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(-) Description

Title :  OPEN AND CLOSED FORMS OF T1789P HUMAN PRP8 RNASE H-LIKE DOMAIN WITH BOUND MG ION
 
Authors :  M. J. Schellenberg, T. Wu, D. B. Ritchie, K. A. Atta, A. M. Macmillan
Date :  09 Mar 13  (Deposition) - 22 May 13  (Release) - 26 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Metalloprotein, Conformational Change, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. J. Schellenberg, T. Wu, D. B. Ritchie, S. Fica, J. P. Staley, K. A. Atta, P. Lapointe, A. M. Macmillan
A Conformational Switch In Prp8 Mediates Metal Ion Coordination That Promotes Pre-Mrna Exon Ligation.
Nat. Struct. Mol. Biol. V. 20 728 2013
PubMed-ID: 23686287  |  Reference-DOI: 10.1038/NSMB.2556

(-) Compounds

Molecule 1 - PRE-MRNA-PROCESSING-SPLICING FACTOR 8
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMALC2-E
    Expression System StrainBL21 (DE3) ROSETTA2
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentPRP8 RNASE H-LIKE DOMAIN, UNP RESIDUES 1769-1990'
    GenePRP8, PRPC8, PRPF8
    MutationYES
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Synonym220 KDA U5 SNRNP-SPECIFIC PROTEIN, PRP8 HOMOLOG, SPLICING FACTOR PRP8, P220

 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, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP B:1781 , HOH B:2156 , HOH B:2270 , HOH B:2271 , HOH B:2273BINDING SITE FOR RESIDUE MG B 2001

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4JKE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4JKE)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                            
               SCOP domains d4jkea_ A: Pre-mRNA-splicing factor 8, Prp8                                                                                                                                                                                 SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.......................eeeeee.....eeeeeeehhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhh......eee......hhhhhhhhhhhhhhhhhh...eeeeee...hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4jke A 1771 LFSQIIWFVDDTNVYRVPIHKTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLYDDWLKTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTLTDEEWIKVEVQLKDLILAD 1990
                              ||  1781      1791      1801      1811      1821      1831      1841      1851      1861      1871      1881      1891      1901      1911      1921      1931      1941      1951      1961      1971      1981         
                              ||                                                                                                                                                                                                                       
                           1773|                                                                                                                                                                                                                       
                            1775                                                                                                                                                                                                                       

Chain B from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                     
               SCOP domains d4jkeb_ B: Pre-mRNA-splicing factor 8, Prp8                                                                                                                                                                          SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee............eeeeee.....eeeeeee...hhhhh......hhhhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhhhhh...eeeeee...hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4jke B 1770 ELFSNQIIWFVDDTNVYRVPITTKPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLYDDWLKTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTLTDEEWIKVEVQLKDLILA 1989
                                  1779      1789||    1807      1817      1827      1837      1847      1857      1867      1877      1887      1897      1907      1917      1927      1937      1947      1957      1967      1977      1987  
                                             1790|                                                                                                                                                                                              
                                              1799                                                                                                                                                                                              

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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  (1, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (26, 26)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PRP8_HUMAN | Q6P2Q93e9l 3enb 3jcr 3lru 4jk7 4jk8 4jk9 4jka 4jkb 4jkc 4jkd 4jkf 4jkg 4jkh 4kit 5mqf

(-) Related Entries Specified in the PDB File

3enb 4jk7 4jk8 4jk9 4jka 4jkb 4jkc 4jkd 4jkf 4jkg 4jkh