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(-) Description

Title :  C. ELEGANS CLP1 AND ADP AND MG2+ (TURNOVER STATE)
 
Authors :  A. Dikfidan, B. Loll, C. Zeymer, T. Clausen, A. Meinhart
Date :  18 Jan 14  (Deposition) - 14 May 14  (Release) - 21 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Polynucleotide Kinase, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Dikfidan, B. Loll, C. Zeymer, I. Magler, T. Clausen, A. Meinhart
Rna Specificity And Regulation Of Catalysis In The Eukaryotic Polynucleotide Kinase Clp1.
Mol. Cell V. 54 975 2014
PubMed-ID: 24813946  |  Reference-DOI: 10.1016/J.MOLCEL.2014.04.005

(-) Compounds

Molecule 1 - PROTEIN CLPF-1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)-RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CLPF-1, F59A2.4
    Organism Common: NEMATODE
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
12PE1Ligand/IonNONAETHYLENE GLYCOL
2ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:16 , ARG A:18 , PHE A:39 , ARG A:56 , ALA A:58 , ASP A:124 , VAL A:125 , GLY A:126 , LYS A:127 , THR A:128 , THR A:129 , SER A:282 , GLY A:284 , VAL A:285 , ARG A:288 , MG A:502 , HOH A:601 , HOH A:603 , HOH A:604 , HOH A:609 , HOH A:630BINDING SITE FOR RESIDUE ADP A 501
2AC2SOFTWARETHR A:128 , ADP A:501 , HOH A:601 , HOH A:602 , HOH A:603 , HOH A:604BINDING SITE FOR RESIDUE MG A 502
3AC3SOFTWARETRP A:62 , LEU A:88 , ARG A:140 , GLN A:141BINDING SITE FOR RESIDUE 2PE A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OI2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4OI2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OI2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OI2)

(-) Exons   (0, 0)

(no "Exon" information available for 4OI2)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:398
                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....eeeeee.....eeeeeeee..ee..ee.....eeee....eeeee....eeeeeee.eeeeeee...hhhhhhhhhhhhhhhhhhhhh.......eeeee.....hhhhhhhhhhhhhhhh....eeee............eeeeee................eeee....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhheeee......hhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhh....eeeee.........hhhhhhhhhhhhhhhhhhh........eeeeee....eeeee....eee...hhhhh.eeeeee......hhhhhh.eeeeeeeeeee....eeeeee........eeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oi2 A   3 EENVQEFVLKEDCELRFAAGDDSDVCLELVKGYAEIFGTELLLNKKYTFPAKSRVAAFTWKGATIELVGTTESAYVAESTPMVIYLNIHAAMEEVRKKREEQAKAKGPRLLLVGPTDVGKTTVSRILCNYSVRQGRTPIFVELDVGQNSVSVPGTVAAVLVQKTADVIDGFERNQPIVFNFGHTSPSANLSLYEALFKEMATTLNAQIQENDEAKIGGMIINTCGWVDGEGYKCIVKAASAFEVDVVIVLDHERLYSDLSKELPEFVRLTHVPKSGGVEQRTGQIRSKMRGENVHRYFYGTRANNLYPFTFDVSFDDVTLCKIGETKLVIMEPSADIKHHLFAFSRSTKADENVLKSPVFGFCLVTEVDLEKRTMSILCPQRTIPSKVLVFSDITHLD 423
                                    12        22        32        42        52        62        72        82        92       102  ||   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327   ||  355       365       375       385       395       405       415        
                                                                                                                                105|                                                                                                                                                                                                                         331|                                                                         
                                                                                                                                 111                                                                                                                                                                                                                          350
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  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 4OI2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OI2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OI2)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4oi2
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  CLP1_CAEEL | P52874
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 Related Entries

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

UniProtKB/Swiss-Prot
        CLP1_CAEEL | P52874: 4ohv 4ohw 4ohx 4ohy 4ohz 4oi0 4oi1

(-) Related Entries Specified in the PDB File

4ohv 4ohw 4ohx 4ohy 4ohz 4oi0 4oi1