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(-) Description

Title :  STRUCTURE OF A PARB-DNA COMPLEX REVEALS A DOUBLE B-BOX INTERACTION
 
Authors :  M. A. Schumacher, A. Mansoor, B. E. Funnell
Date :  08 Nov 06  (Deposition) - 20 Feb 07  (Release) - 09 Dec 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.35
Chains :  Asym./Biol. Unit :  A,B,E,U,W,Y
Keywords :  Partition, Segregation, Parb, Para, Cell Cycle/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Schumacher, A. Mansoor, B. E. Funnell
Structure Of A Four-Way Bridged Parb-Dna Complex Provides Insight Into P1 Segrosome Assembly.
J. Biol. Chem. V. 282 10456 2007
PubMed-ID: 17293348  |  Reference-DOI: 10.1074/JBC.M610603200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5'- D(*CP*GP*TP*GP*AP*AP*AP*TP*CP*GP*CP*CP*AP*CP*GP*A)-3'
    Chains: Y, E
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - 5'- D(*TP*CP*GP*TP*GP*GP*CP*GP*AP*TP*TP*TP*CP*AP*CP*G)-3'
    Chains: W, U
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - PARB
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 142-333
    Gene: PARB
    Organism Scientific: ENTEROBACTERIA PHAGE P1
    Organism Taxid: 10678

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABEUWY

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric/Biological Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2NTZ)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2NTZ)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:330 -Pro A:331

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2NTZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2NTZ)

(-) Exons   (0, 0)

(no "Exon" information available for 2NTZ)

(-) 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 A from PDB  Type:PROTEIN  Length:183
 aligned with Q38420_BPP1 | Q38420 from UniProtKB/TrEMBL  Length:333

    Alignment length:189
                                   153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323         
          Q38420_BPP1   144 QTALQHSIREIGLRLMRMKNDGMSQKDIAAKEGLSQAKVTRALQAASAPEELVALFPVQSELTFSDYKTLCAVGDEMGNKNLEFDQLIQNISPEINDILSIEEMAEDEVKNKILRLITKEASLLTDKGSKDKSVVTELWKFEDKDRFARKRVKGRAFSYEFNRLSKELQEELDRMIGHILRKSLDKKPK 332
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhh...--hhhhhhhhhhhhhhhh...........hhhhhhhhhh..hhhhhh.----...eee.........eeeee......eeeee..hhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntz A 144 QTALQHSIREIGLRLmRmKNDGmSQKDIAAKEGLSQAKVTRALQAASAPEELVALFPVQSELTFSDYKTLCAVGDEmGN--LEFDQLIQNISPEINDILSIEEmAEDEVKNKILRLITKEASLLTDK----KSVVTELWKFEDKDRFARKRVKGRAFSYEFNRLSKELQEELDRmIGHILRKSLDKKPK 332
                                   153     | 163  |    173       183       193       203       213      | |- |     233       243   |   253       263      |  - |     283       293       303       313    |  323         
                                         159-MSE  |                                                   220-MSE|                   247-MSE                270  275                                        318-MSE          
                                           161-MSE|                                                     222  |                                                                                                           
                                                166-MSE                                                    225                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:172
 aligned with Q38420_BPP1 | Q38420 from UniProtKB/TrEMBL  Length:333

    Alignment length:177
                                   159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       
          Q38420_BPP1   150 SIREIGLRLMRMKNDGMSQKDIAAKEGLSQAKVTRALQAASAPEELVALFPVQSELTFSDYKTLCAVGDEMGNKNLEFDQLIQNISPEINDILSIEEMAEDEVKNKILRLITKEASLLTDKGSKDKSVVTELWKFEDKDRFARKRVKGRAFSYEFNRLSKELQEELDRMIGHILRKS 326
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------ParB-2ntzB01 B:199-325                                                                                                         - Pfam domains (1)
           Pfam domains (2) -------------------------------------------------ParB-2ntzB02 B:199-325                                                                                                         - Pfam domains (2)
         Sec.struct. author hhhhhhhhhhh......hhhhhhhhh..hhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..-----..ee...........eeeeeee..eeeeeee..hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntz B 150 SIREIGLRLmRmKNDGmSQKDIAAKEGLSQAKVTRALQAASAPEELVALFPVQSELTFSDYKTLCAVGDEmGNKNLEFDQLIQNISPEINDILSIEEmAEDEVKNKILRLITKEASLLTD-----KSVVTELWKFEDKDRFARKRVKGRAFSYEFNRLSKELQEELDRmIGHILRKS 326
                                   159 |    |169       179       189       199       209       219|      229       239       249       259       269     | 279       289       299       309       319       
                                   159-MSE  |                                                   220-MSE                    247-MSE               269   275                                        318-MSE    
                                     161-MSE|                                                                                                                                                                
                                          166-MSE                                                                                                                                                            


Chain E from PDB  Type:DNA  Length:16
                                                
                 2ntz E  24 CGTGAAATCGCCACGA  39
                                    33      


Chain U from PDB  Type:DNA  Length:16
                                                
                 2ntz U   2 TCGTGGCGATTTCACG  17
                                    11      


Chain W from PDB  Type:DNA  Length:16
                                                
                 2ntz W   2 TCGTGGCGATTTCACG  17
                                    11      


Chain Y from PDB  Type:DNA  Length:16
                                                
                 2ntz Y  24 CGTGAAATCGCCACGA  39
                                    33
   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 2NTZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2NTZ)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: ParB] (2)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q38420_BPP1 | Q38420)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

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  Cis Peptide Bonds
    Lys A:330 - Pro A:331   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q38420_BPP1 | Q38420: 1zx4

(-) Related Entries Specified in the PDB File

1zx4 PARB-DNA