1ST9 - JenaLib

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Title :   CRYSTAL STRUCTURE OF A SOLUBLE DOMAIN OF RESA IN THE OXIDISED FORM

Authors :   A. Crow, R. M. Acheson, N. E. Le Brun, A. Oubrie

Date :   25 Mar 04 (Deposition) - 11 May 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

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

Keywords :   Thioredoxin-Like Domain, Alpha-Beta Protein, Soluble Domain, Membrane Protein, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Crow, R. M. Acheson, N. E. Le Brun, A. Oubrie
Structural Basis Of Redox-Coupled Protein Substrate Selection By The Cytochrome C Biosynthesis Protein Resa.
J. Biol. Chem. V. 279 23654 2004
PubMed-ID: 15047692 | Reference-DOI: 10.1074/JBC.M402823200
(for further references see the PDB file header)

Molecule 1 - THIOL-DISULFIDE OXIDOREDUCTASE RESA
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PRAN8
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	SOLUBLE DOMAIN
	Gene	:	RESA, BSU23150
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423

		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, 4)

No.	Name	Count	Type	Full Name
1	EDO	4	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 1 (1, 3)

No.	Name	Count	Type	Full Name
1	EDO	3	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:41 , SER A:57 , LYS A:60 , GLY A:149 , HOH A:515 , HOH A:582	BINDING SITE FOR RESIDUE EDO A 501
2	AC2	SOFTWARE	LYS A:153 , HOH A:529 , HOH A:595 , TYR B:134 , ASP B:135 , VAL B:154 , HOH B:715	BINDING SITE FOR RESIDUE EDO A 502
3	AC3	SOFTWARE	ALA B:41 , ASN B:43 , LEU B:56 , SER B:57 , LYS B:60 , GLY B:149 , HOH B:589 , HOH B:661	BINDING SITE FOR RESIDUE EDO B 503
4	AC4	SOFTWARE	ALA A:133 , TYR A:134 , VAL A:151 , HOH A:513 , HOH A:542 , HOH A:696 , HOH A:708	BINDING SITE FOR RESIDUE EDO A 504

Asymmetric Unit

No.	Residues
1	A:73	-	A:76
2	B:73	-	B:76

Asymmetric Unit

No.	Residues
1	Leu A:139	-	Pro A:140
2	Leu B:139	-	Pro B:140

(no "SAP(SNP)/Variant" information available for 1ST9)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOREDOXIN_1	PS00194	Thioredoxin family active site.	RESA_BACSU	66-84	2	A:65-83 B:65-83

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOREDOXIN_1	PS00194	Thioredoxin family active site.	RESA_BACSU	66-84	1	A:65-83 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOREDOXIN_1	PS00194	Thioredoxin family active site.	RESA_BACSU	66-84	1	- B:65-83

(no "Exon" information available for 1ST9)

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
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Chain A from PDB  Type:PROTEIN  Length:137
 aligned with RESA_BACSU | P35160 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:137
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       
           RESA_BACSU    38 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 174
               SCOP domains d1st9a_ A: Thiol-disulfide oxidoreductase ResA                                                                                            SCOP domains
               CATH domains 1st9A00 A:37-173 Glutaredoxin                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee....eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhh.....eeee..hhhhhhh......eeeee....eeeeeee...hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1st9 A  37 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 173
                                    46        56        66        76        86        96       106       116       126       136       146       156       166

Chain B from PDB  Type:PROTEIN  Length:135
 aligned with RESA_BACSU | P35160 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:135
                                    49        59        69        79        89        99       109       119       129       139       149       159       169     
           RESA_BACSU    40 SDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 174
               SCOP domains d1st9b_ B: Thiol-disulfide oxidoreductase ResA                                                                                          SCOP domains
               CATH domains 1st9B00 B:39-173 Glutaredoxin                                                                                                           CATH domains
           Pfam domains (1) AhpC-TSA-1st9B01 B:39-154                                                                                           ------------------- Pfam domains (1)
           Pfam domains (2) AhpC-TSA-1st9B02 B:39-154                                                                                           ------------------- Pfam domains (2)
         Sec.struct. author ......eeee....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhh.....eeee..hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1st9 B  39 SDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 173
                                    48        58        68        78        88        98       108       118       128       138       148       158       168

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: Alpha and beta proteins (a/b) (23833)

Fold: Thioredoxin fold (994)

Superfamily: Thioredoxin-like (992)

Family: Glutathione peroxidase-like (136)

Protein domain: Thiol-disulfide oxidoreductase ResA (8)

Bacillus subtilis [TaxId: 1423] (8)

1a	d1st9a_	A:
1b	d1st9b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Glutaredoxin (620)

Homologous Superfamily: Glutaredoxin (617)

Bacillus subtilis. Organism_taxid: 1423. (9)

1a	1st9B00	B:39-173
1b	1st9A00	A:37-173

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Thioredoxin (367)

Family: AhpC-TSA (28)

Bacillus subtilis (2)

1a	AhpC-TSA-1st9B01	B:39-154
1b	AhpC-TSA-1st9B02	B:39-154

Asymmetric Unit(hide GO term definitions)

Chain A,B (RESA_BACSU | P35160)

molecular function
	GO:0016209	antioxidant activity	Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
	GO:0015036	disulfide oxidoreductase activity	Catalysis of the reaction: substrate with reduced sulfide groups = substrate with oxidized disulfide bonds.
	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.
biological process
	GO:0045454	cell redox homeostasis	Any process that maintains the redox environment of a cell or compartment within a cell.
	GO:0098869	cellular oxidant detoxification	Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
	GO:0017004	cytochrome complex assembly	The aggregation, arrangement and bonding together of a cytochrome complex. A cytochrome complex is a protein complex in which at least one of the proteins is a cytochrome, i.e. a heme-containing protein involved in catalysis of redox reactions.
	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:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Asymmetric Unit
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1su9	REDUCED STRUCTURE OF THE SOLUBLE DOMAIN OF RESA

Description

Compounds

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Ligands, Modified Residues, Ions (1, 4)

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SS Bonds (2, 2)

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