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1NF1
Asym. Unit
Info
Asym.Unit (47 KB)
Biol.Unit 1 (42 KB)
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(1)
Title
:
THE GAP RELATED DOMAIN OF NEUROFIBROMIN
Authors
:
K. Scheffzek, M. R. Ahmadian, L. Wiesmueller, W. Kabsch, P. Stege, F. Schmitz, A. Wittinghofer
Date
:
08 Jul 98 (Deposition) - 20 Jul 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Neurofibromin, Type I Neurofibromatosis, Nf1, Ras, Gap, Signal Transduction, Cancer, Growth Regulation, Gtp Hydrolysis, Patient Mutation, Arginine Finger, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Scheffzek, M. R. Ahmadian, L. Wiesmuller, W. Kabsch, P. Stege, F. Schmitz, A. Wittinghofer
Structural Analysis Of The Gap-Related Domain From Neurofibromin And Its Implications.
Embo J. V. 17 4313 1998
(for further references see the
PDB file header
)
[
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
(17, 17)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_032472 (L1243P, chain A, )
02: VAR_021756 (R1250P, chain A, )
03: VAR_032473 (R1276G, chain A, )
04: VAR_010995 (R1276P, chain A, )
05: VAR_017555 (R1276Q, chain A, )
06: VAR_065236 (L1390F, chain A, )
07: VAR_010996 (R1391S, chain A, )
08: VAR_022256 (Y1401H, chain A, )
09: VAR_010997 (K1419Q, chain A, )
10: VAR_002658 (K1419R, chain A, )
11: VAR_002659 (K1423E, chain A, )
12: VAR_021757 (K1423N, chain A, )
13: VAR_021758 (K1423R, chain A, )
14: VAR_008129 (L1425P, chain A, )
15: VAR_032475 (N1430T, chain A, )
16: VAR_032476 (V1432L, chain A, )
17: VAR_067206 (S1463F, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_032472
L
1243
P
NF1_HUMAN
Disease (NF1)
137854564
A
L
1243
P
02
UniProt
VAR_021756
R
1250
P
NF1_HUMAN
Disease (NF1)
199474765
A
R
1250
P
03
UniProt
VAR_032473
R
1276
G
NF1_HUMAN
Disease (NF1)
199474742
A
R
1276
G
04
UniProt
VAR_010995
R
1276
P
NF1_HUMAN
Disease (NF1)
137854556
A
R
1276
P
05
UniProt
VAR_017555
R
1276
Q
NF1_HUMAN
Disease (NF1)
137854556
A
R
1276
Q
06
UniProt
VAR_065236
L
1411
F
NF1_HUMAN
Disease (NFNS)
199474789
A
L
1390
F
07
UniProt
VAR_010996
R
1412
S
NF1_HUMAN
Disease (NF1)
137854554
A
R
1391
S
08
UniProt
VAR_022256
Y
1422
H
NF1_HUMAN
Polymorphism
17884349
A
Y
1401
H
09
UniProt
VAR_010997
K
1440
Q
NF1_HUMAN
Disease (NF1)
199474790
A
K
1419
Q
10
UniProt
VAR_002658
K
1440
R
NF1_HUMAN
Disease (NF1)
199474788
A
K
1419
R
11
UniProt
VAR_002659
K
1444
E
NF1_HUMAN
Disease (NFNS)
137854550
A
K
1423
E
12
UniProt
VAR_021757
K
1444
N
NF1_HUMAN
Disease (NF1)
199474750
A
K
1423
N
13
UniProt
VAR_021758
K
1444
R
NF1_HUMAN
Disease (NF1)
199474781
A
K
1423
R
14
UniProt
VAR_008129
L
1446
P
NF1_HUMAN
Disease (NF1)
199474733
A
L
1425
P
15
UniProt
VAR_032475
N
1451
T
NF1_HUMAN
Disease (NFNS)
199474754
A
N
1430
T
16
UniProt
VAR_032476
V
1453
L
NF1_HUMAN
Disease (NFNS)
199474755
A
V
1432
L
17
UniProt
VAR_067206
S
1484
F
NF1_HUMAN
Polymorphism
199474772
A
S
1463
F
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: RAS_GTPASE_ACTIV_2 (A:1235-1430)
2: RAS_GTPASE_ACTIV_1 (A:1386-1400)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RAS_GTPASE_ACTIV_2
PS50018
Ras GTPase-activating proteins profile.
