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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-DOMAIN OF THE T.VAGINALIS INR BINDING PROTEIN, IBP39 (MONOCLINIC FORM)
 
Authors :  M. A. Schumacher, P. J. Johnson
Date :  20 Aug 03  (Deposition) - 18 Nov 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.42
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Initiator, Core Promoter, Inr, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Schumacher, A. O. T. Lau, P. J. Johnson
Structural Basis Of Core Promoter Recognition In A Primitive Eukaryote
Cell(Cambridge, Mass. ) V. 115 413 2003
PubMed-ID: 14622596  |  Reference-DOI: 10.1016/S0092-8674(03)00887-0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 39 KDA INITIATOR BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-DOMAIN, RESIDUES 127-341
    Organism Scientific: TRICHOMONAS VAGINALIS
    Organism Taxid: 5722

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1Q88)

(-) Sites  (0, 0)

(no "Site" information available for 1Q88)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q88)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:212 -Pro A:213

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q88)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Q88)

(-) Exons   (0, 0)

(no "Exon" information available for 1Q88)

(-) 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 Q95VR4_TRIVA | Q95VR4 from UniProtKB/TrEMBL  Length:341

    Alignment length:192
                                   157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337  
         Q95VR4_TRIVA   148 MCIGNSTPNEQETFRAKVDEIWFRLTQKTDGTVMRDFLIEKAAEYFKQPEQPKQNAIEVISAIMAPQEEQTKSKADLYKFLAMFGPYETIMLKIASLLLISNNKGHWLTFDPQAEKNANNQRDSISGWFDQNEPNCLILKTPTGIRKIWNKPLIEATGQYLMDENGEKYDSWDKYFEMKPIETYLTAYPTFA 339
               SCOP domains d1q88a_ A: 39 kda initiator binding protein, IBP39, C-terminal domains                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhh....hhhhhhhhhhhhh......eeehhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....................eeee......eeeee....eeeeee..........ee.....ee.hhhhhhhhh..---........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1q88 A 148 MCIGNSTPNEQETFRAKVDEIWFRLTQKTDGTVMRDFLIEKAAEYFKQPEQPKQNAIEVISAIMAPQEEQTKSKADLYKFLAMFGPYETIMLKIASLLLISNNKGHWLTFDPQAEKNANNQRDSISGWFDQNEPNCLILKTPTGIRKIWNKPLIEATGQYLMDENGEKYDSWDKYFEMKPI---LTAYPTFA 339
                                   157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327|   |  337  
                                                                                                                                                                                                              328 332       


Chain B from PDB  Type:PROTEIN  Length:198
 aligned with Q95VR4_TRIVA | Q95VR4 from UniProtKB/TrEMBL  Length:341

    Alignment length:198
                                                                                                                                                                                                                           341    
                                   157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337   |    
         Q95VR4_TRIVA   148 MCIGNSTPNEQETFRAKVDEIWFRLTQKTDGTVMRDFLIEKAAEYFKQPEQPKQNAIEVISAIMAPQEEQTKSKADLYKFLAMFGPYETIMLKIASLLLISNNKGHWLTFDPQAEKNANNQRDSISGWFDQNEPNCLILKTPTGIRKIWNKPLIEATGQYLMDENGEKYDSWDKYFEMKPIETYLTAYPTFAPM----   -
               SCOP domains d1q88b_ B: 39 kda initiator binding protein, IBP39, C-terminal domains                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) IBP39-1q88B01 B:148-326                                                                                                                                                            ------------------- Pfam domains (1)
           Pfam domains (2) IBP39-1q88B02 B:148-326                                                                                                                                                            ------------------- Pfam domains (2)
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhh....hhhhhhhhhhhhh......eeehhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh....eeee......eeeeee..eeeeeee..........eee....ee.hhhhhhhhh.hhhhh.......hhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1q88 B 148 MCIGNSTPNEQETFRAKVDEIWFRLTQKTDGTVMRDFLIEKAAEYFKQPEQPKQNAIEVISAIMAPQEEQTKSKADLYKFLAMFGPYETIMLKIASLLLISNNKGHWLTFDPQAEKNANNQRDSISGWFDQNEPNCLILKTPTGIRKIWNKPLIEATGQYLMDENGEKYDSWDKYFEMKPIETYLTAYPTFAPMHHHH 345
                                   157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Q88)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: IBP39] (3)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1Q88)

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  Cis Peptide Bonds
    Ala A:212 - Pro A:213   [ RasMol ]  
 
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  1q88
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 Related Entries

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

UniProtKB/TrEMBL
        Q95VR4_TRIVA | Q95VR4: 1pp7 1pp8 1q87 1q89

(-) Related Entries Specified in the PDB File

1pp7
1pp8
1q87 C-DOMAIN, TETRAGONAL CRYSTAL FORM
1q89 C-DOMAIN, CUBIC CRYSTAL FORM