1BM9 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   REPLICATION TERMINATOR PROTEIN FROM BACILLUS SUBTILIS

Authors :   D. E. Bussiere, D. Bastia, S. White

Date :   29 Jul 98 (Deposition) - 06 Jan 99 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (2x)
Biol. Unit 2: B  (2x)

Keywords :   Dna-Binding Protein, Contrahelicase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. E. Bussiere, D. Bastia, S. W. White
Crystal Structure Of The Replication Terminator Protein Fro B. Subtilis At 2. 6 A.
Cell(Cambridge, Mass. ) V. 80 651 1995
PubMed-ID: 7867072 | Reference-DOI: 10.1016/0092-8674(95)90519-7

Molecule 1 - REPLICATION TERMINATOR PROTEIN
	Cell Line	:	BL21
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Gene	:	RTP
	Expression System Plasmid	:	PET-13A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	T7
	Expression System Vector Type	:	VIRUS
	Gene	:	RTP
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Synonym	:	RTP, TER

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1BM9)

(no "Site" information available for 1BM9)

(no "SS Bond" information available for 1BM9)

(no "Cis Peptide Bond" information available for 1BM9)

(no "SAP(SNP)/Variant" information available for 1BM9)

(no "PROSITE Motif" information available for 1BM9)

(no "Exon" information available for 1BM9)

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:120
 aligned with RTP_BACPZ | E0TY12 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    12        22        32        42        52        62        72        82        92       102       112       122
            RTP_BACPZ     3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1bm9a_ A: Replication terminator protein (RTP)                                                                          SCOP domains
               CATH domains 1bm9A00 A:3-122 'winged helix' repressor DNA binding domain                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh........hhhhhhhhh........hhhhhhhhhhhhh...eeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bm9 A   3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
                                    12        22        32        42        52        62        72        82        92       102       112       122

Chain A from PDB  Type:PROTEIN  Length:120
 aligned with RTP_BACSU | P0CI76 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    12        22        32        42        52        62        72        82        92       102       112       122
            RTP_BACSU     3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1bm9a_ A: Replication terminator protein (RTP)                                                                          SCOP domains
               CATH domains 1bm9A00 A:3-122 'winged helix' repressor DNA binding domain                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh........hhhhhhhhh........hhhhhhhhhhhhh...eeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bm9 A   3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
                                    12        22        32        42        52        62        72        82        92       102       112       122

Chain B from PDB  Type:PROTEIN  Length:120
 aligned with RTP_BACPZ | E0TY12 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    12        22        32        42        52        62        72        82        92       102       112       122
            RTP_BACPZ     3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1bm9b_ B: Replication terminator protein (RTP)                                                                          SCOP domains
               CATH domains 1bm9B00 B:3-122 'winged helix' repressor DNA binding domain                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh........hhhhhhhhh........hhhhhhhhhhhhh...eeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bm9 B   3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
                                    12        22        32        42        52        62        72        82        92       102       112       122

Chain B from PDB  Type:PROTEIN  Length:120
 aligned with RTP_BACSU | P0CI76 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    12        22        32        42        52        62        72        82        92       102       112       122
            RTP_BACSU     3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
               SCOP domains d1bm9b_ B: Replication terminator protein (RTP)                                                                          SCOP domains
               CATH domains 1bm9B00 B:3-122 'winged helix' repressor DNA binding domain                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh........hhhhhhhhh........hhhhhhhhhhhhh...eeeeeee.......eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 1bm9 B   3 EEKRSSTGFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGILKQIKVKKEGAKLQEVVLYQFKDYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122
                                    12        22        32        42        52        62        72        82        92       102       112       122

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ 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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

)

Organisms( (-)

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Class: All alpha proteins (14657)

Fold: DNA/RNA-binding 3-helical bundle (1299)

Superfamily: Winged helix DNA-binding domain (576)

Family: Replication terminator protein (RTP) (7)

Protein domain: Replication terminator protein (RTP) (7)

Bacillus subtilis [TaxId: 1423] (7)

1a	d1bm9a_	A:
1b	d1bm9b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Arc Repressor Mutant, subunit A (1030)

Homologous Superfamily: 'winged helix' repressor DNA binding domain (507)

Bacillus subtilis. Organism_taxid: 1423. Cell_line: bl21. (1)

1a	1bm9A00	A:3-122
1b	1bm9B00	B:3-122

(no "Pfam Domain" information available for 1BM9)

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.

Asymmetric Unit
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	Sites
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	Cis Peptide Bonds
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Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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	1bm9
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	RTP_BACPZ \| E0TY12
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	RTP_BACSU \| P0CI76
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	RTP_BACPZ \| E0TY12
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	RTP_BACSU \| P0CI76
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UniProtKB/Swiss-Prot
	RTP_BACPZ \| E0TY12	:	1f4k 1j0r 2dpd 2dpu 2dqr 2efw
	RTP_BACSU \| P0CI76	:	1f4k 1j0r 2dpd 2dpu 2dqr 2efw

(no "Related Entries Specified in the PDB File" available for 1BM9)

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Ligands, Modified Residues, Ions (0, 0)

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