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(-) Description

Title :  CRYSTAL STRUCTURE OF 3-OXOACYL-(ACYL CARRIER PROTEIN) SYNTHASE III FROM RHODOPSEUDOMONAS PALUSTRIS CGA009
 
Authors :  C. Chang, X. Xu, H. Cui, A. Savchenko, A. Edwards, A. Joachimiak, Midwes For Structural Genomics (Mcsg)
Date :  14 Jan 10  (Deposition) - 26 Jan 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Acyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, X. Xu, H. Cui, S. Chin, A. Savchenko, A. Edwards, A. Joachimia
Crystal Structure Of 3-Oxoacyl-(Acyl Carrier Protein) Synthase Iii From Rhodopseudomonas Palustris Cga009
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 3-OXOACYL-ACYL CARRIER PROTEIN SYNTHASE III
    Chains: A, B
    EC Number: 2.3.1.41
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3) DERIVATIVE
    Expression System Taxid: 469008
    Gene: RPA1298
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 258594
    Strain: CGA009

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 22)

Asymmetric/Biological Unit (2, 22)
No.NameCountTypeFull Name
1FMT2Ligand/IonFORMIC ACID
2MSE20Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU B:50 , GLN B:51 , ARG B:195 , HOH B:616 , HOH B:634BINDING SITE FOR RESIDUE FMT B 401
2AC2SOFTWAREALA B:61 , SER B:62 , ASN B:299 , HOH B:517 , HOH B:623 , HOH B:1174BINDING SITE FOR RESIDUE FMT B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Tyr A:132 -Pro A:133
2Gly A:360 -Tyr A:361
3Tyr B:132 -Pro B:133
4Gly B:360 -Tyr B:361

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LED)

(-) 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:375
 aligned with Q6NA87_RHOPA | Q6NA87 from UniProtKB/TrEMBL  Length:371

    Alignment length:375
                                1                                                                                                                                                                                                                                                                                                                                                                                  
                                |    6        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     
         Q6NA87_RHOPA     - ----MRPAVIAATGLYTPPDSVSNAELVEAFNTYVANFNAANKARIEAGEIEPLQPSSSEFIEKASGIKSRYVVAKPGIVDPDVMRPIIPERSNDELSILAEMAVTAAEQAIERWGKPRERIGAVLCACSNMQRAYPAMAIEVQNALGLGGFAFDMNVACSSATFGLKTAADFVGGGSVDAVLMVNPEICSGHLNFRDRDSHFIFGDVATAAIVERADDAQGGWSILGTKLKTQFSNNIRNNAGFLNRAWPEGRDKADKLFVQQGRKVFKEVVPLVSEMIIEHAREIGIDPHGLKRMWLHQANINMNEIIGRKVLGRDPTRDENVIILDDYANTSSAGSIIAFHKHQDDMAQGDLGLICSFGAGYSAGTVFVQKR 371
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeee...eeeehhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhh..eeee..hhhhh.................hhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.........hhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhhhh....eeeeeeeee.hhhh............eeeeeeeeee.hhh...eeeeeeeeee.....ee...hhhhhhhhhhh.hhhhh.eehhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeee...hhhhhhhhhhhhhh..........hhhhhh.hhhhhhhhhhhhh........eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3led A  -3 YFQGVRPAVIAATGLYTPPDSVSNAELVEAFNTYVANFNAANKARIEAGEIEPLQPSSSEFIEKASGIKSRYVVAKPGIVDPDVmRPIIPERSNDELSILAEmAVTAAEQAIERWGKPRERIGAVLCACSNmQRAYPAmAIEVQNALGLGGFAFDmNVACSSATFGLKTAADFVGGGSVDAVLmVNPEICSGHLNFRDRDSHFIFGDVATAAIVERADDAQGGWSILGTKLKTQFSNNIRNNAGFLNRAWPEGRDKADKLFVQQGRKVFKEVVPLVSEmIIEHAREIGIDPHGLKRmWLHQANINmNEIIGRKVLGRDPTRDENVIILDDYANTSSAGSIIAFHKHQDDmAQGDLGLICSFGAGYSAGTVFVQKR 371
                                     6        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     
                                                                                                               81-MSE            99-MSE                      128-MSE  |              152-MSE                     180-MSE                                                                                        275-MSE           293-MSE  302-MSE                                     346-MSE                     
                                                                                                                                                                    135-MSE                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:375
 aligned with Q6NA87_RHOPA | Q6NA87 from UniProtKB/TrEMBL  Length:371

