4C73 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM6

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, 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

Molecule 1 - 3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1
	Chains	:	A, B
	EC Number	:	2.3.1.41
	Engineered	:	YES
	Expression System	:	MYCOBACTERIUM SMEGMATIS
	Expression System Plasmid	:	PFPCA1
	Expression System Strain	:	MC2155
	Expression System Taxid	:	1772
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS H37RV
	Organism Taxid	:	83332
	Synonym	:	BETA-KETOACYL ACP SYNTHASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 25)

No.	Name	Count	Type	Full Name
1	EDO	19	Ligand/Ion	1,2-ETHANEDIOL
2	K	2	Ligand/Ion	POTASSIUM ION
3	M7U	2	Ligand/Ion	(2R)-2-(HEXADECANOYLOXY)-3-{[(10R)-10-METHYLOCTADECANOYL]OXY}PROPYL PHOSPHATE
4	TLH	2	Ligand/Ion	(5R)-5-METHYL-5-[(1E)-2-METHYLBUTA-1,3-DIENYL]-4-OXIDANYL-3-[2,2,2-TRIS(FLUORANYL)ETHANOYL]THIOPHEN-2-ONE

Asymmetric Unit (25, 25)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:18 , VAL A:19 , GLU A:30 , HOH A:2015	BINDING SITE FOR RESIDUE EDO A1417
02	AC2	SOFTWARE	ASP A:69 , TYR A:82 , PRO A:201 , M7U A:1428 , HOH A:2107	BINDING SITE FOR RESIDUE EDO A1418
03	AC3	SOFTWARE	ARG A:121 , GLU A:124 , SER A:125 , LEU A:128 , SER A:138	BINDING SITE FOR RESIDUE EDO A1419
04	AC4	SOFTWARE	ASN A:130 , HOH A:2409 , HOH A:2410 , TRP B:54	BINDING SITE FOR RESIDUE EDO A1420
05	AC5	SOFTWARE	SER A:211 , ARG A:214 , ALA A:215 , MET A:216 , THR A:218 , EDO A:1431 , HOH A:2411	BINDING SITE FOR RESIDUE EDO A1421
06	AC6	SOFTWARE	PHE A:275 , PRO A:280 , ALA A:282 , ILE A:317 , TYR A:391 , EDO A:1424 , HOH A:2349 , HOH A:2412	BINDING SITE FOR RESIDUE EDO A1422
07	AC7	SOFTWARE	ASP A:283 , VAL A:285 , ARG A:286 , HOH A:2322 , HOH A:2413 , HOH A:2414	BINDING SITE FOR RESIDUE EDO A1423
08	AC8	SOFTWARE	PHE A:275 , ALA A:282 , ASP A:283 , EDO A:1422 , HOH A:2415 , HOH A:2416	BINDING SITE FOR RESIDUE EDO A1424
09	AC9	SOFTWARE	ASN A:309 , ALA A:310 , HIS A:311 , GLU A:354 , ASN A:399 , ASN A:400	BINDING SITE FOR RESIDUE K A1425
10	BC1	SOFTWARE	ASP A:332 , GLN A:333 , ASP A:381 , HOH A:2365 , HOH A:2417	BINDING SITE FOR RESIDUE EDO A1426
11	BC2	SOFTWARE	GLN A:171 , PHE A:237 , VAL A:278 , ALA A:279 , PRO A:280 , HIS A:311 , THR A:313 , THR A:315 , HIS A:345 , PHE A:402 , GLY A:403 , PHE A:404 , GLY A:406 , HOH A:2346	BINDING SITE FOR RESIDUE TLH A1427
12	BC3	SOFTWARE	GLY A:115 , GLU A:120 , ALA A:170 , 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 , SER A:346 , ILE A:347 , EDO A:1418 , EDO A:1430 , HOH A:2194 , VAL B:142 , ILE B:145	BINDING SITE FOR RESIDUE M7U A1428
13	BC4	SOFTWARE	THR A:292 , GLU A:296 , LEU A:300 , PRO A:302 , HOH A:2418	BINDING SITE FOR RESIDUE EDO A1429
14	BC5	SOFTWARE	ARG A:85 , GLU A:120 , M7U A:1428 , HOH A:2130 , HOH A:2144	BINDING SITE FOR RESIDUE EDO A1430
15	BC6	SOFTWARE	TRP A:54 , HOH A:2252 , ASN B:130 , HOH B:2312	BINDING SITE FOR RESIDUE EDO B1417
16	BC7	SOFTWARE	ASN B:309 , ALA B:310 , HIS B:311 , GLU B:354 , ASN B:399 , ASN B:400	BINDING SITE FOR RESIDUE K B1418
17	BC8	SOFTWARE	SER B:211 , ARG B:214 , ALA B:215 , MET B:216	BINDING SITE FOR RESIDUE EDO B1419
18	BC9	SOFTWARE	VAL B:384 , VAL B:385 , ALA B:386 , ARG B:390 , HOH B:2297 , HOH B:2298	BINDING SITE FOR RESIDUE EDO B1420
19	CC1	SOFTWARE	GLN B:171 , ALA B:215 , PHE B:237 , HIS B:276 , VAL B:278 , ALA B:279 , PRO B:280 , HIS B:311 , THR B:313 , THR B:315 , HIS B:345 , PHE B:402 , GLY B:403 , PHE B:404 , GLY B:406 , HOH B:2252	BINDING SITE FOR RESIDUE TLH B1421
20	CC2	SOFTWARE	ILE A:145 , GLY B:115 , GLU B:120 , ALA B:170 , GLY B:200 , PRO B:201 , GLU B:203 , ALA B:209 , PHE B:239 , GLY B:240 , GLU B:241 , HIS B:345 , ILE B:347 , EDO B:1423	BINDING SITE FOR RESIDUE M7U B1422
21	CC3	SOFTWARE	ASP B:69 , M7U B:1422 , HOH B:2080 , HOH B:2082 , HOH B:2314	BINDING SITE FOR RESIDUE EDO B1423
22	CC4	SOFTWARE	ASN B:130 , GLY B:132	BINDING SITE FOR RESIDUE EDO B1424
23	CC5	SOFTWARE	ARG A:74 , ARG A:78 , GLN B:333 , HOH B:2273	BINDING SITE FOR RESIDUE EDO B1425
24	CC6	SOFTWARE	ALA A:57 , SER A:211 , ARG A:214 , EDO A:1421 , HOH A:2101 , HOH A:2419 , ARG B:135	BINDING SITE FOR RESIDUE EDO A1431
25	CC7	SOFTWARE	ARG A:79 , GLN A:84 , GLN A:143	BINDING SITE FOR RESIDUE EDO A1432

