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3E7A
Asym. Unit
Info
Asym.Unit (125 KB)
Biol.Unit 1 (61 KB)
Biol.Unit 2 (59 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PROTEIN PHOSPHATASE-1 BOUND TO THE NATURAL TOXIN NODULARIN-R
Authors
:
M. S. Kelker, R. Page, W. Peti
Date
:
18 Aug 08 (Deposition) - 04 Nov 08 (Release) - 10 Apr 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.63
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Carbohydrate Metabolism, Cell Cycle, Cell Division, Glycogen Metabolism, Hydrolase, Iron, Manganese, Metal-Binding, Phosphoprotein, Protein Phosphatase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. S. Kelker, R. Page, W. Peti
Crystal Structures Of Protein Phosphatase-1 Bound To Nodularin-R And Tautomycin: A Novel Scaffold For Structure-Based Drug Design Of Serine/Threonine Phosphatase Inhibitors
J. Mol. Biol. V. 385 11 2009
[
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Hetero Components
(9, 34)
Info
All Hetero Components
1a: (2S,3S,4E,6E,8S,9S)-3-AMINO-9-METH... (1ZNa)
1b: (2S,3S,4E,6E,8S,9S)-3-AMINO-9-METH... (1ZNb)
2a: 3-METHYL-BETA-D-ASPARTIC ACID (ACBa)
2b: 3-METHYL-BETA-D-ASPARTIC ACID (ACBb)
3a: AZIDE ION (AZIa)
3b: AZIDE ION (AZIb)
4a: CHLORIDE ION (CLa)
4b: CHLORIDE ION (CLb)
4c: CHLORIDE ION (CLc)
4d: CHLORIDE ION (CLd)
5a: GAMMA-D-GLUTAMIC ACID (FGAa)
5b: GAMMA-D-GLUTAMIC ACID (FGAb)
6a: GLYCEROL (GOLa)
6b: GLYCEROL (GOLb)
7a: IODIDE ION (IODa)
7b: IODIDE ION (IODb)
7c: IODIDE ION (IODc)
7d: IODIDE ION (IODd)
7e: IODIDE ION (IODe)
7f: IODIDE ION (IODf)
7g: IODIDE ION (IODg)
7h: IODIDE ION (IODh)
7i: IODIDE ION (IODi)
7j: IODIDE ION (IODj)
7k: IODIDE ION (IODk)
7l: IODIDE ION (IODl)
7m: IODIDE ION (IODm)
7n: IODIDE ION (IODn)
8a: N-METHYLDEHYDROBUTYRINE (MDHa)
8b: N-METHYLDEHYDROBUTYRINE (MDHb)
9a: MANGANESE (II) ION (MNa)
9b: MANGANESE (II) ION (MNb)
9c: MANGANESE (II) ION (MNc)
9d: MANGANESE (II) ION (MNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1ZN
2
Mod. Amino Acid
(2S,3S,4E,6E,8S,9S)-3-AMINO-9-METHOXY-2,6,8-TRIMETHYL-10-PHENYLDECA-4,6-DIENOIC ACID
2
ACB
2
Mod. Amino Acid
3-METHYL-BETA-D-ASPARTIC ACID
3
AZI
2
Ligand/Ion
AZIDE ION
4
CL
4
Ligand/Ion
CHLORIDE ION
5
FGA
2
Mod. Amino Acid
GAMMA-D-GLUTAMIC ACID
6
GOL
2
Ligand/Ion
GLYCEROL
7
IOD
14
Ligand/Ion
IODIDE ION
8
MDH
2
Mod. Amino Acid
N-METHYLDEHYDROBUTYRINE
9
MN
4
Ligand/Ion
MANGANESE (II) ION
[
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]
Sites
(25, 25)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:64 , HIS A:66 , ASP A:92 , MN A:403 , HOH A:669 , HOH C:769
BINDING SITE FOR RESIDUE MN A 402
02
AC2
SOFTWARE
ASP A:92 , ASN A:124 , HIS A:173 , HIS A:248 , MN A:402 , HOH A:669
BINDING SITE FOR RESIDUE MN A 403
03
AC3
SOFTWARE
LYS A:260 , GLN A:262 , HOH A:681
