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(-) Description

Title :  TRNA-PROCESSING ENZYME (APO FORM I)
 
Authors :  S. Yamashita, K. Tomita
Date :  04 Sep 14  (Deposition) - 15 Apr 15  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Rna Nucleotidyltransferase, Cca-Adding Enzyme, A-Adding Enzyme, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Yamashita, A. Martinez, K. Tomita
Measurement Of Acceptor-T Psi C Helix Length Of Trna For Terminal A76-Addition By A-Adding Enzyme.
Structure V. 23 830 2015
PubMed-ID: 25914059  |  Reference-DOI: 10.1016/J.STR.2015.03.013

(-) Compounds

Molecule 1 - POLY A POLYMERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 428-824
    Gene: PCNB1, AQ_411
    Organism Scientific: AQUIFEX AEOLICUS
    Organism Taxid: 224324
    Strain: VF5
    Synonym: A-ADDING ENZYME

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2SO45Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:0 , GLY A:298 , LYS A:301 , HOH A:2114 , HOH A:2117 , HOH A:2119 , HOH A:2122 , HOH A:2123binding site for residue SO4 A 2001
2AC2SOFTWAREARG A:-13 , LEU A:130 , HOH A:2136 , HOH A:2288 , HOH A:2291 , HOH A:2375 , HOH A:2431 , HOH A:2568binding site for residue SO4 A 2002
3AC3SOFTWAREARG A:21 , ARG A:158 , PHE A:159 , ARG A:162 , HOH A:2312 , HOH A:2330 , HOH A:2400binding site for residue SO4 A 2003
4AC4SOFTWAREGLY A:69 , ARG A:287 , HOH A:2143 , HOH A:2153 , HOH A:2190 , HOH A:2192 , HOH A:2306binding site for residue SO4 A 2004
5AC5SOFTWAREGLU A:-7 , PRO A:-8 , LYS A:173 , HOH A:2101 , HOH A:2105 , HOH A:2141 , HOH A:2142binding site for residue SO4 A 2005
6AC6SOFTWAREARG A:139 , SER A:168 , ARG A:169 , SER A:170 , HOH A:2514binding site for residue GOL A 2006

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WBY)

(-) 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    
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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:372
                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhh.....eeeeeee.hhhhhhhhhhhhhh..eeee....eeeeee..eeeeeee......hhhhhhhh..hhhhh.eee........ee...hhhhhhhhhee.....hhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhhh......hhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh..hhhhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4wby A -13 RKIKVPENIEEIAREVGQIAKEMGLRAYIVGGVVRDILLGKEVWDVDFVVEGNAIELAKELARRHGVNVHPFPEFGTAHLKIGKLKLEFATARREPASLKEDLIRRDFTINAMAISVNLEDYGTLIDYFGGLRDLKDKVIRVLHPVSFIEDPVRILRALRFAGRLNFKLSRSTEKLLKQAVNLGLLKEAPRGRLINEIKLALREDRFLEILELYRKYRVLEEIIEGFQWNEKVLQKLYALRKVVDWHALEFSEERIDYGWLYLLILISNLDYERGKHFLEEMSAPSWVRETYKFMKFKLGSLKEELKKAKENYEVYRLLKPLHTSVLLLLMLEEELKEKIKLYLEKLRKVKGLKGKELGERIEELKREIMNK 382
                                    -4         6        16        26        36        46        56        66        76    ||  98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348||     370       380  
                                                                                                                         81|                                                                                                                                                                                                                                                            349|                    
                                                                                                                          94                                                                                                                                                                                                                                                             362
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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 4WBY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  O66728_AQUAE | O66728
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 Related Entries

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

UniProtKB/TrEMBL
        O66728_AQUAE | O66728: 1vfg 4wbz 4wc0 4wc1 4wc2 4wc3 4wc4 4wc5 4wc6 4wc7 4x0a 4x0b

(-) Related Entries Specified in the PDB File

1vfg 1VFG CONTAINTS THE SAME PROTEIN COMPLEXED WITH TRNA.
4wbz
4wc0
4wc1
4wc2
4wc3
4wc4
4wc5
4wc6
4wc7