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(-) Description

Title :  CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM3
 
Authors :  J. Schiebel, K. Kapilashrami, A. Fekete, G. R. Bommineni, C. M. Schaefe M. J. Mueller, P. J. Tonge, C. Kisker
Date :  19 Sep 13  (Deposition) - 09 Oct 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Beto-Ketoacyl-Acp Synthase, Kas Enzyme, Condensing Enzyme, Type 2 Fatty Acid Biosynthesis, Mycolic Acid Synthesis, Thiolactomycin (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Schiebel, K. Kapilashrami, A. Fekete, G. R. Bommineni, C. M. Schaefer, M. J. Mueller, P. J. Tonge, C. Kisker
Structural Basis For The Recognition Of Mycolic Acid Precursors By Kasa, A Condensing Enzyme And Drug Target From Mycobacterium Tuberculosis
J. Biol. Chem. V. 288 34190 2013
PubMed-ID: 24108128  |  Reference-DOI: 10.1074/JBC.M113.511436

(-) Compounds

Molecule 1 - 3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1
    ChainsA, B
    EC Number2.3.1.41
    EngineeredYES
    Expression SystemMYCOBACTERIUM SMEGMATIS
    Expression System PlasmidPFPCA1
    Expression System StrainMC2155
    Expression System Taxid1772
    MutationYES
    Organism ScientificMYCOBACTERIUM TUBERCULOSIS
    Organism Taxid83332
    StrainH37RV
    SynonymBETA-KETOACYL ACP SYNTHASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 15)

Asymmetric/Biological Unit (4, 15)
No.NameCountTypeFull Name
1EDO9Ligand/Ion1,2-ETHANEDIOL
2K2Ligand/IonPOTASSIUM ION
3M7U2Ligand/Ion(2R)-2-(HEXADECANOYLOXY)-3-{[(10R)-10-METHYLOCTADECANOYL]OXY}PROPYL PHOSPHATE
4TLE2Ligand/Ion(5R)-3-ETHYL-4-HYDROXY-5-METHYL-5-[(1E)-2-METHYLBUTA-1,3-DIEN-1-YL]THIOPHEN-2(5H)-ONE

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:79 , GLN A:84 , GLN A:143 , HOH A:2447BINDING SITE FOR RESIDUE EDO A1417
02AC2SOFTWARELEU A:295 , GLU A:296 , LEU A:300 , HOH A:2379BINDING SITE FOR RESIDUE EDO A1418
03AC3SOFTWAREASN A:309 , ALA A:310 , HIS A:311 , GLU A:354 , ASN A:399 , ASN A:400BINDING SITE FOR RESIDUE K A1419
04AC4SOFTWAREGLN A:171 , PHE A:237 , VAL A:278 , ALA A:279 , PRO A:280 , HIS A:311 , THR A:313 , HIS A:345 , PHE A:402 , GLY A:403 , PHE A:404 , GLY A:406 , HOH A:2388BINDING SITE FOR RESIDUE TLE A1420
05AC5SOFTWAREGLY A:115 , GLU A:120 , GLU A:199 , GLY A:200 , PRO A:201 , ILE A:202 , GLU A:203 , LEU A:205 , ALA A:209 , PHE A:239 , GLY A:240 , GLU A:241 , HIS A:345 , ILE B:145BINDING SITE FOR RESIDUE M7U A1421
06AC6SOFTWAREALA A:57 , SER A:211 , ARG A:214 , EDO A:1424 , HOH A:2382 , ARG B:135BINDING SITE FOR RESIDUE EDO A1422
07AC7SOFTWAREPRO A:101 , GLU A:102 , VAL A:103 , LEU A:158 , HOH A:2450BINDING SITE FOR RESIDUE EDO A1423
08AC8SOFTWARESER A:211 , ARG A:214 , MET A:216 , THR A:218 , EDO A:1422 , HOH A:2295BINDING SITE FOR RESIDUE EDO A1424
09AC9SOFTWARETRP A:54 , HOH A:2285 , ASN B:130 , HOH B:2404BINDING SITE FOR RESIDUE EDO B1417
10BC1SOFTWAREASN B:309 , ALA B:310 , HIS B:311 , GLU B:354 , ASN B:399 , ASN B:400BINDING SITE FOR RESIDUE K B1418
11BC2SOFTWAREVAL B:384 , VAL B:385 , ALA B:386 , ARG B:390 , HOH B:2384 , HOH B:2385BINDING SITE FOR RESIDUE EDO B1419
12BC3SOFTWARESER B:211 , ARG B:214 , ALA B:215 , MET B:216BINDING SITE FOR RESIDUE EDO B1420
13BC4SOFTWAREGLN B:171 , PHE B:237 , HIS B:276 , MET B:277 , VAL B:278 , ALA B:279 , PRO B:280 , HIS B:311 , THR B:313 , HIS B:345 , PHE B:402 , PHE B:404 , GLY B:406 , HOH B:2340 , HOH B:2405BINDING SITE FOR RESIDUE TLE B1421
14BC5SOFTWAREILE A:145 , GLY B:115 , GLU B:120 , GLU B:199 , GLY B:200 , PRO B:201 , ILE B:202 , GLU B:203 , ALA B:209 , PHE B:239 , GLY B:240 , GLU B:241 , HIS B:345 , HOH B:2406BINDING SITE FOR RESIDUE M7U B1422
15BC6SOFTWAREARG A:74 , ARG A:78 , GLN B:333BINDING SITE FOR RESIDUE EDO B1423

