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1TVK
Asym. Unit
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Asym.Unit (124 KB)
Biol.Unit 1 (115 KB)
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(1)
Title
:
THE BINDING MODE OF EPOTHILONE A ON A,B-TUBULIN BY ELECTRON CRYSTALLOGRAPHY
Authors
:
J. H. Nettles, H. Li, B. Cornett, J. M. Krahn, J. P. Snyder, K. H. Downing
Date
:
29 Jun 04 (Deposition) - 14 Sep 04 (Release) - 24 Feb 09 (Revision)
Method
:
ELECTRON CRYSTALLOGRAPHY
Resolution
:
2.89
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Epothilone; Taxol; Ligand Interactions, Cell Cycle, Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. H. Nettles, H. Li, B. Cornett, J. M. Krahn, J. P. Snyder, K. H. Downing
The Binding Mode Of Epothilone A On Alpha, Beta-Tubulin By Electron Crystallography
Science V. 305 866 2004
(for further references see the
PDB file header
)
[
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]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: EPOTHILONE A (EPa)
2a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
3a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EP
1
Ligand/Ion
EPOTHILONE A
2
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
3
GTP
1
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
[
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]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU B:215 , GLY B:223 , HIS B:227 , PRO B:272 , THR B:274 , ARG B:276 , ARG B:282 , GLY B:360 , LEU B:361
BINDING SITE FOR RESIDUE EP B 1001
2
AC2
SOFTWARE
CYS B:12 , GLN B:15 , SER B:138 , GLY B:141 , GLY B:142 , THR B:143 , GLY B:144 , ASP B:177 , THR B:178 , ASN B:204 , TYR B:222 , ASN B:226
BINDING SITE FOR RESIDUE GDP B 1500
3
AC3
SOFTWARE
GLY A:10 , GLN A:11 , ALA A:12 , GLN A:15 , ALA A:99 , SER A:140 , GLY A:144 , THR A:145 , GLY A:146 , THR A:179 , ASN A:206 , TYR A:224 , ASN A:228 , LEU B:246
BINDING SITE FOR RESIDUE GTP A 9500
[
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]
SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_TBB_PIG_001 (H37V, chain B, )
2: VAR_TBB_PIG_002 (N48S, chain B, )
3: VAR_TBA1A_PIG_001 (G265G, chain A, )
4: VAR_TBA1A_PIG_002 (G265I, chain A, )
5: VAR_TBA1A_PIG_003 (H266I, chain A, )
6: VAR_TBB_PIG_003 (S275A, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_TBB_PIG_001
*
H
37
V
TBB_PIG
---
---
B
H
37
V
2
UniProt
VAR_TBB_PIG_002
*
N
48
S
TBB_PIG
---
---
B
N
48
S
3
UniProt
VAR_TBA1A_PIG_001
*
A
265
G
TBA1A_PIG
---
---
A
G
265
G
4
UniProt
VAR_TBA1A_PIG_002
*
A
265
I
TBA1A_PIG
---
---
A
G
265
I
5
UniProt
VAR_TBA1A_PIG_003
*
H
266
I
TBA1A_PIG
---
---
A
H
266
I
6
UniProt
VAR_TBB_PIG_003
*
S
275
A
TBB_PIG
---
---
B
S
275
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: TUBULIN (B:140-146,B:140-146,A:142-148,A:14...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TUBULIN
PS00227
Tubulin subunits alpha, beta, and gamma signature.
TBB2B_BOVIN
140-146
1
B:140-146
TBB_PIG
140-146
1
B:140-146
TBA1A_PIG
142-148
1
A:142-148
TBA1D_BOVIN
142-148
1
A:142-148
[
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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.
SCOP Domains
(3, 4)
Info
All SCOP Domains
1a: SCOP_d1tvka2 (A:246-439)
2a: SCOP_d1tvkb2 (B:246-427)
3a: SCOP_d1tvka1 (A:2-245)
3b: SCOP_d1tvkb1 (B:2-245)
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(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Bacillus chorismate mutase-like
(324)
Superfamily
:
Tubulin C-terminal domain-like
(76)
Family
:
Tubulin, C-terminal domain
(69)
Protein domain
:
Tubulin alpha-subunit
(10)
Cow (Bos taurus) [TaxId: 9913]
(5)
1a
d1tvka2
A:246-439
Protein domain
:
Tubulin beta-subunit
(8)
Cow (Bos taurus) [TaxId: 9913]
(5)
2a
d1tvkb2
B:246-427
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Tubulin nucleotide-binding domain-like
(75)
Superfamily
:
Tubulin nucleotide-binding domain-like
(75)
Family
:
Tubulin, GTPase domain
(69)
Protein domain
:
Tubulin beta-subunit
(8)
Cow (Bos taurus) [TaxId: 9913]
(5)
3a
d1tvka1
A:2-245
3b
d1tvkb1
B:2-245
[
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]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1tvkB02 (B:260-373)
1b: CATH_1tvkA02 (A:269-383)
2a: CATH_1tvkA01 (A:2-268)
2b: CATH_1tvkB01 (B:2-259)
3a: CATH_1tvkA03 (A:384-439)
3b: CATH_1tvkB03 (B:374-427)
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(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
60s Ribosomal Protein L30; Chain: A;
(235)
Homologous Superfamily
:
[code=3.30.1330.20, no name defined]
(18)
Cattle (Bos taurus)
(4)
1a
1tvkB02
B:260-373
1b
1tvkA02
A:269-383
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1440, no name defined]
(23)
Cattle (Bos taurus)
(4)
2a
1tvkA01
A:2-268
2b
1tvkB01
B:2-259
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
Helix hairpin bin
(5)
Cattle (Bos taurus)
(4)
3a
1tvkA03
A:384-439
3b
1tvkB03
B:374-427
[
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]
Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Tubulin_1tvkA01 (A:3-226)
1b: PFAM_Tubulin_1tvkB01 (B:3-224)
2a: PFAM_Tubulin_C_1tvkA02 (A:263-393)
2b: PFAM_Tubulin_C_1tvkB02 (B:261-383)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Tubulin-like
(34)
Family
:
Tubulin
(34)
Bos taurus (Bovine)
(7)
1a
Tubulin-1tvkA01
A:3-226
1b
Tubulin-1tvkB01
B:3-224
Family
:
Tubulin_C
(11)
Bos taurus (Bovine)
(7)
2a
Tubulin_C-1tvkA02
A:263-393
2b
Tubulin_C-1tvkB02
B:261-383
[
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]
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Asymmetric Unit 1
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