PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2G59
Asym. Unit
Info
Asym.Unit (104 KB)
Biol.Unit 1 (101 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF PROTEIN TYROSINE PHOSPHATASE FROM HOMO SAPIENS
Authors
:
D. Kumaran, S. Swaminathan, S. K. Burley, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date
:
22 Feb 06 (Deposition) - 14 Mar 06 (Release) - 25 Mar 08 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.19
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Protein Tyrosine Phosphatase, Dephosphorylation, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. C. Almo, J. B. Bonanno, J. M. Sauder, S. Emtage, T. P. Dilorenzo, V. Malashkevich, S. R. Wasserman, S. Swaminathan, S. Eswaramoorthy, R. Agarwal, D. Kumaran, M. Madegowda, S. Ragumani, Y. Patskovsky, J. Alvarado, U. A. Ramagopal, J. Faber-Barata, M. R. Chance, A. Sali, A. Fiser, Z. Y. Zhang, D. S. Lawrence, S. K. Burley
Structural Genomics Of Protein Phosphatases.
J. Struct. Funct. Genom. V. 8 121 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: PHOSPHATE ION (PO4a)
1b: PHOSPHATE ION (PO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PO4
2
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:191 , CYS A:225 , SER A:226 , ALA A:227 , GLY A:228 , VAL A:229 , GLY A:230 , ARG A:231 , GLN A:269 , HOH A:412
BINDING SITE FOR RESIDUE PO4 A 400
2
AC2
SOFTWARE
TYR A:57 , LYS A:135 , HIS A:192
BINDING SITE FOR RESIDUE PO4 A 401
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: TYR_PHOSPHATASE_PTP (A:27-284,B:27-284)
2: TYR_PHOSPHATASE_2 (A:201-275,B:201-275)
3: TYR_PHOSPHATASE_1 (A:223-233,B:223-233)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TYR_PHOSPHATASE_PTP
PS50055
PTP type protein phosphatase family profile.
PTPRO_HUMAN
938-1195
2
A:27-284
B:27-284
2
TYR_PHOSPHATASE_2
PS50056
Tyrosine specific protein phosphatases family profile.
PTPRO_HUMAN
1112-1186
2
A:201-275
B:201-275
3
TYR_PHOSPHATASE_1
PS00383
Tyrosine specific protein phosphatases active site.
PTPRO_HUMAN
1134-1144
2
A:223-233
B:223-233
[
close PROSITE info
]
Exons
(9, 18)
Info
All Exons
Exon 1.18 (A:2-5 | B:2-5)
Exon 1.19 (A:5-32 | B:5-32)
Exon 1.20 (A:33-63 | B:33-63)
Exon 1.21 (A:63-88 | B:63-88 (gaps))
Exon 1.22 (A:89-133 | B:89-127)
Exon 1.23 (A:134-174 | B:137-174)
Exon 1.24 (A:175-226 (gaps) | B:175-226)
Exon 1.25 (A:226-271 | B:226-271)
Exon 1.26a (A:272-291 | B:272-296)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.17/1.18
02: Boundary 1.18/1.19
03: Boundary 1.19/1.20
04: Boundary 1.20/1.21
05: Boundary 1.21/1.22
06: Boundary 1.22/1.23
07: Boundary 1.23/1.24
08: Boundary 1.24/1.25
09: Boundary 1.25/1.26a
10: Boundary 1.26a/1.26c
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
1.1b
ENST00000281171
1b
ENSE00001353280
chr12:
15475487-15475735
249
PTPRO_HUMAN
1-25
25
0
-
-
1.2
ENST00000281171
2
ENSE00001122204
chr12:
15636908-15637181
274
PTPRO_HUMAN
26-117
92
0
-
-
1.3
ENST00000281171
3
ENSE00001147171
chr12:
15650179-15650337
159
PTPRO_HUMAN
117-170
54
0
-
-
1.4
ENST00000281171
4
ENSE00001147165
chr12:
15652376-15652528
153
PTPRO_HUMAN
170-221
52
0
-
-
1.5
ENST00000281171
5
ENSE00001147160
chr12:
15654554-15654997
444
PTPRO_HUMAN
221-369
149
0
-
-
1.6
ENST00000281171
6
