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Asym./Biol. Unit (Jmol Viewer)

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

Title :   STRUCTURE OF COENZYME A-DISULFIDE REDUCTASE FROM STAPHYLOCOCCUS AUREUS REFINED AT 1.54 ANGSTROM RESOLUTION

Authors :   T. C. Mallett, J. R. Wallen, H. Sakai, J. Luba, D. Parsonage, P. A. Karplus, T. Tsukihara, A. Claiborne

Date :   02 Feb 05 (Deposition) - 09 May 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.54

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

Keywords :   Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. C. Mallett, J. R. Wallen, P. A. Karplus, H. Sakai, T. Tsukihara, A. Claiborne
Structure Of Coenzyme A-Disulfide Reductase From Staphylococcus Aureus At 1. 54 A Resolution.
Biochemistry V. 45 11278 2006
PubMed-ID: 16981688 | Reference-DOI: 10.1021/BI061139A
(for further references see the PDB file header)

Molecule 1 - COENZYME A DISULFIDE REDUCTASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PXCDR
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	T7
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 13)

No.	Name	Count	Type	Full Name
1	CL	6	Ligand/Ion	CHLORIDE ION
2	COA	2	Ligand/Ion	COENZYME A
3	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
4	MG	3	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HOH A:3072 , HOH A:3090 , HOH A:3116 , HOH B:3075 , HOH B:3110 , HOH B:3133	BINDING SITE FOR RESIDUE MG B 2001
02	AC2	SOFTWARE	HOH A:3313 , HOH A:3416 , HOH A:3433 , HOH A:3439 , HOH A:3546	BINDING SITE FOR RESIDUE MG A 2002
03	AC3	SOFTWARE	HOH A:3188 , HOH A:3371 , HOH A:3601 , HOH B:3183 , HOH B:3251	BINDING SITE FOR RESIDUE MG B 2003
04	AC4	SOFTWARE	TYR A:361 , ALA B:41 , CYS B:43 , COA B:442	BINDING SITE FOR RESIDUE CL A 3001
05	AC5	SOFTWARE	ALA A:41 , CYS A:43 , COA A:441 , TYR B:361	BINDING SITE FOR RESIDUE CL A 3002
06	AC6	SOFTWARE	HOH A:3318	BINDING SITE FOR RESIDUE CL A 3003
07	AC7	SOFTWARE	THR B:354 , LYS B:436 , HOH B:3208	BINDING SITE FOR RESIDUE CL B 3004
08	AC8	SOFTWARE	ASN A:85 , GLU A:87 , ARG A:88	BINDING SITE FOR RESIDUE CL A 3005
09	AC9	SOFTWARE	HOH A:3542 , ASN B:85 , GLU B:87 , ARG B:88	BINDING SITE FOR RESIDUE CL B 3006
10	BC1	SOFTWARE	ALA A:14 , THR A:15 , SER A:18 , GLN A:19 , ARG A:22 , SER A:39 , PHE A:40 , ASN A:42 , CYS A:43 , ALA A:61 , LYS A:71 , ALA A:295 , HIS A:299 , FAD A:439 , CL A:3002 , HOH A:3136 , HOH A:3171 , HOH A:3259 , HOH A:3366 , HOH A:3371 , HOH A:3398 , HOH A:3440 , HOH A:3485 , HOH A:3510 , HOH A:3514 , HOH A:3523 , HOH A:3667 , HOH A:3685 , LYS B:427 , MET B:432 , TYR B:435 , LYS B:436	BINDING SITE FOR RESIDUE COA A 441
11	BC2	SOFTWARE	TYR A:419 , PRO A:426 , LYS A:427 , MET A:432 , TYR A:435 , CL A:3001 , VAL B:10 , ALA B:11 , ALA B:14 , THR B:15 , SER B:18 , GLN B:19 , ARG B:22 , SER B:39 , PHE B:40 , ASN B:42 , CYS B:43 , ALA B:61 , TYR B:62 , ARG B:70 , LYS B:71 , ALA B:295 , HIS B:299 , FAD B:440 , HOH B:3154 , HOH B:3320 , HOH B:3408 , HOH B:3413 , HOH B:3550 , HOH B:3631	BINDING SITE FOR RESIDUE COA B 442
12	BC3	SOFTWARE	VAL A:7 , GLY A:8 , VAL A:10 , ALA A:11 , GLY A:12 , PHE A:32 , GLU A:33 , LYS A:34 , ASP A:35 , ASN A:42 , CYS A:43 , HIS A:79 , GLU A:80 , VAL A:81 , SER A:112 , PRO A:113 , GLY A:114 , ARG A:131 , TYR A:158 , VAL A:159 , PHE A:245 , GLY A:276 , ASP A:277 , PRO A:293 , LEU A:294 , ALA A:295 , COA A:441 , HOH A:3006 , HOH A:3007 , HOH A:3009 , HOH A:3017 , HOH A:3019 , HOH A:3020 , HOH A:3037 , HOH A:3047 , HOH A:3058 , TYR B:419 , ALA B:420 , PRO B:421	BINDING SITE FOR RESIDUE FAD A 439
13	BC4	SOFTWARE	TYR A:419 , ALA A:420 , PRO A:421 , VAL B:7 , GLY B:8 , VAL B:10 , ALA B:11 , GLY B:12 , PHE B:32 , GLU B:33 , LYS B:34 , ASP B:35 , ASN B:42 , CYS B:43 , HIS B:79 , GLU B:80 , VAL B:81 , SER B:112 , PRO B:113 , GLY B:114 , ARG B:131 , TYR B:158 , ASN B:242 , PHE B:245 , GLY B:276 , ASP B:277 , PRO B:293 , LEU B:294 , ALA B:295 , COA B:442 , HOH B:3007 , HOH B:3010 , HOH B:3011 , HOH B:3023 , HOH B:3025 , HOH B:3031 , HOH B:3034 , HOH B:3045 , HOH B:3052 , HOH B:3321	BINDING SITE FOR RESIDUE FAD B 440

