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(-) Description

Title :  SUCCINYL-COA:ACETATE COA-TRANSFERASE (AARCH6) BOUND TO ACETATE AND DEGRADATION PRODUCTS FROM THE ACETYL-COA ANALOGUE DETHIAACETYL-COA
 
Authors :  E. A. Mullins, T. J. Kappock
Date :  08 Oct 15  (Deposition) - 18 May 16  (Release) - 08 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Tricarboxylic Acid Cycle, Transferase, Acidophile, Coenzyme Analogue (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. R. Murphy, E. A. Mullins, T. J. Kappock
Functional Dissection Of The Bipartite Active Site Of The Class I Coenzyme A (Coa)-Transferase Succinyl-Coa:Acetate Coa-Transferase.
Front Chem V. 4 23 2016
PubMed-ID: 27242998  |  Reference-DOI: 10.3389/FCHEM.2016.00023
(for further references see the PDB file header)

(-) Compounds

Molecule 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23A
    Expression System Strain: C41(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AZ09_02565
    Organism Scientific: ACETOBACTER ACETI
    Organism Taxid: 1457393
    Strain: 1023

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 15)

Asymmetric/Biological Unit (7, 15)
No.NameCountTypeFull Name
10T12Ligand/Ion[[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-4-OXIDANYL-3-PHOSPHONOOXY-OXOLAN-2-YL]METHOXY-OXIDANYL-PHOSPHORYL][(3R)-2,2-DIMETHYL-3-OXIDANYL-4-OXIDANYLIDENE-4-[[3-OXIDANYLIDENE-3-(PROPYLAMINO)PROPYL]AMINO]BUTYL]HYDROGEN PHOSPHATE
2ACE1Mod. Amino AcidACETYL GROUP
3ACT1Ligand/IonACETATE ION
4CL4Ligand/IonCHLORIDE ION
5CSX2Mod. Amino AcidS-OXY CYSTEINE
6FMT1Ligand/IonFORMIC ACID
7IMD4Ligand/IonIMIDAZOLE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:112 , ARG A:120 , ASN A:125 , GLY B:443 , HOH B:956binding site for residue CL A 601
02AC2SOFTWAREVAL A:196 , ARG A:354 , HOH A:854 , ARG B:354binding site for residue CL A 602
03AC3SOFTWAREGLU A:294 , ASN A:361 , GLY A:362 , MET A:363 , ILE A:364 , SER A:374 , MET A:383 , ASN A:384 , GLY A:385 , ILE A:386 , SER A:389 , ALA A:407 , ILE A:412 , ACE A:604 , HOH A:707 , HOH A:718 , HOH A:743 , HOH A:758 , HOH A:772 , HOH A:782 , HOH A:817 , HOH A:820 , HOH A:839 , HOH A:879 , HOH A:915binding site for residue 0T1 A 603
04AC4SOFTWAREPHE A:92 , LEU A:114 , GLU A:294 , GLY A:387 , GLY A:388 , 0T1 A:603 , HOH A:802binding site for residue ACE A 604
05AC5SOFTWAREASP A:202binding site for residue FMT A 605
06AC6SOFTWAREALA A:419 , MET B:418 , ALA B:419 , HOH B:712binding site for residue IMD A 606
07AC7SOFTWARETHR A:487 , LEU A:490 , SER A:491 , GLN A:494 , HOH A:829 , LEU B:486binding site for residue IMD A 607
08AC8SOFTWAREGLY A:443 , ARG B:120 , ASN B:125binding site for residue CL B 601
09AC9SOFTWAREARG A:354 , VAL B:196 , ARG B:354 , HOH B:852binding site for residue CL B 602
10AD1SOFTWAREGLY B:269 , VAL B:270 , GLY B:271 , ASN B:272 , VAL B:273 , GLU B:294 , ASN B:361 , MET B:363 , ILE B:364 , SER B:374 , ASN B:384 , GLY B:385 , ILE B:386 , SER B:389 , ALA B:407 , LYS B:408 , ILE B:412 , HOH B:726 , HOH B:735 , HOH B:769 , HOH B:783 , HOH B:786 , HOH B:853 , HOH B:867 , HOH B:912 , HOH B:917 , HOH B:919binding site for residue 0T1 B 603
11AD2SOFTWARETHR B:36 , SER B:71 , THR B:94 , ARG B:228binding site for residue ACT B 604
12AD3SOFTWAREVAL A:190 , ARG B:258 , PRO B:260 , TYR B:397binding site for residue IMD B 605
13AD4SOFTWARELEU A:486 , THR B:487 , LEU B:490 , SER B:491 , GLN B:494 , HOH B:833 , HOH B:864binding site for residue IMD B 606

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5E5H)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ser A:90 -Pro A:91
2Pro A:191 -Thr A:192
3Ser B:90 -Pro B:91
4Pro B:191 -Thr B:192

