2VSQ - JenaLib

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Biol. Unit 1 - sites (Jmol Viewer)

Title :   STRUCTURE OF SURFACTIN A SYNTHETASE C (SRFA-C), A NONRIBOSOMAL PEPTIDE SYNTHETASE TERMINATION MODULE

Authors :   A. Tanovic, S. A. Samel, L. -O. Essen, M. A. Marahiel

Date :   29 Apr 08 (Deposition) - 08 Jul 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Ligase, Peptidyl Carrier Protein, Ligase Phosphoprotein, Termination Module, Phosphopantetheine, Nonribosomal Peptide Synthesis, Synthetase, Adenylation, Sporulation, Antibiotic Biosynthesis, Enzymatic Assembly Line, Surfactin A, Condensation, Thioesterase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Tanovic, S. A. Samel, L. -O. Essen, M. A. Marahiel
Crystal Structure Of The Termination Module Of A Nonribosomal Peptide Synthetase.
Science V. 321 659 2008
PubMed-ID: 18583577 | Reference-DOI: 10.1126/SCIENCE.1159850

Molecule 1 - SURFACTIN SYNTHETASE SUBUNIT 3
	Atcc	:	21332
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRCHIS2-TOPO_SRFA-C
	Expression System Strain	:	M15
	Expression System Taxid	:	562
	Expression System Variant	:	PREP4
	Fragment	:	TERMINATION MODULE OF SURFACTIN A BIOSYNTHESIS CLUSTER, RESIDUES 1-1009,1015-1274
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Synonym	:	SURFACTIN A SYNTHETASE C

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	LEU	1	Mod. Amino Acid	LEUCINE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	LEU	1	Mod. Amino Acid	LEUCINE
2	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:659 , ALA A:660 , PHE A:702 , GLY A:728 , GLY A:729 , CYS A:752 , VAL A:760	BINDING SITE FOR RESIDUE LEU A2291
2	AC2	SOFTWARE	GLN A:193 , GLU A:287 , ASN A:697 , GLY A:721	BINDING SITE FOR RESIDUE SO4 A2292

(no "SS Bond" information available for 2VSQ)

Asymmetric Unit

No.	Residues
1	Leu A:578	-	Pro A:579

(no "SAP(SNP)/Variant" information available for 2VSQ)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMP_BINDING	PS00455	Putative AMP-binding domain signature.	SRFAC_BACSU	612-623	1	A:612-623
2	CARRIER	PS50075	Carrier protein (CP) domain profile.	SRFAC_BACSU	968-1043	1	A:968-1043
3	PHOSPHOPANTETHEINE	PS00012	Phosphopantetheine attachment site.	SRFAC_BACSU	998-1013	1	A:998-1013

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMP_BINDING	PS00455	Putative AMP-binding domain signature.	SRFAC_BACSU	612-623	1	A:612-623
2	CARRIER	PS50075	Carrier protein (CP) domain profile.	SRFAC_BACSU	968-1043	1	A:968-1043
3	PHOSPHOPANTETHEINE	PS00012	Phosphopantetheine attachment site.	SRFAC_BACSU	998-1013	1	A:998-1013

(no "Exon" information available for 2VSQ)

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:1274
 aligned with SRFAC_BACSU | Q08787 from UniProtKB/Swiss-Prot  Length:1275

