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2R8Y
Biol. Unit 4
Info
Asym.Unit (456 KB)
Biol.Unit 1 (121 KB)
Biol.Unit 2 (120 KB)
Biol.Unit 3 (116 KB)
Biol.Unit 4 (116 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YRBI PHOSPHATASE FROM ESCHERICHIA COLI IN A COMPLEX WITH CA
Authors
:
O. V. Tsodikov, P. Aggarwal, J. R. Rubin, J. A. Stuckey, R. W. Woodard, T. Biswas
Date
:
11 Sep 07 (Deposition) - 23 Sep 08 (Release) - 03 Nov 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Biol. Unit 4: M,N,O,P (1x)
Keywords
:
Yrbi, Phosphatase, Divalent Metal, Ca, Had Superfamily, Kdo8-P, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Biswas, L. Yi, P. Aggarwal, J. Wu, J. R. Rubin, J. A. Stuckey, R. W. Woodard, O. V. Tsodikov
The Tail Of Kdsc: Conformational Changes Control The Activity Of A Haloacid Dehalogenase Superfamily Phosphatase.
J. Biol. Chem. V. 284 30594 2009
(for further references see the
PDB file header
)
[
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
1m: CALCIUM ION (CAm)
1n: CALCIUM ION (CAn)
1o: CALCIUM ION (CAo)
1p: CALCIUM ION (CAp)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
2i: CHLORIDE ION (CLi)
2j: CHLORIDE ION (CLj)
2k: CHLORIDE ION (CLk)
2l: CHLORIDE ION (CLl)
2m: CHLORIDE ION (CLm)
2n: CHLORIDE ION (CLn)
2o: CHLORIDE ION (CLo)
2p: CHLORIDE ION (CLp)
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Sites
(8, 8)
Info
All Sites
1: BC4 (SOFTWARE)
2: BC5 (SOFTWARE)
3: BC6 (SOFTWARE)
4: BC7 (SOFTWARE)
5: DC2 (SOFTWARE)
6: DC3 (SOFTWARE)
7: DC4 (SOFTWARE)
8: DC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
BC4
SOFTWARE
ASP M:32 , ASP M:34 , ASP M:125 , HOH M:829
BINDING SITE FOR RESIDUE CA M 213
2
BC5
SOFTWARE
ASP N:32 , ASP N:34 , ASP N:125 , HOH N:331
BINDING SITE FOR RESIDUE CA N 214
3
BC6
SOFTWARE
ASP O:32 , ASP O:34 , ASP O:125 , HOH O:335
BINDING SITE FOR RESIDUE CA O 215
4
BC7
SOFTWARE
ASP P:32 , ASP P:34 , ASP P:125 , HOH P:938
BINDING SITE FOR RESIDUE CA P 216
5
DC2
SOFTWARE
ASP M:32 , GLY M:77 , LYS M:102
BINDING SITE FOR RESIDUE CL M 313
6
DC3
SOFTWARE
ASP N:32 , GLY N:77 , LYS N:102
BINDING SITE FOR RESIDUE CL N 314
7
DC4
SOFTWARE
ASP O:32 , GLY O:77 , LYS O:102
BINDING SITE FOR RESIDUE CL O 315
8
DC5
SOFTWARE
ASP P:32 , GLY P:77 , LYS P:102
BINDING SITE FOR RESIDUE CL P 316
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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All Exon Boundaries
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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
