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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ROQ DOMAIN OF HUMAN ROQUIN
 
Authors :  T. Ose, A. Verma, J. B. Cockburn, N. S. Berrow, D. Alderton, D. Stuart, R. E. Y. Jones
Date :  26 Nov 14  (Deposition) - 11 Mar 15  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Winged-Helix Motif, Rna, Cytosol, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Srivastava, G. Duan, N. J. Kershaw, V. Athanasopoulos, J. H. Yeo, T. Ose, D. Hu, S. H. J. Brown, S. Jergic, H. R. Patel, A. Pratama, S. Richards, A. Verma, E. Y. Jones, V. Heissmeyer, T. Preiss, N. E. Dixon, M. M. W. Chong, J. J. Babon, C. G. Vinuesa
Roquin Binds Microrna-146A And Argonaute2 To Regulate Microrna Homeostasis
Nat Commun V. 6 6253 2015
PubMed-ID: 25697406  |  Reference-DOI: 10.1038/NCOMMS7253

(-) Compounds

Molecule 1 - ROQUIN-1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST17
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: ROQ DOMAIN, UNP RESIDUES 145-344
    Gene: RC3H1, KIAA2025, RNF198
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ROQUIN, RING FINGER AND C3H ZINC FINGER PROTEIN 1, RING FINGER AND CCCH-TYPE ZINC FINGER DOMAIN-CONTAINING PROTEIN 1, RING FINGER PROTEIN 198

 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  (1, 21)

Asymmetric Unit (1, 21)
No.NameCountTypeFull Name
1IOD21Ligand/IonIODIDE ION
Biological Unit 1 (1, 13)
No.NameCountTypeFull Name
1IOD13Ligand/IonIODIDE ION
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1IOD8Ligand/IonIODIDE ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:305BINDING SITE FOR RESIDUE IOD A 401
02AC2SOFTWAREARG B:188 , PHE B:194BINDING SITE FOR RESIDUE IOD A 402
03AC3SOFTWAREARG A:219BINDING SITE FOR RESIDUE IOD A 403
04AC4SOFTWAREGLN A:247BINDING SITE FOR RESIDUE IOD A 404
05AC5SOFTWAREPHE A:194BINDING SITE FOR RESIDUE IOD A 405
06AC6SOFTWAREGLU A:271BINDING SITE FOR RESIDUE IOD A 406
07AC7SOFTWARELYS A:314BINDING SITE FOR RESIDUE IOD A 407
08AC8SOFTWAREPHE A:234BINDING SITE FOR RESIDUE IOD A 408
09AC9SOFTWAREASN A:182BINDING SITE FOR RESIDUE IOD A 410
10BC1SOFTWAREARG A:297 , GLN A:325BINDING SITE FOR RESIDUE IOD A 413
11BC2SOFTWAREARG B:219BINDING SITE FOR RESIDUE IOD B 401
12BC3SOFTWARESER B:315 , HOH B:540BINDING SITE FOR RESIDUE IOD B 402
13BC4SOFTWAREARG B:297BINDING SITE FOR RESIDUE IOD B 404
14BC5SOFTWARESER B:305 , GLN B:311BINDING SITE FOR RESIDUE IOD B 405
15BC6SOFTWAREARG A:229 , LYS B:239BINDING SITE FOR RESIDUE IOD B 408

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3X1O)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3X1O)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3X1O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3X1O)

(-) Exons   (0, 0)

(no "Exon" information available for 3X1O)

(-) 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:149
                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeee.....eeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3x1o A 177 QQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQTP 327
                                   186       196       206       216       226       236       246       256    || 268       278       288       298       308       318         
                                                                                                              261|                                                               
                                                                                                               264                                                               


Chain B from PDB  Type:PROTEIN  Length:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh......hhhhhhhhhhhhhhh..eeee.......eeee.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3x1o B 176 PQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKVTKRDEDSSLMQLKEEFRTYEALRREHDSQIVQIAMEAGLRIAPDQWSSLLYGDQSHKSHMQSIIDKLQ 325
                                   185       195       205       215       225       235       245       255       265       275       285       295       305       315       325
   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  (0, 0)

(no "SCOP Domain" information available for 3X1O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3X1O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3X1O)

(-) Gene Ontology  (35, 35)

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 Related Entries

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        RC3H1_HUMAN | Q5TC82: 4qik 4qil 4ulw 4ywq

(-) Related Entries Specified in the PDB File

4txa