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(-) Description

Title :  STRUCTURE OF SOPB(155-323)-18MER DNA COMPLEX, I23 FORM
 
Authors :  M. A. Schumacher, K. Piro, W. Xu
Date :  15 Apr 10  (Deposition) - 05 May 10  (Release) - 21 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.86
Chains :  Asym. Unit :  B,P,T,U
Biol. Unit 1:  B,P,T,U  (1x)
Biol. Unit 2:  B (1x),P (1x),T (1x),U (1x)
Keywords :  Partition, F Plasmid, Sopb, Centromere, Dna Binding Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. A. Schumacher, K. M. Piro, W. Xu
Insight Into F Plasmid Dna Segregation Revealed By Structures Of Sopb And Sopb-Dna Complexes.
Nucleic Acids Res. V. 38 4514 2010
PubMed-ID: 20236989  |  Reference-DOI: 10.1093/NAR/GKQ161

(-) Compounds

Molecule 1 - DNA (5'- D(*CP*TP*GP*GP*GP*AP*CP*CP*AP*TP*GP*GP*TP*CP*CP*CP*AP*G)-3')
    ChainsU, T
    EngineeredYES
    Other DetailsTHE DNA WAS CHEMICALLY SYNTHESIZED.
    SyntheticYES
 
Molecule 2 - PROTEIN SOPB
    ChainsB, P
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET15B
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 155 TO 323
    GeneB, ECOK12F047, PLASMID, SOPB
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK-12
    SynonymPLASMID PARTITION PROTEIN B

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit BPTU
Biological Unit 1 (1x)BPTU
Biological Unit 2 (1x)B (1x)P (1x)T (1x)U (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 10)

Asymmetric Unit (1, 10)
No.NameCountTypeFull Name
1SO410Ligand/IonSULFATE ION
Biological Unit 1 (1, 10)
No.NameCountTypeFull Name
1SO410Ligand/IonSULFATE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1SO4-1Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS B:201 , LEU B:202 , GLN B:225 , PHE B:228 , GLU B:232BINDING SITE FOR RESIDUE SO4 B 835
02AC2SOFTWAREARG B:219 , DC U:7BINDING SITE FOR RESIDUE SO4 B 836
03AC3SOFTWAREPRO P:203 , LYS P:204 , LYS P:236BINDING SITE FOR RESIDUE SO4 P 844
04AC4SOFTWAREARG P:219 , DC T:7BINDING SITE FOR RESIDUE SO4 P 846
05AC5SOFTWARELYS P:266 , THR P:267 , SER P:268BINDING SITE FOR RESIDUE SO4 P 849
06AC6SOFTWARESER P:189 , ARG P:190 , DC U:15BINDING SITE FOR RESIDUE SO4 P 945
07AC7SOFTWARESER B:189 , ARG B:190 , DC T:15BINDING SITE FOR RESIDUE SO4 B 936
08AC8SOFTWARELEU P:209 , PHE P:210 , SER P:211 , GLU P:215 , PHE P:252 , GLU P:253 , ALA P:254BINDING SITE FOR RESIDUE SO4 P 344
09AC9SOFTWARELYS P:201 , LEU P:202 , PHE P:228 , GLU P:232BINDING SITE FOR RESIDUE SO4 P 845
10BC1SOFTWAREPRO B:203 , LYS B:204 , SER B:205BINDING SITE FOR RESIDUE SO4 B 324

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3MKY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3MKY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MKY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3MKY)

(-) Exons   (0, 0)

(no "Exon" information available for 3MKY)

(-) 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 B from PDB  Type:PROTEIN  Length:115
 aligned with SOPB_ECOLI | P62558 from UniProtKB/Swiss-Prot  Length:323

    Alignment length:115
                                   166       176       186       196       206       216       226       236       246       256       266     
           SOPB_ECOLI   157 PTSAYERGQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGDALQKAFTDKEELLKQQASNLHEQKKAGVIFEAEEVITLLTSVLKTSSAS 271
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 3mky B 157 PTSAYERGQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGDALQKAFTDKEELLKQQASNLHEQKKAGVIFEADEVITLLTSVLKTSSAS 271
                                   166       176       186       196       206       216       226       236       246       256       266     

Chain P from PDB  Type:PROTEIN  Length:114
 aligned with SOPB_ECOLI | P62558 from UniProtKB/Swiss-Prot  Length:323

    Alignment length:114
                                   166       176       186       196       206       216       226       236       246       256       266    
           SOPB_ECOLI   157 PTSAYERGQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGDALQKAFTDKEELLKQQASNLHEQKKAGVIFEAEEVITLLTSVLKTSSA 270
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 3mky P 157 PTSAYERGQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGDALQKAFTDKEELLKQQASNLHEQKKAGVIFEADEVITLLTSVLKTSSA 270
                                   166       176       186       196       206       216       226       236       246       256       266    

Chain T from PDB  Type:DNA  Length:18
                                                  
                 3mky T   1 CTGGGACCATGGTCCCAG  18
                                    10        

Chain U from PDB  Type:DNA  Length:18
                                                  
                 3mky U   1 CTGGGACCATGGTCCCAG  18
                                    10        

   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 3MKY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MKY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3MKY)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain B,P   (SOPB_ECOLI | P62558)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0030541    plasmid partitioning    Any process in which plasmids are segregated or distributed into daughter cells upon cell division.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SOPB_ECOLI | P625583kz5 3mkw 3mkz

(-) Related Entries Specified in the PDB File

3mkw SOPB(155-272)-18MER,I23 CRYSTAL FORM
3mkz SOPB(155-272)-18MER COMPLEX, P21 FORM