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5E5H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5E5H)

(-) Exons   (0, 0)

(no "Exon" information available for 5E5H)

(-) 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:511
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhh.hhhhhhh......eeee.........hhhhhhhhhhhhhhhhh.....eeee........hhhhhhhh..eeeee....hhhhhhhhhh...ee...hhhhhhhhhhhh......eeeeee.ee.....ee......hhhhhhhhh.eeeeeee...hhhhh..ee...............................hhh.eeeeeee............hhhhhhhhhhhhhhhhhhhhh.........eee..hhhhhhhhhhhhhh....eeee..eeehhhhhhhhhh.eeeeee.eee.hhhhhhhhhhhhhhhhh.eeeehhhhhhhhhhhhhhh.eeee...eee....ee..eehhhee.....hhhhhhhhh.eeeee...ee....ee.ee........hhhhh.eeee..eeee....hhhhhhhhhhhhh....hhhhhhhhhhhhhhhh............hhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e5h A   2 TERIRNVALRSKVcPAETASELIKHGDVVGTSGFTGAGYPKEVPKALAQRMEAAHDRGEKYQISLITGASTGPQLDGELAKANGVYFRSPFNTDATMRNRINAGETEYFDNHLGQVAGRAVQGNYGKFNIALVEATAITEDGGIVPTSSVGNSQTFLNLAEKVIIEVNEWQNPMLEGIHDIWDGNVSGVPTRDIVPIVRADQRVGGPVLRVNPDKIAAIVRTNDRDRNAPFAAPDETAKAIAGYLLDFFGHEVKQNRLPPSLLPLQSGVGNVANAVLEGLKEGPFENLVGYSEVIQDGMLAMLDSGRMRIASASSFSLSPEAAEEINNRMDFFRSKIILRQQDVSNSPGIIRRLGCIAMNGMIEADIYGNVNSTRVMGSKMMNGIGGSGDFARSSYLSIFLSPSTAKGGKISAIVPMAAHVDHIMQDAQIFVTEQGLADLRGLSPVQRAREIISKCAHPDYRPMLQDYFDRALKNSFGKHTPHLLTEALSWHQRFIDTGTMLPSSLEHHHH 512
                                    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       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511 
                                        15-CSX                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:504
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhh.hhhhhhh......eeee.........hhhhhhhhhhhhhhhhhh....eeee........hhhhhhhh..eeeee....hhhhhhhhhh...ee...hhhhhhhhhhhh......eeeeee.ee.....ee......hhhhhhhhh.eeeeeee...hhhhh..ee...............................hhh.eeeeeee............hhhhhhhhhhhhhhhhhhhhh.........eee..hhhhhhhhhhhhh.....eeee..eehhhhhhhhhh..eeeeee.ee..hhhhhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhh.eeeee..eee....ee..eehhhee.....hhhhhhhhh.eeeee...ee....ee.ee........hhhhh.eeee..eeee....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh............hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5e5h B   2 TERIRNVALRSKVcPAETASELIKHGDVVGTSGFTGAGYPKEVPKALAQRMEAAHDRGEKYQISLITGASTGPQLDGELAKANGVYFRSPFNTDATMRNRINAGETEYFDNHLGQVAGRAVQGNYGKFNIALVEATAITEDGGIVPTSSVGNSQTFLNLAEKVIIEVNEWQNPMLEGIHDIWDGNVSGVPTRDIVPIVRADQRVGGPVLRVNPDKIAAIVRTNDRDRNAPFAAPDETAKAIAGYLLDFFGHEVKQNRLPPSLLPLQSGVGNVANAVLEGLKEGPFENLVGYSEVIQDGMLAMLDSGRMRIASASSFSLSPEAAEEINNRMDFFRSKIILRQQDVSNSPGIIRRLGCIAMNGMIEADIYGNVNSTRVMGSKMMNGIGGSGDFARSSYLSIFLSPSTAKGGKISAIVPMAAHVDHIMQDAQIFVTEQGLADLRGLSPVQRAREIISKCAHPDYRPMLQDYFDRALKNSFGKHTPHLLTEALSWHQRFIDTGTMLPS 505
                                    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       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501    
                                        15-CSX
   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 ; only for superseded entry 4FAC: 1,4)

(no "SCOP Domain" information available for 5E5H, only for superseded entry 4FAC replaced by 5E5H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5E5H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5E5H)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        SCACT_ACEAC | B3EY95: 4eu3 4eu4 4eu5 4eu6 4eu7 4eu8 4eu9 4eua 4eub 4euc 4eud 5ddk 5dw4 5dw5 5dw6

(-) Related Entries Specified in the PDB File

4fac ALTERNATE INTERPRETATION OF SAME DATA SET.
5dw5
5dw6