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(-) Description

Title :  PHOSPHOTRANSACETYLASE FROM METHANOSARCINA THERMOPHILA CO-CRYSTALLIZED WITH COENZYME A
 
Authors :  S. H. Lawrence, K. B. Luther, J. G. Ferry, H. Schindelin
Date :  25 Jul 05  (Deposition) - 24 Jan 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  C,D
Keywords :  Pta Dimer With One Coa Ligand Bound Per Monomer, Acyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Lawrence, K. B. Luther, H. Schindelin, J. G. Ferry
Structural And Functional Studies Suggest A Catalytic Mechanism For The Phosphotransacetylase From Methanosarcina Thermophila.
J. Bacteriol. V. 188 1143 2006
PubMed-ID: 16428418  |  Reference-DOI: 10.1128/JB.188.3.1143-1154.2006
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHATE ACETYLTRANSFERASE
    Chains: C, D
    EC Number: 2.3.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PT7-7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PTA
    Organism Scientific: METHANOSARCINA THERMOPHILA
    Organism Taxid: 2210
    Synonym: PHOSPHOTRANSACETYLASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1COA2Ligand/IonCOENZYME A
2CSO2Mod. Amino AcidS-HYDROXYCYSTEINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER C:128 , LEU C:132 , PHE C:152 , GLY C:173 , MET C:174 , ASN C:279 , TYR C:282 , LYS C:283 , GLN C:286 , ALA C:293 , GLY C:295 , PRO C:296 , THR C:298 , ASP C:307 , SER C:309 , CYS C:312 , ASP C:316 , HOH C:635 , HOH C:679 , GLN D:244 , ASP D:246 , LYS D:257BINDING SITE FOR RESIDUE COA C 501
2AC2SOFTWARESER C:214 , GLN C:244 , ASP C:246 , LYS C:257 , HOH C:572 , SER D:128 , PHE D:152 , GLY D:173 , MET D:174 , ASN D:279 , TYR D:282 , LYS D:283 , GLN D:286 , ALA D:293 , GLY D:295 , PRO D:296 , THR D:298 , ASP D:307 , SER D:309 , CYS D:312 , ASP D:316 , HOH D:505 , HOH D:521 , HOH D:571 , HOH D:581 , HOH D:589BINDING SITE FOR RESIDUE COA D 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2AF4)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Ala C:170 -Asp C:171
2Gly C:241 -Glu C:242
3Gly C:295 -Pro C:296
4Ala D:170 -Asp D:171
5Gly D:241 -Glu D:242
6Gly D:295 -Pro D:296

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2AF4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2AF4)

(-) Exons   (0, 0)

(no "Exon" information available for 2AF4)

(-) 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 C from PDB  Type:PROTEIN  Length:332
 aligned with PTAS_METTE | P38503 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:332
                                    11        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  
           PTAS_METTE     2 VTFLEKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKALAGDLDLSKAKIVDPKTYEKKDEYINAFYELRKHKGITLENAAEIMSDYVYFAVMMAKLGEVDGVVSGAAHSSSDTLRPAVQIVKTAKGAALASAFFIISVPDCEYGSDGTFLFADSGMVEMPSVEDVANIAVISAKTFELLVQDVPKVAMLSYSTKGSAKSKLTEATIASTKLAQELAPDIAIDGELQVDAAIVPKVAASKAPGSPVAGKANVFIFPDLNCGNIAYKIAQRLAKAEAYGPITQGLAKPINDLSRGCSDEDIVGAVAITCVQAAAQDK 333
               SCOP domains d2af4c_ C: Phosphotransacetylase Pta                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------2af4C02 C:141-301 Isocitrate/Isopropylmalate dehydrogenase-like                                                                                                  -------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhh.......eee......hhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhh....eeee.....hhhhhhhhhhhh.........eeeeeee..........eeeee........hhhhhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhh..........eee..hhhhhhhhhhhhhhh...eeeeeeee.....eee.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2af4 C   2 VTFLEKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKALAGDLDLSKAKIVDPKTYEKKDEYINAFYELRKHKGITLENAAEIMSDYVYFAVMMAKLGEVDGVVSGAAHSSSDTLRPAVQIVKTAKGAALASAFFIISVPDcEYGSDGTFLFADSGMVEMPSVEDVANIAVISAKTFELLVQDVPKVAMLSYSTKGSAKSKLTEATIASTKLAQELAPDIAIDGELQVDAAIVPKVAASKAPGSPVAGKANVFIFPDLNCGNIAYKIAQRLAKAEAYGPITQGLAKPINDLSRGCSDEDIVGAVAITCVQAAAQDK 333
                                    11        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  
                                                                                                                                                                                       159-CSO                                                                                                                                                                          


