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1ZVR
Asym. Unit
Info
Asym.Unit (102 KB)
Biol.Unit 1 (95 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MTMR2 IN COMPLEX WITH PHOSPHATIDYLINOSITOL 3,5-BISPHOSPHATE
Authors
:
M. J. Begley, G. S. Taylor, M. A. Brock, P. Ghosh, V. L. Woods, J. E. Dixon
Date
:
02 Jun 05 (Deposition) - 31 Jan 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.98
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Protein-Phosphoinositide Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. J. Begley, G. S. Taylor, M. A. Brock, P. Ghosh, V. L. Woods, J. E. Dixon
Molecular Basis For Substrate Recognition By Mtmr2, A Myotubularin Family Phosphoinositide Phosphatase
Proc. Natl. Acad. Sci. Usa V. 103 927 2006
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: (1S)-2-(1-HYDROXYBUTOXY)-1-{[(HYDR... (3PIa)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3PI
1
Ligand/Ion
(1S)-2-(1-HYDROXYBUTOXY)-1-{[(HYDROXY{[(2R,3S,5R,6S)-2,4,6-TRIHYDROXY-3,5-BIS(PHOSPHONOOXY)CYCLOHEXYL]OXY}PHOSPHORYL)OXY]METHYL}ETHYL BUTYRATE
2
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
[
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]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:458 , ARG A:463 , VAL A:464 , SER A:477 , PRO A:478 , VAL A:479 , PHE A:480 , LEU A:481 , HOH A:1028
BINDING SITE FOR RESIDUE EDO A 1878
2
AC2
SOFTWARE
ARG A:360 , ALA A:472 , HOH A:1125
BINDING SITE FOR RESIDUE EDO A 1879
3
AC3
SOFTWARE
ASN A:133 , LYS A:156 , LEU A:363 , HOH A:1042 , HOH A:1058 , HOH A:1499
BINDING SITE FOR RESIDUE EDO A 1880
4
AC4
SOFTWARE
ARG A:322 , ASN A:330 , ASN A:355 , ILE A:356 , SER A:417 , SER A:418 , ASP A:419 , GLY A:420 , TRP A:421 , ASP A:422 , ARG A:423 , ARG A:459 , ARG A:463 , ASP A:475 , GLU A:549 , HOH A:1004 , HOH A:1129 , HOH A:1180 , HOH A:1230 , HOH A:1250 , HOH A:1396 , HOH A:1443 , HOH A:1465 , HOH A:1509
BINDING SITE FOR RESIDUE 3PI A 3632
[
close Site info
]
SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_047947 (R283W, chain A, )
2: VAR_047256 (N545S, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_047947
R
283
W
MTMR2_HUMAN
Disease (CMT4B1)
---
A
R
283
W
2
UniProt
VAR_047256
N
545
S
MTMR2_HUMAN
Polymorphism
558018
A
N
545
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: PPASE_MYOTUBULARIN (A:205-580)
2: TYR_PHOSPHATASE_2 (A:386-433)
3: TYR_PHOSPHATASE_1 (A:415-425)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PPASE_MYOTUBULARIN
PS51339
Myotubularin phosphatase domain.
MTMR2_HUMAN
205-580
1
A:205-580
2
TYR_PHOSPHATASE_2
PS50056
Tyrosine specific protein phosphatases family profile.
MTMR2_HUMAN
386-433
1
A:386-433
3
TYR_PHOSPHATASE_1
PS00383
Tyrosine specific protein phosphatases active site.
