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(-) Description

Title :  CRYSTAL STRUCTURE OF T.TH HB8 GLUTAMINE AMINOTRANSFERASE COMPLEX WITH A-KETO-G-METHYLTHIOBUTYRATE
 
Authors :  M. Goto, Riken Structural Genomics/Proteomics Initiative (Rsgi
Date :  15 Oct 03  (Deposition) - 06 Jul 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Plp, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Goto, R. Omi, I. Miyahara, A. Hosono, H. Mizuguchi, H. Hayashi, H. Kagamiyama, K. Hirotsu
Crystal Structures Of Glutamine:Phenylpyruvate Aminotransferase From Thermus Thermophilus Hb8: Induced Fit And Substrate Recognition
J. Biol. Chem. V. 279 16518 2004
PubMed-ID: 14761974  |  Reference-DOI: 10.1074/JBC.M311575200

(-) Compounds

Molecule 1 - GLUTAMINE AMINOTRANSFERASE
    Chains: A, B
    EC Number: 2.6.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-20B
    Expression System Strain: BL21-CODONPLUS(DE3)-RP
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HB8
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274

 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
1KMT2Ligand/Ion4-(METHYLSULFANYL)-2-OXOBUTANOIC ACID
2PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:86 , ALA A:87 , THR A:88 , PHE A:112 , ASN A:159 , ASN A:163 , ASP A:191 , TYR A:194 , SER A:219 , LYS A:222 , ARG A:230 , KMT A:520 , HOH A:545 , TYR B:57BINDING SITE FOR RESIDUE PLP A 510
2AC2SOFTWARETYR A:57 , GLY B:86 , ALA B:87 , THR B:88 , PHE B:112 , ASN B:159 , ASN B:163 , ASP B:191 , VAL B:193 , TYR B:194 , SER B:219 , LYS B:222 , ARG B:230 , KMT B:1520BINDING SITE FOR RESIDUE PLP B 1510
3AC3SOFTWAREPHE A:15 , GLN A:32 , GLY A:33 , ASN A:163 , LYS A:222 , PHE A:309 , ARG A:347 , PLP A:510 , TYR B:57BINDING SITE FOR RESIDUE KMT A 520
4AC4SOFTWAREPHE A:253 , GLY B:33 , PHE B:112 , ASN B:163 , LYS B:222 , PHE B:309 , ARG B:347 , PLP B:1510BINDING SITE FOR RESIDUE KMT B 1520

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V2E)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Glu A:109 -Pro A:110
2Thr A:160 -Pro A:161
3Asn A:163 -Pro A:164
4Glu B:109 -Pro B:110
5Thr B:160 -Pro B:161
6Asn B:163 -Pro B:164

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V2E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V2E)

(-) Exons   (0, 0)

(no "Exon" information available for 1V2E)

(-) 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:368
 aligned with Q75WK2_THETH | Q75WK2 from UniProtKB/TrEMBL  Length:381

    Alignment length:368
                                    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        
         Q75WK2_THETH     1 MRLHPRTEAAKESIFPRMSGLAQRLGAVNLGQGFPSNPPPPFLLEAVRRALGRQDQYAPPAGLPALREALAEEFAVEPESVVVTSGATEALYVLLQSLVGPGDEVVVLEPFFDVYLPDAFLAGAKARLVRLDLTPEGFRLDLSALEKALTPRTRALLLNTPMNPTGLVFGERELEAIARLARAHDLFLISDEVYDELYYGERPRRLREFAPERTFTVGSAGKRLEATGYRVGWIVGPKEFMPRLAGMRQWTSFSAPTPLQAGVAEALKLARREGFYEALREGYRRRRDLLAGGLRAMGLRVYVPEGTYFLMAELPGWDAFRLVEEARVALIPASAFYLEDPPKDLFRFAFCKTEEELHLALERLGRVV 368
               SCOP domains d1v2ea_ A: Glutamine aminotransferase                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh..hhhhhhhhhhhhhh.ee..........hhhhhhhhhhhh...........hhhhhhhhhhhhh.hhh.eeee.hhhhhhhhhhhhhh....eeeeee....hhhhhhhh...eeeeee.eee..eee.hhhhhhh.......eeeee..........hhhhhhhhhhhhhhhh.eeeee..................hhh.eeeeeehhhhh.......eeee....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee......eeeee....hhhhhhhhh.ee.ee.hhh........eeeee...hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v2e A   1 MRLHPRTEAAKESIFPRMSGLAQRLGAVNLGQGFPSNPPPPFLLEAVRRALGRQDQYAPPAGLPALREALAEEFAVEPESVVVTSGATEALYVLLQSLVGPGDEVVVLEPFFDVYLPDAFLAGAKARLVRLDLTPEGFRLDLSALEKALTPRTRALLLNTPMNPTGLVFGERELEAIARLARAHDLFLISDEVYDELYYGERPRRLREFAPERTFTVGSAGKRLEATGYRVGWIVGPKEFMPRLAGMRQWTSFSAPTPLQAGVAEALKLARREGFYEALREGYRRRRDLLAGGLRAMGLRVYVPEGTYFLMAELPGWDAFRLVEEARVALIPASAFYLEDPPKDLFRFAFCKTEEELHLALERLGRVV 368
                                    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        


