2H1B - JenaLib

Asym.Unit - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   RESA E80Q

Authors :   A. Lewin, A. Crow, A. Oubrie, N. E. Le Brun

Date :   16 May 06 (Deposition) - 19 Sep 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Resa, Resa E80Q, E80Q, Thioredoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Lewin, A. Crow, A. Oubrie, N. E. Le Brun
Molecular Basis For Specificity Of The Extracytoplasmic Thioredoxin Resa.
J. Biol. Chem. V. 281 35467 2006
PubMed-ID: 16971393 | Reference-DOI: 10.1074/JBC.M607047200
(for further references see the PDB file header)

Molecule 1 - THIOL-DISULFIDE OXIDOREDUCTASE RESA
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	RESA
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 8)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	EDO	7	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 1 (2, 4)

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

Biological Unit 2 (1, 2)

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

Biological Unit 3 (1, 1)

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

Biological Unit 4 (1, 1)

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

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:88 , LYS A:89 , LYS A:92 , ASN A:120	BINDING SITE FOR RESIDUE ACT A 801
2	AC2	SOFTWARE	ALA A:42 , SER A:58 , LYS A:61 , GLY A:150 , HOH A:819 , HOH A:849 , HOH A:901	BINDING SITE FOR RESIDUE EDO A 701
3	AC3	SOFTWARE	ALA C:42 , ASN C:44 , SER C:58 , LYS C:61 , GLY C:150 , HOH C:782 , HOH C:793	BINDING SITE FOR RESIDUE EDO C 702
4	AC4	SOFTWARE	GLY A:52 , ARG A:54 , HOH A:872 , HOH A:903	BINDING SITE FOR RESIDUE EDO A 703
5	AC5	SOFTWARE	ASN B:44 , HOH B:763 , HOH B:764 , HOH B:792 , MET D:164 , ASP D:167 , TYR D:168	BINDING SITE FOR RESIDUE EDO B 704
6	AC6	SOFTWARE	ALA B:42 , ASN B:44 , LEU B:57 , LYS B:61 , GLY B:150 , HOH B:713 , HOH B:757 , HOH B:763	BINDING SITE FOR RESIDUE EDO B 705
7	AC7	SOFTWARE	ALA D:42 , SER D:58 , LYS D:61 , GLY D:150 , HOH D:772 , HOH D:792	BINDING SITE FOR RESIDUE EDO D 706
8	AC8	SOFTWARE	PRO A:122 , HOH A:805 , HOH A:806 , HOH A:812	BINDING SITE FOR RESIDUE EDO A 707

(no "SS Bond" information available for 2H1B)

Asymmetric Unit

No.	Residues
1	Leu A:140	-	Pro A:141
2	Leu B:140	-	Pro B:141
3	Leu C:140	-	Pro C:141
4	Leu D:140	-	Pro D:141

(no "SAP(SNP)/Variant" information available for 2H1B)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOREDOXIN_1	PS00194	Thioredoxin family active site.	RESA_BACSU	66-84	4	A:66-84 B:66-84 C:66-84 D:66-84

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:66-84 - - -

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:66-84 - -

Biological Unit 3 (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	- - C:66-84 -

Biological Unit 4 (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	- - - D:66-84

(no "Exon" information available for 2H1B)

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:138
 aligned with RESA_BACSU | P35160 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:138
                                    47        57        67        77        87        97       107       117       127       137       147       157       167        
           RESA_BACSU    38 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
               SCOP domains d2h1ba_ A: Thiol-disulfide oxidoreductase ResA                                                                                             SCOP domains
               CATH domains 2h1bA00 A:38-175 Glutaredoxin                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee....eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhh.....eeee..hhhhhhh......eeeee....eeeeeee...hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2h1b A  38 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKQFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
                                    47        57        67        77        87        97       107       117       127       137       147       157       167

Chain B from PDB  Type:PROTEIN  Length:138
 aligned with RESA_BACSU | P35160 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:138
                                    47        57        67        77        87        97       107       117       127       137       147       157       167        
           RESA_BACSU    38 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
               SCOP domains d2h1bb_ B: Thiol-disulfide oxidoreductase ResA                                                                                             SCOP domains
               CATH domains 2h1bB00 B:38-175 Glutaredoxin                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeee....eee.hhhh..eeeeeee.....hhhhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhh.....eeee..hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2h1b B  38 EGSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKQFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
                                    47        57        67        77        87        97       107       117       127       137       147       157       167

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

    Alignment length:137
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       
           RESA_BACSU    39 GSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
               SCOP domains d2h1bc_ C: Thiol-disulfide oxidoreductase ResA                                                                                            SCOP domains
               CATH domains 2h1bC00 C:39-175 Glutaredoxin                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee.....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeeee..hhhhhhhhhhhhh....eeee..hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2h1b C  39 GSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKQFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
                                    48        58        68        78        88        98       108       118       128       138       148       158       168

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

    Alignment length:137
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       
           RESA_BACSU    39 GSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
               SCOP domains d2h1bd_ D: Thiol-disulfide oxidoreductase ResA                                                                                            SCOP domains
               CATH domains 2h1bD00 D:39-175 Glutaredoxin                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee....eee.hhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeee...hhhhhhhhhhhh.....eee...hhhhhhh......eeeee.....eeeee....hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------THIOREDOXIN_1      ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2h1b D  39 GSDAPNFVLEDTNGKRIELSDLKGKGVFLNFWGTWCEPCKKQFPYMANQYKHFKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTESMIHDYMNLIKPG 175
                                    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	d2h1ba_	A:
1b	d2h1bb_	B:
1c	d2h1bc_	C:
1d	d2h1bd_	D:

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	2h1bC00	C:39-175
1b	2h1bA00	A:38-175
1c	2h1bB00	B:38-175
1d	2h1bD00	D:39-175

(no "Pfam Domain" information available for 2H1B)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (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
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		ACT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		EDO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Leu A:140 - Pro A:141	[ RasMol ]
		Leu B:140 - Pro B:141	[ RasMol ]
		Leu C:140 - Pro C:141	[ RasMol ]
		Leu D:140 - Pro D:141	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2h1b
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	RESA_BACSU \| P35160
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	RESA_BACSU \| P35160
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	RESA_BACSU \| P35160	:	1st9 1su9 2f9s 2h19 2h1a 2h1d 2h1g 3c71 3c73

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (1, 4)

Pfam Domains (0, 0)

Gene Ontology (10, 10)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File