BINDING SITE FOR RESIDUE IOD A 301
04
AC4
SOFTWARE
LYS A:113 , ARG A:132 , HOH A:591
BINDING SITE FOR RESIDUE IOD A 302
05
AC5
SOFTWARE
GLY A:97 , SER A:100 , GLY A:135 , PHE A:136 , GLU A:139 , HOH A:483
BINDING SITE FOR RESIDUE IOD A 303
06
AC6
SOFTWARE
ARG A:261 , ILE B:295 , HOH B:548
BINDING SITE FOR RESIDUE IOD A 404
07
AC7
SOFTWARE
LYS A:260 , ARG A:261
BINDING SITE FOR RESIDUE IOD A 405
08
AC8
SOFTWARE
GLN A:99 , CL A:304
BINDING SITE FOR RESIDUE IOD A 406
09
AC9
SOFTWARE
HOH A:636
BINDING SITE FOR RESIDUE IOD A 407
10
BC1
SOFTWARE
ARG A:142 , HOH A:530 , HOH A:720
BINDING SITE FOR RESIDUE CL A 408
11
BC2
SOFTWARE
LYS A:98 , IOD A:406 , HOH A:740
BINDING SITE FOR RESIDUE CL A 304
12
BC3
SOFTWARE
GLN A:198 , GLY A:199 , ASP A:203 , PHE A:225 , HOH A:449 , HOH A:761
BINDING SITE FOR RESIDUE CL A 305
13
BC4
SOFTWARE
GLN A:49 , PRO A:50 , GLU A:54 , PHE A:119 , HOH A:533 , HOH A:643 , HOH A:655
BINDING SITE FOR RESIDUE GOL A 409
14
BC5
SOFTWARE
ASP B:64 , HIS B:66 , ASP B:92 , MN B:403 , HOH B:698 , HOH D:724
BINDING SITE FOR RESIDUE MN B 402
15
BC6
SOFTWARE
ASP B:92 , ASN B:124 , HIS B:173 , HIS B:248 , MN B:402 , HOH B:698
BINDING SITE FOR RESIDUE MN B 403
16
BC7
SOFTWARE
ILE A:295 , ARG B:261
BINDING SITE FOR RESIDUE IOD B 301
17
BC8
SOFTWARE
LYS B:260 , ARG B:261
BINDING SITE FOR RESIDUE IOD B 302
18
BC9
SOFTWARE
GLY B:97 , SER B:100 , GLY B:135 , PHE B:136 , GLU B:139 , HOH B:521
BINDING SITE FOR RESIDUE IOD B 404
19
CC1
SOFTWARE
GLN B:262 , HOH B:703
BINDING SITE FOR RESIDUE IOD B 406
20
CC2
SOFTWARE
TYR B:69 , TYR B:70 , GLN B:99
BINDING SITE FOR RESIDUE IOD B 408
21
CC3
SOFTWARE
GLY B:215 , GLU B:230 , VAL B:231
BINDING SITE FOR RESIDUE AZI B 303
22
CC4
SOFTWARE
SER B:129 , ARG B:132 , HOH B:451
BINDING SITE FOR RESIDUE AZI B 410
23
CC5
SOFTWARE
GLN B:49 , PRO B:50 , LEU B:53 , GLU B:54 , GLU B:116 , PHE B:119 , HOH B:667
BINDING SITE FOR RESIDUE GOL B 411
24
CC6
SOFTWARE
ARG A:96 , SER A:129 , TYR A:134 , VAL A:195 , PRO A:196 , TRP A:206 , ASP A:220 , ARG A:221 , TYR A:272 , GLU A:275 , PHE A:276 , GLU B:184 , ARG B:187 , HOH C:389 , HOH C:766 , HOH C:767 , HOH C:768 , HOH C:769 , HOH C:770 , HOH C:774 , HOH C:775 , HOH C:776
BINDING SITE FOR CHAIN C OF nodularin R
25
CC7
SOFTWARE
ARG B:96 , SER B:129 , TYR B:134 , VAL B:195 , PRO B:196 , ASP B:197 , TRP B:206 , ARG B:221 , VAL B:223 , TYR B:272 , GLU B:275 , PHE B:276 , HOH B:607 , HOH B:710 , HOH D:719 , HOH D:720 , HOH D:721 , HOH D:722 , HOH D:723 , HOH D:724
BINDING SITE FOR CHAIN D OF nodularin R
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: SER_THR_PHOSPHATASE (A:121-126,B:121-126)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SER_THR_PHOSPHATASE
PS00125
Serine/threonine specific protein phosphatases signature.
