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Biol. Unit 2
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Asym.Unit (476 KB)
Biol.Unit 1 (160 KB)
Biol.Unit 2 (161 KB)
Biol.Unit 3 (157 KB)
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(1)
Title
:
STRUCTURE OF TOPOISOMERASE SUBUNIT
Authors
:
K. D. Corbett, J. M. Berger
Date
:
01 Oct 02 (Deposition) - 07 Jan 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Ghkl Atpase, Topoisomerase, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. D. Corbett, J. M. Berger
Structure Of The Topoisomerase Vi-B Subunit: Implications For Type Ii Topoisomerase Mechanism And Evolution
Embo J. V. 22 151 2003
[
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
1b: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPb)
1c: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPc)
1d: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPd)
1e: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPe)
1f: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPf)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
3a: SELENOMETHIONINE (MSEa)
3aa: SELENOMETHIONINE (MSEaa)
3ab: SELENOMETHIONINE (MSEab)
3ac: SELENOMETHIONINE (MSEac)
3ad: SELENOMETHIONINE (MSEad)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
3q: SELENOMETHIONINE (MSEq)
3r: SELENOMETHIONINE (MSEr)
3s: SELENOMETHIONINE (MSEs)
3t: SELENOMETHIONINE (MSEt)
3u: SELENOMETHIONINE (MSEu)
3v: SELENOMETHIONINE (MSEv)
3w: SELENOMETHIONINE (MSEw)
3x: SELENOMETHIONINE (MSEx)
3y: SELENOMETHIONINE (MSEy)
3z: SELENOMETHIONINE (MSEz)
4a: SODIUM ION (NAa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ANP
2
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
MSE
10
Mod. Amino Acid
SELENOMETHIONINE
4
NA
-1
Ligand/Ion
SODIUM ION
[
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]
Sites
(5, 5)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC7 (SOFTWARE)
4: BC1 (SOFTWARE)
5: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
ASN C:42 , ANP C:920 , HOH C:948 , HOH C:1048
BINDING SITE FOR RESIDUE MG C 501
2
AC4
SOFTWARE
ASN D:42 , ANP D:930 , HOH D:932 , HOH D:1045
BINDING SITE FOR RESIDUE MG D 501
3
AC7
SOFTWARE
VAL D:259 , PHE D:262 , ILE D:265 , HOH D:954
BINDING SITE FOR RESIDUE NA D 901
4
BC1
SOFTWARE
GLU C:38 , ASN C:42 , ALA C:46 , ASP C:76 , ILE C:81 , ALA C:89 , PHE C:90 , SER C:96 , SER C:97 , LYS C:98 , GLY C:106 , MSE C:107 , TYR C:108 , GLY C:109 , LEU C:110 , GLY C:111 , VAL C:112 , LYS C:113 , THR C:170 , LYS C:427 , MG C:501 , HOH C:924 , HOH C:931 , HOH C:948 , HOH C:980 , HOH C:982 , HOH C:1048 , PHE D:7
BINDING SITE FOR RESIDUE ANP C 920
5
BC2
SOFTWARE
