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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ESSENTIAL YEAST SPLICING FACTOR
 
Authors :  H. Hadjivassiliou, C. Guthrie, O. S. Rosenberg
Date :  18 Sep 13  (Deposition) - 16 Apr 14  (Release) - 07 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.87
Chains :  Asym./Biol. Unit :  A
Keywords :  Deubiquitinase, Zinc Finger Ubiquitin Binding Protein, Znf-Ubp, Ubiquitin Specific Protease, Usp, Pre-Mrna Splicing, Spliceosome Assembly, Pseudo-Deubiquitinase, Nuclear, Splicing (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Hadjivassiliou, O. S. Rosenberg, C. Guthrie
The Crystal Structure Of S. Cerevisiae Sad1, A Catalyticall Inactive Deubiquitinase That Is Broadly Required For Pre-Mrna Splicing.
Rna V. 20 656 2014
PubMed-ID: 24681967  |  Reference-DOI: 10.1261/RNA.042838.113

(-) Compounds

Molecule 1 - PRE-MRNA-SPLICING FACTOR SAD1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SAD1, YFR005C
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: SNRNP ASSEMBLY-DEFECTIVE PROTEIN 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:60 , CYS A:63 , HIS A:79 , HIS A:85BINDING SITE FOR RESIDUE ZN A 501
2AC2SOFTWAREASN A:346 , ARG A:347 , ASP A:349 , ASN A:360 , HOH A:777 , HOH A:909BINDING SITE FOR RESIDUE ACT A 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Gly A:69 -Arg A:70
2Leu A:99 -Pro A:100
3Phe A:133 -Pro A:134
4Asn A:228 -Pro A:229

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MSX)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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(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:395
                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh................eeee.....eee.....hhhhhhhhhh...eeee.....eee....ee..hhhhhhhhhhhhhhhh...hhhhhhh...eee.....eee....ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.......ee.hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee........eeeeee..eee............hhhhh.eeehhhhhhhhhh.eeeeee...eeeeee.................eee...eeee..eeeeeeeeeeeeee...eeeeeeeeee....eeeeee..eeeeehhhhhhhheeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4msx A  29 YAYLETVVREKLDFDSEKICCITLSPLNVYCCLVCGHYYQGRHEKSPAFIHSIDENHHVFLNLTSLKFYMLPQNVQILHDGEVQLLNSIKFAAYPTYCPKDLEDFPRQCFDLSNRTYLNGFIGFTNAATYDYAHSVLLLISHMVPVRDHFLLNHFDNQGEFIKRLSICVKKIWSPKLFKHHLSVDDFVSYLKVREGLNLNPIDPRLFLLWLFNKICSSSNDLKSILNHSCKGKVKIAKSESVTGKVIVKPFWVLTLDLPEFSPFEDGNSVDDLPQINITKLLTKFTKTVFELTRLPQFLIFHFNRFDRNSDHPVKNRNQTLVEFSSELEILHVKYRLKANVVHVVIGDEKSHWITQLYDNKSEKWIEIDGINTTEREAELLFLKETFIQVWEKQE 448
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       275       285       295       305       315      |332       342       352       362       372       382     ||403       413       423       433       443     
                                                                                                                                                                                                                                                                       266|                                             322|                                                       388|                                                
                                                                                                                                                                                                                                                                        274                                              330                                                        400
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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 4MSX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4msx
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