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2ZBK
Biol. Unit 1
Info
Asym.Unit (561 KB)
Biol.Unit 1 (277 KB)
Biol.Unit 2 (277 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF AN INTACT TYPE II DNA TOPOISOMERASE: INSIGHTS INTO DNA TRANSFER MECHANISMS
Authors
:
M. Graille, L. Cladiere, D. Durand, F. Lecointe, P. Forterre, H. Van Tilbeurgh, Paris-Sud Yeast Structural Genomics (Ysg)
Date
:
22 Oct 07 (Deposition) - 12 Feb 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.56
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Dna Topoisomerase, Dna Binding Protein, Decatenation, Atpase, Drug Design, Dna-Binding, Magnesium, Metal-Binding, Atp-Binding, Nucleotide-Binding, Structural Genomics, Paris- Sud Yeast Structural Genomics, Ysg
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Graille, D. Durand, F. Lecointe, D. Gadelle, S. Quevillon-Cheruel, P. Vachette, P. Forterre, H. Van Tilbeurgh
Crystal Structure Of An Intact Type Ii Dna Topoisomerase: Insights Into Dna Transfer Mechanisms
Structure V. 16 360 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: RADICICOL (RDCa)
1b: RADICICOL (RDCb)
1c: RADICICOL (RDCc)
1d: RADICICOL (RDCd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
RDC
2
Ligand/Ion
RADICICOL
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU B:39 , SER B:43 , ALA B:46 , ASP B:76 , GLY B:80 , ILE B:81 , VAL B:112 , THR B:170 , VAL B:172
BINDING SITE FOR RESIDUE RDC B 531
2
AC2
SOFTWARE
LEU D:39 , ASN D:42 , SER D:43 , ASP D:45 , ALA D:46 , ASP D:76 , GLY D:80 , VAL D:112 , THR D:170
BINDING SITE FOR RESIDUE RDC D 531
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(5, 20)
Info
all CATH domains
1a: CATH_2zbkB01 (B:14-229)
1b: CATH_2zbkD01 (D:14-229)
1c: CATH_2zbkF01 (F:14-229)
1d: CATH_2zbkH01 (H:14-229)
2a: CATH_2zbkB03 (B:308-519)
2b: CATH_2zbkD03 (D:308-519)
2c: CATH_2zbkF03 (F:308-519)
2d: CATH_2zbkH03 (H:308-519)
3a: CATH_2zbkA02 (A:159-389)
3b: CATH_2zbkC02 (C:159-389)
3c: CATH_2zbkE02 (E:159-389)
3d: CATH_2zbkG02 (G:159-389)
4a: CATH_2zbkA01 (A:10-158)
4b: CATH_2zbkC01 (C:10-158)
4c: CATH_2zbkE01 (E:10-158)
4d: CATH_2zbkG01 (G:10-158)
5a: CATH_2zbkB02 (B:230-307)
5b: CATH_2zbkD02 (D:230-307)
5c: CATH_2zbkF02 (F:230-307)
5d: CATH_2zbkH02 (H:230-307)
View:
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(
)
(
)
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Heat Shock Protein 90
(209)
Homologous Superfamily
:
[code=3.30.565.10, no name defined]
(205)
Archaea (Sulfolobus shibatae)
(1)
1a
2zbkB01
B:14-229
1b
2zbkD01
D:14-229
1c
2zbkF01
F:14-229
1d
2zbkH01
H:14-229
Topology
:
Ribosomal Protein S5; domain 2
(189)
Homologous Superfamily
:
[code=3.30.230.10, no name defined]
(170)
Archaea (Sulfolobus shibatae)
(1)
2a
2zbkB03
B:308-519
2b
2zbkD03
D:308-519
2c
2zbkF03
F:308-519
2d
2zbkH03
H:308-519
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Dna Topoisomerase Vi A Subunit; Chain: A, domain 2
(11)
Homologous Superfamily
:
[code=3.40.1360.10, no name defined]
(9)
Archaea (Sulfolobus shibatae)
(1)
3a
2zbkA02
A:159-389
3b
2zbkC02
C:159-389
3c
2zbkE02
E:159-389
3d
2zbkG02
G:159-389
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
Archaea (Sulfolobus shibatae)
(1)
4a
2zbkA01
A:10-158
4b
2zbkC01
C:10-158
4c
2zbkE01
E:10-158
4d
2zbkG01
G:10-158
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
[code=1.10.8.50, no name defined]
(26)
Archaea (Sulfolobus shibatae)
(1)
5a
2zbkB02
B:230-307
5b
2zbkD02
D:230-307
5c
2zbkF02
F:230-307
5d
2zbkH02
H:230-307
[
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]
Pfam Domains
(4, 16)
Info
all PFAM domains
1a: PFAM_FbpA_2zbkH01 (H:220-313)
1b: PFAM_FbpA_2zbkH02 (H:220-313)
1c: PFAM_FbpA_2zbkH03 (H:220-313)
1d: PFAM_FbpA_2zbkH04 (H:220-313)
2a: PFAM_HATPase_c_2zbkH05 (H:28-177)
2b: PFAM_HATPase_c_2zbkH06 (H:28-177)
2c: PFAM_HATPase_c_2zbkH07 (H:28-177)
2d: PFAM_HATPase_c_2zbkH08 (H:28-177)
3a: PFAM_Topo_VIb_trans_2zbkH09 (H:309-467)
3b: PFAM_Topo_VIb_trans_2zbkH10 (H:309-467)
3c: PFAM_Topo_VIb_trans_2zbkH11 (H:309-467)
3d: PFAM_Topo_VIb_trans_2zbkH12 (H:309-467)
4a: PFAM_TP6A_N_2zbkG01 (G:72-156)
4b: PFAM_TP6A_N_2zbkG02 (G:72-156)
4c: PFAM_TP6A_N_2zbkG03 (G:72-156)
4d: PFAM_TP6A_N_2zbkG04 (G:72-156)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
H2TH
(43)
Family
:
FbpA
(7)
Sulfolobus shibatae
(7)
1a
FbpA-2zbkH01
H:220-313
1b
FbpA-2zbkH02
H:220-313
1c
FbpA-2zbkH03
H:220-313
1d
FbpA-2zbkH04
H:220-313
Clan
:
His_Kinase_A
(147)
Family
:
HATPase_c
(132)
Sulfolobus shibatae
(7)
2a
HATPase_c-2zbkH05
H:28-177
2b
HATPase_c-2zbkH06
H:28-177
2c
HATPase_c-2zbkH07
H:28-177
2d
HATPase_c-2zbkH08
H:28-177
Clan
:
S5
(103)
Family
:
Topo-VIb_trans
(8)
Sulfolobus shibatae
(7)
3a
Topo-VIb_trans-2zbkH09
H:309-467
3b
Topo-VIb_trans-2zbkH10
H:309-467
3c
Topo-VIb_trans-2zbkH11
H:309-467
3d
Topo-VIb_trans-2zbkH12
H:309-467
Clan
:
no clan defined [family: TP6A_N]
(2)
Family
:
TP6A_N
(2)
Sulfolobus shibatae
(1)
4a
TP6A_N-2zbkG01
G:72-156
4b
TP6A_N-2zbkG02
G:72-156
4c
TP6A_N-2zbkG03
G:72-156
4d
TP6A_N-2zbkG04
G:72-156
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Asym.Unit (561 KB)
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Header - Biol.Unit 1
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