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(-) Description

Authors :  Z. Liu, I. Luyten, M. J. Bottomley, A. C. Messias, S. Houngninou- Molango, R. Sprangers, K. Zanier, A. Kramer, M. Sattler
Date :  25 Sep 01  (Deposition) - 07 Nov 01  (Release) - 24 Feb 09  (Revision)
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (10x)
Keywords :  Splicing, Branch Point Sequence, Protein/Rna Recognition, Complex E, Kh Domain, Qua2 Homology, Star Proteins, Gene Regulation/Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  Z. Liu, I. Luyten, M. J. Bottomley, A. C. Messias, S. Houngninou-Molango, R. Sprangers, K. Zanier, A. Kramer, M. Sattler
Structural Basis For Recognition Of The Intron Branch Site Rna By Splicing Factor 1.
Science V. 294 1098 2001
PubMed-ID: 11691992  |  Reference-DOI: 10.1126/SCIENCE.1064719
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SF1-BO ISOFORM
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidMODIFIED PET24D
    Expression System StrainBL21 DE3
    Expression System Taxid469008
    FragmentRESIDUES 133-260, KH-QUA2 REGION
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
Molecule 2 - 5'-R(*UP*AP*UP*AP*CP*UP*AP*AP*CP*AP*A)-3'

 Structural Features

(-) Chains, Units

NMR Structure (10x)

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1K1G)

(-) Sites  (0, 0)

(no "Site" information available for 1K1G)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1K1G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1K1G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1K1G)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
1KH_TYPE_1PS50084 Type-1 KH domain profile.SF01_HUMAN151-222  1A:151-222

(-) Exons   (3, 3)

NMR Structure (3, 3)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) Sequences/Alignments

NMR Structure
   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:122
 aligned with SF01_HUMAN | Q15637 from UniProtKB/Swiss-Prot  Length:639

    Alignment length:122
                                   143       153       163       173       183       193       203       213       223       233       243       253  
               SCOP domains d1k1ga_ A: RNA splicing factor 1                                                                                           SCOP domains
               CATH domains 1k1gA00 A:134-255  [code=3.30.1370.10, no name defined]                                                                    CATH domains
               Pfam domains --------------KH_1-1k1gA01 A:148-222                                                     --------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.......hhhhhhhhhh..hhhhhhhhhhh..eeeeee.......................eeeeeee.hhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------KH_TYPE_1  PDB: A:151-222 UniProt: 151-222                              --------------------------------- PROSITE
           Transcript 1 (1) Exon 1.7  PDB: A:134-160   -------------------------------------------------------------Exon 1.9b  PDB: A:222-255          Transcript 1 (1)
           Transcript 1 (2) --------------------------Exon 1.8c  PDB: A:160-221 UniProt: 160-221                    ---------------------------------- Transcript 1 (2)
                                   143       153       163       173       183       193       203       213       223       233       243       253  

Chain B from PDB  Type:RNA  Length:11
                 1k1g B 501 UAUACUAACAA 511

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

NMR Structure
Clan: KH (43)

(-) Gene Ontology  (23, 23)

NMR Structure(hide GO term definitions)
Chain A   (SF01_HUMAN | Q15637)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    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:0003714    transcription corepressor activity    Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0033327    Leydig cell differentiation    The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of a Leydig cell. A Leydig cell is a testosterone-secreting cell in the interstitial area, between the seminiferous tubules, in the testis.
    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:0000389    mRNA 3'-splice site recognition    Recognition of the intron 3'-splice site by components of the assembling U2- or U12-type spliceosome.
    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:0030238    male sex determination    The specification of male sex of an individual organism.
    GO:1903507    negative regulation of nucleic acid-templated transcription    Any process that stops, prevents or reduces the frequency, rate or extent of nucleic acid-templated transcription.
    GO:0048662    negative regulation of smooth muscle cell proliferation    Any process that stops, prevents or reduces the rate or extent of smooth muscle cell proliferation.
    GO:0050810    regulation of steroid biosynthetic process    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0000245    spliceosomal complex assembly    The aggregation, arrangement and bonding together of a spliceosomal complex, a ribonucleoprotein apparatus that catalyzes nuclear mRNA splicing via transesterification reactions.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    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:0005840    ribosome    An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.
    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)

        SF01_HUMAN | Q156371o0p 1opi 2m09 2m0g 4fxw 4fxx

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1K1G)