2ONF - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF A PUTATIVE OSMOTICALLY INDUCIBLE PROTEIN C (TA0195) FROM THERMOPLASMA ACIDOPHILUM AT 1.70 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   23 Jan 07 (Deposition) - 06 Feb 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (Np_393673. 1) Fro Thermoplasma Acidophilum At 1. 70 A Resolution
To Be Published
PubMed: search

Molecule 1 - HYPOTHETICAL PROTEIN TA0195
	Atcc	:	25905
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	NP_393673.1, TA0195
	Organism Scientific	:	THERMOPLASMA ACIDOPHILUM
	Organism Taxid	:	2303
	Strain	:	AMRC-C165, DSM1728, IFO15155, JCM9062

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 11)

No.	Name	Count	Type	Full Name
1	COA	1	Ligand/Ion	COENZYME A
2	EDO	4	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:33 , ARG A:64 , LYS A:86 , GLY A:87 , GLU B:32 , THR B:56 , PHE B:61 , ARG B:64 , MSE B:65 , ARG B:111 , LEU B:115 , LYS B:118 , TYR B:119 , HOH B:147 , HOH B:152 , HOH B:155 , HOH B:171 , HOH B:176 , HOH B:178 , HOH B:189 , HOH B:222 , HOH B:231 , HOH B:258 , HOH B:259 , HOH B:260 , HOH B:263	BINDING SITE FOR RESIDUE COA B 140
2	AC2	SOFTWARE	LYS A:108 , ARG A:111 , HOH A:143 , HOH A:273	BINDING SITE FOR RESIDUE EDO A 140
3	AC3	SOFTWARE	LYS A:70 , TRP B:10 , ILE B:11	BINDING SITE FOR RESIDUE EDO B 141
4	AC4	SOFTWARE	TRP A:10 , ILE A:11 , ASP A:12 , LYS B:70	BINDING SITE FOR RESIDUE EDO A 141
5	AC5	SOFTWARE	ARG A:64	BINDING SITE FOR RESIDUE EDO A 142

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

Asymmetric/Biological Unit

No.	Residues
1	Gly A:0	-	Mse A:1

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

(no "PROSITE Motif" information available for 2ONF)

(no "Exon" information available for 2ONF)

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
	(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:140
 aligned with Q9HLN2_THEAC | Q9HLN2 from UniProtKB/TrEMBL  Length:139

    Alignment length:140
                             1                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139
         Q9HLN2_THEAC     - -MHVYESDVSWIDDRRTEVSVGDHRIEVDSPPEFGGPEGQLYPETLFPSVLASCLLTTFLEFKDRMGINLKSWNSHVTAELGPSPEKGFKFHRIKIHVKIGVNDEDKEKIPRAMQLAEKYCFISRAIRNNVEEIVDYEFV 139
               SCOP domains -d2onfa1 A:1-139 Hypothetical protein Ta0195                                                                                                 SCOP domains
               CATH domains ------2onfA01 A:6-139  [code=3.30.300.20, no name defined]                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee....eeeeee..eeeeee.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeee.....eeeeeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2onf A   0 GmHVYESDVSWIDDRRTEVSVGDHRIEVDSPPEFGGPEGQLYPETLFPSVLASCLLTTFLEFKDRmGINLKSWNSHVTAELGPSPEKGFKFHRIKIHVKIGVNDEDKEKIPRAmQLAEKYCFISRAIRNNVEEIVDYEFV 139
                             |       9        19        29        39        49        59     |  69        79        89        99       109   |   119       129       139
                             |                                                              65-MSE                                         113-MSE                      
                             1-MSE

Chain B from PDB  Type:PROTEIN  Length:140
 aligned with Q9HLN2_THEAC | Q9HLN2 from UniProtKB/TrEMBL  Length:139

    Alignment length:140
                             1                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139
         Q9HLN2_THEAC     - -MHVYESDVSWIDDRRTEVSVGDHRIEVDSPPEFGGPEGQLYPETLFPSVLASCLLTTFLEFKDRMGINLKSWNSHVTAELGPSPEKGFKFHRIKIHVKIGVNDEDKEKIPRAMQLAEKYCFISRAIRNNVEEIVDYEFV 139
               SCOP domains d2onfb_ B: Hypothetical protein Ta0195                                                                                                       SCOP domains
               CATH domains ------2onfB01 B:6-139  [code=3.30.300.20, no name defined]                                                                                   CATH domains
           Pfam domains (1) ----------------------------------OsmC-2onfB01 B:34-135                                                                                 ---- Pfam domains (1)
           Pfam domains (2) ----------------------------------OsmC-2onfB02 B:34-135                                                                                 ---- Pfam domains (2)
         Sec.struct. author ..eeeeeeeeeee..eeeeee..eeeeee.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeee.....eeeeeeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2onf B   0 GmHVYESDVSWIDDRRTEVSVGDHRIEVDSPPEFGGPEGQLYPETLFPSVLASCLLTTFLEFKDRmGINLKSWNSHVTAELGPSPEKGFKFHRIKIHVKIGVNDEDKEKIPRAmQLAEKYCFISRAIRNNVEEIVDYEFV 139
                             |       9        19        29        39        49        59     |  69        79        89        99       109   |   119       129       139
                             1-MSE                                                          65-MSE                                         113-MSE

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: OsmC-like (20)

Superfamily: OsmC-like (20)

Family: Ohr/OsmC resistance proteins (13)

Protein domain: Hypothetical protein Ta0195 (1)

Thermoplasma acidophilum [TaxId: 2303] (1)

1a	d2onfa1	A:1-139
1b	d2onfb_	B:

Asymmetric/Biological 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=3.30.300.20, no name defined] (129)

Thermoplasma acidophilum. Organism_taxid: 2303. Strain: amrc-c165, dsm1728, ifo15155, jcm9062. (1)

1a	2onfA01	A:6-139
1b	2onfB01	B:6-139

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: OsmC] (11)

Family: OsmC (11)

Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) (1)

1a	OsmC-2onfB01	B:34-135
1b	OsmC-2onfB02	B:34-135

Asymmetric/Biological Unit(hide GO term definitions)

(no "Gene Ontology" information available for 2ONF)

Asymmetric/Biological 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
		COA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		EDO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MSE	[ 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 ]

	Cis Peptide Bonds
		Gly A:0 - Mse A:1	[ RasMol ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites 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
	2onf
		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
	Q9HLN2_THEAC \| Q9HLN2
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL

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
	Q9HLN2_THEAC \| Q9HLN2
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

(no "Entries Sharing at Least One Protein Chain" available for 2ONF)

(no "Related Entries Specified in the PDB File" available for 2ONF)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 11)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (0, 0)

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