ENSE00001147152
chr12:
15656842-15657003
162
PTPRO_HUMAN
369-423
55
0
-
-
1.7
ENST00000281171
7
ENSE00001147146
chr12:
15661505-15661701
197
PTPRO_HUMAN
423-488
66
0
-
-
1.8
ENST00000281171
8
ENSE00000999881
chr12:
15668432-15668552
121
PTPRO_HUMAN
489-529
41
0
-
-
1.9
ENST00000281171
9
ENSE00001147141
chr12:
15669697-15669890
194
PTPRO_HUMAN
529-593
65
0
-
-
1.10
ENST00000281171
10
ENSE00000999885
chr12:
15673135-15673246
112
PTPRO_HUMAN
594-631
38
0
-
-
1.11
ENST00000281171
11
ENSE00002183053
chr12:
15677748-15677899
152
PTPRO_HUMAN
631-681
51
0
-
-
1.12
ENST00000281171
12
ENSE00001777401
chr12:
15679076-15679196
121
PTPRO_HUMAN
682-722
41
0
-
-
1.13b
ENST00000281171
13b
ENSE00001791853
chr12:
15699503-15699642
140
PTPRO_HUMAN
722-768
47
0
-
-
1.14
ENST00000281171
14
ENSE00001703413
chr12:
15702028-15702160
133
PTPRO_HUMAN
769-813
45
0
-
-
1.15
ENST00000281171
15
ENSE00001744436
chr12:
15704485-15704605
121
PTPRO_HUMAN
813-853
41
0
-
-
1.16
ENST00000281171
16
ENSE00001708246
chr12:
15710389-15710457
69
PTPRO_HUMAN
853-876
24
0
-
-
1.17
ENST00000281171
17
ENSE00001764566
chr12:
15713127-15713210
84
PTPRO_HUMAN
876-904
29
0
-
-
1.18
ENST00000281171
18
ENSE00001779408
chr12:
15718527-15718562
36
PTPRO_HUMAN
904-916
13
2
A:2-5
B:2-5
4
4
1.19
ENST00000281171
19
ENSE00001645479
chr12:
15722351-15722432
82
PTPRO_HUMAN
916-943
28
2
A:5-32
B:5-32
28
28
1.20
ENST00000281171
20
ENSE00001636187
chr12:
15731787-15731877
91
PTPRO_HUMAN
944-974
31
2
A:33-63
B:33-63
31
31
1.21
ENST00000281171
21
ENSE00001633246
chr12:
15732973-15733049
77
PTPRO_HUMAN
974-999
26
2
A:63-88
B:63-88 (gaps)
26
26
1.22
ENST00000281171
22
ENSE00001781585
chr12:
15733631-15733765
135
PTPRO_HUMAN
1000-1044
45
2
A:89-133
B:89-127
45
39
1.23
ENST00000281171
23
ENSE00001714929
chr12:
15734613-15734735
123
PTPRO_HUMAN
1045-1085
41
2
A:134-174
B:137-174
41
38
1.24
ENST00000281171
24
ENSE00001712330
chr12:
15739831-15739985
155
PTPRO_HUMAN
1086-1137
52
2
A:175-226 (gaps)
B:175-226
52
52
1.25
ENST00000281171
25
ENSE00001696478
chr12:
15742389-15742524
136
PTPRO_HUMAN
1137-1182
46
2
A:226-271
B:226-271
46
46
1.26a
ENST00000281171
26a
ENSE00001769993
chr12:
15747871-15747991
121
PTPRO_HUMAN
1183-1216
34
2
A:272-291
B:272-296
20
25
1.26c
ENST00000281171
26c
ENSE00001147177
chr12:
15749024-15750335
1312
PTPRO_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2g59a_ (A:)
1b: SCOP_d2g59b_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
(Phosphotyrosine protein) phosphatases II
(296)
Superfamily
:
(Phosphotyrosine protein) phosphatases II
(296)
Family
:
automated matches
(83)
Protein domain
:
automated matches
(83)
Human (Homo sapiens) [TaxId: 9606]
(76)
1a
d2g59a_
A:
1b
d2g59b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2g59B00 (B:2-296)
1b: CATH_2g59A00 (A:2-291)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Protein-Tyrosine Phosphatase; Chain A
(262)
Homologous Superfamily
:
Protein tyrosine phosphatase superfamily
(228)
Human (Homo sapiens)
(196)
1a
2g59B00
B:2-296
1b
2g59A00
A:2-291
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (104 KB)
Header - Asym.Unit
Biol.Unit 1 (101 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
2G59
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
