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(-) Description

Title :  CRYSTAL STRUCTURE OF THE REPLICATION TERMINATION PROTEIN MUTANT C110S
 
Authors :  J. P. Vivian, A. F. Hastings, I. G. Duggin, R. G. Wake, M. C. J. Wilce, J. A. Wilce
Date :  20 Nov 02  (Deposition) - 20 Nov 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Winged-Helix, Dna-Binding Protein, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. P. Vivian, A. F. Hastings, I. G. Duggin, R. G. Wake, M. C. J. Wilce, J. A. Wilce
The Impact Of Single Cysteine Residue Mutations On The Replication Terminator Protein
Biochem. Biophys. Res. Commun. V. 310 1096 2003
PubMed-ID: 14559228  |  Reference-DOI: 10.1016/J.BBRC.2003.09.126
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - REPLICATION TERMINATION PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-3
    Expression System Strain: BL21/PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: REPLICATION TERMINATOR PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1J0R)

(-) Sites  (0, 0)

(no "Site" information available for 1J0R)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1J0R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J0R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1J0R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1J0R)

(-) Exons   (0, 0)

(no "Exon" information available for 1J0R)

(-) 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:114
 aligned with RTP_BACPZ | E0TY12 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:114
                                    18        28        38        48        58        68        78        88        98       108       118    
            RTP_BACPZ     9 TGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1j0ra_ A: Replication terminator protein (RTP)                                                                    SCOP domains
               CATH domains 1j0rA00 A:9-122 'winged helix' repressor DNA binding domain                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh......hhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeeee.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1j0r A   9 TGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRSKKLIEKALSDNF 122
                                    18        28        38        48        58        68        78        88        98       108       118    


Chain A from PDB  Type:PROTEIN  Length:114
 aligned with RTP_BACSU | P0CI76 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:114
                                    18        28        38        48        58        68        78        88        98       108       118    
            RTP_BACSU     9 TGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1j0ra_ A: Replication terminator protein (RTP)                                                                    SCOP domains
               CATH domains 1j0rA00 A:9-122 'winged helix' repressor DNA binding domain                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh......hhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeeee.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1j0r A   9 TGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRSKKLIEKALSDNF 122
                                    18        28        38        48        58        68        78        88        98       108       118    


Chain B from PDB  Type:PROTEIN  Length:117
 aligned with RTP_BACPZ | E0TY12 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:117
                                    15        25        35        45        55        65        75        85        95       105       115       
            RTP_BACPZ     6 RSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1j0rb_ B: Replication terminator protein (RTP)                                                                       SCOP domains
               CATH domains 1j0rB00 B:6-122 'winged helix' repressor DNA binding domain                                                           CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh......hhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeeee.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1j0r B   6 RSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRSKKLIEKALSDNF 122
                                    15        25        35        45        55        65        75        85        95       105       115       


Chain B from PDB  Type:PROTEIN  Length:117
 aligned with RTP_BACSU | P0CI76 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:117
                                    15        25        35        45        55        65        75        85        95       105       115       
            RTP_BACSU     6 RSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1j0rb_ B: Replication terminator protein (RTP)                                                                       SCOP domains
               CATH domains 1j0rB00 B:6-122 'winged helix' repressor DNA binding domain                                                           CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh......hhhhhhhhhhh......hhhhhhhhhhhhhhh..eeeeeee.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1j0r B   6 RSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRSKKLIEKALSDNF 122
                                    15        25        35        45        55        65        75        85        95       105       115
   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  (1, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J0R)

(-) Gene Ontology  (2, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (RTP_BACSU | P0CI76)
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: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.

Chain A,B   (RTP_BACPZ | E0TY12)
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: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.

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  RTP_BACSU | P0CI76
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 Related Entries

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

UniProtKB/Swiss-Prot
        RTP_BACPZ | E0TY12: 1bm9 1f4k 2dpd 2dpu 2dqr 2efw
        RTP_BACSU | P0CI76: 1bm9 1f4k 2dpd 2dpu 2dqr 2efw

(-) Related Entries Specified in the PDB File

1bm9 1BM9 IS THE WILD-TYPE STRUCTURE
1f4k 1F4K IS THE SAME PROTEIN IN COMPLEX WITH SYMMETRICAL 21MER DNA