Chain D from PDB  Type:PROTEIN  Length:331
 aligned with PTAS_METTE | P38503 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:331
                                    11        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 
           PTAS_METTE     2 VTFLEKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKALAGDLDLSKAKIVDPKTYEKKDEYINAFYELRKHKGITLENAAEIMSDYVYFAVMMAKLGEVDGVVSGAAHSSSDTLRPAVQIVKTAKGAALASAFFIISVPDCEYGSDGTFLFADSGMVEMPSVEDVANIAVISAKTFELLVQDVPKVAMLSYSTKGSAKSKLTEATIASTKLAQELAPDIAIDGELQVDAAIVPKVAASKAPGSPVAGKANVFIFPDLNCGNIAYKIAQRLAKAEAYGPITQGLAKPINDLSRGCSDEDIVGAVAITCVQAAAQD 332
               SCOP domains d2af4d_ D: Phosphotransacetylase Pta                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------2af4D02 D:141-301 Isocitrate/Isopropylmalate dehydrogenase-like                                                                                                  ------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhh..eeeee.hhhhhhh..........eee......hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh....eeee........hhhhhhhhh..........eeeeee....hhhhhheeeee........hhhhhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhh..........eee..hhhhhhhhhhhhhhhh..eeeeeee......eee.....hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2af4 D   2 VTFLEKISERAKKLNKTIALPETEDIRTLQAAAKILERGIADIVLVGNEADIKALAGDLDLSKAKIVDPKTYEKKDEYINAFYELRKHKGITLENAAEIMSDYVYFAVMMAKLGEVDGVVSGAAHSSSDTLRPAVQIVKTAKGAALASAFFIISVPDcEYGSDGTFLFADSGMVEMPSVEDVANIAVISAKTFELLVQDVPKVAMLSYSTKGSAKSKLTEATIASTKLAQELAPDIAIDGELQVDAAIVPKVAASKAPGSPVAGKANVFIFPDLNCGNIAYKIAQRLAKAEAYGPITQGLAKPINDLSRGCSDEDIVGAVAITCVQAAAQD 332
                                    11        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 
                                                                                                                                                                                       159-CSO
   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  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2AF4)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain C,D   (PTAS_METTE | P38503)
molecular function
    GO:0016407    acetyltransferase activity    Catalysis of the transfer of an acetyl group to an acceptor molecule.
    GO:0008959    phosphate acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + phosphate = CoA + acetyl phosphate.
    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.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0006085    acetyl-CoA biosynthetic process    The chemical reactions and pathways resulting in the formation of acetyl-CoA, a derivative of coenzyme A in which the sulfhydryl group is acetylated.
    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.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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    Ala D:170 - Asp D:171   [ RasMol ]  
    Gly C:241 - Glu C:242   [ RasMol ]  
    Gly C:295 - Pro C:296   [ RasMol ]  
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  2af4
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  2.3.1.8
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 Related Entries

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

UniProtKB/Swiss-Prot
        PTAS_METTE | P38503: 1qzt 2af3

(-) Related Entries Specified in the PDB File

1qzt CRYSTAL STRUCTURE OF THE APO FORM OF PHOSPHOTRANSACETYLASE FROM METHANOSARCINA THERMOPHILA
2af3 CRYSTAL STRUCTURE OF THE SAME PROTEIN FROM METHANOSARCINA THERMOPHILA SOAKED WITH COENZYME A