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

(-) Description

Title :  CRYSTAL STRUCTURE OF THE RICE TOPLESS RELATED PROTEIN 2 (TPR2) N-TERMINAL DOMAIN (1-209) IN COMPLEX WITH ARABIDOPSIS NINJA PEPTIDE
 
Authors :  J. Ke, H. Ma, X. Gu, J. S. Brunzelle, H. E. Xu, K. Melcher
Date :  23 Jun 15  (Deposition) - 05 Aug 15  (Release) - 09 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H
Keywords :  Transcriptional Corepressor, Alpha-Helical Structure, Tetrameric Protein, Plant Transcriptional Repression, Transcription, Plant Development (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Ke, H. Ma, X. Gu, A. Thelen, J. S. Brunzelle, J. Li, H. E. Xu, K. Melcher
Structural Basis For Recognition Of Diverse Transcriptional Repressors By The Topless Family Of Corepressors.
Sci Adv V. 1 00107 2015
PubMed-ID: 26601214  |  Reference-DOI: 10.1126/SCIADV.1500107

(-) Compounds

Molecule 1 - ASPR2 PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSUMO
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN (UNP RESIDUES 1-209)
    Gene: P0705D01.10-1, ASPR2, OS01G0254100, OSJ_01134
    Organism Common: RICE
    Organism Scientific: ORYZA SATIVA
    Organism Taxid: 4530
    Synonym: OS01G0254100 PROTEIN,PUTATIVE CTV.2,UNCHARACTERIZED PROTEIN
 
Molecule 2 - AFP HOMOLOG 2
    Chains: E, F, G, H
    Engineered: YES
    Fragment: UNP RESIDUES 4-14
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: NINJA-FAMILY PROTEIN AT4G28910,NOVEL INTERACTOR OF JAZ
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric/Biological Unit : ABCDEFGH

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5C6V)

(-) Sites  (0, 0)

(no "Site" information available for 5C6V)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5C6V)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Lys A:187 -Asn A:188
2Pro B:193 -Asp B:194
3Asn C:188 -Pro C:189
4Pro D:189 -Arg D:190

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C6V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C6V)

(-) Exons   (0, 0)

(no "Exon" information available for 5C6V)

(-) 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:202
                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhh.......hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c6v A   1 MSSLSRELVFLILQFLDEEKFKETVHKLEQESGFFFNMKYFEEKVHAGEWDEVEKYLSGFTKVDDNRYSMKIFFEIRKQKYLEALDRHDRAKAVDILVKDLKVFSTFNEELYKEITQLLTLENFRENEQLSKYGDTKSARSIMLIELKKLIEANPLFREKLVFPTLKASRLRTLINQSLNWQHQLCKNPPDIKTLFTDHTCT 205
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       193       203  
                                                                                                                                                                                                                      189|            
                                                                                                                                                                                                                       193            


Chain B from PDB  Type:PROTEIN  Length:202
                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c6v B   1 MSSLSRELVFLILQFLDEEKFKETVHKLEQESGFFFNMKYFEEKVHAGEWDEVEKYLSGFTKVDDNRYSMKIFFEIRKQKYLEALDRHDRAKAVDILVKDLKVFSTFNEELYKEITQLLTLENFRENEQLSKYGDTKSARSIMLIELKKLIEANPLFREKLVFPTLKASRLRTLINQSLNWQHQLCKNPPDIKTLFTDHTCT 205
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       193       203  
                                                                                                                                                                                                                      189|            
                                                                                                                                                                                                                       193            


Chain C from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhh.......hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5c6v C   1 MSSLSRELVFLILQFLDEEKFKETVHKLEQESGFFFNMKYFEEKVHAGEWDEVEKYLSGFTKVDDNRYSMKIFFEIRKQKYLEALDRHDRAKAVDILVKDLKVFSTFNEELYKEITQLLTLENFRENEQLSKYGDTKSARSIMLIELKKLIEANPLFREKLVFPTLKASRLRTLINQSLNWQHQLCKNPIKTLFTDHT 203
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       195        
                                                                                                                                                                                                                      189|        
                                                                                                                                                                                                                       195        


Chain D from PDB  Type:PROTEIN  Length:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c6v D   1 MSSLSRELVFLILQFLDEEKFKETVHKLEQESGFFFNMKYFEEKVHAGEWDEVEKYLSGFTKVDDNRYSMKIFFEIRKQKYLEALDRHDRAKAVDILVKDLKVFSTFNEELYKEITQLLTLENFRENEQLSKYGDTKSARSIMLIELKKLIEANPLFREKLVFPTLKASRLRTLINQSLNWQHQLCKNPRIKTLFTDHTC 204
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190|      204
                                                                                                                                                                                                                       190|         
                                                                                                                                                                                                                        195         


Chain E from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5c6v E   6 GLELSLG  12


Chain F from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5c6v F   6 GLELSLG  12


Chain G from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5c6v G   6 GLELSLG  12


Chain H from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5c6v H   6 GLELSLG  12
   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 5C6V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C6V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C6V)

(-) Gene Ontology  (9, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  Sites
(no "Sites" information available for 5c6v)
 
  Cis Peptide Bonds
    Asn C:188 - Pro C:189   [ RasMol ]  
    Lys A:187 - Asn A:188   [ RasMol ]  
    Pro B:193 - Asp B:194   [ RasMol ]  
    Pro D:189 - Arg D:190   [ RasMol ]  
 

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  TPR1_ORYSJ | Q5NBT9
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 Related Entries

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

UniProtKB/Swiss-Prot
        TPR1_ORYSJ | Q5NBT9: 4zhe 5c6q 5c7e 5c7f 5j9k 5ja5 5jgc 5jhp

(-) Related Entries Specified in the PDB File

4zhe THE SEMET SUBSTITUTED TOPLESS RELATED PROTEIN 2 (TPR2) N-TERMINAL DOMAIN (1-209)
5c6q
5c7e
5c7f