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(-) Description

Title :  CRYSTAL STRUCTURE OF SELENOMETHIONINE MSL5 PROTEIN IN COMPLEX WITH RNA AT 2.2 A
 
Authors :  A. Jacewicz, P. Smith, L. Chico, B. Schwer, S. Shuman
Date :  29 Aug 14  (Deposition) - 17 Dec 14  (Release) - 04 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (8x)
Keywords :  Msl5, Bbp, Rna Binding, Yeast Pre-Mrna Splicing, Protein Binding-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Jacewicz, L. Chico, P. Smith, B. Schwer, S. Shuman
Structural Basis For Recognition Of Intron Branchpoint Rna By Yeast Msl5 And Selective Effects Of Interfacial Mutation On Splicing Of Yeast Pre-Mrnas.
Rna V. 21 401 2015
PubMed-ID: 25587180  |  Reference-DOI: 10.1261/RNA.048942.114

(-) Compounds

Molecule 1 - BRANCHPOINT-BRIDGING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: B834 (DE3)
    Expression System Taxid: 562
    Gene: MSL5, BBP, SF1, YLR116W, L2949
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: MUD SYNTHETIC-LETHAL 5 PROTEIN,SPLICING FACTOR 1,ZINC FINGER PROTEIN BBP
 
Molecule 2 - RNA (5'-R(P*UP*AP*CP*UP*AP*AP*CP*A)-3')
    Chains: B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (8x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric Unit (4, 7)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
3MSE4Mod. Amino AcidSELENOMETHIONINE
4SO41Ligand/IonSULFATE ION
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
3MSE4Mod. Amino AcidSELENOMETHIONINE
4SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 48)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL8Ligand/IonGLYCEROL
3MSE32Mod. Amino AcidSELENOMETHIONINE
4SO48Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:172 , ARG A:174 , ARG A:177 , HOH A:422 , HOH A:442 , HOH A:460binding site for residue SO4 A 301
2AC2SOFTWAREILE A:154 , VAL A:156 , ASP A:157 , GLN A:158 , HOH A:402binding site for residue GOL A 302
3AC3SOFTWAREARG A:271binding site for residue CL A 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:197 -Gly A:198

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WAL)

(-) 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:127
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.........hhhhhhhh..hhhhhhhhhhhh.eeeee.........hhhhh...........eeeeee.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wal A 145 PTKFQDKYYIPVDQYPDVNFVGLLLGPRGRTLRKLQEDSNCKIAIRGRGSVKEGKNASDLPPGAmNFEDPLHCLImADSEDKmQKGIKVCQNImIKAVTSPEGQNDLKRGQLRELAELNGTLREDNR 271
                                   154       164       174       184       194       204    |  214     | 224  |    234   |   244       254       264       
                                                                                          209-MSE    220-MSE  |        238-MSE                             
                                                                                                            227-MSE                                        


Chain B from PDB  Type:DNA/RNA  Length:9
                                         
                 4wal B   1 AUACUAACA   9
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        BBP_YEAST | Q12186: 3fma 4wan

(-) Related Entries Specified in the PDB File

4wan