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.
2JOD
Asym. Unit
Info
Asym.Unit (44 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
PAC1-RSHORT N-TERMINAL EC DOMAIN PACAP(6-38) COMPLEX
Authors
:
E. T. Olejniczak, C. Sun, D. Song, R. A. Davis-Taber, L. W. Barrett, V. E. Scott, P. L. Richardson, A. Pereda-Lopez, M. E. Uchic, L. R. Solomon, M. R. Lake, K. A. Walter, P. J. Hajduk
Date
:
07 Mar 07 (Deposition) - 22 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A,B
Keywords
:
Protein/Peptide Complex, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Sun, D. Song, R. A. Davis-Taber, L. W. Barrett, V. E. Scott, P. L. Richardson, A. Pereda-Lopez, M. E. Uchic, L. R. Solomon, M. R. Lake, K. A. Walter, P. J. Hajduk, E. T. Olejniczak
Solution Structure And Mutational Analysis Of Pituitary Adenylate Cyclase-Activating Polypeptide Binding To The Extracellular Domain Of Pac1-Rs.
Proc. Natl. Acad. Sci. Usa V. 104 7875 2007
(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
(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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: G_PROTEIN_RECEP_F2_3 (A:33-117)
2: G_PROTEIN_RECEP_F2_1 (A:54-78)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G_PROTEIN_RECEP_F2_3
PS50227
G-protein coupled receptors family 2 profile 1.
PACR_HUMAN
33-138
1
A:33-117
2
G_PROTEIN_RECEP_F2_1
PS00649
G-protein coupled receptors family 2 signature 1.
PACR_HUMAN
54-78
1
A:54-78
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.3a (A:17-17)
Exon 1.4 (A:18-53)
Exon 1.5b (A:53-88)
Exon 1.7 (A:89-89)
Exon 1.8 (A:89-122)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.3a
2: Boundary 1.3a/1.4
3: Boundary 1.4/1.5b
4: Boundary 1.5b/1.6
5: Boundary 1.6/1.7
6: Boundary 1.7/1.8
7: Boundary 1.8/1.9
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
ENST00000304166
1a
ENSE00001847988
chr7:
31092076-31092293
218
PACR_HUMAN
-
0
0
-
-
1.3a
ENST00000304166
3a
ENSE00002198733
chr7:
31102810-31102931
122
PACR_HUMAN
1-17
17
1
A:17-17
1
1.4
ENST00000304166
4
ENSE00001792951
chr7:
31104447-31104552
106
PACR_HUMAN
18-53
36
1
A:18-53
36
1.5b
ENST00000304166
5b
ENSE00001767695
chr7:
31117606-31117713
108
PACR_HUMAN
53-89
37
1
A:53-88
36
1.6
ENST00000304166
6
ENSE00001718747
chr7:
31120228-31120248
21
PACR_HUMAN
89-96
8
0
-
-
1.7
ENST00000304166
7
ENSE00001666314
chr7:
31121328-31121369
42
PACR_HUMAN
96-110
15
1
A:89-89
1
1.8
ENST00000304166
8
ENSE00001709703
chr7:
31123756-31123865
110
PACR_HUMAN
110-146
37
1
A:89-122
34
1.9
ENST00000304166
9
ENSE00001721136
chr7:
31124352-31124449
98
PACR_HUMAN
147-179
33
0
-
-
1.10
ENST00000304166
10
ENSE00001631551
chr7:
31124925-31125057
133
PACR_HUMAN
179-223
45
0
-
-
1.11
ENST00000304166
11
ENSE00001801173
chr7:
31125998-31126151
154
PACR_HUMAN
224-275
52
0
-
-
1.12a
ENST00000304166
12a
ENSE00000675063
chr7:
31126557-31126617
61
PACR_HUMAN
275-295
21
0
-
-
1.13
ENST00000304166
13
ENSE00000675064
chr7:
31127241-31127310
70
PACR_HUMAN
295-318
24
0
-
-
1.14
ENST00000304166
14
ENSE00000675065
chr7:
31132258-31132349
92
PACR_HUMAN
319-349
31
0
-
-
1.17
ENST00000304166
17
ENSE00000675066
chr7:
31142851-31142980
130
PACR_HUMAN
349-392
44
0
-
-
1.18b
ENST00000304166
18b
ENSE00001664639
chr7:
31144482-31144523
42
PACR_HUMAN
393-406
14
0
-
-
1.19e
ENST00000304166
19e
ENSE00001932697
chr7:
31146110-31151089
4980
PACR_HUMAN
407-468
62
0
-
-
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2jodb1 (B:6-38)
2a: SCOP_d2joda1 (A:17-122)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Peptides
(792)
Fold
:
Peptide hormones
(51)
Superfamily
:
Peptide hormones
(51)
Family
:
Peptide hormones
(51)
Protein domain
:
Pituitary adenylate cyclase-activating polypeptide, PACAP
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d2jodb1
B:6-38
Class
:
Small proteins
(3458)
Fold
:
Hormone receptor domain
(2)
Superfamily
:
Hormone receptor domain
(2)
Family
:
Hormone receptor domain
(2)
Protein domain
:
Pituitary adenylate cyclase-activating polypeptide type I receptor
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
2a
d2joda1
A:17-122
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_HRM_2jodA01 (A:51-116)
2a: PFAM_Hormone_2_2jodB01 (B:6-28)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: HRM]
(9)
Family
:
HRM
(9)
Homo sapiens (Human)
(7)
1a
HRM-2jodA01
A:51-116
Clan
:
no clan defined [family: Hormone_2]
(11)
Family
:
Hormone_2
(11)
Homo sapiens (Human)
(9)
2a
Hormone_2-2jodB01
B:6-28
[
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 (44 KB)
Header - Asym.Unit
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
2JOD
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help