    Alignment length:1291
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   1275                
                                    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       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220      1230      1240      1250      1260      1270    |    -         - 
         SRFAC_BACSU      1 MSQFSKDQVQDMYYLSPMQEGMLFHAILNPGQSFYLEQITMKVKGSLNIKCLEESMNVIMDRYDVFRTVFIHEKVKRPVQVVLKKRQFHIEEIDLTHLTGSEQTAKINEYKEQDKIRGFDLTRDIPMRAAIFKKAEESFEWVWSYHHIILDGWCFGIVVQDLFKVYNALREQKPYSLPPVKPYKDYIKWLEKQDKQASLRYWREYLEGFEGQTTFAEQRKKQKDGYEPKELLFSLSEAETKAFTELAKSQHTTLSTALQAVWSVLISRYQQSGDLAFGTVVSGRPAEIKGVEHMVGLFINVVPRRVKLSEGITFNGLLKRLQEQSLQSEPHQYVPLYDIQSQADQPKLIDHIIVFENYPLQDAKNEESSENGFDMVDVHVFEKSNYDLNLMASPGDEMLIKLAYNENVFDEAFILRLKSQLLTAIQQLIQNPDQPVSTINLVDDREREFLLTGLNPPAQAHETKPLTYWFKEAVNANPDAPALTYSGQTLSYRELDEEANRIARRLQKHGAGKGSVVALYTKRSLELVIGILGVLKAGAAYLPVDPKLPEDRISYMLADSAAACLLTHQEMKEQAAELPYTGTTLFIDDQTRFEEQASDPATAIDPNDPAYIMYTSGTTGKPKGNITTHANIQGLVKHVDYMAFSDQDTFLSVSNYAFDAFTFDFYASMLNAARLIIADEHTLLDTERLTDLILQENVNVMFATTALFNLLTDAGEDWMKGLRCILFGGERASVPHVRKALRIMGPGKLINCYGPTEGTVFATAHVVHDLPDSISSLPIGKPISNASVYILNEQSQLQPFGAVGELCISGMGVSKGYVNRADLTKEKFIENPFKPGETLYRTGDLARWLPDGTIEYAGRIDDQVKIRGHRIELEEIEKQLQEYPGVKDAVVVADRHESGDASINAYLVNRTQLSAEDVKAHLKKQLPAYMVPQTFTFLDELPLTTNGKVNKRLLPKPDQDQLAEEWIGPRNEMEETIAQIWSEVLGRKQIGIHDDFFALGGHSLKAMTAASRIKKELGIDLPVKLLFEAPTIAGISAYLKNGGSDGLQDVTIMNQDQEQIIFAFPPVLGYGLMYQNLSSRLPSYKLCAFDFIEEEDRLDRYADLIQKLQPEGPLTLFGYSAGCSLAFEAAKKLEEQGRIVQRIIMVDSYKKQGVSDLDGRTVESDVEALMNVNRDNEALNSEAVKHGLKQKTHAFYSYYVNLISTGQVKADIDLLTSGADFDMPEWLASWEEATTGVYRVKRGFGTHAEMLQGETLDRNAEILLEFLNTQTVTVS----------------    -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------Condensation-2vsqA03 A:9-309                                                                                                                                                                                                                                                                                 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AMP-binding-2vsqA02 A:491-891                                                                                                                                                                                                                                                                                                                                                                                    -----------------------------------------------------------------------------------PP-binding-2vsqA04 A:975-1039                                    -------------------Thioesterase-2vsqA01 A:1059-1271                                                                                                                                                                                     -------------------- Pfam domains
         Sec.struct. author ....hhh.eeeeee.hhhhhhhhhhhhhh......eeeeeeeeee..hhhhhhhhhhhhhhhhhhh.eeee.......eeeee......eeeee....hhhhhhhhhhhhhhhhhhhh........eeeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhh.hhhhhhhhhhhhhh....................eeeeee..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..eeeeeeee........hhhhh.....eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..hhhhhhhh.........eeee...hhhhhh..hhhhhheeeeeeee.......eeeeee.....eeeeeee....hhhhhhhhhhhhhhhhhhhhhh....hhhh...hhhhhhhhhh............hhhhhhhhhhhhh...eeee....eeehhhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeee...............eeee..hhhhhhh.............eeeeeee.......eeeeeehhhhhhhhh...........eeee......hhhhhhhhhhhh...eeee.hhhhh.hhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhh...eeeee.hhhhh...eeee..............ee...eeeeee............eeeeeee.........hhhhhhhheee.......eeeeeeeeeee.....eeeeee...eeee..eeeehhhhhhhhhhh....eeeeeee.......eeeeeee.....hhhhhhhhhhhhhhhhhh..eeeee...................hhhhhh.......hhhhhhhhhhhhhhhh...............hhhhhhhhhhhh.................hhhhhhhhhhhh........eee......eee........hhhhhhhhh.....eeee.......hhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh...eeeeeee...ee....-----hhhhhhhhhhh...-------...hhhhhhhhhhhhhhhhh-----....eeeeee..........ee...........eee.....hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AMP_BINDING --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CARRIER  PDB: A:968-1043 UniProt: 968-1043                                  -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PHOSPHOPANTETHEI-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2vsq A    1 MSQFSKDQVQDMYYLSPMQEGMLFHAILNPGQSFYLEQITMKVKGSLNIKCLEESMNVIMDRYDVFRTVFIHEKVKRPVQVVLKKRQFHIEEIDLTHLTGSEQTAKINEYKEQDKIRGFDLTRDIPMRAAIFKKAEESFEWVWSYHHIILDGWCFGIVVQDLFKVYNALREQKPYSLPPVKPYKDYIKWLEKQDKQASLRYWREYLEGFEGQTTFAEQRKKQKDGYEPKELLFSPSEAETKAFTELAKSQHTTLSTALQAVWSVLISRYQQSGDLAFGTVVSGRPAEIKGVEHMVGLFINVVPRRVKLSEGITFNGLLKRLQEQSLQSEPHQYVPLYDIQSQADQPKLIDHIIVFENYPLQDAKNEESSENGFDMVDVHVFEKSNYDLNLMASPGDEMLIKLAYNENVFDEAFILRLKSQLLTAIQQLIQNPDQPVSTINLVDDREREFLLTGLNPPAQAHETKPLTYWFKEAVNANPDAPALTYSGQTLSYRELDEEANRIARRLQKHGAGKGSVVALYTKRSLELVIGILGVLKAGAAYLPVDPKLPEDRISYMLADSAAACLLTHQEMKEQAAELPYTGTTLFIDDQTRFEEQASDPATAIDPNDPAYIMYTSGTTGKPKGNITTHANIQGLVKHVDYMAFSDQDTFLSVSNYAFDAFTFDFYASMLNAARLIIADEHTLLDTERLTDLILQENVNVMFATTALFNLLTDAGEDWMKGLRCILFGGERASVPHVRKALRIMGPGKLINCYGPTEGTVFATAHVVHDLPDSISSLPIGKPISNASVYILNEQSQLQPFGAVGELCISGMGVSKGYVNRADLTKEKFIENPFKPGETLYRTGDLARWLPDGTIEYAGRIDDQVKIRGHRIELEEIEKQLQEYPGVKDAVVVADRHESGDASINAYLVNRTQLSAEDVKAHLKKQLPAYMVPQTFTFLDELPLTTNGKVNKRLLPKPDQDQLAEEWIGPRNEMEETIAQIWSEVLGRKQIGIHDDFFALGGHALKAMTAASRIKKELGIDLPVKLLFEAPTIAGISAYLKNGGSDGLQDVTIMNQDQEQIIFAFPPVLGYGLMYQNLSSRLPSYKLCAFDFIEEEDRLDRYADLIQKLQPEGPLTLFGYSAGCSLAFEAAKKLEEQGRIVQRIIMVDSYKKQGVS-----TVESDVEALMNVNR-------EAVKHGLKQKTHAFYSYYVN-----QVKADIDLLTSGADFDIPEWLASWEEATTGVYRMKRGFGTHAEMLQGETLDRNAEILLEFLNTQTVTVSKGEFEAYVEQKLISEL 2291
                                    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       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150    |    -|     1170   |     - |    1190      1200|     1210      1220      1230      1240      1250      1260      1270      1280      1290|
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           1155  1161         1174    1182               1201  1207                                                                               1290|
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   2291

