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Getting 'Exon' information from database.
3FFK
Asym. Unit
Info
Asym.Unit (243 KB)
Biol.Unit 1 (122 KB)
Biol.Unit 2 (119 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN GELSOLIN DOMAINS G1-G3 BOUND TO ACTIN
Authors
:
S. Chumnarnsilpa, R. C. Robinson, L. D. Burtnick
Date
:
03 Dec 08 (Deposition) - 06 Oct 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,B (1x)
Biol. Unit 2: D,E (1x)
Keywords
:
Gelsolin, Actin, Ca-Dependent, Ca-Activated, Contractile Protein, Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Nag, Q. Ma, H. Wang, S. Chumnarnsilpa, W. L. Lee, M. Larsson, B. Kannan, M. Hernandez-Valladares, L. D. Burtnick, R. C. Robinson
Ca2+ Binding By Domain 2 Plays A Critical Role In The Activation And Stabilization Of Gelsolin.
Proc. Natl. Acad. Sci. Usa V. 106 13713 2009
[
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
2i: CALCIUM ION (CAi)
2j: CALCIUM ION (CAj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
2
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
CA
10
Ligand/Ion
CALCIUM ION
[
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]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:186 , ASP A:187 , GLU A:209 , ASP A:259 , HOH A:789 , HOH A:883
BINDING SITE FOR RESIDUE CA A 756
02
AC2
SOFTWARE
GLY A:65 , ASP A:66 , GLU A:97 , VAL A:145
BINDING SITE FOR RESIDUE CA A 757
03
AC3
SOFTWARE
ASP A:109 , GLY A:114 , ALA A:116 , HOH A:853 , HOH A:882 , GLU B:167
BINDING SITE FOR RESIDUE CA A 758
04
AC4
SOFTWARE
GLU A:302 , ASP A:303 , GLU A:327 , HOH A:777 , HOH A:802
BINDING SITE FOR RESIDUE CA A 759
05
AC5
SOFTWARE
ATP B:380 , HOH B:392 , HOH B:398 , HOH B:469 , HOH B:470
BINDING SITE FOR RESIDUE CA B 401
06
AC6
SOFTWARE
GLY B:13 , SER B:14 , GLY B:15 , LEU B:16 , LYS B:18 , GLY B:156 , ASP B:157 , GLY B:158 , VAL B:159 , GLY B:182 , ARG B:210 , LYS B:213 , GLU B:214 , GLY B:301 , GLY B:302 , THR B:303 , MET B:305 , TYR B:306 , HOH B:379 , HOH B:392 , CA B:401 , HOH B:470
BINDING SITE FOR RESIDUE ATP B 380
07
AC7
SOFTWARE
GLY D:186 , ASP D:187 , GLU D:209 , ASP D:259 , HOH D:784 , HOH D:852
BINDING SITE FOR RESIDUE CA D 756
08
AC8
SOFTWARE
GLY D:65 , ASP D:66 , GLU D:97 , VAL D:145
BINDING SITE FOR RESIDUE CA D 757
09
AC9
SOFTWARE
ASP D:109 , GLY D:114 , ALA D:116 , HOH D:833 , GLU E:167
BINDING SITE FOR RESIDUE CA D 758
10
BC1
SOFTWARE
GLU D:302 , ASP D:303 , GLU D:327
BINDING SITE FOR RESIDUE CA D 759
11
BC2
SOFTWARE
ATP E:380 , HOH E:395 , HOH E:433 , HOH E:441 , HOH E:490
BINDING SITE FOR RESIDUE CA E 401
12
BC3
SOFTWARE
GLY E:13 , SER E:14 , GLY E:15 , LEU E:16 , LYS E:18 , GLY E:156 , ASP E:157 , GLY E:158 , VAL E:159 , GLY E:182 , LYS E:213 , GLU E:214 , GLY E:301 , GLY E:302 , THR E:303 , MET E:305 , TYR E:306 , HOH E:395 , CA E:401 , HOH E:440 , HOH E:450 , HOH E:490 , HOH E:495
BINDING SITE FOR RESIDUE ATP E 380
[
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]
SAPs(SNPs)/Variants
(5, 10)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_024690 (A102T, chain A/D, )
2: VAR_036338 (T174I, chain A/D, )
3: VAR_007718 (D187N, chain A/D, )
4: VAR_007719 (D187Y, chain A/D, )
5: VAR_061982 (N204D, chain A/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_024690
A
129
T
GELS_HUMAN
Polymorphism
2230287
A/D
A
102
T
2
UniProt
VAR_036338
T
201
I
GELS_HUMAN
Unclassified
---
A/D
T
174
I
3
UniProt
VAR_007718
D
214
N
GELS_HUMAN
Disease (AMYL5)
---
A/D
D
187
N
4
UniProt
VAR_007719
D
214
Y
GELS_HUMAN
Disease (AMYL5)
---
A/D
D
187
Y
5
UniProt
VAR_061982
N
231
D
GELS_HUMAN
Polymorphism
11550199
A/D
N
204
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: ACTINS_1 (B:53-63,E:53-63)
2: ACTINS_ACT_LIKE (B:104-116,E:104-116)
3: ACTINS_2 (B:356-364,E:356-364)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ACTINS_1
PS00406
Actins signature 1.
ACTS_RABIT
55-65
2
B:53-63
E:53-63
2
ACTINS_ACT_LIKE
PS01132
Actins and actin-related proteins signature.
ACTS_RABIT
106-118
2
B:104-116
E:104-116
3
ACTINS_2
PS00432
Actins signature 2.