NF1_HUMAN
1235-1451
1
A:1235-1430
2
RAS_GTPASE_ACTIV_1
PS00509
Ras GTPase-activating proteins domain signature.
NF1_HUMAN
1407-1421
1
A:1386-1400
[
close PROSITE info
]
Exons
(8, 8)
Info
All Exons
Exon 1.26a (A:1206-1236)
Exon 1.27 (A:1237-1290)
Exon 1.28 (A:1291-1304)
Exon 1.29 (A:1331-1370)
Exon 1.33 (A:1371-1423 (gaps))
Exon 1.34 (A:1424-1456)
Exon 1.35 (A:1456-1503 (gaps))
Exon 1.36b (A:1513-1529)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.25/1.26a
02: Boundary 1.26a/1.27
03: Boundary 1.27/1.28
04: Boundary 1.28/1.29
05: Boundary 1.29/1.31
06: Boundary 1.31/1.33
07: Boundary 1.33/1.34
08: Boundary 1.34/1.35
09: Boundary 1.35/1.36b
10: Boundary 1.36b/1.37
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
1.1a
ENST00000358273
1a
ENSE00002148166
chr17:
29421945-29422387
443
NF1_HUMAN
1-20
20
0
-
-
1.2a
ENST00000358273
2a
ENSE00002094730
chr17:
29483001-29483144
144
NF1_HUMAN
21-68
48
0
-
-
1.3a
ENST00000358273
3a
ENSE00002094214
chr17:
29486028-29486111
84
NF1_HUMAN
69-96
28
0
-
-
1.4
ENST00000358273
4
ENSE00002118260
chr17:
29490204-29490394
191
NF1_HUMAN
97-160
64
0
-
-
1.5
ENST00000358273
5
ENSE00002099784
chr17:
29496909-29497015
107
NF1_HUMAN
160-196
37
0
-
-
1.6
ENST00000358273
6
ENSE00002120628
chr17:
29508440-29508507
68
NF1_HUMAN
196-218
23
0
-
-
1.7
ENST00000358273
7
ENSE00002092460
chr17:
29508728-29508803
76
NF1_HUMAN
219-244
26
0
-
-
1.8a
ENST00000358273
8a
ENSE00002125254
chr17:
29509526-29509683
158
NF1_HUMAN
244-296
53
0
-
-
1.9a
ENST00000358273
9a
ENSE00002115113
chr17:
29527440-29527613
174
NF1_HUMAN
297-354
58
0
-
-
1.10
ENST00000358273
10
ENSE00002099597
chr17:
29528055-29528177
123
NF1_HUMAN
355-395
41
0
-
-
1.11
ENST00000358273
11
ENSE00002134856
chr17:
29528429-29528503
75
NF1_HUMAN
396-420
25
0
-
-
1.12
ENST00000358273
12
ENSE00002094687
chr17:
29533258-29533389
132
NF1_HUMAN
421-464
44
0
-
-
1.13
ENST00000358273
13
ENSE00002128833
chr17:
29541469-29541603
135
NF1_HUMAN
465-509
45
0
-
-
1.14a
ENST00000358273
14a
ENSE00002120232
chr17:
29546023-29546136
114
NF1_HUMAN
510-547
38
0
-
-
1.15a
ENST00000358273
15a
ENSE00001718967
chr17:
29548868-29548947
80
NF1_HUMAN
548-574
27
0
-
-
1.16
ENST00000358273
16
ENSE00001682385
chr17:
29550462-29550585
124
NF1_HUMAN
574-615
42
0
-
-
1.17b
ENST00000358273
17b
ENSE00001674165
chr17:
29552113-29552268
156
NF1_HUMAN
616-667
52
0
-
-
1.18
ENST00000358273
18
ENSE00001656817
chr17:
29553453-29553702
250
NF1_HUMAN
668-751
84
0
-
-
1.19
ENST00000358273
19
ENSE00001637281
chr17:
29554236-29554309
74
NF1_HUMAN
751-775
25
0
-
-
1.20
ENST00000358273
20
ENSE00001777991
chr17:
29554541-29554624
84
NF1_HUMAN
776-803
28
0
-
-
1.21a
ENST00000358273
21a