(no "SS Bond" information available for 1YQZ)

(no "Cis Peptide Bond" information available for 1YQZ)

(no "SAP(SNP)/Variant" information available for 1YQZ)

(no "PROSITE Motif" information available for 1YQZ)

(no "Exon" information available for 1YQZ)

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
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Chain A from PDB  Type:PROTEIN  Length:437
 aligned with CDR_STAA8 | O52582 from UniProtKB/Swiss-Prot  Length:438

    Alignment length:437
                                    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       421       431       
            CDR_STAA8     2 PKIVVVGAVAGGATCASQIRRLDKESDIIIFEKDRDMSFANCALPYVIGEVVEDRRYALAYTPEKFYDRKQITVKTYHEVIAINDERQTVSVLNRKTNEQFEESYDKLILSPGASANSLGFESDITFTLRNLEDTDAIDQFIKANQVDKVLVVGAGYVSLEVLENLNERGLHPTLIHRSDKINKLMDADMNQPILDELDKREIPYRLNEEINAINGNEITFKSGKVEHYDMIIEGVGTHPNSKFIESSNIKLDRKGFIPVNDKFETNVPNIYAIGDIATSHYRHVDLPASVPLAWGAHRAASIVAEQIAGNDTIEFKGFLGNNIVKFFDYTFASVGVKPNELKQFDYKMVEVTQGAHANYYPGNSPLHLRVYYDTSNRQILRAAAVGKEGADKRIDVLSMAMMNQLTVDELTEFEVAYAPPYSHPKDLINMIGYKAK 438
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....hhhhhhhhhhhhh....eeeee.......hhhhhhhhhh....hhhhhh..hhhhhhhhhh.eeee.eeeeeee....eeeeee....eeeeee..eeee...eee.........ee...hhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhh.eeeeee.........hhhhhhhhhhhhhhh...eee...eeeee..eeee....eee..eeee...eee.hhhhh...........ee...........eee....eeee......ee...hhhhhhhhhhhhhhhhhh............eeeee..eeeeeee.hhhhhhhh.eeeeeeeee..........eeeeeeeee.....eeeeeeee..hhhhhhhhhhhhhhh...hhhhhhh............hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yqz A   2 PKIVVVGAVAGGATCASQIRRLDKESDIIIFEKDRDMSFANCALPYVIGEVVEDRRYALAYTPEKFYDRKQITVKTYHEVIAINDERQTVSVLNRKTNEQFEESYDKLILSPGASANSLGFESDITFTLRNLEDTDAIDQFIKANQVDKVLVVGAGYVSLEVLENLYERGLHPTLIHRSDKINKLMDADMNQPILDELDKREIPYRLNEEINAINGNEITFKSGKVEHYDMIIEGVGTHPNSKFIESSNIKLDRKGFIPVNDKFETNVPNIYAIGDIATSHYRHVDLPASVPLAWGAHRAASIVAEQIAGNDTIEFKGFLGNNIVKFFDYTFASVGVKPNELKQFDYKMVEVTQGAHANYYPGNSPLHLRVYYDTSNRQILRAAAVGKEGADKRIDVLSMAMMNQLTVDELTEFEVAYAPPYSHPKDLINMIGYKAK 438
                                    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       421       431