MTMR2_HUMAN
415-425
1
A:415-425
[
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]
Exons
(12, 12)
Info
All Exons
Exon 1.11c (A:73-88)
Exon 1.12b (A:88-119)
Exon 1.13c (A:120-156)
Exon 1.14 (A:157-190)
Exon 1.15 (A:191-218)
Exon 1.16b (A:219-268)
Exon 1.17 (A:269-331)
Exon 1.18 (A:332-393)
Exon 1.19 (A:394-462)
Exon 1.20 (A:463-493)
Exon 1.21 (A:494-531)
Exon 1.22 (A:532-586)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.7/1.11c
02: Boundary 1.11c/1.12b
03: Boundary 1.12b/1.13c
04: Boundary 1.13c/1.14
05: Boundary 1.14/1.15
06: Boundary 1.15/1.16b
07: Boundary 1.16b/1.17
08: Boundary 1.17/1.18
09: Boundary 1.18/1.19
10: Boundary 1.19/1.20
11: Boundary 1.20/1.21
12: Boundary 1.21/1.22
13: Boundary 1.22/1.23d
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
ENST00000346299
3a
ENSE00001894742
chr11:
95657459-95657039
421
MTMR2_HUMAN
1-27
27
0
-
-
1.7
ENST00000346299
7
ENSE00001698940
chr11:
95621425-95621320
106
MTMR2_HUMAN
27-62
36
0
-
-
1.11c
ENST00000346299
11c
ENSE00001729203
chr11:
95598840-95598765
76
MTMR2_HUMAN
63-88
26
1
A:73-88
16
1.12b
ENST00000346299
12b
ENSE00001099211
chr11:
95595530-95595436
95
MTMR2_HUMAN
88-119
32
1
A:88-119
32
1.13c
ENST00000346299
13c
ENSE00001099206
chr11:
95595266-95595156
111
MTMR2_HUMAN
120-156
37
1
A:120-156
37
1.14
ENST00000346299
14
ENSE00001099217
chr11:
95591796-95591695
102
MTMR2_HUMAN
157-190
34
1
A:157-190
34
1.15
ENST00000346299
15
ENSE00001099204
chr11:
95590799-95590716
84
MTMR2_HUMAN
191-218
28
1
A:191-218
28
1.16b
ENST00000346299
16b
ENSE00001099224
chr11:
95583913-95583764
150
MTMR2_HUMAN
219-268
50
1
A:219-268
50
1.17
ENST00000346299
17
ENSE00001099221
chr11:
95583026-95582838
189
MTMR2_HUMAN
269-331
63
1
A:269-331
63
1.18
ENST00000346299
18
ENSE00001800236
chr11:
95581063-95580878
186
MTMR2_HUMAN
332-393
62
1
A:332-393
62
1.19
ENST00000346299
19
ENSE00001099218
chr11:
95578323-95578117
207
MTMR2_HUMAN
394-462
69
1
A:394-462
69
1.20
ENST00000346299
20
ENSE00001099223
chr11:
95574873-95574781
93
MTMR2_HUMAN
463-493
31
1
A:463-493
31
1.21
ENST00000346299
21
ENSE00001099215
chr11:
95571371-95571258
114
MTMR2_HUMAN
494-531
38
1
A:494-531
38
1.22
ENST00000346299
22
ENSE00001099209
chr11:
95569488-95569312
177
MTMR2_HUMAN
532-590
59
1
A:532-586
55
1.23d
ENST00000346299
23d
ENSE00001121601
chr11:
95568615-95566046
2570
MTMR2_HUMAN
591-643
53
0
-
-
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1zvra1 (A:73-198)
2a: SCOP_d1zvra2 (A:199-586)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
PH domain-like barrel
(258)
Superfamily
:
PH domain-like
(257)
Family
:
GRAM domain
(4)
Protein domain
:
Myotubularin-related protein 2, N-terminal domain
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d1zvra1
A:73-198
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
(Phosphotyrosine protein) phosphatases II
(296)
Superfamily
:
(Phosphotyrosine protein) phosphatases II
(296)
Family
:
Myotubularin-like phosphatases
(4)
Protein domain
:
Myotubularin-related protein 2, C-terminal domain
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
2a
d1zvra2
A:199-586
[
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]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1zvrA01 (A:83-183)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
PH-domain like
(150)
Homologous Superfamily
:
Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)
(147)
Human (Homo sapiens)
(85)
1a
1zvrA01
A:83-183
[
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]
Pfam Domains
(3, 3)
Info
all PFAM domains
1a: PFAM_GRAM_1zvrA01 (A:73-139)
2a: PFAM_Y_phosphatase_m_1zvrA02 (A:411-465)
3a: PFAM_Myotub_related_1zvrA03 (A:234-351)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
PH
(111)
Family
:
GRAM
(4)
Homo sapiens (Human)
(4)
1a
GRAM-1zvrA01
A:73-139
Clan
:
Phosphatase
(121)
Family
:
Y_phosphatase_m
(5)
Homo sapiens (Human)
(5)
2a
Y_phosphatase_m-1zvrA02
A:411-465
Clan
:
no clan defined [family: Myotub-related]
(5)
Family
:
Myotub-related
(5)
Homo sapiens (Human)
(5)
3a
Myotub-related-1zvrA03
A:234-351
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]
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