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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2NPT
Asym. Unit
Info
Asym.Unit (73 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (35 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 COMPLEX OF HUMAN MITOGEN ACTIVATED PROTEIN KINASE KINASE 5 PHOX DOMAIN (MAP2K5-PHOX) WITH HUMAN MITOGEN ACTIVATED PROTEIN KINASE KINASE KINASE 2 PHOX DOMAIN (MAP3K2-PHOX)
Authors
:
P. Filippakopoulos, J. Debreczeni, V. Papagrigoriou, A. Turnbull, A. C. Arrowsmith, M. Sundstrom, F. Von Delft, S. Knapp, Structural Gen Consortium (Sgc)
Date
:
30 Oct 06 (Deposition) - 28 Nov 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,C (1x)
Keywords
:
Mitogen Activated Protein Kinase Kinase 5, Map2K5, Mek5, Mkk5, Prkmk5, Map Kinase Kinase 5, Phox, Phox-Domain, Mitogen Activated Protein Kinase Kinase Kinase 2, Map3K2, Mapk/Erk Kinase Kinase 2, Mapkkk2, Mek Kinase 2, Mekk2, Mekk2B, Structural Genomics, Structural Genomics Consortium, Sgc, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Filippakopoulos, J. Debreczeni, V. Papagrigoriou, A. Turnbull, A. Edwards, C. Arrowsmith, M. Sundstrom, F. Von Delft, S. Knapp
Crystal Structure Of The Complex Of Human Mitogen Activated Protein Kinase Kinase 5 Phox Domain (Map2K5-Phox) With Huma Mitogen Activated Protein Kinase Kinase Kinase 2 Phox Domai (Map3K2-Phox)
To Be Published
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_040682 (I110V, chain B/D, )
2: VAR_040683 (M112I, chain B/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_040682
I
110
V
M3K2_HUMAN
Polymorphism
55767983
B/D
I
110
V
2
UniProt
VAR_040683
M
112
I
M3K2_HUMAN
Unclassified
---
B/D
M
112
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: PB1 (A:18-108,C:18-108,B:43-122,D:43-12...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PB1
PS51745
PB1 domain profile.
MP2K5_HUMAN
18-109
2
A:18-108
C:18-108
M3K2_HUMAN
43-122
2
B:43-122
D:43-122
[
close PROSITE info
]
Exons
(9, 17)
Info
All Exons
Exon 1.1b (A:3-45 (gaps) | C:3-45 (gaps))
Exon 1.2 (A:46-62 | C:46-62)
Exon 1.3a (A:62-84 | C:62-84)
Exon 1.4 (A:85-108 | C:85-108)
Exon 1.5 (A:108-108 | C:108-108)
Exon 2.4 (- | D:35-41)
Exon 2.5b (B:42-55 | D:42-55)
Exon 2.6 (B:55-88 | D:55-88)
Exon 2.7 (B:89-123 | D:89-122)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1b
02: Boundary 1.1b/1.2
03: Boundary 1.2/1.3a
04: Boundary 1.3a/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 2.3a/2.4
08: Boundary 2.4/2.5b
09: Boundary 2.5b/2.6
10: Boundary 2.6/2.7
11: Boundary 2.7/2.8
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
ENST00000178640
1b
ENSE00001917690
chr15:
67835047-67835808
762
MP2K5_HUMAN
1-45
45
2
A:3-45 (gaps)
C:3-45 (gaps)
43
43
1.2
ENST00000178640
2
ENSE00001036453
chr15:
67842372-67842420
49
MP2K5_HUMAN
46-62
17
2
A:46-62
C:46-62
17
17
1.3a
ENST00000178640
3a
ENSE00001036480
chr15:
67855621-67855688
68
MP2K5_HUMAN
62-84
23
2
A:62-84
C:62-84
23
23
1.4
ENST00000178640
4
ENSE00001137335
chr15:
67873092-67873161
70
MP2K5_HUMAN
85-108
24
2
A:85-108
C:85-108
24
24
1.5
ENST00000178640
5
ENSE00001198269
chr15:
67878228-67878268
41
MP2K5_HUMAN
108-121
14
2
A:108-108
C:108-108
1
1
1.6
ENST00000178640
6
ENSE00001198265
chr15:
67879184-67879251
68
MP2K5_HUMAN
122-144
23
0
-
-
1.7
ENST00000178640
7
ENSE00001198260
chr15:
67885264-67885312
49
MP2K5_HUMAN
144-160
17
0
-
-
1.8
ENST00000178640
8
ENSE00001137304
chr15:
67893023-67893087
65
MP2K5_HUMAN
161-182
22
0
-
-
1.9
ENST00000178640
9
ENSE00001198254
chr15:
67923226-67923265
40
MP2K5_HUMAN
182-195
14
0
-
-
1.13
ENST00000178640
13
ENSE00001389429
chr15:
67938569-67938637
69
MP2K5_HUMAN
196-218
23
0
-
-
1.14
ENST00000178640
14
ENSE00000942561
chr15:
67938726-67938807
82
MP2K5_HUMAN
219-246
28
0
-
-
1.15
ENST00000178640
15
ENSE00000942562
chr15:
67950891-67950952
62
MP2K5_HUMAN
246-266
21
0
-
-
1.16
ENST00000178640
16
ENSE00001246489
chr15:
67956935-67956983
49
MP2K5_HUMAN
267-283
17
0
-
-
1.17
ENST00000178640
17
ENSE00001036523
chr15:
67984817-67984890
74
MP2K5_HUMAN
283-307
25
