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3C5N
Biol. Unit 2
Info
Asym.Unit (239 KB)
Biol.Unit 1 (118 KB)
Biol.Unit 2 (117 KB)
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(1)
Title
:
STRUCTURE OF HUMAN TULP1 IN COMPLEX WITH IP3
Authors
:
R. D. Busam, L. Lehtio, C. H. Arrowsmith, R. Collins, L. G. Dahlgren, A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, B. M. Hallberg, M. D. Herman, A. Johansson, I. Johansson, A. Kallas, T. Karlberg, T. Kotenyova, M. Moche, M. E. Nilsson, P. Nordlund, T. Nyman, C. Persson, J. Sagemark, L. Svensson, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, J. Weigelt, M. Welin, H. Berglund, Structural Genomics Consortium (Sgc)
Date
:
31 Jan 08 (Deposition) - 01 Apr 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Tubby, Inositol, Signalling, Alternative Splicing, Disease Mutation, Polymorphism, Retinitis Pigmentosa, Sensory Transduction, Vision, Signaling Protein, Structural Genomics, Structural Genomics Consortium, Sgc
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. D. Busam, L. Lehtio, C. H. Arrowsmith, R. Collins, L. G. Dahlgren, A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, B. M. Hallberg, M. D. Herman, A. Johansson, I. Johansson, A. Kallas, T. Karlberg, T. Kotenyova, M. Moche, M. E. Nilsson, P. Nordlund, T. Nyman, C. Persson, J. Sagemark, L. Svensson, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, J. Weigelt, M. Welin, H. Berglund, Structural Genomics Consortium (Sgc)
Structure Of Human Tulp1 In Complex With Ip3
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE (I3Pa)
1b: D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE (I3Pb)
1c: D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE (I3Pc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
I3P
2
Ligand/Ion
D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG B:258 , SER B:434 , LYS B:436 , ARG B:455
BINDING SITE FOR RESIDUE I3P B 1
2
AC2
SOFTWARE
ARG A:258 , SER A:434 , LYS A:436 , ARG A:455 , LYS B:290
BINDING SITE FOR RESIDUE I3P A 2
3
AC3
SOFTWARE
ARG B:289 , SER B:292 , LYS B:293 , THR B:294 , LYS B:316 , ARG B:318 , ASN B:334 , ARG B:337 , ARG B:347
BINDING SITE FOR RESIDUE I3P B 3
[
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SAPs(SNPs)/Variants
(11, 11)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_065500 (G315W, chain B, )
02: VAR_008278 (R325H, chain B, )
03: VAR_037584 (F329S, chain B, )
04: VAR_065501 (R347W, chain B, )
05: VAR_007941 (R367P, chain B, )
06: VAR_008279 (T401M, chain B, )
07: VAR_007942 (I406K, chain B, )
08: VAR_065502 (R429W, chain B, )
09: VAR_008280 (K436R, chain B, )
10: VAR_007943 (F438L, chain B, )
11: VAR_008281 (A443T, chain B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_065500
G
368
W
TULP1_HUMAN
Disease (LCA15)
---
B
G
315
W
02
UniProt
VAR_008278
R
378
H
TULP1_HUMAN
Disease (RP14)
---
B
R
325
H
03
UniProt
VAR_037584
F
382
S
TULP1_HUMAN
Disease (RP14)
---
B
F
329
S
04
UniProt
VAR_065501
R
400
W
TULP1_HUMAN
Disease (LCA15)
---
B
R
347
W
05
UniProt
VAR_007941
R
420
P
TULP1_HUMAN
Disease (RP14)
---
B
R
367
P
06
UniProt
VAR_008279
T
454
M
TULP1_HUMAN
Disease (RP14)
138200747
B
T
401
M
07
UniProt
VAR_007942
I
459
K
TULP1_HUMAN
Disease (RP14)
121909075
B
I
406
K
08
UniProt
VAR_065502
R
482
W
TULP1_HUMAN
Disease (RP14)
---
B
R
429
W
09
UniProt
VAR_008280
K
489
R
TULP1_HUMAN
Disease (RP14)
---
B
K
436
R
10
UniProt
VAR_007943
F
491
L
TULP1_HUMAN
Disease (RP14)
---
B
F
438
L
11
UniProt
VAR_008281
A
496
T
TULP1_HUMAN
Unclassified
141980901
B
A
443
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: TUB_1 (B:426-439)
2: TUB_2 (B:474-483)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TUB_1
PS01200
Tub family signature 1.
TULP1_HUMAN
479-492
1
-
B:426-439
2
TUB_2
PS01201
Tub family signature 2.
TULP1_HUMAN
527-542
1
-
B:474-483
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3c5na_ (A:)
1b: SCOP_d3c5nb_ (B:)
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Classes
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Tubby C-terminal domain-like
(7)
Superfamily
:
Tubby C-terminal domain-like
(7)
Family
:
Transcriptional factor tubby, C-terminal domain
(5)
Protein domain
:
automated matches
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d3c5na_
A:
1b
d3c5nb_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3c5nA00 (A:238-483)
1b: CATH_3c5nB00 (B:238-483)
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)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
Tubby Protein; Chain A
(5)
Homologous Superfamily
:
Tubby Protein; Chain A
(5)
Human (Homo sapiens)
(3)
1a
3c5nA00
A:238-483
1b
3c5nB00
B:238-483
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain B
Asymmetric Unit 1
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Example Commands
Example Command
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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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Asym.Unit (239 KB)
Header - Asym.Unit
Biol.Unit 1 (118 KB)
Header - Biol.Unit 1
Biol.Unit 2 (117 KB)
Header - Biol.Unit 2
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