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(-) Description

Title :  ESCHERICHIA COLI REPLICATION TERMINATOR PROTEIN (TUS) COMPLEXED WITH DNA- LOCKED FORM
 
Authors :  A. J. Oakley, M. D. Mulcair, P. M. Schaeffer, N. E. Dixon
Date :  03 Nov 05  (Deposition) - 03 May 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Tus, Terminus Site, Protein-Dna Interaction, Replication Arrest, Replication-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. D. Mulcair, P. M. Schaeffer, A. J. Oakley, H. F. Cross, C. Neylon, T. M. Hill, N. E. Dixon
A Molecular Mousetrap Determines Polarity Of Termination Of Dna Replication In E. Coli.
Cell(Cambridge, Mass. ) V. 125 1309 2006
PubMed-ID: 16814717  |  Reference-DOI: 10.1016/J.CELL.2006.04.040

(-) Compounds

Molecule 1 - 5'-D(*T*TP*AP*GP*TP*TP*AP*CP*AP*AP*CP*AP*TP*AP*CP*T)-3'
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - 5'-D(*TP*G*AP*TP*AP*TP*GP*TP*TP*GP*TP*AP*AP*CP*TP*A)-3'
    Chains: C
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - DNA REPLICATION TERMINUS SITE-BINDING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: TERMINATION UTILIZATION SUBSTANCE
    Gene: TUS
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: TER PROTEIN, TER BINDING PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1IOD3Ligand/IonIODIDE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:224BINDING SITE FOR RESIDUE IOD A 1001
2AC2SOFTWAREHIS A:27 , GLN A:30 , ARG A:297BINDING SITE FOR RESIDUE IOD A 1002
3AC3SOFTWAREILE A:177 , ARG A:232BINDING SITE FOR RESIDUE IOD A 1003

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2EWJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2EWJ)

(-) 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:305
 aligned with TUS_ECOLI | P16525 from UniProtKB/Swiss-Prot  Length:309

    Alignment length:305
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304     
            TUS_ECOLI     5 DLVDRLNTTFRQMEQELAIFAAHLEQHKLLVARVFSLPEVKKEDEHNPLNRIEVKQHLGNDAQSLALRHFRHLFIQQQSENRSSKAAVRLPGVLCYQVDNLSQAALVSHIQHINKLKTTFEHIVTVESELPTAARFEWVHRHLPGLITLNAYRTLTVLHDPATLRFGWANKHIIKNLHRDEVLAQLEKSLKSPRSVAPWTREEWQRKLEREYQDIAALPQNAKLKIKRPVKVQPIARVWYKGDQKQVQHACPTPLIALINRDNGAGVPDVGELLNYDADNVQHRYKPQAQPLRLIIPRLHLYVAD 309
               SCOP domains d2ewja_ A: Replication terminator protein (Tus)                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 2ewjA01 A:5-173,A:236-288 Replication Terminator Protein (Tus), Chain A, domain 1                                                                                        2ewjA02 A:174-235,A:289-309                                   2ewjA01 A:5-173,A:236-288                            2ewjA02               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhh.....ee..eeeehhhhhhhhhhhh...hhhhh.............eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh...hhhhhhh...eee...eeeeeeeeeeeeeeehhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhh......eeeeeeeeeeeeeeee.......eeee....eeeeee.hhh....ee.....ee.hhh..........eeeeehhh.eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ewj A   5 DLVDRLNTTFRQMEQELAIFAAHLEQHKLLVARVFSLPEVKKEDEHNPLNRIEVKQHLGNDAQSLALRHFRHLFIQQQSENRSSKAAVRLPGVLCYQVDNLSQAALVSHIQHINKLKTTFEHIVTVESELPTAARFEWVHRHLPGLITLNAYRTLTVLHDPATLRFGWANKHIIKNLHRDEVLAQLEKSLKSPRSVAPWTREEWQRKLEREYQDIAALPQNAKLKIKRPVKVQPIARVWYKGDQKQVQHACPTPLIALINRDNGAGVPDVGELLNYDADNVQHRYKPQAQPLRLIIPRLHLYVAD 309
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304     


Chain B from PDB  Type:DNA  Length:15
                                               
                 2ewj B 311 TAGTTACAACATACT 325
                                   320     


Chain C from PDB  Type:DNA  Length:14
                                              
                 2ewj C 329 ATATGTTGTAACTA 342
                                   338
   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2EWJ)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TUS_ECOLI | P16525)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
biological process
    GO:0006260    DNA replication    The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
    GO:0006274    DNA replication termination    The process in which DNA replication at a replication fork ceases; occurs when the replication fork reaches a specific termination site or when two replication forks meet.
    GO:0071807    replication fork arrest involved in DNA replication termination    A replication fork arrest process that contributes to the termination of DNA replication.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  TUS_ECOLI | P16525
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 Related Entries

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

UniProtKB/Swiss-Prot
        TUS_ECOLI | P16525: 1ecr 1sut 2i05 2i06 4xr0 4xr1 4xr2 4xr3

(-) Related Entries Specified in the PDB File

1ecr ESCHERICHIA COLI REPLICATION TERMINATOR PROTEIN (TUS) COMPLEXED WITH DNA