Chain B from PDB  Type:PROTEIN  Length:367
 aligned with Q75WK2_THETH | Q75WK2 from UniProtKB/TrEMBL  Length:381

    Alignment length:367
                                    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       
         Q75WK2_THETH     1 MRLHPRTEAAKESIFPRMSGLAQRLGAVNLGQGFPSNPPPPFLLEAVRRALGRQDQYAPPAGLPALREALAEEFAVEPESVVVTSGATEALYVLLQSLVGPGDEVVVLEPFFDVYLPDAFLAGAKARLVRLDLTPEGFRLDLSALEKALTPRTRALLLNTPMNPTGLVFGERELEAIARLARAHDLFLISDEVYDELYYGERPRRLREFAPERTFTVGSAGKRLEATGYRVGWIVGPKEFMPRLAGMRQWTSFSAPTPLQAGVAEALKLARREGFYEALREGYRRRRDLLAGGLRAMGLRVYVPEGTYFLMAELPGWDAFRLVEEARVALIPASAFYLEDPPKDLFRFAFCKTEEELHLALERLGRV 367
               SCOP domains d1v2eb_ B: Glutamine aminotransferase                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------Aminotran_1_2-1v2eB01 B:26-364                                                                                                                                                                                                                                                                                                                     --- Pfam domains (1)
           Pfam domains (2) -------------------------Aminotran_1_2-1v2eB02 B:26-364                                                                                                                                                                                                                                                                                                                     --- Pfam domains (2)
         Sec.struct. author ...hhhhhh...hhhhhhhhhhhhhh.ee..........hhhhhhhhhhhh...........hhhhhhhhhhhh..hhh.eeee.hhhhhhhhhhhhhh....ee.eee....hhhhhhhhh.....eee..........hhhhhhhhh...eeeeee...........hhhhhhhhhhhhhhhh.eeeee.............hhhhh....eeeeeehhhhh.......eeee....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee........eee.......hhhhhh.ee.ee.hhh........eee.....hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v2e B   1 MRLHPRTEAAKESIFPRMSGLAQRLGAVNLGQGFPSNPPPPFLLEAVRRALGRQDQYAPPAGLPALREALAEEFAVEPESVVVTSGATEALYVLLQSLVGPGDEVVVLEPFFDVYLPDAFLAGAKARLVRLDLTPEGFRLDLSALEKALTPRTRALLLNTPMNPTGLVFGERELEAIARLARAHDLFLISDEVYDELYYGERPRRLREFAPERTFTVGSAGKRLEATGYRVGWIVGPKEFMPRLAGMRQWTSFSAPTPLQAGVAEALKLARREGFYEALREGYRRRRDLLAGGLRAMGLRVYVPEGTYFLMAELPGWDAFRLVEEARVALIPASAFYLEDPPKDLFRFAFCKTEEELHLALERLGRV 367
                                    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
   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
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1V2E)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: PLP_aminotran (240)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q75WK2_THETH | Q75WK2)
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:0030170    pyridoxal phosphate binding    Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
    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.
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

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 Related Entries

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

UniProtKB/TrEMBL
        Q75WK2_THETH | Q75WK2: 1v2d 1v2f

(-) Related Entries Specified in the PDB File

1v2d THE SAME PROTEIN IN OTHER SPACE GROUP
1v2f THE SAME PROTEIN COMPLEXED WITH 3-PHENYLPROPIONATE RELATED ID: TTK003000293.3 RELATED DB: TARGETDB