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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MTERF1 Y288A SUBSTITUTION BOUND TO THE TERMINATION SEQUENCE.
 
Authors :  J. Byrnes, K. Hauser, L. Norona, E. Mejia, C. Simmerling, M. Garcia-Dia
Date :  18 Jul 15  (Deposition) - 25 Nov 15  (Release) - 15 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym./Biol. Unit :  D,E,O
Keywords :  Protein-Dna, Transcription Factor, Mitochondria, Termination, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Byrnes, K. Hauser, L. Norona, E. Mejia, C. Simmerling, M. Garcia-Diaz
Base Flipping By Mterf1 Can Accommodate Multiple Conformations And Occurs In A Stepwise Fashion.
J. Mol. Biol. V. 428 2542 2016
PubMed-ID: 26523681  |  Reference-DOI: 10.1016/J.JMB.2015.10.021
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTION TERMINATION FACTOR 1, MITOCHONDRIAL
    Chains: O
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTEV-HMBP3
    Expression System Strain: ARCTIC EXPRESS DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MTERF1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CDNA FLJ51270,HIGHLY SIMILAR TO TRANSCRIPTION TERMINATION FACTOR,MITOCHONDRIAL
 
Molecule 2 - DNA (5'- D(*AP*TP*TP*AP*CP*CP*GP*GP*GP*CP*TP*CP*TP*GP*CP*CP*AP*TP*CP*TP*TP*A)- 3')
    Chains: D
    Engineered: YES
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*TP*AP*AP*GP*AP*TP*GP*GP*CP*AP*GP*AP*GP*CP*CP*CP*GP*GP*TP*AP*AP*T)- 3')
    Chains: E
    Engineered: YES
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : DEO

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION

(-) Sites  (0, 0)

(no "Site" information available for 5CO0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CO0)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asn O:264 -Leu O:265

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CO0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CO0)

(-) Exons   (0, 0)

(no "Exon" information available for 5CO0)

(-) 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 D from PDB  Type:DNA  Length:22
                                                      
                 5co0 D   1 ATTACCGGGCTCTGCCATCTTA  22
                                    10        20  


Chain E from PDB  Type:DNA  Length:22
                                                      
                 5co0 E   1 TAAGATGGCAGAGCCCGGTAAT  22
                                    10        20  


Chain O from PDB  Type:PROTEIN  Length:324
                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5co0 O  73 EDLLKNLLTMGVDIDMARKRQPGVFHRMITNEQDLKMFLLSKGASKEVIASIISRYPRAITRTPENLSKRWDLWRKIVTSDLEIVNILERSPESFFRSNNNLNLENNIKFLYSVGLTRKCLCRLLTNAPRTFSNSLDLNKQMVEFLQAAGLSLGHNDPADFVRKIIFKNPFILIQSTKRVKANIEFLRSTFNLNSEELLVLICGPGAEILDLSNDAARRSYANIKEKLFSLGCTEEEVQKFVLSYPDVIFLAEKKFNDKIDCLMEENISISQIIENPRVLDSSISTLKSRIKELVNAGCNLSTLNITLLSWSKKRYEAKLKKLS 396
                                    82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392
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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 5CO0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CO0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CO0)

(-) Gene Ontology  (12, 15)

Asymmetric/Biological Unit(hide GO term definitions)

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    Asn O:264 - Leu O:265   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        B4DPR9_HUMAN | B4DPR9: 5cky 5crj 5crk
        MTEF1_HUMAN | Q99551: 3mva 3mvb 3n6s 3n7q 5cky 5crj 5crk

(-) Related Entries Specified in the PDB File

3mva 3mvb 5cky