PP1A_HUMAN
121-126
2
A:121-126
B:121-126
[
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Exons
(7, 14)
Info
All Exons
Exon 1.3a (A:7-19 | B:7-19)
Exon 1.4d (A:19-63 | B:19-63)
Exon 1.4f (A:63-140 | B:63-140)
Exon 1.5a (A:140-175 | B:140-175)
Exon 1.6a (A:175-249 | B:175-249)
Exon 1.6d (A:250-294 | B:250-294)
Exon 1.7c (A:295-299 | B:295-299)
View:
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All Exon Boundaries
1: Boundary -/1.3a
2: Boundary 1.3a/1.4d
3: Boundary 1.4d/1.4f
4: Boundary 1.4f/1.5a
5: Boundary 1.5a/1.6a
6: Boundary 1.6a/1.6d
7: Boundary 1.6d/1.7c
8: Boundary 1.7c/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.3a
ENST00000376745
3a
ENSE00001471548
chr11:
67169402-67169199
204
PP1A_HUMAN
1-19
19
2
A:7-19
B:7-19
13
13
1.4d
ENST00000376745
4d
ENSE00001212206
chr11:
67168670-67168539
132
PP1A_HUMAN
19-63
45
2
A:19-63
B:19-63
45
45
1.4f
ENST00000376745
4f
ENSE00001741927
chr11:
67168390-67168160
231
PP1A_HUMAN
63-140
78
2
A:63-140
B:63-140
78
78
1.5a
ENST00000376745
5a
ENSE00001186176
chr11:
67167136-67167032
105
PP1A_HUMAN
140-175
36
2
A:140-175
B:140-175
36
36
1.6a
ENST00000376745
6a
ENSE00001186169
chr11:
67166634-67166411
224
PP1A_HUMAN
175-249
75
2
A:175-249
B:175-249
75
75
1.6d
ENST00000376745
6d
ENSE00001707059
chr11:
67166327-67166193
135
PP1A_HUMAN
250-294
45
2
A:250-294
B:250-294
45
45
1.7c
ENST00000376745
7c
ENSE00002183271
chr11:
67166116-67165672
445
PP1A_HUMAN
295-330
36
2
A:295-299
B:295-299
5
5
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3e7aa_ (A:)
1b: SCOP_d3e7ab_ (B:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Metallo-dependent phosphatases
(115)
Superfamily
:
Metallo-dependent phosphatases
(115)
Family
:
Protein serine/threonine phosphatase
(50)
Protein domain
:
Protein phosphatase-1 (PP-1)
(15)
Human (Homo sapiens) [TaxId: 9606]
(5)
1a
d3e7aa_
A:
1b
d3e7ab_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3e7aA00 (A:7-299)
1b: CATH_3e7aB00 (B:7-299)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Purple Acid Phosphatase; chain A, domain 2
(87)
Homologous Superfamily
:
[code=3.60.21.10, no name defined]
(83)
Human (Homo sapiens)
(36)
1a
3e7aA00
A:7-299
1b
3e7aB00
B:7-299
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (125 KB)
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