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 '\|'

(no "SCOP Domain" information available for 2VSQ)

(no "CATH Domain" information available for 2VSQ)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: AB_hydrolase (347)

Family: Thioesterase (7)

Bacillus subtilis (3)

Thioesterase-2vsqA01

A:1059-1271

Clan: ANL (32)

Family: AMP-binding (32)

Bacillus subtilis (4)

AMP-binding-2vsqA02

A:491-891

Clan: CoA-acyltrans (22)

Family: Condensation (3)

Bacillus subtilis (1)

Condensation-2vsqA03

A:9-309

Clan: PP-binding (27)

Family: PP-binding (27)

Bacillus subtilis (2)

PP-binding-2vsqA04

A:975-1039

Asymmetric Unit(hide GO term definitions)

Chain A (SRFAC_BACSU | Q08787)

molecular function
	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:0016788	hydrolase activity, acting on ester bonds	Catalysis of the hydrolysis of any ester bond.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0031177	phosphopantetheine binding	Interacting selectively and non-covalently with phosphopantetheine, the vitamin pantetheine 4'-(dihydrogen phosphate).
biological process
	GO:0017000	antibiotic biosynthetic process	The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
	GO:0009058	biosynthetic process	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
	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.
	GO:0030435	sporulation resulting in formation of a cellular spore	The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.

Asymmetric Unit
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	Cis Peptide Bonds
		Leu A:578 - Pro A:579	[ RasMol ]

Biological Unit
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		Biological Unit 1	[ Jena3D ]

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	2vsq
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	SRFAC_BACSU \| Q08787
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	SRFAC_BACSU \| Q08787	:	1jmk

1jmk	STRUCTURAL BASIS FOR THE CYCLIZATION OF THE LIPOPEPTIDEANTIBIOTIC SURFACTIN BY THE THIOESTERASE DOMAIN SRFTE

Description

Compounds

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Ligands, Modified Residues, Ions (2, 2)

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SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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