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Title :   CRYSTAL STRUCTURE OF THE SALMONELLA TYPHIMURIUM FADA 3-KETOACYL-COA THIOLASE

Authors :   S. M. Anderson, T. Skarina, O. Onopriyenko, Z. Wawrzak, L. Papazisi, A. Savchenko, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)

Date :   18 Mar 09 (Deposition) - 31 Mar 09 (Release) - 31 Mar 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym./Biol. Unit : A,B

Keywords :   Metabolism, Fatty Acid, Phospholipid, Idp01071, Acyltransferase, Cytoplasm, Fatty Acid Metabolism, Lipid Degradation, Lipid Metabolism, Transferase, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :

PubMed: search
(for further references see the PDB file header)

Molecule 1 - 3-KETOACYL-COA THIOLASE
	Chains	:	A, B
	EC Number	:	2.3.1.16
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	FADA, STM3982, STMD1.7
	Organism Scientific	:	SALMONELLA TYPHIMURIUM
	Organism Taxid	:	602
	Strain	:	LT2
	Synonym	:	FATTY ACID OXIDATION COMPLEX SUBUNIT BETA, BETA- KETOTHIOLASE, ACETYL-COA ACYLTRANSFERASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 45)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	CL	2	Ligand/Ion	CHLORIDE ION
3	MSE	40	Mod. Amino Acid	SELENOMETHIONINE
4	NA	1	Ligand/Ion	SODIUM ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH B:419 , HOH B:694 , HOH B:756 , HOH B:773	BINDING SITE FOR RESIDUE CA B 388
2	AC2	SOFTWARE	HOH B:512 , HOH B:601 , HOH B:835 , HOH B:935 , HOH B:936	BINDING SITE FOR RESIDUE CA B 389
3	AC3	SOFTWARE	ALA A:9 , ARG A:41 , THR A:187 , GLU A:188 , ARG A:264 , ASN A:358	BINDING SITE FOR RESIDUE CL A 388
4	AC4	SOFTWARE	ALA A:265 , ARG A:266 , VAL A:387 , HOH A:934	BINDING SITE FOR RESIDUE CL A 389
5	AC5	SOFTWARE	ARG B:266 , GLU B:385 , HOH B:939	BINDING SITE FOR RESIDUE NA B 390

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

(no "Cis Peptide Bond" information available for 3GOA)

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

Asymmetric/Biological Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOLASE_1	PS00098	Thiolases acyl-enzyme intermediate signature.	FADA_SALTY	87-105	2	A:87-105 B:87-105
2	THIOLASE_2	PS00737	Thiolases signature 2.	FADA_SALTY	333-349	2	A:333-349 B:333-349
3	THIOLASE_3	PS00099	Thiolases active site.	FADA_SALTY	368-381	2	A:368-381 B:368-381

(no "Exon" information available for 3GOA)

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:380
 aligned with FADA_SALTY | P0A2H7 from UniProtKB/Swiss-Prot  Length:387

    Alignment length:387
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       
           FADA_SALTY     1 MEQVVIVDAIRTPMGRSKGGAFRNVRAEDLSAHLMRSLLARNPSLTAATLDDIYWGCVQQTLEQGFNIARNAALLAEIPHSVPAVTVNRLCGSSMQALHDAARMIMTGDAQVCLVGGVEHMGHVPMSHGVDFHPGLSRNVAKAAGMMGLTAEMLSRLHGISREMQDQFAARSHARAWAATQSGAFKTEIIPTGGHDADGVLKQFNYDEVIRPETTVEALSTLRPAFDPVSGTVTAGTSSALSDGAAAMLVMSESRARELGLKPRARIRSMAVVGCDPSIMGYGPVPASKLALKKAGLSASDIDVFEMNEAFAAQILPCIKDLGLMEQIDEKINLNGGAIALGHPLGCSGARISTTLINLMERKDAQFGLATMCIGLGQGIATVFERV 387
               SCOP domains d3goaa1 A:1-259 automated matches                                                                                                                                                                                                                                  d3goaa2 A:260-387 automated matches                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee...ee.........hhhhhhhhhhhhhhhhh...hhhhh.eeeee....hhhhh.hhhhhhhhhh........eeeehhhhhhhhhhhhhhhhhhh....eeeeeeee..................-------..hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh........eeee.....eeee..........hhhhhh.............hhhhh...eeeeeeeeeeehhhhhhh.....eeeeeeeeee........hhhhhhhhhhhhhh.hhhhh.eeee...hhhhhhhhhhhh.hhhhhhhhh....hhhhhh.hhhhhhhhhhhhhhhhhhhh...eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------THIOLASE_1         -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------THIOLASE_2       ------------------THIOLASE_3    ------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3goa A   1 mEQVVIVDAIRTPmGRSKGGAFRNVRAEDLSAHLmRSLLARNPSLTAATLDDIYWGCVQQTLEQGFNIARNAALLAEIPHSVPAVTVNRLCGSSmQALHDAARmImTGDAQVCLVGGVEHmGHVPmSHGVDFHPGLS-------GmmGLTAEmLSRLHGISREmQDQFAARSHARAWAATQSGAFKTEIIPTGGHDADGVLKQFNYDEVIRPETTVEALSTLRPAFDPVSGTVTAGTSSALSDGAAAmLVmSESRARELGLKPRARIRSmAVVGCDPSImGYGPVPASKLALKKAGLSASDIDVFEmNEAFAAQILPCIKDLGLmEQIDEKINLNGGAIALGHPLGCSGARISTTLINLmERKDAQFGLATmCIGLGQGIATVFERV 387
                            |       10   |    20        30    |   40        50        60        70        80        90    |  100   | | 110       120|    | 130      |  -    |||150  |    160   |   170       180       190       200       210       220       230       240       250|      260       270       280       290       300      |310       320    |  330       340       350       360       370 |     380       
                            |           14-MSE               35-MSE                                                      95-MSE  104-MSE          121-MSE|        137     145||     |        164-MSE                                                                             248-MSE               270-MSE   280-MSE                    307-MSE           325-MSE                            360-MSE     372-MSE           
                            1-MSE                                                                                                  106-MSE             126-MSE             146-MSE  |                                                                                               251-MSE                                                                                                                                    
                                                                                                                                                                            147-MSE |                                                                                                                                                                                                                                          
                                                                                                                                                                                  153-MSE

