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(-) Description

Title :  STRUCTURAL PLASTICITY OF CID1 PROVIDES A BASIS FOR ITS RNA TERMINAL URIDYLYL TRANSFERASE ACTIVITY
 
Authors :  L. A. Yates, B. P. Durrant, S. Fleurdepine, K. Harlos, C. J. Norbury, R. J. C. Gilbert
Date :  07 Dec 14  (Deposition) - 18 Mar 15  (Release) - 01 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transferase, Uridylyltransferase Enzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. A. Yates, B. P. Durrant, S. Fleurdepine, K. Harlos, C. J. Norbury, R. J. C. Gilbert
Structural Plasticity Of Cid1 Provides A Basis For Its Distributive Rna Terminal Uridylyl Transferase Activity.
Nucleic Acids Res. V. 43 2968 2015
PubMed-ID: 25712096  |  Reference-DOI: 10.1093/NAR/GKV122

(-) Compounds

Molecule 1 - POLY(A) RNA POLYMERASE PROTEIN CID1
    Chains: A, B
    EC Number: 2.7.7.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-6P-TCID1
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Variant: DE3
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: FISSION YEAST
    Organism Scientific: SCHIZOSACCHAROMYCES POMBE
    Organism Taxid: 4896
    Synonym: CAFFEINE-INDUCED DEATH PROTEIN 1, CAFFEINE-INDUCED DEATH SUPPRESSOR 1 URIDYLYLTRANSFERASE

 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, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:303 , LYS B:240 , GLU B:242BINDING SITE FOR RESIDUE GOL B1381
2AC2SOFTWARELYS B:199 , ALA B:356 , ALA B:357 , SER B:372 , LEU B:373 , HOH B:2106BINDING SITE FOR RESIDUE GOL B1382

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4UD4)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Gly A:152 -Phe A:153
2Lys A:227 -Pro A:228
3Tyr A:366 -Pro A:367
4Lys B:227 -Pro B:228
5Tyr B:366 -Pro B:367

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4UD4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4UD4)

(-) Exons   (0, 0)

(no "Exon" information available for 4UD4)

(-) 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:324
                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhh.......eeeeee......hhhhhhhhhhhhhhh..eeeeeee..eeeeeeee........eeeee.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhh..................ee..ee.....hhhhh.......hhhhhhhhhhhhhhhh.................hhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ud4 A  40 SHKEFTKFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEGAFLQAARIPIIKLTSDGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLLLSPLKQEKIVDGFDVGFDDKLEDIPPSQNYSSLGSLLHGFFAFYAYAFEPREKVVTFRRPDGYLTKQEKGWTKDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEFMAASRLLNSRSYPIPYDSLFEEAPI 379
                                    49        59        69        79        89        99       109       119       129       139       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302    || 325       335       345       355       365       375    
                                                                                                                                      148|                                                                                                                                                        307|                                                          
                                                                                                                                       152                                                                                                                                                         321                                                          


Chain B from PDB  Type:PROTEIN  Length:317
                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...eeee..hhhhh.......eeeeeee.hhhhhhhhhhhhhhhhhhh...eeeeee..eeeeee.....eeeeeee.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhh..................ee..ee.....hhhhh.......hhhhhhhhhhhhhhhh.................hhhhhh......................hhhhhhhhhhhhhhhhhhhh......hhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ud4 B  41 HKEFTKFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEGAFLQAARIPIIKLTASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLLLSPLKQEKIVDGFDVGFDDKLEDIPPSQNYSSLGSLLHGFFAFYAYAFEPREKVVTFRRPDGYLTKQEKGWTRYILAIEDPFEISHNVGRTVSSSGLYRIRGEFMAASRLLNSRSYPIPYDSLFEEAPIP 380
                                    50        60        70        80        90       100       110       120       130       140     ||158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       323       333       343       353       363       373       
                                                                                                                                   146|                                                                                                                                                     307|                                                         
                                                                                                                                    155                                                                                                                                                      323
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4UD4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4UD4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4UD4)

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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  CID1_SCHPO | O13833
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 Related Entries

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

UniProtKB/Swiss-Prot
        CID1_SCHPO | O13833: 4e7x 4e80 4e8f 4ep7 4fh3 4fh5 4fhp 4fhv 4fhw 4fhx 4fhy 4nkt 4nku 4ud5

(-) Related Entries Specified in the PDB File

4ud5 STRUCTURAL PLASTICITY OF CID1 PROVIDES A BASIS FOR ITS RNA TERMINAL URIDYLYL TRANSFERASE ACTIVITY