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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE SERINE-PYRUVATE AMINOTRANSFERASE (YP_263484.1) FROM PSYCHROBACTER ARCTICUM 273-4 AT 2.20 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  23 Oct 09  (Deposition) - 03 Nov 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Putative Serine-Pyruvate Aminotransferase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Aminotransferase, Pyruvate, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Serine-Pyruvate Aminotransferase (Yp_263484. 1) From Psychrobacter Arcticum 273-4 At 2. 20 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE SERINE-PYRUVATE AMINOTRANSFERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AGXT, PSYC_0177
    Organism Scientific: PSYCHROBACTER ARCTICUS 273-4
    Organism Taxid: 259536
    Strain: DSM 17307 / 273-4

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 19)

Asymmetric Unit (5, 19)
No.NameCountTypeFull Name
1ACT6Ligand/IonACETATE ION
2EDO2Ligand/Ion1,2-ETHANEDIOL
3LLP1Mod. Amino Acid2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)
4MSE8Mod. Amino AcidSELENOMETHIONINE
5SO42Ligand/IonSULFATE ION
Biological Unit 1 (5, 38)
No.NameCountTypeFull Name
1ACT12Ligand/IonACETATE ION
2EDO4Ligand/Ion1,2-ETHANEDIOL
3LLP2Mod. Amino Acid2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)
4MSE16Mod. Amino AcidSELENOMETHIONINE
5SO44Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:83 , ARG A:87 , GLN A:90 , HIS A:249BINDING SITE FOR RESIDUE ACT A 379
02AC2SOFTWAREVAL A:18 , VAL A:19 , PHE A:84 , THR A:145 , LLP A:198 , TYR A:248 , ARG A:349BINDING SITE FOR RESIDUE ACT A 380
03AC3SOFTWAREGLY A:245 , HIS A:246 , GLU A:314 , HOH A:538 , HOH A:550BINDING SITE FOR RESIDUE ACT A 381
04AC4SOFTWAREHIS A:319BINDING SITE FOR RESIDUE ACT A 382
05AC5SOFTWAREARG A:239 , GLU A:242BINDING SITE FOR RESIDUE ACT A 383
06AC6SOFTWAREVAL A:46 , TRP A:181 , ASP A:273BINDING SITE FOR RESIDUE ACT A 384
07AC7SOFTWARELYS A:338 , GLY A:340 , GLU A:341 , HOH A:544 , HOH A:557BINDING SITE FOR RESIDUE EDO A 385
08AC8SOFTWAREASP A:255 , SER A:256BINDING SITE FOR RESIDUE EDO A 386
09AC9SOFTWAREARG A:80 , THR A:89 , LYS A:338BINDING SITE FOR RESIDUE SO4 A 387
10BC1SOFTWAREHIS A:27 , HIS A:246 , ALA A:247 , TYR A:248 , HOH A:542BINDING SITE FOR RESIDUE SO4 A 388

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3KE3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3KE3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3KE3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3KE3)

(-) Exons   (0, 0)

(no "Exon" information available for 3KE3)

(-) 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:371
 aligned with Q4FVA8_PSYA2 | Q4FVA8 from UniProtKB/TrEMBL  Length:378

    Alignment length:371
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376 
         Q4FVA8_PSYA2     7 DIDPNGLLEYSVVYTDRALNHMSKAFQEVMNDLLSNLKTVYNAEAAVIIPGSGTYGMEAVARQLTIDEDCLIIRNGWFSYRWTQILEKGKFAKSSTVLTAERTEDTEAPKPFAPVDIETAVAKIKEDKSAIVYAPHVETSSGIILSEEYIKALSEAVHSVGGLLVIDCIASGCVWLDMKELGIDVLISAPQKGWSSTPCAGLVMLSAAAIKKVESTESNCFSLDLKQWLTIMRAYENGGHAYHATMPTDSLRQFRDAILEAKEIGFDILRDAQWELGNRVRKVLTDKGIESVAAEGFEAPGVVVSYTERDDMHKGSAFAEAGLQIAAGVPLKVGEPDNFKTFRLGLFGLDKLTDIDGTVERFEKALDEVLA 377
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------Aminotran_5-3ke3A01 A:13-334                                                                                                                                                                                                                                                                                                      ------------------------------------------- Pfam domains
         Sec.struct. author ......................hhhhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhh...eeeeee.ee.........ee..hhhhhhhhhhhhh..eeeee.ee....ee.hhhhhhhhhhhhhhh..eeeee.........hhhhhh..eeee...........eeeeeehhhhhhhhhh........hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............eeeee..hhhhhhhhhhhhh....ee.............eeeee..hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ke3 A   7 DIDPNGLLEYSVVYTDRALNHmSKAFQEVmNDLLSNLKTVYNAEAAVIIPGSGTYGmEAVARQLTIDEDCLIIRNGWFSYRWTQILEKGKFAKSSTVLTAERTEDTEAPKPFAPVDIETAVAKIKEDKSAIVYAPHVETSSGIILSEEYIKALSEAVHSVGGLLVIDCIASGCVWLDmKELGIDVLISAPQkGWSSTPCAGLVmLSAAAIKKVESTESNCFSLDLKQWLTImRAYENGGHAYHATmPTDSLRQFRDAILEAKEIGFDILRDAQWELGNRVRKVLTDKGIESVAAEGFEAPGVVVSYTERDDmHKGSAFAEAGLQIAAGVPLKVGEPDNFKTFRLGLFGLDKLTDIDGTVERFEKALDEVLA 377
                                    16        26 |      36        46        56      | 66        76        86        96       106       116       126       136       146       156       166       176       186       196 |     206   |   216       226       236 |     246     | 256       266       276       286       296       306       316 |     326       336       346       356       366       376 
                                                28-MSE  36-MSE                     63-MSE                                                                                                                  184-MSE       198-LLP     210-MSE                     238-MSE       252-MSE                                                           318-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 3KE3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3KE3)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: PLP_aminotran (240)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q4FVA8_PSYA2 | Q4FVA8)
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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