    Alignment length:375
                                1                                                                                                                                                                                                                                                                                                                                                                                  
                                |    6        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     
         Q6NA87_RHOPA     - ----MRPAVIAATGLYTPPDSVSNAELVEAFNTYVANFNAANKARIEAGEIEPLQPSSSEFIEKASGIKSRYVVAKPGIVDPDVMRPIIPERSNDELSILAEMAVTAAEQAIERWGKPRERIGAVLCACSNMQRAYPAMAIEVQNALGLGGFAFDMNVACSSATFGLKTAADFVGGGSVDAVLMVNPEICSGHLNFRDRDSHFIFGDVATAAIVERADDAQGGWSILGTKLKTQFSNNIRNNAGFLNRAWPEGRDKADKLFVQQGRKVFKEVVPLVSEMIIEHAREIGIDPHGLKRMWLHQANINMNEIIGRKVLGRDPTRDENVIILDDYANTSSAGSIIAFHKHQDDMAQGDLGLICSFGAGYSAGTVFVQKR 371
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------ACP_syn_III-3ledB01 B:150-231                                                     ------------------------------------------------ACP_syn_III_C-3ledB03 B:280-370                                                            - Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------ACP_syn_III-3ledB02 B:150-231                                                     ------------------------------------------------ACP_syn_III_C-3ledB04 B:280-370                                                            - Pfam domains (2)
         Sec.struct. author .......eeeeeeeee...eeeehhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhh..eeee..hhhhhh................hhhhhhhhhhhhhhhhhhh.hhhhh.eeeee.........hhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhhhh....eeeeeeeee.hhh.............eeeeeeeeee.hhh...eeeeeeeeee.....ee...hhhhhhhhhhh.hhhhh.eehhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeee...hhhhhhhhhhhhhh..........hhhhhh.hhhhhhhhhhhhh........eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3led B  -3 YFQGVRPAVIAATGLYTPPDSVSNAELVEAFNTYVANFNAANKARIEAGEIEPLQPSSSEFIEKASGIKSRYVVAKPGIVDPDVmRPIIPERSNDELSILAEmAVTAAEQAIERWGKPRERIGAVLCACSNmQRAYPAmAIEVQNALGLGGFAFDmNVACSSATFGLKTAADFVGGGSVDAVLmVNPEICSGHLNFRDRDSHFIFGDVATAAIVERADDAQGGWSILGTKLKTQFSNNIRNNAGFLNRAWPEGRDKADKLFVQQGRKVFKEVVPLVSEmIIEHAREIGIDPHGLKRmWLHQANINmNEIIGRKVLGRDPTRDENVIILDDYANTSSAGSIIAFHKHQDDmAQGDLGLICSFGAGYSAGTVFVQKR 371
                                     6        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     
                                                                                                               81-MSE            99-MSE                      128-MSE  |              152-MSE                     180-MSE                                                                                        275-MSE           293-MSE  302-MSE                                     346-MSE                     
                                                                                                                                                                    135-MSE
   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 3LED)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: Thiolase (72)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q6NA87_RHOPA | Q6NA87)
molecular function
    GO:0004315    3-oxoacyl-[acyl-carrier-protein] synthase activity    Catalysis of the reaction: acyl-[acyl-carrier protein] + malonyl-[acyl-carrier protein] = 3-oxoacyl-[acyl-carrier protein] + CO2 + [acyl-carrier protein].
    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: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:0006633    fatty acid biosynthetic process    The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes.
    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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