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Theor. Model
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Theoretical Model (99 KB)
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(1)
Title
:
THEORETICAL MODEL OF RED CONE PIGMENT
Authors
:
R. E. Stenkamp, S. Filipek, C. A. G. G. Driessen, D. C. Teller, K. Palczewski
Date
:
03 Jan 02 (Deposition) - 16 Jan 02 (Release) - 11 Dec 02 (Revision)
Method
:
THEORETICAL MODEL
Resolution
:
NOT APPLICABLE
Chains
:
Theor. Model : A
Keywords
:
Red Cone Pigment, Longwavelength Photoreceptor, G Protein- Coupled Receptor, Membrane Protein, Retinal Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. E. Stenkamp, S. Filipek, C. A. G. G. Driessen, D. C. Teller, K. Palczewski
Crystal Structure Of Rhodopsin: A Template For Cone Visual Pigments And Other G Protein-Coupled Receptors
Biochim. Biophys. Acta V. 1565 168 2002
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: RETINAL (RETa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
RET
1
Ligand/Ion
RETINAL
[
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]
Sites
(0, 0)
Info
All Sites
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Select:
Label:
Sorry, no Info available
[
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]
SAPs(SNPs)/Variants
(13, 13)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_012009 (T65I, chain A, )
02: VAR_012010 (I111V, chain A, )
03: VAR_012011 (S116Y, chain A, )
04: VAR_012012 (L153M, chain A, )
05: VAR_012013 (A174V, chain A, )
06: VAR_004842 (S180A, chain A, )
07: VAR_009298 (C203R, chain A, )
08: VAR_012014 (I230T, chain A, )
09: VAR_050612 (I274V, chain A, )
10: VAR_012015 (A298P, chain A, )
11: VAR_009299 (P307L, chain A, )
12: VAR_012016 (Y309F, chain A, )
13: VAR_064054 (G338E, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_012009
T
65
I
OPSR_HUMAN
Polymorphism
1065419
A
T
65
I
02
UniProt
VAR_012010
I
111
V
OPSR_HUMAN
Polymorphism
1065421
A
I
111
V
03
UniProt
VAR_012011
S
116
Y
OPSR_HUMAN
Polymorphism
1065422
A
S
116
Y
04
UniProt
VAR_012012
L
153
M
OPSR_HUMAN
Polymorphism
713
A
L
153
M
05
UniProt
VAR_012013
A
174
V
OPSR_HUMAN
Polymorphism
731613
A
A
174
V
06
UniProt
VAR_004842
S
180
A
OPSR_HUMAN
Polymorphism
949431
A
S
180
A
07
UniProt
VAR_009298
C
203
R
OPSR_HUMAN
Disease (BCM)
---
A
C
203
R
08
UniProt
VAR_012014
I
230
T
OPSR_HUMAN
Polymorphism
1065425
A
I
230
T
09
UniProt
VAR_050612
I
274
V
OPSR_HUMAN
Polymorphism
2315122
A
I
274
V
10
UniProt
VAR_012015
A
298
P
OPSR_HUMAN
Polymorphism
1065440
A
A
298
P
11
UniProt
VAR_009299
P
307
L
OPSR_HUMAN
Disease (BCM)
---
A
P
307
L
12
UniProt
VAR_012016
Y
309
F
OPSR_HUMAN
Polymorphism
1065441
A
Y
309
F
13
UniProt
VAR_064054
G
338
E
OPSR_HUMAN
Disease (CBP)
---
A
G
338
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: G_PROTEIN_RECEP_F1_1 (A:139-155)
2: OPSIN (A:306-322)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G_PROTEIN_RECEP_F1_1
PS00237
G-protein coupled receptors family 1 signature.
OPSR_HUMAN
139-155
1
A:139-155
2
OPSIN
PS00238
Visual pigments (opsins) retinal binding site.
OPSR_HUMAN
306-322
1
A:306-322
[
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]
Exons
(6, 6)
Info
All Exons
Exon 1.1a (A:1-38)
Exon 1.2 (A:38-137)
Exon 1.3a (A:137-193)
Exon 1.4 (A:193-248)
Exon 1.5c (A:249-328)
Exon 1.6b (A:329-364)
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All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2
3: Boundary 1.2/1.3a
4: Boundary 1.3a/1.4
5: Boundary 1.4/1.5c
6: Boundary 1.5c/1.6b
7: Boundary 1.6b/-
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
ENST00000369951
1a
ENSE00001833335
X:153409698-153409869
172
OPSR_HUMAN
1-38
38
1
A:1-38
38
1.2
ENST00000369951
2
ENSE00001646397
X:153416128-153416424
297
OPSR_HUMAN
38-137
100
1
A:38-137
100
1.3a
ENST00000369951
3a
ENSE00001736878
X:153418413-153418581
169
OPSR_HUMAN
137-193
57
1
A:137-193
57
1.4
ENST00000369951
4
ENSE00001788298
X:153420049-153420214
166
OPSR_HUMAN
193-248
56
1
A:193-248
56
1.5c
ENST00000369951
5c
ENSE00001634443
X:153421769-153422008
240
OPSR_HUMAN
249-328
80
1
A:249-328
80
1.6b
ENST00000369951
6b
ENSE00001842369
X:153424291-153424507
217
OPSR_HUMAN
329-364
36
1
A:329-364
36
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SCOP Domains
(0, 0)
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain A
Asymmetric Unit 1
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