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

(-) Description

Title :  CRYSTAL STRUCTURE OF A TENA HOMOLOG (PSPTO1738) FROM PSEUDOMONAS SYRINGAE PV. TOMATO STR. DC3000 AT 2.54 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  03 Sep 10  (Deposition) - 06 Oct 10  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.54
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Transcriptional Activator, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi- Biology, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Tena Homolog (Pspto1738) From Pseudomonas Syringae Pv. Tomato Str. Dc3000 At 2. 54 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TENA HOMOLOG
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Vector Type: PLASMID
    Gene: PSPTO1738, PSPTO_1738
    Organism Scientific: PSEUDOMONAS SYRINGAE PV. TOMATO
    Organism Taxid: 223283
    Strain: DC3000

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 40)

Asymmetric/Biological Unit (1, 40)
No.NameCountTypeFull Name
1MSE40Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3OQL)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OQL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OQL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OQL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OQL)

(-) Exons   (0, 0)

(no "Exon" information available for 3OQL)

(-) 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:243
 aligned with Q885U3_PSESM | Q885U3 from UniProtKB/TrEMBL  Length:261

    Alignment length:244
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242    
         Q885U3_PSESM     3 DTFERTGPLMEASSYPAWAQQLINDCSPAKARVVEHELYQQMRDAKLSPQIMRQYLIGGWPVVEQFAVYMAKNLTKTRFGRHPGEDMARRWLMRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAMAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSMKWLKMHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYMYLFLERCIQL 246
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhh.-.hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oql A   3 DTFERTGPLmEASSYPAWAQQLINDCSPAKARVVEHELYQQmRDAKLSPQImRQYLIGGWPVVEQFAVYmAKNLTKTRFGRHPGEDmARRWLmRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAmAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSmKWLKmHAQY-DAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYmYLFLERCIQL 246
                                    12        22        32        42 |      52 |      62        72        82      | 92  |    102       112       122       132       142       152       162       172       182     | 192|   | |202       212       222       232   |   242    
                                    12-MSE                          44-MSE    54-MSE            72-MSE           89-MSE |                                                     151-MSE                              188-MSE| 197 |                                  236-MSE      
                                                                                                                       95-MSE                                                                                           193-MSE99                                               


Chain B from PDB  Type:PROTEIN  Length:244
 aligned with Q885U3_PSESM | Q885U3 from UniProtKB/TrEMBL  Length:261

    Alignment length:244
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242    
         Q885U3_PSESM     3 DTFERTGPLMEASSYPAWAQQLINDCSPAKARVVEHELYQQMRDAKLSPQIMRQYLIGGWPVVEQFAVYMAKNLTKTRFGRHPGEDMARRWLMRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAMAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSMKWLKMHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYMYLFLERCIQL 246
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oql B   3 DTFERTGPLmEASSYPAWAQQLINDCSPAKARVVEHELYQQmRDAKLSPQImRQYLIGGWPVVEQFAVYmAKNLTKTRFGRHPGEDmARRWLmRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAmAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSmKWLKmHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYmYLFLERCIQL 246
                                    12        22        32        42 |      52 |      62        72        82      | 92  |    102       112       122       132       142       152       162       172       182     | 192|      202       212       222       232   |   242    
                                    12-MSE                          44-MSE    54-MSE            72-MSE           89-MSE |                                                     151-MSE                              188-MSE|                                        236-MSE      
                                                                                                                       95-MSE                                                                                           193-MSE                                                 


Chain C from PDB  Type:PROTEIN  Length:242
 aligned with Q885U3_PSESM | Q885U3 from UniProtKB/TrEMBL  Length:261

    Alignment length:244
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242    
         Q885U3_PSESM     3 DTFERTGPLMEASSYPAWAQQLINDCSPAKARVVEHELYQQMRDAKLSPQIMRQYLIGGWPVVEQFAVYMAKNLTKTRFGRHPGEDMARRWLMRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAMAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSMKWLKMHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYMYLFLERCIQL 246
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.--.hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oql C   3 DTFERTGPLmEASSYPAWAQQLINDCSPAKARVVEHELYQQmRDAKLSPQImRQYLIGGWPVVEQFAVYmAKNLTKTRFGRHPGEDmARRWLmRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAmAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSmKWLKmHAQ--DAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYmYLFLERCIQL 246
                                    12        22        32        42 |      52 |      62        72        82      | 92  |    102       112       122       132       142       152       162       172       182     | 192|  |  |202       212       222       232   |   242    
                                    12-MSE                          44-MSE    54-MSE            72-MSE           89-MSE |                                                     151-MSE                              188-MSE|  |  |                                  236-MSE      
                                                                                                                       95-MSE                                                                                           193-MSE |                                               
                                                                                                                                                                                                                           196  |                                               
                                                                                                                                                                                                                              199                                               


Chain D from PDB  Type:PROTEIN  Length:244
 aligned with Q885U3_PSESM | Q885U3 from UniProtKB/TrEMBL  Length:261

    Alignment length:244
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242    
         Q885U3_PSESM     3 DTFERTGPLMEASSYPAWAQQLINDCSPAKARVVEHELYQQMRDAKLSPQIMRQYLIGGWPVVEQFAVYMAKNLTKTRFGRHPGEDMARRWLMRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAMAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSMKWLKMHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYMYLFLERCIQL 246
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------TENA_THI-4-3oqlD01 D:25-246                                                                                                                                                                                                    Pfam domains (1)
           Pfam domains (2) ----------------------TENA_THI-4-3oqlD02 D:25-246                                                                                                                                                                                                    Pfam domains (2)
           Pfam domains (3) ----------------------TENA_THI-4-3oqlD03 D:25-246                                                                                                                                                                                                    Pfam domains (3)
           Pfam domains (4) ----------------------TENA_THI-4-3oqlD04 D:25-246                                                                                                                                                                                                    Pfam domains (4)
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oql D   3 DTFERTGPLmEASSYPAWAQQLINDCSPAKARVVEHELYQQmRDAKLSPQImRQYLIGGWPVVEQFAVYmAKNLTKTRFGRHPGEDmARRWLmRNIRVELNHADYWVNWCAAHDVTLEDLHDQRVAPELHALSHWCWQTSSSDSLAVAmAATNYAIEGATGEWSAVVCSTGVYAEAFAEETRKKSmKWLKmHAQYDDAHPWEALEIICTLVGNKPSLQLQAELRQAVTKSYDYmYLFLERCIQL 246
                                    12        22        32        42 |      52 |      62        72        82      | 92  |    102       112       122       132       142       152       162       172       182     | 192|      202       212       222       232   |   242    
                                    12-MSE                          44-MSE    54-MSE            72-MSE           89-MSE |                                                     151-MSE                              188-MSE|                                        236-MSE      
                                                                                                                       95-MSE                                                                                           193-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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3OQL)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OQL)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: HO (49)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q885U3_PSESM | Q885U3)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

 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
    MSE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 3oql)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3oql)
 

(-) 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
  3oql
    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
  Q885U3_PSESM | Q885U3
    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
  Q885U3_PSESM | Q885U3
    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 3OQL)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3OQL)