Chain B from PDB  Type:PROTEIN  Length:381
 aligned with FADA_SALTY | P0A2H7 from UniProtKB/Swiss-Prot  Length:387

    Alignment length:387
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       
           FADA_SALTY     1 MEQVVIVDAIRTPMGRSKGGAFRNVRAEDLSAHLMRSLLARNPSLTAATLDDIYWGCVQQTLEQGFNIARNAALLAEIPHSVPAVTVNRLCGSSMQALHDAARMIMTGDAQVCLVGGVEHMGHVPMSHGVDFHPGLSRNVAKAAGMMGLTAEMLSRLHGISREMQDQFAARSHARAWAATQSGAFKTEIIPTGGHDADGVLKQFNYDEVIRPETTVEALSTLRPAFDPVSGTVTAGTSSALSDGAAAMLVMSESRARELGLKPRARIRSMAVVGCDPSIMGYGPVPASKLALKKAGLSASDIDVFEMNEAFAAQILPCIKDLGLMEQIDEKINLNGGAIALGHPLGCSGARISTTLINLMERKDAQFGLATMCIGLGQGIATVFERV 387
               SCOP domains d3goab1 B:1-259 automated matches                                                                                                                                                                                                                                  d3goab2 B:260-387 automated matches                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee...ee.........hhhhhhhhhhhhhhhhh...hhhhh.eeeee....hhhhh.hhhhhhhhhh........eeeehhhhhhhhhhhhhhhhhhh....eeeeeeee.............hhhhh.------hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.........eeee.....eeee..........hhhhhh.............hhhhh...eeeeeeeeeeehhhhhhhh....eeeeeeeeee........hhhhhhhhhhhhhh.hhhhh.eeee...hhhhhhhhhhhh.hhhhhhhhh....hhhhhh.hhhhhhhhhhhhhhhhhhhhh..eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------THIOLASE_1         -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------THIOLASE_2       ------------------THIOLASE_3    ------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3goa B   1 mEQVVIVDAIRTPmGRSKGGAFRNVRAEDLSAHLmRSLLARNPSLTAATLDDIYWGCVQQTLEQGFNIARNAALLAEIPHSVPAVTVNRLCGSSmQALHDAARmImTGDAQVCLVGGVEHmGHVPmSHGVDFHPGLSR------GmmGLTAEmLSRLHGISREmQDQFAARSHARAWAATQSGAFKTEIIPTGGHDADGVLKQFNYDEVIRPETTVEALSTLRPAFDPVSGTVTAGTSSALSDGAAAmLVmSESRARELGLKPRARIRSmAVVGCDPSImGYGPVPASKLALKKAGLSASDIDVFEmNEAFAAQILPCIKDLGLmEQIDEKINLNGGAIALGHPLGCSGARISTTLINLmERKDAQFGLATmCIGLGQGIATVFERV 387
                            |       10   |    20        30    |   40        50        60        70        80        90    |  100   | | 110       120|    | 130       | -    |||150  |    160   |   170       180       190       200       210       220       230       240       250|      260       270       280       290       300      |310       320    |  330       340       350       360       370 |     380       
                            1-MSE       14-MSE               35-MSE                                                      95-MSE  104-MSE          121-MSE|         138    145||     |        164-MSE                                                                             248-MSE               270-MSE   280-MSE                    307-MSE           325-MSE                            360-MSE     372-MSE           
                                                                                                                                   106-MSE             126-MSE             146-MSE  |                                                                                               251-MSE                                                                                                                                    
                                                                                                                                                                            147-MSE |                                                                                                                                                                                                                                          
                                                                                                                                                                                  153-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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

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)

Salmonella typhimurium [TaxId: 602] (1)

1a	d3goaa1	A:1-259
1b	d3goaa2	A:260-387
1c	d3goab1	B:1-259
1d	d3goab2	B:260-387

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

(no "Pfam Domain" information available for 3GOA)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (FADA_SALTY | P0A2H7)

molecular function
	GO:0003988	acetyl-CoA C-acyltransferase activity	Catalysis of the reaction: acyl-CoA + acetyl-CoA = CoA + 3-oxoacyl-CoA.
	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).
	GO:0016747	transferase activity, transferring acyl groups other than amino-acyl groups	Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
biological process
	GO:0006635	fatty acid beta-oxidation	A fatty acid oxidation process that results in the complete oxidation of a long-chain fatty acid. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and occurs by successive cycles of reactions during each of which the fatty acid is shortened by a two-carbon fragment removed as acetyl coenzyme A; the cycle continues until only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
	GO:0006631	fatty acid metabolic process	The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
	GO:0016042	lipid catabolic process	The chemical reactions and pathways resulting in the breakdown of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 45)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 6)

Exons (0, 0)

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