0
-
-
1.18
ENST00000178640
18
ENSE00001036516
chr15:
67985856-67985906
51
MP2K5_HUMAN
308-324
17
0
-
-
1.19
ENST00000178640
19
ENSE00000885350
chr15:
67995675-67995746
72
MP2K5_HUMAN
325-348
24
0
-
-
1.20
ENST00000178640
20
ENSE00001036564
chr15:
68020254-68020283
30
MP2K5_HUMAN
349-358
10
0
-
-
1.21
ENST00000178640
21
ENSE00000942566
chr15:
68040569-68040595
27
MP2K5_HUMAN
359-367
9
0
-
-
1.22
ENST00000178640
22
ENSE00001137226
chr15:
68040907-68040939
33
MP2K5_HUMAN
368-378
11
0
-
-
1.23
ENST00000178640
23
ENSE00001137221
chr15:
68061940-68062001
62
MP2K5_HUMAN
379-399
21
0
-
-
1.24
ENST00000178640
24
ENSE00001137214
chr15:
68065045-68065090
46
MP2K5_HUMAN
399-414
16
0
-
-
1.25d
ENST00000178640
25d
ENSE00001890016
chr15:
68098984-68099461
478
MP2K5_HUMAN
415-448
34
0
-
-
2.3a
ENST00000344908
3a
ENSE00001853094
chr2:
128100805-128100702
104
M3K2_HUMAN
1-2
2
0
-
-
2.4
ENST00000344908
4
ENSE00001232824
chr2:
128096626-128096508
119
M3K2_HUMAN
2-41
40
1
-
D:35-41
-
7
2.5b
ENST00000344908
5b
ENSE00001232740
chr2:
128095354-128095314
41
M3K2_HUMAN
42-55
14
2
B:42-55
D:42-55
14
14
2.6
ENST00000344908
6
ENSE00001206669
chr2:
128093545-128093446
100
M3K2_HUMAN
55-88
34
2
B:55-88
D:55-88
34
34
2.7
ENST00000344908
7
ENSE00001232717
chr2:
128088081-128087968
114
M3K2_HUMAN
89-126
38
2
B:89-123
D:89-122
35
34
2.8
ENST00000344908
8
ENSE00001232710
chr2:
128087584-128087497
88
M3K2_HUMAN
127-156
30
0
-
-
2.9
ENST00000344908
9
ENSE00001232572
chr2:
128084393-128084263
131
M3K2_HUMAN
156-199
44
0
-
-
2.10
ENST00000344908
10
ENSE00001206654
chr2:
128083383-128083304
80
M3K2_HUMAN
200-226
27
0
-
-
2.11
ENST00000344908
11
ENSE00001232690
chr2:
128081817-128081750
68
M3K2_HUMAN
226-249
24
0
-
-
2.12
ENST00000344908
12
ENSE00001206644
chr2:
128081570-128081478
93
M3K2_HUMAN
249-280
32
0
-
-
2.13
ENST00000344908
13
ENSE00001136897
chr2:
128079828-128079622
207
M3K2_HUMAN
280-349
70
0
-
-
2.14
ENST00000344908
14
ENSE00001136891
chr2:
128075893-128075745
149
M3K2_HUMAN
349-398
50
0
-
-
2.15
ENST00000344908
15
ENSE00001206629
chr2:
128075336-128075205
132
M3K2_HUMAN
399-442
44
0
-
-
2.16
ENST00000344908
16
ENSE00001206624
chr2:
128072459-128072330
130
M3K2_HUMAN
443-486
44
0
-
-
2.17
ENST00000344908
17
ENSE00001609609
chr2:
128066338-128066161
178
M3K2_HUMAN
486-545
60
0
-
-
2.18a
ENST00000344908
18a
ENSE00001232798
chr2:
128065380-128064980
401
M3K2_HUMAN
545-619
75
0
-
-
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2npta1 (A:4-108)
1b: SCOP_d2nptc_ (C:)
2a: SCOP_d2nptb1 (B:42-123)
2b: SCOP_d2nptd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
CAD & PB1 domains
(31)
Family
:
PB1 domain
(24)
Protein domain
:
Mitogen activated protein kinase kinase 5, Map2k5
(3)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2npta1
A:4-108
1b
d2nptc_
C:
Protein domain
:
Mitogen-activated protein kinase kinase kinase 2, MEKK 2
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d2nptb1
B:42-123
2b
d2nptd_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2nptC01 (C:17-108)
1b: CATH_2nptD01 (D:43-122)
1c: CATH_2nptA01 (A:17-108)
1d: CATH_2nptB01 (B:43-123)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
[code=3.10.20.240, no name defined]
(17)
Human (Homo sapiens)
(9)
1a
2nptC01
C:17-108
1b
2nptD01
D:43-122
1c
2nptA01
A:17-108
1d
2nptB01
B:43-123
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_PB1_2nptD01 (D:43-122)
1b: PFAM_PB1_2nptD02 (D:43-122)
1c: PFAM_PB1_2nptC01 (C:18-101)
1d: PFAM_PB1_2nptC02 (C:18-101)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ubiquitin
(279)
Family
:
PB1
(15)
Homo sapiens (Human)
(8)
1a
PB1-2nptD01
D:43-122
1b
PB1-2nptD02
D:43-122
1c
PB1-2nptC01
C:18-101
1d
PB1-2nptC02
C:18-101
[
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
Chain C
Chain D
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 (73 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
Biol.Unit 2 (35 KB)
Header - Biol.Unit 2
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
2NPT
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help