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(-) Description

Title :  CRYSTAL STRUCTURE OF THE APO FORM OF A PLP-DEPENDENT ENZYME
 
Authors :  Structural Genomix
Date :  23 Oct 03  (Deposition) - 11 Nov 03  (Release) - 24 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Badger, J. M. Sauder, J. M. Adams, S. Antonysamy, K. Bain, M. G. Bergseid, S. G. Buchanan, M. D. Buchanan, Y. Batiyenko, J. A. Christopher, S. Emtage, A. Eroshkina, I. Feil, E. B. Furlong, K. S. Gajiwala, X. Gao, D. He, J. Hendle, A. Huber, K. Hoda, P. Kearins, C. Kissinger, B. Laubert, H. A. Lewis, J. Lin, K. Loomis, D. Lorimer, G. Louie, M. Maletic, C. D. Marsh, I. Miller, J. Molinari, H. J. Muller-Dieckmann, J. M. Newman, B. W. Noland, B. Pagarigan, F. Park, T. S. Peat, K. W. Post, S. Radojicic, A. Ramos, R. Romero, M. E. Rutter, W. E. Sanderson, K. D. Schwinn, J. Tresser, J. Winhoven, T. A. Wright, L. Wu, J. Xu, T. J. Harris
Structural Analysis Of A Set Of Proteins Resulting From A Bacterial Genomics Project.
Proteins V. 60 787 2005
PubMed-ID: 16021622  |  Reference-DOI: 10.1002/PROT.20541

(-) Compounds

Molecule 1 - AMINOTRANSFERASE
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneTM0572
    Organism ScientificCAMPYLOBACTER JEJUNI
    Organism Taxid197

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2BME6Ligand/IonBETA-MERCAPTOETHANOL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:65 , LYS B:204 , TYR B:208 , HOH B:431 , HOH B:464BINDING SITE FOR RESIDUE ACT B 395
2AC2SOFTWAREHIS A:61 , TYR A:91 , LEU A:92 , TYR A:224 , TYR A:226 , TYR B:91 , ACT B:396 , HOH B:523BINDING SITE FOR RESIDUE ACT A 395
3AC3SOFTWARETYR A:91 , ACT A:395 , HOH A:550 , HIS B:61 , TYR B:91 , LEU B:92 , TYR B:224 , TYR B:226BINDING SITE FOR RESIDUE ACT B 396
4AC4SOFTWARECYS A:90 , VAL A:340BINDING SITE FOR RESIDUE BME A 401
5AC5SOFTWARECYS A:119 , LYS A:121BINDING SITE FOR RESIDUE BME A 402
6AC6SOFTWARECYS A:361 , LEU A:362 , HOH A:510BINDING SITE FOR RESIDUE BME A 403
7AC7SOFTWARECYS B:90 , VAL B:340BINDING SITE FOR RESIDUE BME B 401
8AC8SOFTWARELYS A:306 , CYS B:297 , GLN B:298 , LYS B:299BINDING SITE FOR RESIDUE BME B 402
9AC9SOFTWAREARG B:329 , CYS B:361 , LEU B:362 , HOH B:498BINDING SITE FOR RESIDUE BME B 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1O62)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1O62)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1O62)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1O62)

(-) Exons   (0, 0)

(no "Exon" information available for 1O62)

(-) 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:374
 aligned with Q9S5Y7_CAMJU | Q9S5Y7 from UniProtKB/TrEMBL  Length:386

    Alignment length:374
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    
         Q9S5Y7_CAMJU    12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
               SCOP domains d1o62a_ A: Aminotransferase homolog WlaK (PglE, Cj1121c)                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1o62A01 A:12-244 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                     1o62A02 A:245-385 Aspartate Aminotransferase, domain 1                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhh......eeeee...hhhhhhhhhhh..eeeee........hhhhhhhhhhhh.....eeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.....eeeee..hhhhh....eeee........hhhhhhhhhhhhhh.........hhhhhhhhh..eeee.hhhhhhhhheeee......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o62 A  12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    

Chain B from PDB  Type:PROTEIN  Length:368
 aligned with Q9S5Y7_CAMJU | Q9S5Y7 from UniProtKB/TrEMBL  Length:386

    Alignment length:374
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    
         Q9S5Y7_CAMJU    12 GNELKYIEEVFKSNYIAPLGEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
               SCOP domains d1o62b_ B: Am      inotransferase homolog WlaK (PglE, Cj1121c)                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1o62B01 B:12-      244 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                               1o62B02 B:245-385 Aspartate Aminotransferase, domain 1                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.------hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh......eeeee...hhhhhhhhhhh..eeeee........hhhhhhhhhhhh.....eeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.....eeeee..hhhhh....eeee........hhhhhhhhhhhhhh.........hhhhhhhhh..eeee.hhhhhhhhheeee......hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o62 B  12 GNELKYIEEVFKS------GEFVNRFEQSVKDYSKSENALALNSATAALHLALRVAGVKQDDIVLASSFTFIASVAPICYLKAKPVFIDCDETYNIDVDLLKLAIKECEKKPKALILTHLYGNAAKMDEIVEICKENDIVLIEDAAEALGSFYKNKALGTFGEFGVYSYNGNKIITTSGGGMLIGKNKEKIEKARFYSTQARENCLHYEHLDYGYNYRLSNVLGAIGVAQMEVLEQRVLKKREIYEWYKEFLGEYFSFLDELENSRSNRWLSTALINFDKNELNACQKDINISQKNITLHPKISKLIEDLKNKQIETRPLWKAMHTQEVFKGAKAYLNGNSELFFQKGICLPSGTAMSKDDVYEISKLILKSIK 385
                                    21  |     31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    
                                       24     31                                                                                                                                                                                                                                                                                                                                                                  

   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  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1O62)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9S5Y7_CAMJU | Q9S5Y7)
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:0008483    transaminase activity    Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9S5Y7_CAMJU | Q9S5Y74ztc
UniProtKB/TrEMBL
        Q9S5Y7_CAMJU | Q9S5Y71o61 1o69

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1O62)