2P20 - JenaLib

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Title :   ACETYL-COA SYNTHETASE, R584A MUTATION

Authors :   A. S. Reger, A. M. Gulick

Date :   06 Mar 07 (Deposition) - 29 May 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.22

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Adenylate-Forming Enzymes, Domain Alternation, Acyl-Coa Ligase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. S. Reger, J. M. Carney, A. M. Gulick
Biochemical And Crystallographic Analysis Of Substrate Binding And Conformational Changes In Acetyl-Coa Synthetase
Biochemistry V. 46 6536 2007
PubMed-ID: 17497934 | Reference-DOI: 10.1021/BI6026506

Molecule 1 - ACETYL-COENZYME A SYNTHETASE
	Chains	:	A, B
	EC Number	:	6.2.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PTYB1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	ACS
	Mutation	:	YES
	Organism Scientific	:	SALMONELLA TYPHIMURIUM
	Organism Taxid	:	602
	Strain	:	TYPHI
	Synonym	:	ACETATE-COA LIGASE, ACYL-ACTIVATING ENZYME

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	PRX	2	Ligand/Ion	ADENOSINE-5'-MONOPHOSPHATE-PROPYL ESTER

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	PRX	1	Ligand/Ion	ADENOSINE-5'-MONOPHOSPHATE-PROPYL ESTER

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	PRX	1	Ligand/Ion	ADENOSINE-5'-MONOPHOSPHATE-PROPYL ESTER

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:311 , GLY A:387 , GLU A:388 , PRO A:389 , ASP A:411 , THR A:412 , TRP A:413 , TRP A:414 , GLN A:415 , THR A:416 , ASP A:500 , ILE A:512 , ARG A:515 , ARG A:526 , HOH A:1307 , HOH A:1311 , HOH A:1329	BINDING SITE FOR RESIDUE PRX A 999
2	AC2	SOFTWARE	VAL B:310 , THR B:311 , GLY B:387 , GLU B:388 , PRO B:389 , ASP B:411 , THR B:412 , TRP B:413 , TRP B:414 , GLN B:415 , THR B:416 , ASP B:500 , ILE B:512 , ARG B:515 , ARG B:526 , HOH B:1051 , HOH B:1214 , HOH B:1238	BINDING SITE FOR RESIDUE PRX B 998

(no "SS Bond" information available for 2P20)

Asymmetric Unit

No.	Residues
1	Trp A:336	-	Pro A:337
2	Trp B:336	-	Pro B:337

(no "SAP(SNP)/Variant" information available for 2P20)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMP_BINDING	PS00455	Putative AMP-binding domain signature.	ACSA_SALTY	261-272	2	A:261-272 B:261-272

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMP_BINDING	PS00455	Putative AMP-binding domain signature.	ACSA_SALTY	261-272	1	A:261-272 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMP_BINDING	PS00455	Putative AMP-binding domain signature.	ACSA_SALTY	261-272	1	- B:261-272

(no "Exon" information available for 2P20)

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:641
 aligned with ACSA_SALTY | Q8ZKF6 from UniProtKB/Swiss-Prot  Length:652

