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(-) Description

Title :  THE COMPLEX OF SPO0J AND PARS DNA IN CHROMOSOMAL PARTITION SYSTEM
 
Authors :  B. W. Chen, C. H. Chu, J. Y. Tung, C. E. Hsu, C. D. Hsiao, Y. J. Sun
Date :  19 May 14  (Deposition) - 13 May 15  (Release) - 13 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  A,B,C,D,W,X,Y,Z
Biol. Unit 1:  A,C,W,X  (1x)
Biol. Unit 2:  B,D,Y,Z  (1x)
Keywords :  Dna Binding Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. W. Chen, M. -H. Lin, C. -H. Chu, C. E. Hsu, Y. J. Sun
Crystal Structure Of The Spo0J-Pars Complex: Insights Into Parb Spreading
Proc. Natl. Acad. Sci. Usa 2015
PubMed: search

(-) Compounds

Molecule 1 - PROBABLE CHROMOSOME-PARTITIONING PROTEIN PARB
    Atcc: 700392
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: SG13009
    Expression System Taxid: 562
    Expression System Vector: PQE30
    Expression System Vector Type: PLASMID
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 85962
    Strain: 26695
    Synonym: SPO0J
 
Molecule 2 - DNA
    Chains: W, Z
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synthetic: YES
 
Molecule 3 - DNA
    Chains: X, Y
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDWXYZ
Biological Unit 1 (1x): A C WX  
Biological Unit 2 (1x):  B D  YZ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:183 , HIS A:188 , ILE A:207 , LYS A:211 , LEU A:212BINDING SITE FOR RESIDUE SO4 A1227
2AC2SOFTWAREDC W:10 , DA W:11 , HOH W:2016 , DG X:15 , DG X:16 , DA X:17BINDING SITE FOR RESIDUE SO4 W1025
3AC3SOFTWARELYS B:183 , HIS B:188 , ILE B:207 , LYS B:211 , LEU B:212BINDING SITE FOR RESIDUE SO4 B1228
4AC4SOFTWAREILE C:123 , GLN C:124 , ARG C:125 , VAL C:155 , LYS C:157BINDING SITE FOR RESIDUE SO4 C1228
5AC5SOFTWAREHOH A:2053BINDING SITE FOR RESIDUE SO4 A1228
6AC6SOFTWARELEU B:84 , PRO D:100BINDING SITE FOR RESIDUE SO4 D1227

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4UMK)

(-) 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:172
                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhh........eeee....eeee.hhhhhhhhhhh..........eeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4umk A  55 DSLEELAQSIKEHGLLQPVLVVSENGRYHLIAGERRLRASKLAKMPTIKAIVVDIEQEKMREVALIENIQREDLNPLELARSYKELLESYQMTQEELSKIVKKSRAHVANIMRLLTLSSKVQNALLEEKITSGHAKVLVGLDGEKQELILNSIIGQKLSVRQTEDLARDFKI 226
                                    64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224  


Chain B from PDB  Type:PROTEIN  Length:183
                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhh..............eeee..eeee.hhhhhhhhhh...........eeehhhhhhhhhhhhh.....hhhhhhhhhhhh......hhhhhhhhh..hhhhhhhhhhh...hhhhhhhhh....hhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4umk B  45 PYQPRKVFSEDSLEELAQSIKEHGLLQPVLVVSENGRYHLIAGERRLRASKLAKMPTIKAIVVDIEQEKMREVALIENIQREDLNPLELARSYKELLESYQMTQEELSKIVKKSRAHVANIMRLLTLSSKVQNALLEEKITSGHAKVLVGLDGEKQELILNSIIGQKLSVRQTEDLARDFKIN 227
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224   


Chain C from PDB  Type:PROTEIN  Length:193
                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh....................hhhhhh........................................hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhhhhh....hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4umk C  35 ELGIDEVMPNPYQPRKVFSEDSLEELAQSIKEHGLLQPVLVVSENGRYHLIAGERRLRASKLAKMPTIKAIVVDIEQEKMREVALIENIQREDLNPLELARSYKELLESYQMTQEELSKIVKKSRAHVANIMRLLTLSSKVQNALLEEKITSGHAKVLVGLDGEKQELILNSIIGQKLSVRQTEDLARDFKIN 227
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224   


Chain D from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhh.......................hhhhhhh..............hhhhhhhhhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4umk D  51 VFSEDSLEELAQSIKEHGLLQPVLVVSENGRYHLIAGERRLRASKLAKMPTIKAIVVDIEQEKMREVALIENIQREDLNPLELARSYKELLESYQMTQEELSKIVKKSRAHVANIMRLLTLSSKVQNALLEEKITSGHAKVLVGLDGEKQELILNSIIGQKLSVRQTEDLARDFKI 226
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      


Chain W from PDB  Type:DNA  Length:24
                                                        
                 4umk W   1 AGGGTGTTCCACGTGAAACAGGGA  24
                                    10        20    


Chain X from PDB  Type:DNA  Length:24
                                                        
                 4umk X   1 TCCCTGTTTCACGTGGAACACCCT  24
                                    10        20    


Chain Y from PDB  Type:DNA  Length:24
                                                        
                 4umk Y   1 TCCCTGTTTCACGTGGAACACCCT  24
                                    10        20    


Chain Z from PDB  Type:DNA  Length:24
                                                        
                 4umk Z   1 AGGGTGTTCCACGTGAAACAGGGA  24
                                    10        20
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4UMK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

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