhhh.....ee..ee............hhhhhhhhee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3tj4 B   1 MKITAVEPFILHLPL------------THWGVVGAKITTSDGIEGYGFTGTHAHLPSDRLITSCISDCYAPLLLGEDASDHSRLWTKLARYPSLQWVGRAGITHLALAAVDVALWDIKAKKAGVPLWHYLGGARTAGVEAYNTDIGWLSFTLEDLLAGSARAVEEDGFTRLKIKVGHDDPNIDIARLTAVRERVDSAVRIAIDGNGKWDLPTCQRFCAAAKDLDIYWFEEPLWYDDVTSHARLARNTSIPIALGEQLYTVDAFRSFIDAGAVAYVQPDVTRLGGITEYIQVADLALAHRLPVVPHAGEMSQVHVHLSYWHPASTILEYIPWIKDHFEEPIHVRDGVYKRPEQPGASTTPLAESFTRYGKAVK 372
                                    10    |    -       |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       320       330       340       350       360       370  
                                         15           28
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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  (0, 0)

(no "SCOP Domain" information available for 3TJ4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3TJ4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3TJ4)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q7CU39_AGRFC | Q7CU39)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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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  3tj4
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 Related Entries

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        Q7CU39_AGRFC | Q7CU39: 4h19

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