PHE C:7 , GLU D:38 , ASN D:42 , ALA D:46 , ASP D:76 , ILE D:81 , ALA D:89 , SER D:96 , SER D:97 , LYS D:98 , GLY D:106 , MSE D:107 , TYR D:108 , GLY D:109 , LEU D:110 , GLY D:111 , VAL D:112 , LYS D:113 , LYS D:427 , MG D:501 , HOH D:932 , HOH D:934 , HOH D:938 , HOH D:940 , HOH D:943 , HOH D:1045
BINDING SITE FOR RESIDUE ANP D 930
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
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
(3, 18)
Info
All SCOP Domains
1a: SCOP_d1mx0a1 (A:229-306)
1b: SCOP_d1mx0b1 (B:229-306)
1c: SCOP_d1mx0c1 (C:229-306)
1d: SCOP_d1mx0d1 (D:229-306)
1e: SCOP_d1mx0e1 (E:229-306)
1f: SCOP_d1mx0f1 (F:229-306)
2a: SCOP_d1mx0a3 (A:4-228)
2b: SCOP_d1mx0b3 (B:4-228)
2c: SCOP_d1mx0c3 (C:4-228)
2d: SCOP_d1mx0d3 (D:4-228)
2e: SCOP_d1mx0e3 (E:4-228)
2f: SCOP_d1mx0f3 (F:4-228)
3a: SCOP_d1mx0a2 (A:307-467)
3b: SCOP_d1mx0b2 (B:307-458)
3c: SCOP_d1mx0c2 (C:307-469)
3d: SCOP_d1mx0d2 (D:307-464)
3e: SCOP_d1mx0e2 (E:307-461)
3f: SCOP_d1mx0f2 (F:307-463)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
S13-like H2TH domain
(119)
Superfamily
:
S13-like H2TH domain
(119)
Family
:
Topoisomerase VI-B subunit middle domain
(7)
Protein domain
:
Topoisomerase VI-B subunit middle domain
(7)
Sulfolobus shibatae [TaxId: 2286]
(7)
1a
d1mx0a1
A:229-306
1b
d1mx0b1
B:229-306
1c
d1mx0c1
C:229-306
1d
d1mx0d1
D:229-306
1e
d1mx0e1
E:229-306
1f
d1mx0f1
F:229-306
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
(364)
Superfamily
:
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
(364)
Family
:
DNA gyrase/MutL, N-terminal domain
(28)
Protein domain
:
Topoisomerase VI-B subunit
(7)
Sulfolobus shibatae [TaxId: 2286]
(7)
2a
d1mx0a3
A:4-228
2b
d1mx0b3
B:4-228
2c
d1mx0c3
C:4-228
2d
d1mx0d3
D:4-228
2e
d1mx0e3
E:4-228
2f
d1mx0f3
F:4-228
Fold
:
Ribosomal protein S5 domain 2-like
(306)
Superfamily
:
Ribosomal protein S5 domain 2-like
(306)
Family
:
DNA gyrase/MutL, second domain
(21)
Protein domain
:
Topoisomerase VI-B subunit
(7)
Sulfolobus shibatae [TaxId: 2286]
(7)
3a
d1mx0a2
A:307-467
3b
d1mx0b2
B:307-458
3c
d1mx0c2
C:307-469
3d
d1mx0d2
D:307-464
3e
d1mx0e2
E:307-461
3f
d1mx0f2
F:307-463
[
close SCOP info
]
CATH Domains
(3, 18)
Info
all CATH domains
1a: CATH_1mx0F01 (F:10-220)
1b: CATH_1mx0B01 (B:10-220)
1c: CATH_1mx0C01 (C:10-220)
1d: CATH_1mx0D01 (D:10-220)
1e: CATH_1mx0A01 (A:10-220)
1f: CATH_1mx0E01 (E:10-220)
2a: CATH_1mx0B03 (B:315-458)
2b: CATH_1mx0D03 (D:315-464)
2c: CATH_1mx0A03 (A:315-467)
2d: CATH_1mx0C03 (C:315-469)
2e: CATH_1mx0E03 (E:315-461)
2f: CATH_1mx0F03 (F:315-463)
3a: CATH_1mx0A02 (A:230-307)
3b: CATH_1mx0B02 (B:230-307)
3c: CATH_1mx0C02 (C:230-307)
3d: CATH_1mx0D02 (D:230-307)
3e: CATH_1mx0E02 (E:230-307)
3f: CATH_1mx0F02 (F:230-307)
View:
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)
(
)
Architectures
(
)
(
)
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)
Sulfolobus shibatae. Organism_taxid: 2286.