(1, 16)
Info
All SCOP Domains
1a: SCOP_d2r8ya_ (A:)
1b: SCOP_d2r8yb_ (B:)
1c: SCOP_d2r8yk_ (K:)
1d: SCOP_d2r8yl_ (L:)
1e: SCOP_d2r8ym_ (M:)
1f: SCOP_d2r8yn_ (N:)
1g: SCOP_d2r8yo_ (O:)
1h: SCOP_d2r8yp_ (P:)
1i: SCOP_d2r8yc_ (C:)
1j: SCOP_d2r8yd_ (D:)
1k: SCOP_d2r8ye_ (E:)
1l: SCOP_d2r8yf_ (F:)
1m: SCOP_d2r8yg_ (G:)
1n: SCOP_d2r8yh_ (H:)
1o: SCOP_d2r8yi_ (I:)
1p: SCOP_d2r8yj_ (J:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
HAD-like
(349)
Superfamily
:
HAD-like
(349)
Family
:
automated matches
(99)
Protein domain
:
automated matches
(99)
Escherichia coli [TaxId: 562]
(4)
1a
d2r8ya_
A:
1b
d2r8yb_
B:
1c
d2r8yk_
K:
1d
d2r8yl_
L:
1e
d2r8ym_
M:
1f
d2r8yn_
N:
1g
d2r8yo_
O:
1h
d2r8yp_
P:
1i
d2r8yc_
C:
1j
d2r8yd_
D:
1k
d2r8ye_
E:
1l
d2r8yf_
F:
1m
d2r8yg_
G:
1n
d2r8yh_
H:
1o
d2r8yi_
I:
1p
d2r8yj_
J:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 16)
Info
all PFAM domains
1a: PFAM_Hydrolase_3_2r8yP01 (P:88-167)
1b: PFAM_Hydrolase_3_2r8yP02 (P:88-167)
1c: PFAM_Hydrolase_3_2r8yP03 (P:88-167)
1d: PFAM_Hydrolase_3_2r8yP04 (P:88-167)
1e: PFAM_Hydrolase_3_2r8yP05 (P:88-167)
1f: PFAM_Hydrolase_3_2r8yP06 (P:88-167)
1g: PFAM_Hydrolase_3_2r8yP07 (P:88-167)
1h: PFAM_Hydrolase_3_2r8yP08 (P:88-167)
1i: PFAM_Hydrolase_3_2r8yP09 (P:88-167)
1j: PFAM_Hydrolase_3_2r8yP10 (P:88-167)
1k: PFAM_Hydrolase_3_2r8yP11 (P:88-167)
1l: PFAM_Hydrolase_3_2r8yP12 (P:88-167)
1m: PFAM_Hydrolase_3_2r8yP13 (P:88-167)
1n: PFAM_Hydrolase_3_2r8yP14 (P:88-167)
1o: PFAM_Hydrolase_3_2r8yP15 (P:88-167)
1p: PFAM_Hydrolase_3_2r8yP16 (P:88-167)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HAD
(186)
Family
:
Hydrolase_3
(28)
Escherichia coli O6
(4)
1a
Hydrolase_3-2r8yP01
P:88-167
1b
Hydrolase_3-2r8yP02
P:88-167
1c
Hydrolase_3-2r8yP03
P:88-167
1d
Hydrolase_3-2r8yP04
P:88-167
1e
Hydrolase_3-2r8yP05
P:88-167
1f
Hydrolase_3-2r8yP06
P:88-167
1g
Hydrolase_3-2r8yP07
P:88-167
1h
Hydrolase_3-2r8yP08
P:88-167
1i
Hydrolase_3-2r8yP09
P:88-167
1j
Hydrolase_3-2r8yP10
P:88-167
1k
Hydrolase_3-2r8yP11
P:88-167
1l
Hydrolase_3-2r8yP12
P:88-167
1m
Hydrolase_3-2r8yP13
P:88-167
1n
Hydrolase_3-2r8yP14
P:88-167
1o
Hydrolase_3-2r8yP15
P:88-167
1p
Hydrolase_3-2r8yP16
P:88-167
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Show PDB file:
Asym.Unit (456 KB)
Header - Asym.Unit
Biol.Unit 1 (121 KB)
Header - Biol.Unit 1
Biol.Unit 2 (120 KB)
Header - Biol.Unit 2
Biol.Unit 3 (116 KB)
Header - Biol.Unit 3
Biol.Unit 4 (116 KB)
Header - Biol.Unit 4
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