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(-) Description

Title :  X-RAY STRUCTURE OF THE ROQ DOMAIN FROM MURINE ROQUIN-1 IN COMPLEX WITH A 23-MER TNF-CDE RNA
 
Authors :  R. Janowski, A. Schlundt, M. Sattler, D. Niessing
Date :  30 May 14  (Deposition) - 16 Jul 14  (Release) - 20 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  B,F  (1x)
Biol. Unit 3:  C,G  (1x)
Biol. Unit 4:  D,H  (1x)
Keywords :  Roq Domain, Winged-Helix Domain, Rna Binding, Tnf Cde Rna, Rna Binding Protein, Rna Binding Protein-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Schlundt, G. A. Heinz, R. Janowski, A. Geerlof, R. Stehle, V. Heissmeyer, D. Niessing, M. Sattler
Structural Basis For Rna Recognition In Roquin-Mediated Post-Transcriptional Gene Regulation.
Nat. Struct. Mol. Biol. V. 21 671 2014
PubMed-ID: 25026077  |  Reference-DOI: 10.1038/NSMB.2855

(-) Compounds

Molecule 1 - ROQUIN-1
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PETTRX1A
    Fragment: ROQ DOMAIN
    Gene: GM551, KIAA2025, RC3H1
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ROQUIN, PROTEIN SANROQUE, RING FINGER AND C3H ZINC FINGER PROTEIN 1, RING FINGER AND CCCH-TYPE ZINC FINGER DOMAIN-CONTAINING PROTEIN 1
 
Molecule 2 - RNA (5'- R(*AP*CP*AP*UP*GP*UP*UP*UP*UP*CP*UP*GP*UP*GP*AP*AP*AP*AP*CP*GP*GP*AP* G)-3')
    Chains: E, F, G, H
    Engineered: YES
    Other Details: 23-MER, TNF CDE RNA
    Other Details - Source: RNA OLIGOMER WAS CHEMICALLY SYNTHESIZED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): A   E   
Biological Unit 2 (1x):  B   F  
Biological Unit 3 (1x):   C   G 
Biological Unit 4 (1x):    D   H

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4QI2)

(-) Sites  (0, 0)

(no "Site" information available for 4QI2)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QI2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QI2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QI2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QI2)

(-) Exons   (0, 0)

(no "Exon" information available for 4QI2)

(-) 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:153
                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeee..eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi2 A 173 HQNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDEDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQ 325
                                   182       192       202       212       222       232       242       252       262       272       282       292       302       312       322   


Chain B from PDB  Type:PROTEIN  Length:153
                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeee..eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi2 B 173 HQNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDEDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQ 325
                                   182       192       202       212       222       232       242       252       262       272       282       292       302       312       322   


Chain C from PDB  Type:PROTEIN  Length:152
                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeee..eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi2 C 174 QNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDEDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQ 325
                                   183       193       203       213       223       233       243       253       263       273       283       293       303       313       323  


Chain D from PDB  Type:PROTEIN  Length:154
                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeee..eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi2 D 172 QHQNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDEDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQ 325
                                   181       191       201       211       221       231       241       251       261       271       281       291       301       311       321    


Chain E from PDB  Type:RNA  Length:19
                                                   
                 4qi2 E   3 AUGUUUUCUGUGAAAACGG  21
                                    12         


Chain F from PDB  Type:RNA  Length:18
                                                  
                 4qi2 F   4 UGUUUUCUGUGAAAACGG  21
                                    13        


Chain G from PDB  Type:RNA  Length:19
                                                   
                 4qi2 G   4 UGUUUUCUGUGAAAACGGA  22
                                    13         


Chain H from PDB  Type:RNA  Length:18
                                                  
                 4qi2 H   4 UGUUUUCUGUGAAAACGG  21
                                    13
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  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 4QI2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QI2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QI2)

(-) Gene Ontology  (34, 34)

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 Related Entries

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        RC3H1_MOUSE | Q4VGL6: 4qi0 4txa 5f5f 5f5h

(-) Related Entries Specified in the PDB File

4qi0 X-RAY STRUCTURE OF THE ROQ DOMAIN FROM MURINE ROQUIN-1