(7)
1a
1mx0F01
F:10-220
1b
1mx0B01
B:10-220
1c
1mx0C01
C:10-220
1d
1mx0D01
D:10-220
1e
1mx0A01
A:10-220
1f
1mx0E01
E:10-220
Topology
:
Ribosomal Protein S5; domain 2
(189)
Homologous Superfamily
:
[code=3.30.230.10, no name defined]
(170)
Sulfolobus shibatae. Organism_taxid: 2286.
(7)
2a
1mx0B03
B:315-458
2b
1mx0D03
D:315-464
2c
1mx0A03
A:315-467
2d
1mx0C03
C:315-469
2e
1mx0E03
E:315-461
2f
1mx0F03
F:315-463
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
[code=1.10.8.50, no name defined]
(26)
Sulfolobus shibatae. Organism_taxid: 2286.
(7)
3a
1mx0A02
A:230-307
3b
1mx0B02
B:230-307
3c
1mx0C02
C:230-307
3d
1mx0D02
D:230-307
3e
1mx0E02
E:230-307
3f
1mx0F02
F:230-307
[
close CATH info
]
Pfam Domains
(3, 18)
Info
all PFAM domains
1a: PFAM_FbpA_1mx0F01 (F:220-313)
1b: PFAM_FbpA_1mx0F02 (F:220-313)
1c: PFAM_FbpA_1mx0F03 (F:220-313)
1d: PFAM_FbpA_1mx0F04 (F:220-313)
1e: PFAM_FbpA_1mx0F05 (F:220-313)
1f: PFAM_FbpA_1mx0F06 (F:220-313)
2a: PFAM_HATPase_c_1mx0F07 (F:28-177)
2b: PFAM_HATPase_c_1mx0F08 (F:28-177)
2c: PFAM_HATPase_c_1mx0F09 (F:28-177)
2d: PFAM_HATPase_c_1mx0F10 (F:28-177)
2e: PFAM_HATPase_c_1mx0F11 (F:28-177)
2f: PFAM_HATPase_c_1mx0F12 (F:28-177)
3a: PFAM_Topo_VIb_trans_1mx0F13 (F:309-463)
3b: PFAM_Topo_VIb_trans_1mx0F14 (F:309-463)
3c: PFAM_Topo_VIb_trans_1mx0F15 (F:309-463)
3d: PFAM_Topo_VIb_trans_1mx0F16 (F:309-463)
3e: PFAM_Topo_VIb_trans_1mx0F17 (F:309-463)
3f: PFAM_Topo_VIb_trans_1mx0F18 (F:309-463)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
H2TH
(43)
Family
:
FbpA
(7)
Sulfolobus shibatae
(7)
1a
FbpA-1mx0F01
F:220-313
1b
FbpA-1mx0F02
F:220-313
1c
FbpA-1mx0F03
F:220-313
1d
FbpA-1mx0F04
F:220-313
1e
FbpA-1mx0F05
F:220-313
1f
FbpA-1mx0F06
F:220-313
Clan
:
His_Kinase_A
(147)
Family
:
HATPase_c
(132)
Sulfolobus shibatae
(7)
2a
HATPase_c-1mx0F07
F:28-177
2b
HATPase_c-1mx0F08
F:28-177
2c
HATPase_c-1mx0F09
F:28-177
2d
HATPase_c-1mx0F10
F:28-177
2e
HATPase_c-1mx0F11
F:28-177
2f
HATPase_c-1mx0F12
F:28-177
Clan
:
S5
(103)
Family
:
Topo-VIb_trans
(8)
Sulfolobus shibatae
(7)
3a
Topo-VIb_trans-1mx0F13
F:309-463
3b
Topo-VIb_trans-1mx0F14
F:309-463
3c
Topo-VIb_trans-1mx0F15
F:309-463
3d
Topo-VIb_trans-1mx0F16
F:309-463
3e
Topo-VIb_trans-1mx0F17
F:309-463
3f
Topo-VIb_trans-1mx0F18
F:309-463
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Asym.Unit (476 KB)
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