(no "SS Bond" information available for 4C73)

(no "Cis Peptide Bond" information available for 4C73)

(no "SAP(SNP)/Variant" information available for 4C73)

(no "PROSITE Motif" information available for 4C73)

(no "Exon" information available for 4C73)

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 d4c73a1 A:3-259 automated matches                                                                                                                                                                                                                                d4c73a2 A:260-416 automated matches                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee....hhhhhhhhhhh.....ee..hhhhhhh.....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
                 4c73 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 d4c73b1 B:3-259 automated matches                                                                                                                                                                                                                                d4c73b2 B:260-416 automated matches                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeee....hhhhhhhhhhh.....ee..hhhhhhhh....ee.....hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.....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
                 4c73 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

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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 '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Thiolase-like (231)

Superfamily: Thiolase-like (231)

Family: automated matches (108)

Protein domain: automated matches (108)

Mycobacterium tuberculosis [TaxId: 83332] (9)

1a	d4c73a1	A:3-259
1b	d4c73a2	A:260-416
1c	d4c73b1	B:3-259
1d	d4c73b2	B:260-416

(no "CATH Domain" information available for 4C73)

(no "Pfam Domain" information available for 4C73)

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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4c73)

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	4c73
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	2.3.1.41
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UniProtKB/TrEMBL
	I6Y8T4_MYCTU \| I6Y8T4	:	4c6u 4c6v 4c6w 4c6x 4c6z 4c70 4c71 4c72

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)
4c6z	CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM3
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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 25)

Sites (25, 25)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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