ENSE00001672348
chr17:
29556043-29556483
441
NF1_HUMAN
804-950
147
0
-
-
1.21c
ENST00000358273
21c
ENSE00001753969
chr17:
29556853-29556992
140
NF1_HUMAN
951-997
47
0
-
-
1.22
ENST00000358273
22
ENSE00001681705
chr17:
29557278-29557400
123
NF1_HUMAN
997-1038
42
0
-
-
1.23
ENST00000358273
23
ENSE00001680511
chr17:
29557860-29557943
84
NF1_HUMAN
1038-1066
29
0
-
-
1.24
ENST00000358273
24
ENSE00001787054
chr17:
29559091-29559207
117
NF1_HUMAN
1066-1105
40
0
-
-
1.25
ENST00000358273
25
ENSE00001739464
chr17:
29559718-29559899
182
NF1_HUMAN
1105-1166
62
0
-
-
1.26a
ENST00000358273
26a
ENSE00001685335
chr17:
29560020-29560231
212
NF1_HUMAN
1166-1236
71
1
A:1206-1236
31
1.27
ENST00000358273
27
ENSE00001597402
chr17:
29562629-29562790
162
NF1_HUMAN
1237-1290
54
1
A:1237-1290
54
1.28
ENST00000358273
28
ENSE00001736567
chr17:
29562936-29563039
104
NF1_HUMAN
1291-1325
35
1
A:1291-1304
14
1.29
ENST00000358273
29
ENSE00001614962
chr17:
29576002-29576137
136
NF1_HUMAN
1325-1370
46
1
A:1331-1370
40
1.31
ENST00000358273
31
ENSE00001105172
chr17:
29579956-29580018
63
NF1_HUMAN
1371-1391
21
0
-
-
1.33
ENST00000358273
33
ENSE00001613913
chr17:
29585362-29585520
159
NF1_HUMAN
1392-1444
53
1
A:1371-1423 (gaps)
53
1.34
ENST00000358273
34
ENSE00001682969
chr17:
29586050-29586147
98
NF1_HUMAN
1445-1477
33
1
A:1424-1456
33
1.35
ENST00000358273
35
ENSE00001619767
chr17:
29587387-29587533
147
NF1_HUMAN
1477-1526
50
1
A:1456-1503 (gaps)
48
1.36b
ENST00000358273
36b
ENSE00001790168
chr17:
29588729-29588875
147
NF1_HUMAN
1526-1575
50
1
A:1513-1529
17
1.37
ENST00000358273
37
ENSE00001627455
chr17:
29592247-29592357
111
NF1_HUMAN
1575-1612
38
0
-
-
1.38
ENST00000358273
38
ENSE00001730796
chr17:
29652838-29653270
433
NF1_HUMAN
1612-1756
145
0
-
-
1.39
ENST00000358273
39
ENSE00001805635
chr17:
29654517-29654857
341
NF1_HUMAN
1757-1870
114
0
-
-
1.40a
ENST00000358273
40a
ENSE00001654020
chr17:
29657314-29657516
203
NF1_HUMAN
1870-1938
69
0
-
-
1.42
ENST00000358273
42
ENSE00001731551
chr17:
29661856-29662049
194
NF1_HUMAN
1938-2002
65
0
-
-
1.43a
ENST00000358273
43a
ENSE00001670698
chr17:
29663351-29663491
141
NF1_HUMAN
2003-2049
47
0
-
-
1.44
ENST00000358273
44
ENSE00001798398
chr17:
29663653-29663932
280
NF1_HUMAN
2050-2143
94
0
-
-
1.45
ENST00000358273
45
ENSE00001612636
chr17:
29664386-29664600
215
NF1_HUMAN
2143-2214
72
0
-
-
1.46c
ENST00000358273
46c
ENSE00001728730
chr17:
29664837-29664898
62
NF1_HUMAN
2215-2235
21
0
-
-
1.47b
ENST00000358273
47b
ENSE00000345386
chr17:
29665043-29665157
115
NF1_HUMAN
2235-2273
39
0
-
-
1.48
ENST00000358273
48
ENSE00000867931
chr17:
29665722-29665823
102
NF1_HUMAN
2274-2307
34
0
-
-
1.49
ENST00000358273
49