Chain B from PDB  Type:PROTEIN  Length:437
 aligned with CDR_STAA8 | O52582 from UniProtKB/Swiss-Prot  Length:438

    Alignment length:437
                                    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       421       431       
            CDR_STAA8     2 PKIVVVGAVAGGATCASQIRRLDKESDIIIFEKDRDMSFANCALPYVIGEVVEDRRYALAYTPEKFYDRKQITVKTYHEVIAINDERQTVSVLNRKTNEQFEESYDKLILSPGASANSLGFESDITFTLRNLEDTDAIDQFIKANQVDKVLVVGAGYVSLEVLENLNERGLHPTLIHRSDKINKLMDADMNQPILDELDKREIPYRLNEEINAINGNEITFKSGKVEHYDMIIEGVGTHPNSKFIESSNIKLDRKGFIPVNDKFETNVPNIYAIGDIATSHYRHVDLPASVPLAWGAHRAASIVAEQIAGNDTIEFKGFLGNNIVKFFDYTFASVGVKPNELKQFDYKMVEVTQGAHANYYPGNSPLHLRVYYDTSNRQILRAAAVGKEGADKRIDVLSMAMMNQLTVDELTEFEVAYAPPYSHPKDLINMIGYKAK 438
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------------------------------------------------------------------Pyr_redox-1yqzB01 B:150-228                                                    ----------------------------------------------------------------------------------------------Pyr_redox_dim-1yqzB05 B:323-429                                                                            --------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Pyr_redox-1yqzB02 B:150-228                                                    ----------------------------------------------------------------------------------------------Pyr_redox_dim-1yqzB06 B:323-429                                                                            --------- Pfam domains (2)
           Pfam domains (3) -Pyr_redox_2-1yqzB03 B:3-283                                                                                                                                                                                                                                                              ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) -Pyr_redox_2-1yqzB04 B:3-283                                                                                                                                                                                                                                                              ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ..eeee....hhhhhhhhhhhhh....eeee........hhhhhhhhhh....hhhhhh..hhhhhhhhhh.eee..eeeeeee....eeeeee....eeeeee..eeee...eee.........ee...hhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhh.eeeeee.........hhhhhhhhhhhhhhh...eee...eeeee..eeee....eee..eeee...eee.hhhhh...........ee...........eee....eeee......ee...hhhhhhhhhhhhhhhhhh............eeeee..eeeeeee.hhhhhhhh.eeeeeeeee..........eeeeeeeee.....eeeeeeee..hhhhhhhhhhhhhhh...hhhhhhh............hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yqz B   2 PKIVVVGAVAGGATCASQIRRLDKESDIIIFEKDRDMSFANCALPYVIGEVVEDRRYALAYTPEKFYDRKQITVKTYHEVIAINDERQTVSVLNRKTNEQFEESYDKLILSPGASANSLGFESDITFTLRNLEDTDAIDQFIKANQVDKVLVVGAGYVSLEVLENLYERGLHPTLIHRSDKINKLMDADMNQPILDELDKREIPYRLNEEINAINGNEITFKSGKVEHYDMIIEGVGTHPNSKFIESSNIKLDRKGFIPVNDKFETNVPNIYAIGDIATSHYRHVDLPASVPLAWGAHRAASIVAEQIAGNDTIEFKGFLGNNIVKFFDYTFASVGVKPNELKQFDYKMVEVTQGAHANYYPGNSPLHLRVYYDTSNRQILRAAAVGKEGADKRIDVLSMAMMNQLTVDELTEFEVAYAPPYSHPKDLINMIGYKAK 438
                                    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       421       431

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 1YQZ)

(no "CATH Domain" information available for 1YQZ)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (CDR_STAA8 | O52582)

molecular function
	GO:0050451	CoA-disulfide reductase activity	Catalysis of the reaction: 2 CoA + NAD+ = CoA-disulfide + NADH + H+.
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0003756	protein disulfide isomerase activity	Catalysis of the rearrangement of both intrachain and interchain disulfide bonds in proteins.
biological process
	GO:0045454	cell redox homeostasis	Any process that maintains the redox environment of a cell or compartment within a cell.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
	GO:0005623	cell	The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

Asymmetric/Biological Unit
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Description

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Chains, Units

Ligands, Modified Residues, Ions (4, 13)

Sites (13, 13)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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