    Alignment length:643
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644   
           ACSA_SALTY     5 HKHAIPANIADRCLINPEQYETKYKQSINDPDTFWGEQGKILDWITPYQKVKNTSFAPGNVSIKWYEDGTLNLAANCLDRHLQENGDRTAIIWEGDDTSQSKHISYRELHRDVCRFANTLLDLGIKKGDVVAIYMPMVPEAAVAMLACARIGAVHSVIFGGFSPEAVAGRIIDSSSRLVITADEGVRAGRSIPLKKNVDDALKNPNVTSVEHVIVLKRTGSDIDWQEGRDLWWRDLIEKASPEHQPEAMNAEDPLFILYTSGSTGKPKGVLHTTGGYLVYAATTFKYVFDYHPGDIYWCTADVGWVTGHSYLLYGPLACGATTLMFEGVPNWPTPARMCQVVDKHQVNILYTAPTAIRALMAEGDKAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGKEKCPVVDTWWQTETGGFMITPLPGAIELKAGSATRPFFGVQPALVDNEGHPQEGATEGNLVITDSWPGQARTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPHAIKGQAIYAYVTLNHGEEPSPELYAEVRNWVRKEIGPLATPDVLHWTDSLPKTRSGKIMRRILRKIAAGDTSNLGDTSTLADPGVVEKLLEEKQA 647
               SCOP domains d2p20a_ A: Acetyl-CoA synthetase                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2p20A02 A:518-647  [code=3.30.300.30, no name defined]                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.........eeeeee..eeeeee....eehhhhhhh..hhhhhh..eeeeee......eeeeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeee..eee..eeehhhhhhhhhhh........eeeee.............eeehhhhhhhh........ee.....eeeee.......eeeee.hhhhhhhhhhhhhhhh......eeee.....hhhhhhh.hhhhhhh..eeeee.........hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhh.........eeeee....hhhhhhhhhhhh......eeee..hhhhh..........................eeee.....ee...eeeeeee.........ee..hhhhhhhhhhh.....eeeeeeeee.....eeeeee...eeee..eeeehhhhhhhhhh...eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhh..eeee............hhhhhhhhhh.....--........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AMP_BINDING --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p20 A   5 HKHAIPANIADRCLINPEQYETKYKQSINDPDTFWGEQGKILDWITPYQKVKNTSFAPGNVSIKWYEDGTLNLAANCLDRHLQENGDRTAIIWEGDDTSQSKHISYRELHRDVCRFANTLLDLGIKKGDVVAIYMPMVPEAAVAMLACARIGAVHSVIFGGFSPEAVAGRIIDSSSRLVITADEGVRAGRSIPLKKNVDDALKNPNVTSVEHVIVLKRTGSDIDWQEGRDLWWRDLIEKASPEHQPEAMNAEDPLFILYTSGSTGKPKGVLHTTGGYLVYAATTFKYVFDYHPGDIYWCTADVGWVTGHSYLLYGPLACGATTLMFEGVPNWPTPARMCQVVDKHQVNILYTAPTAIRALMAEGDKAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGKEKCPVVDTWWQTETGGFMITPLPGAIELKAGSATRPFFGVQPALVDNEGHPQEGATEGNLVITDSWPGQARTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPHAIKGQAIYAYVTLNHGEEPSPELYAEVRNWVAKEIGPLATPDVLHWTDSLPKTRSGKIMRRILRKIAAGDTSN--DTSTLADPGVVEKLLEEKQA 647
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624|  |   634       644   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      625  |                   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         628

Chain B from PDB  Type:PROTEIN  Length:635
 aligned with ACSA_SALTY | Q8ZKF6 from UniProtKB/Swiss-Prot  Length:652

