Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit - manually
(-)Asym./Biol. Unit
collapse expand < >
Image Asym./Biol. Unit - manually
Asym./Biol. Unit - manually  (Jmol Viewer)
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF HYPOTHETICAL PROTEIN PH0156 FROM PYROCOCCUS HORIKOSHII OT3
 
Authors :  Z-Q. Fu, L. Chen, J. Zhu, J. T. Swindell, A. Ebihara, A. Shinkai, S. Kuram S. Yokoyama, J. Chrzas, J. P. Rose, B-C. Wang, Southeast Collaborato Structural Genomics (Secsg), Riken Structural Genomics/Prote Initiative (Rsgi)
Date :  16 Mar 07  (Deposition) - 17 Apr 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hypothetical Protein, Ph0156, Structural Genomics, Pyrococcus Horikoshii Ot3, Psi, Protein Structure Initiative, Southeast Collaboratory For Structural Genomics, Secsg, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z-Q. Fu, L. Chen, J. Zhu, J. T. Swindell, A. Ebihara, A. Shinkai, S. Kuramitsu, S. Yokoyama, J. Chrzas, J. P. Rose, B-C. Wang
Crystal Structure Of Hypothetical Protein Ph0156 From Pyrococcus Horikoshii Ot3
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN PH0156
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-11A
    Expression System Strain: BL21-CODONPLUS(DE3)-RIL-X
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PH0156
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2P62)

(-) Sites  (0, 0)

(no "Site" information available for 2P62)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:203 -B:203

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2P62)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2P62)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2P62)

(-) Exons   (0, 0)

(no "Exon" information available for 2P62)

(-) Sequences/Alignments

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:241
 aligned with O57895_PYRHO | O57895 from UniProtKB/TrEMBL  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
         O57895_PYRHO     1 MRIKLIIVEGKTDESFFKVLLEKLYGFREAKKLTPEFPIGKWGFRIGEHPLVLEKDNIALVIIHAEGKQRIPKVLKSVLDSVKLGLLNVEEVYVVRDVDEGNDVFEWVLSFLREREVRVDNGAIVTEGVKIYPYGMGNLTLNEPFVKEKKELELSLAYLAKLDGILEKYRGSMRALSQDKGDKLTPKDVMHILSIANDYTGDCLSGLYEKYIGIMIHRNRELLIRFLSEVNLLPLLERMVG 241
               SCOP domains d2p62a1 A:1-241 Hypothetical protein PH0156                                                                                                                                                                                                       SCOP domains
               CATH domains 2p62A01 A:1-136,A:230-241 PH0156-like domains                                                                                           2p62A02 A:137-229 PH0156-like                                                                2p62A01      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhhhh...ee........hhhhhh.......eeeee..eeeeee......hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhh.......eee..eeee..eeeeeeee..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p62 A   1 MRIKLIIVEGKTDESFFKVLLEKLYGFREAKKLTPEFPIGKWGFRIGEHPLVLEKDNIALVIIHAEGKQRIPKVLKSVLDSVKLGLLNVEEVYVVRDVDEGNDVFEWVLSFLREREVRVDNGAIVTEGVKIYPYGMGNLTLNEPFVKEKKELELSLAYLAKLDGILEKYRGSMRALSQDKGDKLTPKDVMHILSIANDYTGDCLSGLYEKYIGIMIHRNRELLIRFLSEVNLLPLLERMVG 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 


Chain B from PDB  Type:PROTEIN  Length:241
 aligned with O57895_PYRHO | O57895 from UniProtKB/TrEMBL  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
         O57895_PYRHO     1 MRIKLIIVEGKTDESFFKVLLEKLYGFREAKKLTPEFPIGKWGFRIGEHPLVLEKDNIALVIIHAEGKQRIPKVLKSVLDSVKLGLLNVEEVYVVRDVDEGNDVFEWVLSFLREREVRVDNGAIVTEGVKIYPYGMGNLTLNEPFVKEKKELELSLAYLAKLDGILEKYRGSMRALSQDKGDKLTPKDVMHILSIANDYTGDCLSGLYEKYIGIMIHRNRELLIRFLSEVNLLPLLERMVG 241
               SCOP domains d2p62b_ B: Hypothetical protein PH0156                                                                                                                                                                                                            SCOP domains
               CATH domains 2p62B01 B:1-136,B:230-241 PH0156-like domains                                                                                           2p62B02 B:137-229 PH0156-like                                                                2p62B01      CATH domains
           Pfam domains (1) --DUF3226-2p62B01 B:3-240                                                                                                                                                                                                                       - Pfam domains (1)
           Pfam domains (2) --DUF3226-2p62B02 B:3-240                                                                                                                                                                                                                       - Pfam domains (2)
         Sec.struct. author .eeeeee..hhhhhhhhhhhhhhh...ee.....................eeeee..eeeeee......hhhhhhhhhhhhhhh....eeeeeeeee.....hhhhhhhh.......ee....eee..eeeeeeee..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p62 B   1 MRIKLIIVEGKTDESFFKVLLEKLYGFREAKKLTPEFPIGKWGFRIGEHPLVLEKDNIALVIIHAEGKQRIPKVLKSVLDSVKLGLLNVEEVYVVRDVDEGNDVFEWVLSFLREREVRVDNGAIVTEGVKIYPYGMGNLTLNEPFVKEKKELELSLAYLAKLDGILEKYRGSMRALSQDKGDKLTPKDVMHILSIANDYTGDCLSGLYEKYIGIMIHRNRELLIRFLSEVNLLPLLERMVG 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: DUF3226] (1)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2P62)

 Visualization

(-) Interactive Views

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
(no "Ligands, Modified Residues, Ions" information available for 2p62)
 
  Sites
(no "Sites" information available for 2p62)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2p62)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit 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)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  2p62
    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
  O57895_PYRHO | O57895
    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

(-) Analysis Tools

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
  O57895_PYRHO | O57895
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

(no "Entries Sharing at Least One Protein Chain" available for 2P62)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2P62)