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(-) Description

Title :  U4/U6 SNRNP-SPECIFIC CYCLOPHILIN SNUCYP-20
 
Authors :  U. Reidt, K. Reuter, T. Achsel, D. Ingelfinger, R. Luehrmann, R. Ficner
Date :  09 Nov 99  (Deposition) - 10 Apr 00  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Isomerase, Snucyp-20, Cyclophilin, Snrnp, Spliceosomal (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  U. Reidt, K. Reuter, T. Achsel, D. Ingelfinger, R. Luehrmann, R. Ficne
Crystal Structure Of The Human U4/U6 Small Nuclear Ribonucleoproteinparticle-Specificsnucyp-20, A Nuclear Cyclophilin
J. Biol. Chem. V. 275 7439 2000
PubMed-ID: 10713041  |  Reference-DOI: 10.1074/JBC.275.11.7439

(-) Compounds

Molecule 1 - SNUCYP-20
    Cellular LocationNUCLEUS
    Cell LineHELA
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Cellular LocationCYTOPLASM
    Expression System PlasmidPGEX-4T-2
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneSNUCYP-20
    OrganelleNUCLEUS
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymUSA-CYP

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1QOI)

(-) Sites  (0, 0)

(no "Site" information available for 1QOI)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QOI)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1QOI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1QOI)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CSA_PPIASE_2PS50072 Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile.PPIH_HUMAN14-176  1A:14-176
2CSA_PPIASE_1PS00170 Cyclophilin-type peptidyl-prolyl cis-trans isomerase signature.PPIH_HUMAN60-77  1A:60-77

(-) Exons   (9, 9)

Asymmetric/Biological Unit (9, 9)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000003049791bENSE00001830638chr1:43124096-4312418388PPIH_HUMAN1-22221A:5-2218
1.1fENST000003049791fENSE00001670861chr1:43124515-4312457965PPIH_HUMAN23-44221A:23-4422
1.2aENST000003049792aENSE00001144207chr1:43124899-4312492224PPIH_HUMAN44-5291A:44-529
1.2gENST000003049792gENSE00001144198chr1:43125193-4312523745PPIH_HUMAN52-67161A:52-6716
1.3aENST000003049793aENSE00001144190chr1:43126533-4312657543PPIH_HUMAN67-81151A:67-8115
1.4ENST000003049794ENSE00001144183chr1:43130534-4313062693PPIH_HUMAN82-112311A:82-11231
1.5ENST000003049795ENSE00001144176chr1:43131651-4313173888PPIH_HUMAN113-142301A:113-14230
1.6ENST000003049796ENSE00001144169chr1:43132218-4313225841PPIH_HUMAN142-155141A:142-15514
1.7bENST000003049797bENSE00001146489chr1:43133022-4313311190PPIH_HUMAN156-177221A:156-17722
1.9bENST000003049799bENSE00001847781chr1:43142255-43142429175PPIH_HUMAN-00--

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:173
 aligned with PPIH_HUMAN | O43447 from UniProtKB/Swiss-Prot  Length:177

    Alignment length:173
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174   
           PPIH_HUMAN     5 NSSPVNPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNGCQFFITCSKCDWLDGKHVVFGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQCGEM 177
               SCOP domains d1qoia_ A: Cyclophilin (eukaryotic)                                                                                                                                           SCOP domains
               CATH domains 1qoiA00 A:5-177 Cyclophilin                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhh.................eee...eeee................................eeee...........eeee...hhhhh....eeeeeeehhhhhhhhhh...hhhhh....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------CSA_PPIASE_2  PDB: A:14-176 UniProt: 14-176                                                                                                                        - PROSITE (1)
                PROSITE (2) -------------------------------------------------------CSA_PPIASE_1      ---------------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1b         Exon 1.1f  PDB: A:23-4-------Exon 1.2g       --------------Exon 1.4  PDB: A:82-112        Exon 1.5  PDB: A:113-142      -------------Exon 1.7b              Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.2a--------------Exon 1.3a      ------------------------------------------------------------Exon 1.6      ---------------------- Transcript 1 (2)
                 1qoi A   5 NSSPVNPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNGCQFFITCSKCDWLDGKHVVFGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQCGEM 177
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174   

   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1QOI)

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PPIH_HUMAN | O43447)
molecular function
    GO:0016018    cyclosporin A binding    Interacting selectively and non-covalently with cyclosporin A, a cyclic undecapeptide that contains several N-methylated and unusual amino acids.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0003755    peptidyl-prolyl cis-trans isomerase activity    Catalysis of the reaction: peptidyl-proline (omega=180) = peptidyl-proline (omega=0).
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0043021    ribonucleoprotein complex binding    Interacting selectively and non-covalently with any complex of RNA and protein.
biological process
    GO:0008380    RNA splicing    The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.
    GO:0006397    mRNA processing    Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
    GO:0000398    mRNA splicing, via spliceosome    The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
    GO:0045070    positive regulation of viral genome replication    Any process that activates or increases the frequency, rate or extent of viral genome replication.
    GO:0006461    protein complex assembly    The aggregation, arrangement and bonding together of a set of components to form a protein complex.
    GO:0006457    protein folding    The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
    GO:0000413    protein peptidyl-prolyl isomerization    The modification of a protein by cis-trans isomerization of a proline residue.
cellular component
    GO:0071001    U4/U6 snRNP    A ribonucleoprotein complex that contains base-paired U4 and U6 small nuclear RNAs.
    GO:0046540    U4/U6 x U5 tri-snRNP complex    A ribonucleoprotein complex formed by the association of the U4/U6 and U5 small nuclear ribonucleoproteins.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0016607    nuclear speck    A discrete extra-nucleolar subnuclear domain, 20-50 in number, in which splicing factors are seen to be localized by immunofluorescence microscopy.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005681    spliceosomal complex    Any of a series of ribonucleoprotein complexes that contain snRNA(s) and small nuclear ribonucleoproteins (snRNPs), and are formed sequentially during the spliceosomal splicing of one or more substrate RNAs, and which also contain the RNA substrate(s) from the initial target RNAs of splicing, the splicing intermediate RNA(s), to the final RNA products. During cis-splicing, the initial target RNA is a single, contiguous RNA transcript, whether mRNA, snoRNA, etc., and the released products are a spliced RNA and an excised intron, generally as a lariat structure. During trans-splicing, there are two initial substrate RNAs, the spliced leader RNA and a pre-mRNA.

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 Related Entries

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

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        PPIH_HUMAN | O434471mzw

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