    Alignment length:643
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645   
           ACSA_SALTY     6 KHAIPANIADRCLINPEQYETKYKQSINDPDTFWGEQGKILDWITPYQKVKNTSFAPGNVSIKWYEDGTLNLAANCLDRHLQENGDRTAIIWEGDDTSQSKHISYRELHRDVCRFANTLLDLGIKKGDVVAIYMPMVPEAAVAMLACARIGAVHSVIFGGFSPEAVAGRIIDSSSRLVITADEGVRAGRSIPLKKNVDDALKNPNVTSVEHVIVLKRTGSDIDWQEGRDLWWRDLIEKASPEHQPEAMNAEDPLFILYTSGSTGKPKGVLHTTGGYLVYAATTFKYVFDYHPGDIYWCTADVGWVTGHSYLLYGPLACGATTLMFEGVPNWPTPARMCQVVDKHQVNILYTAPTAIRALMAEGDKAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGKEKCPVVDTWWQTETGGFMITPLPGAIELKAGSATRPFFGVQPALVDNEGHPQEGATEGNLVITDSWPGQARTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPHAIKGQAIYAYVTLNHGEEPSPELYAEVRNWVRKEIGPLATPDVLHWTDSLPKTRSGKIMRRILRKIAAGDTSNLGDTSTLADPGVVEKLLEEKQAI 648
               SCOP domains d2p20b_ B: Acetyl-CoA synthetase                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2p20B02 B:518-648  [code=3.30.300.30, no name defined]                                                                              CATH domains
           Pfam domains (1) -----------DUF3448-2p20B03 B:17-102                                                              ------AMP-binding-2p20B01 B:109-547                                                                                                                                                                                                                                                                                                                                                                                                                          ------------------------------------------DUF4009-2p20B05 B:590-634                    -------------- Pfam domains (1)
           Pfam domains (2) -----------DUF3448-2p20B04 B:17-102                                                              ------AMP-binding-2p20B02 B:109-547                                                                                                                                                                                                                                                                                                                                                                                                                          ------------------------------------------DUF4009-2p20B06 B:590-634                    -------------- Pfam domains (2)
         Sec.struct. author ....hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.........eeee......eeee....eehhhhhhh..hhhhhh..eeeeee......eeeeehhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhhh..eeeee..eee..eeehhhhhhhhhhh........eeeee.............eeehhhhhhh.........ee.....eeeee.......eeeee.hhhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhh.........eeeee....hhhhhhhhhhhh......eeee..hhhhh..........................eeee..........eeeeeee.........ee..hhhhhhhhhhh.....eeeeeeeee.....eeeeee...eeee..eeeehhhhhhhhhh...eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhh..eeee............hhhhhhhhhhh.--------.....hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AMP_BINDING ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p20 B   6 KHAIPANIADRCLINPEQYETKYKQSINDPDTFWGEQGKILDWITPYQKVKNTSFAPGNVSIKWYEDGTLNLAANCLDRHLQENGDRTAIIWEGDDTSQSKHISYRELHRDVCRFANTLLDLGIKKGDVVAIYMPMVPEAAVAMLACARIGAVHSVIFGGFSPEAVAGRIIDSSSRLVITADEGVRAGRSIPLKKNVDDALKNPNVTSVEHVIVLKRTGSDIDWQEGRDLWWRDLIEKASPEHQPEAMNAEDPLFILYTSGSTGKPKGVLHTTGGYLVYAATTFKYVFDYHPGDIYWCTADVGWVTGHSYLLYGPLACGATTLMFEGVPNWPTPARMCQVVDKHQVNILYTAPTAIRALMAEGDKAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGKEKCPVVDTWWQTETGGFMITPLPGAIELKAGSATRPFFGVQPALVDNEGHPQEGATEGNLVITDSWPGQARTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPHAIKGQAIYAYVTLNHGEEPSPELYAEVRNWVAKEIGPLATPDVLHWTDSLPKTRSGKIMRRILRKIAAGD--------TLADPGVVEKLLEEKQAI 648
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615      |  -     | 635       645   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  622      631

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(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Multi-domain proteins (alpha and beta) (2421)

Fold: Acetyl-CoA synthetase-like (64)

Superfamily: Acetyl-CoA synthetase-like (64)

Family: Acetyl-CoA synthetase-like (38)

Protein domain: Acetyl-CoA synthetase (9)

Salmonella typhimurium [TaxId: 90371] (6)

1a	d2p20a_	A:
1b	d2p20b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: GMP Synthetase; Chain A, domain 3 (192)

Homologous Superfamily: [code=3.30.300.30, no name defined] (30)

Salmonella typhimurium. Organism_taxid: 602. Strain: typhi. (6)

1a	2p20B02	B:518-648
1b	2p20A02	A:518-647

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: ANL (32)

Family: AMP-binding (32)

Salmonella typhimurium (7)

1a	AMP-binding-2p20B01	B:109-547
1b	AMP-binding-2p20B02	B:109-547

Clan: no clan defined [family: DUF3448] (8)

Family: DUF3448 (8)

Salmonella typhimurium (7)

2a	DUF3448-2p20B03	B:17-102
2b	DUF3448-2p20B04	B:17-102

Clan: no clan defined [family: DUF4009] (14)

Family: DUF4009 (14)

Salmonella typhimurium (7)

3a	DUF4009-2p20B05	B:590-634
3b	DUF4009-2p20B06	B:590-634

Asymmetric Unit(hide GO term definitions)

Chain A,B (ACSA_SALTY | Q8ZKF6)

molecular function
	GO:0016208	AMP binding	Interacting selectively and non-covalently with AMP, adenosine monophosphate.
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0003987	acetate-CoA ligase activity	Catalysis of the reaction: ATP + acetate + CoA = AMP + diphosphate + acetyl-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: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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0019427	acetyl-CoA biosynthetic process from acetate	The chemical reactions and pathways resulting in the formation of acetyl-CoA from acetate, either directly or via acetylphosphate.
	GO:0006935	chemotaxis	The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis).
	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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