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4C6Z)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4C6Z)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4C6Z)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4C6Z)

(-) Exons   (0, 0)

(no "Exon" information available for 4C6Z)

(-) 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:414
 aligned with I6Y8T4_MYCTU | I6Y8T4 from UniProtKB/TrEMBL  Length:416

    Alignment length:414
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412    
         I6Y8T4_MYCTU     3 QPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSACSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
               SCOP domains d4c6za1 A:3-259 automated matches                                                                                                                                                                                                                                d4c6za2 A:260-416 automated matches                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee....hhhhhhhhhhh.....ee..hhhhhhhh....ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhhhh.........hhhhh...............eeeeeeeeehhhhhhh.....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhhhh.eee.....hhhhhhhhhhhhhhh.....eee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee...............ee.....ee....eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c6z A   3 QPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSAQSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412    

Chain B from PDB  Type:PROTEIN  Length:414
 aligned with I6Y8T4_MYCTU | I6Y8T4 from UniProtKB/TrEMBL  Length:416

    Alignment length:414
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412    
         I6Y8T4_MYCTU     3 QPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSACSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
               SCOP domains d4c6zb1 B:3-259 automated matches                                                                                                                                                                                                                                d4c6zb2 B:260-416 automated matches                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee....hhhhhhhhhhh.....ee..hhhhhhhh....ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhhhh.........hhhhh...............eeeeeeeeehhhhhhhh....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhhhh.eee.....hhhhhhhhhhhhhhh.....eee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee...............ee.....ee....eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c6z B   3 QPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSAQSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412    

   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, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4C6Z)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4C6Z)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (I6Y8T4_MYCTU | I6Y8T4)
molecular function
    GO:0033817    beta-ketoacyl-acyl-carrier-protein synthase II activity    Catalysis of the reaction: (Z)-hexadec-11-enoyl-[acyl-carrier protein] + malonyl-[acyl-carrier protein] = (Z)-3-oxooctadec-13-enoyl-[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: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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 Related Entries

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

UniProtKB/TrEMBL
        I6Y8T4_MYCTU | I6Y8T44c6u 4c6v 4c6w 4c6x 4c70 4c71 4c72 4c73

(-) Related Entries Specified in the PDB File

4c6u CRYSTAL STRUCTURE OF M. TUBERCULOSIS KASA IN COMPLEX WITH TLM5
4c6v CRYSTAL STRUCTURE OF M. TUBERCULOSIS KASA IN COMPLEX WITH TLM5 (SOAK FOR 5 MIN)
4c6w CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA
4c6x CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH THIOLACTOMYCIN (TLM)
4c70 CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM4
4c71 CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM18
4c72 CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM5
4c73 CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM6