4C6W - JenaLib

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Title :   CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA

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 :   1.70

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)

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 Unit	:	A	B
Biological Unit 1 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 8)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
2	K	2	Ligand/Ion	POTASSIUM ION
3	M7U	2	Ligand/Ion	(2R)-2-(HEXADECANOYLOXY)-3-{[(10R)-10-METHYLOCTADECANOYL]OXY}PROPYL PHOSPHATE
4	NA	1	Ligand/Ion	SODIUM ION
5	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER

Biological Unit 1 (3, 5)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
2	K	-1	Ligand/Ion	POTASSIUM ION
3	M7U	2	Ligand/Ion	(2R)-2-(HEXADECANOYLOXY)-3-{[(10R)-10-METHYLOCTADECANOYL]OXY}PROPYL PHOSPHATE
4	NA	-1	Ligand/Ion	SODIUM ION
5	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:309 , ALA A:310 , HIS A:311 , GLU A:354 , ASN A:399 , ASN A:400	BINDING SITE FOR RESIDUE K A1417
2	AC2	SOFTWARE	ASN B:309 , ALA B:310 , HIS B:311 , GLU B:354 , ASN B:399 , ASN B:400	BINDING SITE FOR RESIDUE K B1417
3	AC3	SOFTWARE	GLY A:115 , GLU A:120 , ALA A:170 , GLU A:199 , GLY A:200 , GLU A:203 , ALA A:209 , PHE A:239 , ILE A:347 , HOH A:2445 , ILE B:145	BINDING SITE FOR RESIDUE M7U A1418
4	AC4	SOFTWARE	ILE A:145 , GLY B:115 , GLU B:120 , ALA B:170 , GLU B:199 , GLY B:200 , PRO B:201 , GLU B:203 , ALA B:209 , PHE B:239 , HIS B:345 , ILE B:347 , HOH B:2191	BINDING SITE FOR RESIDUE M7U B1418
5	AC5	SOFTWARE	ARG A:78 , ARG A:79 , LYS A:136 , HOH A:2126 , GLN B:333 , ASP B:381 , LEU B:382 , ASP B:383 , HOH B:2359 , HOH B:2364 , HOH B:2378	BINDING SITE FOR RESIDUE EPE B1419
6	AC6	SOFTWARE	TRP B:95 , LEU B:158 , HOH B:2225	BINDING SITE FOR RESIDUE PEG B1420
7	AC7	SOFTWARE	LEU B:37 , ALA B:38 , GLY B:387 , GLU B:388 , NA B:1422 , HOH B:2411 , HOH B:2412	BINDING SITE FOR RESIDUE PEG B1421
8	AC8	SOFTWARE	PEG B:1421 , HOH B:2062 , HOH B:2390 , HOH B:2410 , HOH B:2411	BINDING SITE FOR RESIDUE NA B1422

(no "SS Bond" information available for 4C6W)

(no "Cis Peptide Bond" information available for 4C6W)

(no "SAP(SNP)/Variant" information available for 4C6W)

(no "PROSITE Motif" information available for 4C6W)

(no "Exon" information available for 4C6W)

Asymmetric 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 d4c6wa1 A:3-259 automated matches                                                                                                                                                                                                                                d4c6wa2 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.....hhhhhhhhhhh........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
                 4c6w 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:415
 aligned with I6Y8T4_MYCTU | I6Y8T4 from UniProtKB/TrEMBL  Length:416

    Alignment length:415
                                    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     
         I6Y8T4_MYCTU     2 SQPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSACSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
               SCOP domains d4c6wb1 B:2-259 automated matches                                                                                                                                                                                                                                 d4c6wb2 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
                 4c6w B   2 SQPSTANGGFPSVVVTAVTATTSISPDIESTWKGLLAGESGIHALEDEFVTKWDLAVKIGGHLKDPVDSHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERIVESYDLMNAGGPRKVSPLAVQMIMPNGAAAVIGLQLGARAGVMTPVSAQSSGSEAIAHAWRQIVMGDADVAVCGGVEGPIEALPIAAFSMMRAMSTRNDEPERASRPFDKDRDGFVFGEAGALMLIETEEHAKARGAKPLARLLGAGITSDAFHMVAPAADGVRAGRAMTRSLELAGLSPADIDHVNAHGTATPIGDAAEANAIRVAGCDQAAVYAPKSALGHSIGAVGALESVLTVLTLRDGVIPPTLNYETPDPEIDLDVVAGEPRYGDYRYAVNNSFGFGGHNVALAFGRY 416
                                    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

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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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	d4c6wa1	A:3-259
1b	d4c6wa2	A:260-416
1c	d4c6wb1	B:2-259
1d	d4c6wb2	B:260-416

(no "CATH Domain" information available for 4C6W)

(no "Pfam Domain" information available for 4C6W)

Asymmetric 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 Unit
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	Ligands, Modified Residues, Ions
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		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4c6w)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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

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)
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
4c73	CRYSTAL STRUCTURE OF M. TUBERCULOSIS C171Q KASA IN COMPLEX WITH TLM6

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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