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(-) Description

Title :  STRUCTURE OF THE KH DOMAIN OF T-STAR IN COMPLEX WITH AAAUAA RNA
 
Authors :  C. Dominguez, M. Feracci
Date :  05 Nov 15  (Deposition) - 13 Jan 16  (Release) - 27 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.87
Chains :  Asym. Unit :  A,B,C,D,E,F,H,I
Biol. Unit 1:  A,C,H,I  (1x)
Biol. Unit 2:  B,F  (1x)
Biol. Unit 3:  D,E  (1x)
Keywords :  Protein - Rna Complexes Star Protein Alternative Splicing Kh Domain, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Feracci, J. N. Foot, S. N. Grellscheid, M. Danilenko, R. Stehle, O. Gonchar, H. S. Kang, C. Dalgliesh, N. H. Meyer, Y. Liu, A. Lahat, M. Sattler, I. C. Eperon, D. J. Elliott, C. Dominguez
Structural Basis Of Rna Recognition And Dimerization By The Star Proteins T-Star And Sam68.
Nat Commun V. 7 10355 2016
PubMed-ID: 26758068  |  Reference-DOI: 10.1038/NCOMMS10355

(-) Compounds

Molecule 1 - KH DOMAIN-CONTAINING, RNA-BINDING, SIGNAL TRANSDUCTION- ASSOCIATED PROTEIN 3
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLEICS 03
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RNA BINDING PROTEIN, UNP RESIDUES 50-160
    Gene: KHDRBS3, SALP, SLM2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: N-TERMINUS GA RESIDUES FROM TAG.
    Synonym: RNA-BINDING PROTEIN T-STAR,SAM68-LIKE MAMMALIAN PROTEIN 2, SLM-2,SAM68-LIKE PHOSPHOTYROSINE PROTEIN
 
Molecule 2 - RNA (5'-R(P*AP*AP*AP*UP*AP*A)-3')
    Chains: H, I
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFHI
Biological Unit 1 (1x): A C   HI
Biological Unit 2 (1x):  B   F  
Biological Unit 3 (1x):    DE   

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1SO4-1Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:48 , LYS C:59binding site for residue SO4 A 201
2AC2SOFTWARELYS B:69 , LYS B:106binding site for residue SO4 B 201
3AC3SOFTWARELEU B:77 , PRO B:79 , ARG B:80 , ASN B:82 , SER B:83 , ARG B:86binding site for residue SO4 B 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5ELS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5ELS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5ELS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5ELS)

(-) Exons   (0, 0)

(no "Exon" information available for 5ELS)

(-) 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:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee.........hhhhhhhh..hhhhhhhhhhhh.eeeee......hhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5els A  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIPDYN 160
                                    57        67        77        87        97       107       117       127       137       147       157   


Chain B from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee.........hhhhhhhh..hhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5els B  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIPDYN 160
                                    57        67        77        87        97       107       117       127       137       147       157   


Chain C from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee.........hhhhhhhh..hhhhhhhhhhhh.eeeee......hhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5els C  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIPDYN 160
                                    57        67        77        87        97       107       117       127       137       147       157   


Chain D from PDB  Type:PROTEIN  Length:111
                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee..........hhhhhhh...hhhhhhhhhhh.eeeee......hhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 5els D  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIPD 158
                                    57        67        77        87        97       107       117       127       137       147       157 


Chain E from PDB  Type:PROTEIN  Length:110
                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee.........hhhhhhhh..hhhhhhhhhhhh.eeeee.......hhhhhhhhh..hhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 5els E  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIP 157
                                    57        67        77        87        97       107       117       127       137       147       157


Chain F from PDB  Type:PROTEIN  Length:112
                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee..........hhhhhhh.....hhhhhh.......ee......hhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 5els F  48 GAINKNMKLGQKVLIPVKQFPKFNFVGKLLGPRGNSLKRLQEETLTKMSILGKGSMRDKAKEEELRKSGEAKYFHLNDDLHVLIEVFAPPAEAYARMGHALEEIKKFLIPDY 159
                                    57        67        77        87        97       107       117       127       137       147       157  


Chain H from PDB  Type:RNA  Length:6
                                      
                 5els H  -1 AAAUAA   4


Chain I from PDB  Type:RNA  Length:6
                                      
                 5els I   0 AAAUAA   5
   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  (0, 0)

(no "SCOP Domain" information available for 5ELS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5ELS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5ELS)

(-) Gene Ontology  (9, 9)

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        KHDR3_HUMAN | O75525: 5el3 5elr 5elt 5emo

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