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(-) Description

Title :  STRUCTURE OF THE BRAT-NHL DOMAIN BOUND TO CONSENSUS RNA MOTIF
 
Authors :  L. Jakob, N. Treiber, T. Treiber, M. Stotz, I. Loedige, G. Meister
Date :  01 May 15  (Deposition) - 11 Nov 15  (Release) - 25 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Nhl-Domain, Beta-Propeller, Rna Binding, Translational Repressor, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Loedige, L. Jakob, T. Treiber, D. Ray, M. Stotz, N. Treiber, J. Hennig, K. B. Cook, Q. Morris, T. R. Hughes, J. C. Engelmann, M. P. Krahn, G. Meister
The Crystal Structure Of The Nhl Domain In Complex With Rna Reveals The Molecular Basis Of Drosophila Brain-Tumor-Mediated Gene Regulation.
Cell Rep V. 13 1206 2015
PubMed-ID: 26527002  |  Reference-DOI: 10.1016/J.CELREP.2015.09.068

(-) Compounds

Molecule 1 - BRAIN TUMOR PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PHUE
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 756-1037
    Gene: BRAT, CG10719
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
 
Molecule 2 - RNA (5'-R(*UP*UP*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3')
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric/Biological Unit (4, 12)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
2PE41Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
3PG41Ligand/IonTETRAETHYLENE GLYCOL
4SO49Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE A:815 , GLN A:858 , TYR A:859 , GLN A:861 , SO4 A:1106binding site for residue PE4 A 1101
02AC2SOFTWARELYS A:769 , ARG A:1023 , LYS B:769 , ARG B:1023binding site for residue SO4 A 1102
03AC3SOFTWAREHIS A:977 , ASN A:978 , HOH A:1250binding site for residue SO4 A 1103
04AC4SOFTWAREARG A:837 , HOH A:1209 , HOH A:1228 , HOH A:1264 , HOH A:1301 , HOH A:1307binding site for residue SO4 A 1104
05AC5SOFTWARELYS A:882 , ARG A:884 , GLN A:926binding site for residue SO4 A 1105
06AC6SOFTWAREGLN A:861 , PE4 A:1101 , HOH A:1206 , ARG B:864 , GLN B:900binding site for residue SO4 A 1106
07AC7SOFTWAREASN A:923 , ASP A:924 , ILE A:965 , GLN A:987 , HOH A:1256binding site for residue SO4 A 1107
08AC8SOFTWAREHIS A:767 , ARG A:1028 , ASN B:966 , SER B:967 , ASN B:968 , GLY B:1013 , TYR B:1029 , VAL B:1030binding site for residue PG4 B 1101
09AC9SOFTWAREASN A:966 , SER A:967 , ASN A:968 , ASP A:1011 , GLY A:1013 , TYR A:1029 , VAL A:1030 , HOH A:1204 , HIS B:767 , ARG B:1028binding site for residue 1PE B 1102
10AD1SOFTWAREHIS B:977 , ASN B:978 , HOH B:1229 , HOH B:1264binding site for residue SO4 B 1103
11AD2SOFTWAREHOH B:1201 , HOH B:1226 , HOH B:1275 , HOH B:1286 , HOH B:1294binding site for residue SO4 B 1104
12AD3SOFTWAREASN B:978 , ASN B:979 , LYS B:1000binding site for residue SO4 B 1105

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:848 -Pro A:849
2Ser B:848 -Pro B:849

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZLR)

(-) 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:278
                                                                                                                                                                                                                                                                                                                       
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee.eeeee..............eeee.....eeeeehhhheeeee.....eeeee...........eeeeeee....eeeeee......eeee.....eeeee.......eeeeee.....eeeee....eeeee.....eeeeee.......eeeeee....eeeeee....eeeeee....eeeee........eeeeee.....eeeee.....eeeee.....eeeeeee......eeeeeee...eeeeee...eeeeee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zlr A  758 QIKRQKMIYHCKFGEFGVMEGQFTEPSGVAVNAQNDIIVADTNNHRIQIFDKEGRFKFQFGECGKRDQLLYPNRVAVVRNSGDIIVTERSPTHQIQIYNQYGQFVRKFGATILQHPRGVTVDNKGRIIVVECKVMRVIIFDQNGNVLHKFGCSKHLEFPNGVVVNDKQEIFISDNRAHCVKVFNYEGQYLRQIGGEGITNYPIGVGINSNGEILIADNHNNFNLTIFTQDGQLISALESKVKHAQCFDVALMDDGSVVLASKDYRLYIYRYVQLAPVG 1036
                                   767       777       787       797       807       817      |828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028        
                                                                                            824|                                                                                                                                                                                                                  
                                                                                             826                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:278
                                                                                                                                                                                                                                                                                                                       
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee.eeeee..............eeee.....eeeeehhhheeeee.....eeeee............eeeeeee....eeeeee......eeee.....eeeee.......eeeeee.....eeeee....eeeee.....eeeeee.......eeeeee....eeeeee....eeeeee....eeeee........eeeeee.....eeeee.....eeeee.....eeeeeee......eeeeeee...eeeeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zlr B  758 QIKRQKMIYHCKFGEFGVMEGQFTEPSGVAVNAQNDIIVADTNNHRIQIFDKEGRFKFQFGECGKRDSQLLYPNRVAVVRNSGDIIVTERSPTHQIQIYNQYGQFVRKFGATILQHPRGVTVDNKGRIIVVECKVMRVIIFDQNGNVLHKFGCSKHLEFPNGVVVNDKQEIFISDNRAHCVKVFNYEGQYLRQIGGEGITNYPIGVGINSNGEILIADNHNNFNLTIFTQDGQLISALESKVKHAQCFDVALMDDGSVVLASKDYRLYIYRYVQLAPV 1035
                                   767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017      1027        


Chain C from PDB  Type:RNA  Length:14
                                               
                4zlr C    1 UUGUUGUUUUUUUU   14
                                    10
   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  (0, 0)

(no "SCOP Domain" information available for 4ZLR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (32, 32)

Asymmetric/Biological Unit(hide GO term definitions)

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    Ser A:848 - Pro A:849   [ RasMol ]  
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        BRAT_DROME | Q8MQJ9: 1q7f 5ex7

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