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(-) Description

Title :  A CAF40-BINDING MOTIF FACILITATES RECRUITMENT OF THE CCR4-NOT COMPLEX TO MRNAS TARGETED BY DROSOPHILA ROQUIN
 
Authors :  A. Sgromo, T. Raisch, P. Bawankar, D. Bhandari, Y. Chen, D. Kuzuoglu-Oz O. Weichenrieder, E. Izaurralde
Date :  05 Sep 16  (Deposition) - 15 Feb 17  (Release) - 15 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Gene Regulation, Deadenylation, Ccr4-Not, Translational Repression, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Sgromo, T. Raisch, P. Bawankar, D. Bhandari, Y. Chen, D. Kuzuoglu-Ozturk, O. Weichenrieder, E. Izaurralde
A Caf40-Binding Motif Facilitates Recruitment Of The Ccr4-Not Complex To Mrnas Targeted By Drosophila Roquin.
Nat Commun V. 8 14307 2017
PubMed-ID: 28165457  |  Reference-DOI: 10.1038/NCOMMS14307

(-) Compounds

Molecule 1 - CELL DIFFERENTIATION PROTEIN RCD1 HOMOLOG
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PETMCN(PNEA)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 19-285
    Gene: RQCD1, CNOT9, RCD1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: RCD-1,CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 9
 
Molecule 2 - LD12033P
    Chains: B, D
    Engineered: YES
    Fragment: UNP RESIDUES 790-810
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synonym: ROQUIN,ISOFORM A,ISOFORM B,ISOFORM C
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
2TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:130 , HOH A:462binding site for residue SO4 A 301
2AC2SOFTWARELYS A:21 , GLN A:24 , TRP A:25 , GLU A:28 , ASN A:37 , GLU A:41binding site for residue TRS A 302
3AC3SOFTWAREPHE C:60 , GLY C:61 , HOH C:415 , HOH C:444 , HOH C:450 , HOH C:466binding site for residue SO4 C 301
4AC4SOFTWAREHIS C:15 , HOH C:434binding site for residue SO4 C 302
5AC5SOFTWAREGLN A:201 , ARG A:244 , GLN C:201 , TYR C:203 , ARG C:244 , HOH C:462binding site for residue SO4 C 303
6AC6SOFTWARELYS C:21 , GLN C:24 , TRP C:25 , GLU C:28 , ASN C:37binding site for residue TRS C 304

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asn A:78 -Pro A:79
2Asn C:78 -Pro C:79

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LSW)

(-) 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:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhh......hhhhhhhhhh.......hhhhhh....hhhhhhhhhhh.hhhh......hhhhhhhhhhhhhhhhhhh....hhhhhh.......hhhhh.....hhhhhhhhhhhhhhhhhhh...hhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh...hhhhhhhh............hhhh...hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lsw A  13 GPHMLEREKIYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNLQE 285
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282   


Chain B from PDB  Type:PROTEIN  Length:21
                                                     
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 5lsw B 790 EGGIDSGMMLQLEKNLVDIVD 810
                                   799       809 


Chain C from PDB  Type:PROTEIN  Length:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhh......hhhhhhhhhh.......hhhhhh....hhhhhhhhhhh.hhhh......hhhhhhhhhhhhhhhhhh.....hhhhhh.......hhhhh.....hhhhhhhhhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh...hhhhhhhh............hhhh...hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lsw C  13 GPHMLEREKIYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNLQE 285
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282   


Chain D from PDB  Type:PROTEIN  Length:21
                                                     
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 5lsw D 790 EGGIDSGMMLQLEKNLVDIVD 810
                                   799       809
   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 5LSW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        CNOT9_HUMAN | Q92600: 2fv2 4cru 4crv 4ct6 4ct7

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