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(-) Description

Title :  CRYSTAL STRUCTURE OF WD40 REPEAT DOMAINS OF GEMIN5 IN COMPLEX WITH M7G
 
Authors :  W. Jin, Y. Wang, C. P. Liu, N. Yang, M. Jin, Y. Cong, M. Wang, R. M. Xu
Date :  10 Oct 16  (Deposition) - 23 Nov 16  (Release) - 07 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.49
Chains :  Asym./Biol. Unit :  A
Keywords :  Wd Repeat, Gemin5, Smn, Splicing (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Jin, Y. Wang, C. P. Liu, N. Yang, M. Jin, Y. Cong, M. Wang, R. M. Xu
Structural Basis For Snrna Recognition By The Double-Wd40 Repeat Domain Of Gemin5
Genes Dev. V. 30 2391 2016
PubMed-ID: 27881601  |  Reference-DOI: 10.1101/GAD.291377.116

(-) Compounds

Molecule 1 - GEM-ASSOCIATED PROTEIN 5
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell: SF21
    Expression System Plasmid: PFASTBAC-HTC
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: UNP RESIDUES 1-726
    Gene: GEMIN5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GEMIN5

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1M7G1Ligand/Ion7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:474 , THR A:540 , GLU A:541 , ASN A:582 , TYR A:660 , LEU A:686binding site for residue M7G A 801

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:240 -A:256

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly A:25 -Gly A:26
2Pro A:483 -Pro A:484
3Ile A:565 -Pro A:566

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5H1M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5H1M)

(-) Exons   (0, 0)

(no "Exon" information available for 5H1M)

(-) 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    
   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:674
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...........eeee...eeeeee..eeeeeee.hhhh.......eeeeeee......eeeeee........eeeeee....eeeee....eeeeee......eeeeee......eeeeee...eeeeee....eeeeee.....eeeeee......eeeeee....eeeee.....eeeeee......eeeeee.....eeeeee...eeeeee....eeeeeee...............ee.......eeeee.hhh.eeeee........eee.............eeeeeeee.....eeeeeee...eeeeee....eeeeeee.....eeeeee......eeeeee....eeeee.........eeee.......eeeeee......eeeeee....eeeee.......ee........eeeeeee...........eeeeee....eeeehhhhh....eehhhhhhhhh........eeeeee.....eeeeee...eeeeee....eeeeeee.....eeeeee......hhhhh.eeeeee....eeeeehhhhhhhh....eee....eee......eeeeee......eeeeee....eeeee.hhheeeeee......eeeeee......eeeeee....eeeee.hhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5h1m A   4 EPRTLPPSPNWYCARCSDAVPGGLFGFAARTSVFLVRVGPGAGESPGTPPFRVIGELVGHTERVSGFTFSHHPGQYNLCATSSDDGTVKIWDVETKTVVTEHALHQHTISTLHWSPRVKDLIVSGDEKGVVFCYWFNRNDSQHLFIEPRTIFCLTCSPHHEDLVAIGYKDGIVVIIDISKKGEVIHRLRGHDDEIHSIAWCPLPCYLATGSKDQTIRIWSCSRGRGVMILKLPFLKRRVKERLWLTLHWPSNQPTQLVSSCFGGELLQWDLTQSWRRKYTLFSASSEGQNHSRIVFNLCPLQTEDDKQLLLSTSMDRDVKCWDIATLECSWTLPSLGGFAYSLAFSSVDIGSLAIGVGDGMIRVWNTLSIKNNYDVKNFWQGVKSKVTALCWHPTKEGCLAFGTDDGKVGLYDTYSNKPPQISSTYHKKTVYTLAWGPPVPPMSLPSLALYSCGGEGIVLQHNPWKLSGEAFDINKLIRDTNSIKYKLPVHTEISWKADGKIMALGNEDGSIEIFQIPNLKLICTIQQHHKLVNTISWHHEHGSQPELSYLMASGSNNAVIYVHNLKTVIESSPESPVTITEPYRTLSGHTAKITSVAWSPHHDGRLVSASYDGTAQVWDALREEPLCNFRGHRGRLLCVAWSPLDPDCIYSGADDFCVHKWLTSMQDHSRPPQ 722
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203   ||  245       255       265       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482    || 498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718    
                                                                                                                                                                                                                                     207|                              273|                                                                                                                                                                                                           487|                                                                                                                                                                                                                                    
                                                                                                                                                                                                                                      240                               281                                                                                                                                                                                                            494
   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  (0, 0)

(no "SCOP Domain" information available for 5H1M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5H1M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5H1M)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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 Related Entries

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

UniProtKB/Swiss-Prot
        GEMI5_HUMAN | Q8TEQ6: 5gxh 5gxi 5h1j 5h1k 5h1l 5h3s 5h3t 5h3u 5tee 5tef 5tha

(-) Related Entries Specified in the PDB File

5h1j 5h1k 5h1l