ENSE00001298195
chr17:
29667523-29667663
141
NF1_HUMAN
2308-2354
47
0
-
-
1.50
ENST00000358273
50
ENSE00000867933
chr17:
29670027-29670153
127
NF1_HUMAN
2355-2397
43
0
-
-
1.51
ENST00000358273
51
ENSE00000345390
chr17:
29676138-29676269
132
NF1_HUMAN
2397-2441
45
0
-
-
1.52
ENST00000358273
52
ENSE00000711432
chr17:
29677201-29677336
136
NF1_HUMAN
2441-2486
46
0
-
-
1.55
ENST00000358273
55
ENSE00000711463
chr17:
29679275-29679432
158
NF1_HUMAN
2486-2539
54
0
-
-
1.56
ENST00000358273
56
ENSE00000711466
chr17:
29683478-29683600
123
NF1_HUMAN
2539-2580
42
0
-
-
1.57
ENST00000358273
57
ENSE00000867938
chr17:
29683978-29684108
131
NF1_HUMAN
2580-2623
44
0
-
-
1.58
ENST00000358273
58
ENSE00000345395
chr17:
29684287-29684387
101
NF1_HUMAN
2624-2657
34
0
-
-
1.59a
ENST00000358273
59a
ENSE00000345396
chr17:
29685498-29685640
143
NF1_HUMAN
2657-2705
49
0
-
-
1.60
ENST00000358273
60
ENSE00000867941
chr17:
29685987-29686033
47
NF1_HUMAN
2705-2720
16
0
-
-
1.61a
ENST00000358273
61a
ENSE00000867942
chr17:
29687505-29687721
217
NF1_HUMAN
2721-2793
73
0
-
-
1.63c
ENST00000358273
63c
ENSE00001698901
chr17:
29701031-29704695
3665
NF1_HUMAN
2793-2839
47
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1nf1a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
GTPase activation domain, GAP
(18)
Superfamily
:
GTPase activation domain, GAP
(18)
Family
:
p120GAP domain-like
(3)
Protein domain
:
GAP related domain of neurofibromin
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1nf1a_
A:
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1nf1A02 (A:1253-1463)
2a: CATH_1nf1A01 (A:1206-1252,A:1485-1529)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
GTPase Activation - p120GAP; domain 1
(4)
Homologous Superfamily
:
GTPase Activation - p120gap; domain 1
(4)
Human (Homo sapiens)
(3)
1a
1nf1A02
A:1253-1463
Topology
:
GTPase Activation - p120GAP; domain 2
(3)
Homologous Superfamily
:
GTPase Activation - p120gap; domain 2
(3)
Human (Homo sapiens)
(3)
2a
1nf1A01
A:1206-1252,A:1485-1529
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_RasGAP_1nf1A01 (A:1256-1430)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GAP
(15)
Family
:
RasGAP
(3)
Homo sapiens (Human)
(3)
1a
RasGAP-1nf1A01
A:1256-1430
[
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Atom Selection
(currently selected atoms:
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Asymmetric Unit 1
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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)
[
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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") .
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