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.
1URQ
Asym. Unit
Info
Asym.Unit (51 KB)
Biol.Unit 1 (47 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 NEURONAL Q-SNARES IN COMPLEX WITH R-SNARE MOTIF OF TOMOSYN
Authors
:
A. Pobbati, A. Razeto, S. Becker, D. Fasshauer
Date
:
31 Oct 03 (Deposition) - 26 Aug 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Transport Protein, Tomosyn-Snare Complex, Exocytosis, Four Helical Bundle, Coiled Coil
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Pobbati, A. Razeto, M. Boddener, S. Becker, D. Fasshauer
Structural Basis For The Inhibitory Role Of Tomosyn In Exocytosis
J. Biol. Chem. V. 279 47192 2004
[
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
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_073698 (I67N, chain C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_073698
I
67
N
SNP25_HUMAN
Disease (CMS18)
---
C
I
67
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 4)
Info
All PROSITE Patterns/Profiles
1: T_SNARE (C:19-81|D:141-199,C:19-81|D:141-19...)
2: SYNTAXIN (B:198-237)
3: V_SNARE (A:1051-1108)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
T_SNARE
PS50192
t-SNARE coiled-coil homology domain profile.
SNP25_CHICK
19-81
140-202
2
C:19-81
D:141-199
SNP25_HUMAN
19-81
140-202
2
C:19-81
D:141-199
SNP25_MACMU
19-81
140-202
2
C:19-81
D:141-199
SNP25_MOUSE
19-81
140-202
2
C:19-81
D:141-199
SNP25_RAT
19-81
140-202
2
C:19-81
D:141-199
2
SYNTAXIN
PS00914
Syntaxin / epimorphin family signature.
STX1A_RAT
198-237
1
B:198-237
3
V_SNARE
PS50892
v-SNARE coiled-coil homology domain profile.
STXB5_RAT
1087-1147
1
A:1051-1108
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.8 (B:196-226)
Exon 1.9 (B:227-259)
Exon 2.31 (A:1051-1105)
Exon 2.32 (A:1106-1108)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.7/1.8
2: Boundary 1.8/1.9
3: Boundary 1.9/1.10
4: Boundary 2.30/2.31
5: Boundary 2.31/2.32
6: Boundary 2.32/-
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
1.1
ENSRNOT00000049601
1
ENSRNOE00000287178
chr12:
22765064-22765004
61
STX1A_RAT
1-10
10
0
-
-
1.2
ENSRNOT00000049601
2
ENSRNOE00000361256
chr12:
22752097-22752020
78
STX1A_RAT
11-36
26
0
-
-
1.3
ENSRNOT00000049601
3
ENSRNOE00000279130
chr12:
22751752-22751653
100
STX1A_RAT
37-70
34
0
-
-
1.4
ENSRNOT00000049601
4
ENSRNOE00000343385
chr12:
22748087-22748013
75
STX1A_RAT
70-95
26
0
-
-
1.5
ENSRNOT00000049601
5
ENSRNOE00000295520
chr12:
22747334-22747261
74
STX1A_RAT
95-119
25
0
-
-
1.6
ENSRNOT00000049601
6
ENSRNOE00000302188
chr12:
22747159-22747051
109
STX1A_RAT
120-156
37
0
-
-
1.7
ENSRNOT00000049601
7
ENSRNOE00000358330
chr12:
22746606-22746533
74
STX1A_RAT
156-180
25
0
-
-
1.8
ENSRNOT00000049601
8
ENSRNOE00000316992
chr12:
22743199-22743062
138
STX1A_RAT
181-226
46
1
B:196-226
31
1.9
ENSRNOT00000049601
9
ENSRNOE00000335636
chr12:
22739362-22739252
111
STX1A_RAT
227-263
37
1
B:227-259
33
1.10
ENSRNOT00000049601
10
ENSRNOE00000345574
chr12:
22738422-22737112
1311
STX1A_RAT
264-288
25
0
-
-
2.1
ENSRNOT00000049699
1
ENSRNOE00000129107
chr1:
4579373-4578871
503
STXB5_RAT
1-51
51
0
-
-
2.2
ENSRNOT00000049699
2
ENSRNOE00000129533
chr1:
4577650-4577553
98
STXB5_RAT
52-84
33
0
-
-
2.3
ENSRNOT00000049699
3
ENSRNOE00000129780
chr1:
4532028-4531947
82
STXB5_RAT
84-111
28
0
-
-
2.4
ENSRNOT00000049699
4
ENSRNOE00000130018
chr1:
4530722-4530622
101
STXB5_RAT
112-145
34
0
-
-
2.5
ENSRNOT00000049699
5
ENSRNOE00000130262
chr1:
4515526-4515392
135
STXB5_RAT
145-190
46
0
-
-
2.6
ENSRNOT00000049699
6
ENSRNOE00000130505
chr1:
4514082-4514019
64
STXB5_RAT
190-211
22
0
-
-
2.7
ENSRNOT00000049699
7
ENSRNOE00000130749
chr1:
4510146-4510063
84
STXB5_RAT
212-239
28
0
-
-
2.8
ENSRNOT00000049699
8
ENSRNOE00000131087
chr1:
