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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CONSERVED HYPOTHETICAL PROTEIN TT1679 FROM THERMUS THERMOPHILUS
 
Authors :  S. Kishishita, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  05 Jan 04  (Deposition) - 12 Jul 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.16
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  A,B,C  (2x)
Biol. Unit 3:  A (2x),B (2x),C (2x)
Keywords :  X-Ray Craytallography, Hypothetical Protein, Thermus Thermophilus, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Kishishita, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama
Crystal Structure Of The Conserved Hypothetical Protein Tt1679 From Thermus Thermophilus Hb8
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN (TT1679)
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11B
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): ABC
Biological Unit 2 (2x): ABC
Biological Unit 3 (2x): A (2x)B (2x)C (2x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:94 , HOH A:1462 , HOH A:1477 , HIS B:90BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWAREHIS A:90 , HOH A:1463 , HOH A:1495 , GLU B:94BINDING SITE FOR RESIDUE ZN A 1402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V8D)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Pro A:184 -Val A:185
2Pro B:184 -Val B:185
3Pro C:184 -Val C:185

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V8D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V8D)

(-) Exons   (0, 0)

(no "Exon" information available for 1V8D)

(-) Sequences/Alignments

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:189
 aligned with Y214_THET2 | Q72L49 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
           Y214_THET2     1 MEGIRRAAQRAVEEFLQAFPMGPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFQDPVVVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEFLP 193
               SCOP domains d1v8da_ A: Hypothetical protein TT1679                                                                                                                                                            SCOP domains
               CATH domains 1v8dA00 A:40-232 Hypothetical protein     TT1679                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhh----...hhhhhhhhhhhhhhhhhh...eeeee.hhhhh..eeeehhhhhhh...eee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d A  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLG----TRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEFLP 232
                                    49        59        69       | -  |     89        99       109       119       129       139       149       159       169       179       189       199       209       219       229   
                                                                77   82                                                                                                                                                      


Chain A from PDB  Type:PROTEIN  Length:189
 aligned with Y583_THET8 | P68591 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
           Y583_THET8     1 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEFLP 193
               SCOP domains d1v8da_ A: Hypothetical protein TT1679                                                                                                                                                            SCOP domains
               CATH domains 1v8dA00 A:40-232 Hypothetical protein     TT1679                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhh----...hhhhhhhhhhhhhhhhhh...eeeee.hhhhh..eeeehhhhhhh...eee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d A  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLG----TRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEFLP 232
                                    49        59        69       | -  |     89        99       109       119       129       139       149       159       169       179       189       199       209       219       229   
                                                                77   82                                                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:185
 aligned with Y214_THET2 | Q72L49 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:190
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190
           Y214_THET2     1 MEGIRRAAQRAVEEFLQAFPMGPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFQDPVVVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEE 190
               SCOP domains d1v8db_ B: Hypothetical protein TT167     9                                                                                                                                                    SCOP domains
               CATH domains 1v8dB00 B:40-229 Hypothetical protein      TT1679                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhh-----...hhhhhhhhhhhhhhhhhh...eeeee.hhhhh..eeeehhhhhhhh..eee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d B  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVL-----TRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEE 229
                                    49        59        69      |  -  |     89        99       109       119       129       139       149       159       169       179       189       199       209       219       229
                                                               76    82                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:185
 aligned with Y583_THET8 | P68591 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:190
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190
           Y583_THET8     1 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEE 190
               SCOP domains d1v8db_ B: Hypothetical protein TT167     9                                                                                                                                                    SCOP domains
               CATH domains 1v8dB00 B:40-229 Hypothetical protein      TT1679                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhh-----...hhhhhhhhhhhhhhhhhh...eeeee.hhhhh..eeeehhhhhhhh..eee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d B  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVL-----TRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEE 229
                                    49        59        69      |  -  |     89        99       109       119       129       139       149       159       169       179       189       199       209       219       229
                                                               76    82                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:188
 aligned with Y214_THET2 | Q72L49 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
           Y214_THET2     1 MEGIRRAAQRAVEEFLQAFPMGPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFQDPVVVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEF 191
               SCOP domains d1v8dc_ C: Hypothetical protein TT1679                                                                                                                                                          SCOP domains
               CATH domains 1v8dC00 C:40-230 Hypothetical protein TT   1679                                                                                                                                                 CATH domains
           Pfam domains (1) -----DUF436-1v8dC01 C:45-218                                                                                                                                                       ------------ Pfam domains (1)
           Pfam domains (2) -----DUF436-1v8dC02 C:45-218                                                                                                                                                       ------------ Pfam domains (2)
           Pfam domains (3) -----DUF436-1v8dC03 C:45-218                                                                                                                                                       ------------ Pfam domains (3)
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhh..---..hhhhhhhhhhhhhhhhhhh..eeeee.hhhhh..eeeehhhhhhhh...ee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d C  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLGER---RPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEF 230
                                    49        59        69        79   |    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229 
                                                                  79  83                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:188
 aligned with Y583_THET8 | P68591 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
           Y583_THET8     1 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLGERVGTRPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGLEEVAVFPHPKAGGALATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEF 191
               SCOP domains d1v8dc_ C: Hypothetical protein TT1679                                                                                                                                                          SCOP domains
               CATH domains 1v8dC00 C:40-230 Hypothetical protein TT   1679                                                                                                                                                 CATH domains
           Pfam domains (1) -----DUF436-1v8dC01 C:45-218                                                                                                                                                       ------------ Pfam domains (1)
           Pfam domains (2) -----DUF436-1v8dC02 C:45-218                                                                                                                                                       ------------ Pfam domains (2)
           Pfam domains (3) -----DUF436-1v8dC03 C:45-218                                                                                                                                                       ------------ Pfam domains (3)
         Sec.struct. author hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhh..---..hhhhhhhhhhhhhhhhhhh..eeeee.hhhhh..eeeehhhhhhhh...ee........hhhhhhhhhhh..eeee........eeeee....hhhhh...eeee.....ee..eeeeeeee..ee........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v8d C  40 MEGIRRAAQRAAEEFLQAFPMAPGSLFVLGGSTSEVLGER---RPSLEAAHAVLEGLLPPLLERGVHVAVQACEHLNRALVVERETARAFGKEEVAVFPHPKAGGAKATAAFLRFRDPVMVESLKAQAHGGMDIGGVLIGMHLRPVAVPLRLSVRKIGEAVLLAAKTRPKLVGGARAVYTREEMLKKLEEF 230
                                    49        59        69        79   |    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229 
                                                                  79  83
   Legend:   → Mismatch (orange background)
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  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, 3)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 3)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: no clan defined [family: DUF436] (1)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1V8D)

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 Related Entries

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