4508236-4508113
124
STXB5_RAT
240-281
42
0
-
-
2.9
ENSRNOT00000049699
9
ENSRNOE00000131364
chr1:
4498720-4498642
79
STXB5_RAT
281-307
27
0
-
-
2.10
ENSRNOT00000049699
10
ENSRNOE00000131605
chr1:
4486911-4486757
155
STXB5_RAT
307-359
53
0
-
-
2.11
ENSRNOT00000049699
11
ENSRNOE00000131888
chr1:
4485593-4485521
73
STXB5_RAT
359-383
25
0
-
-
2.12
ENSRNOT00000049699
12
ENSRNOE00000132126
chr1:
4481813-4481666
148
STXB5_RAT
383-432
50
0
-
-
2.13
ENSRNOT00000049699
13
ENSRNOE00000132343
chr1:
4481446-4481379
68
STXB5_RAT
433-455
23
0
-
-
2.14
ENSRNOT00000049699
14
ENSRNOE00000212043
chr1:
4481147-4481107
41
STXB5_RAT
455-469
15
0
-
-
2.15
ENSRNOT00000049699
15
ENSRNOE00000132841
chr1:
4475680-4475460
221
STXB5_RAT
469-542
74
0
-
-
2.16
ENSRNOT00000049699
16
ENSRNOE00000132985
chr1:
4475022-4474844
179
STXB5_RAT
543-602
60
0
-
-
2.17
ENSRNOT00000049699
17
ENSRNOE00000346617
chr1:
4468800-4468777
24
STXB5_RAT
602-610
9
0
-
-
2.18
ENSRNOT00000049699
18
ENSRNOE00000340384
chr1:
4468472-4468446
27
STXB5_RAT
610-619
10
0
-
-
2.19
ENSRNOT00000049699
19
ENSRNOE00000317221
chr1:
4468375-4468352
24
STXB5_RAT
619-627
9
0
-
-
2.20
ENSRNOT00000049699
20
ENSRNOE00000299107
chr1:
4467179-4467160
20
STXB5_RAT
627-634
8
0
-
-
2.21
ENSRNOT00000049699
21
ENSRNOE00000362193
chr1:
4466850-4466814
37
STXB5_RAT
634-646
13
0
-
-
2.22
ENSRNOT00000049699
22
ENSRNOE00000133278
chr1:
4466788-4466637
152
STXB5_RAT
646-697
52
0
-
-
2.23
ENSRNOT00000049699
23
ENSRNOE00000212021
chr1:
4457162-4457097
66
STXB5_RAT
697-719
23
0
-
-
2.24
ENSRNOT00000049699
24
ENSRNOE00000134667
chr1:
4452683-4452624
60
STXB5_RAT
719-739
21
0
-
-
2.25
ENSRNOT00000049699
25
ENSRNOE00000134762
chr1:
4452520-4452473
48
STXB5_RAT
739-755
17
0
-
-
2.26
ENSRNOT00000049699
26
ENSRNOE00000134013
chr1:
4445431-4445381
51
STXB5_RAT
755-772
18
0
-
-
2.27
ENSRNOT00000049699
27
ENSRNOE00000127335
chr1:
4438459-4438220
240
STXB5_RAT
772-852
81
0
-
-
2.28
ENSRNOT00000049699
28
ENSRNOE00000127646
chr1:
4437394-4437025
370
STXB5_RAT
852-975
124
0
-
-
2.29
ENSRNOT00000049699
29
ENSRNOE00000127754
chr1:
4436697-4436532
166
STXB5_RAT
975-1030
56
0
-
-
2.30
ENSRNOT00000049699
30
ENSRNOE00000133597
chr1:
4434992-4434881
112
STXB5_RAT
1031-1068
38
0
-
-
2.31
ENSRNOT00000049699
31
ENSRNOE00000127959
chr1:
4430373-4430153
221
STXB5_RAT
1068-1141
74
1
A:1051-1105
55
2.32
ENSRNOT00000049699
32
ENSRNOE00000211343
chr1:
4428361-4428320
42
STXB5_RAT
1142-1154
13
1
A:1106-1108
3
[
close EXON info
]
SCOP Domains
(3, 4)
Info
All SCOP Domains
1a: SCOP_d1urqa_ (A:)
2a: SCOP_d1urqc_ (C:)
2b: SCOP_d1urqd_ (D:)
3a: SCOP_d1urqb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Coiled coil proteins
(689)
Fold
:
Parallel coiled-coil
(407)
Superfamily
:
SNARE fusion complex
(33)
Family
:
SNARE fusion complex
(31)
Protein domain
:
M-tomosyn
(1)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(1)
1a
d1urqa_
A:
Protein domain
:
Synaptosomal-associated protein SNAP-25
(8)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(4)
2a
d1urqc_
C:
2b
d1urqd_
D:
Protein domain
:
Syntaxin 1A
(8)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(6)
3a
d1urqb_
B:
[
close SCOP info
]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_1urqD00 (D:138-199)
1b: CATH_1urqB00 (B:196-259)
1c: CATH_1urqC00 (C:16-83)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
[code=1.20.5.110, no name defined]
(17)
Rat (Rattus norvegicus)
(3)
1a
1urqD00
D:138-199
1b
1urqB00
B:196-259
1c
1urqC00
C:16-83
[
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
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 (51 KB)
Header - Asym.Unit
Biol.Unit 1 (47 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
1URQ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help