ACTS_RABIT
358-366
2
B:356-364
E:356-364
[
close PROSITE info
]
Exons
(8, 16)
Info
All Exons
Exon 1.16d (A:28-90 | D:27-90)
Exon 1.17 (A:90-141 | D:90-141)
Exon 1.18b (A:142-195 | D:142-195)
Exon 1.18f (A:196-245 | D:196-245)
Exon 1.18i (A:246-275 | D:246-275)
Exon 1.19b (A:276-320 | D:276-320)
Exon 1.20 (A:320-349 | D:320-349)
Exon 1.21a (A:350-374 | D:350-372)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.14/1.16d
2: Boundary 1.16d/1.17
3: Boundary 1.17/1.18b
4: Boundary 1.18b/1.18f
5: Boundary 1.18f/1.18i
6: Boundary 1.18i/1.19b
7: Boundary 1.19b/1.20
8: Boundary 1.20/1.21a
9: Boundary 1.21a/1.22b
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
1.14
ENST00000373818
14
ENSE00001461665
chr9:
124062071-124062283
213
GELS_HUMAN
1-48
48
0
-
-
1.16d
ENST00000373818
16d
ENSE00001725493
chr9:
124064241-124064445
205
GELS_HUMAN
49-117
69
2
A:28-90
D:27-90
63
64
1.17
ENST00000373818
17
ENSE00001745162
chr9:
124065189-124065343
155
GELS_HUMAN
117-168
52
2
A:90-141
D:90-141
52
52
1.18b
ENST00000373818
18b
ENSE00001764209
chr9:
124072962-124073123
162
GELS_HUMAN
169-222
54
2
A:142-195
D:142-195
54
54
1.18f
ENST00000373818
18f
ENSE00001689299
chr9:
124074617-124074766
150
GELS_HUMAN
223-272
50
2
A:196-245
D:196-245
50
50
1.18i
ENST00000373818
18i
ENSE00001727906
chr9:
124076212-124076301
90
GELS_HUMAN
273-302
30
2
A:246-275
D:246-275
30
30
1.19b
ENST00000373818
19b
ENSE00001732099
chr9:
124079364-124079496
133
GELS_HUMAN
303-347
45
2
A:276-320
D:276-320
45
45
1.20
ENST00000373818
20
ENSE00001734404
chr9:
124080684-124080772
89
GELS_HUMAN
347-376
30
2
A:320-349
D:320-349
30
30
1.21a
ENST00000373818
21a
ENSE00001618926
chr9:
124080943-124081158
216
GELS_HUMAN
377-448
72
2
A:350-374
D:350-372
25
23
1.22b
ENST00000373818
22b
ENSE00001591416
chr9:
124083546-124083679
134
GELS_HUMAN
449-493
45
0
-
-
1.23
ENST00000373818
23
ENSE00001735249
chr9:
124086832-124086922
91
GELS_HUMAN
493-523
31
0
-
-
1.24a
ENST00000373818
24a
ENSE00001704432
chr9:
124088790-124088960
171
GELS_HUMAN
524-580
57
0
-
-
1.25
ENST00000373818
25
ENSE00001668309
chr9:
124089586-124089760
175
GELS_HUMAN
581-639
59
0
-
-
1.26b
ENST00000373818
26b
ENSE00001721539
chr9:
124091169-124091293
125
GELS_HUMAN
639-680
42
0
-
-
1.26c
ENST00000373818
26c
ENSE00001771020
chr9:
124091516-124091593
78
GELS_HUMAN
681-706
26
0
-
-
1.27a
ENST00000373818
27a
ENSE00001779366
chr9:
124093666-124093726
61
GELS_HUMAN
707-727
21
0
-
-
1.28d
ENST00000373818
28d
ENSE00001732346
chr9:
124094712-124095120
409
GELS_HUMAN
727-782
56
0
-
-
[
close EXON info
]
SCOP Domains
(3, 10)
Info
All SCOP Domains
1a: SCOP_d3ffka1 (A:28-152)
1b: SCOP_d3ffka2 (A:153-262)
1c: SCOP_d3ffka3 (A:263-374)
1d: SCOP_d3ffkd1 (D:27-152)
1e: SCOP_d3ffkd2 (D:153-262)
1f: SCOP_d3ffkd3 (D:263-372)
2a: SCOP_d3ffkb2 (B:147-368)
2b: SCOP_d3ffke2 (E:147-370)
3a: SCOP_d3ffkb1 (B:3-146)
3b: SCOP_d3ffke1 (E:5-146)
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(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Gelsolin-like
(96)
Superfamily
:
Actin depolymerizing proteins
(88)
Family
:
Gelsolin-like
(43)
Protein domain
:
Gelsolin
(33)
Human (Homo sapiens) [TaxId: 9606]
(31)
1a
d3ffka1
A:28-152
1b
d3ffka2
A:153-262
1c
d3ffka3
A:263-374
1d
d3ffkd1
D:27-152
1e
d3ffkd2
D:153-262
1f
d3ffkd3
D:263-372
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Actin-like ATPase domain
(426)
Family
:
Actin/HSP70
(199)
Protein domain
:
automated matches
(47)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(9)
2a
d3ffkb2
B:147-368
2b
d3ffke2
E:147-370
Family
:
automated matches
(111)
Protein domain
:
automated matches
(111)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(8)
3a
d3ffkb1
B:3-146
3b
d3ffke1
E:5-146
[
close SCOP info
]
CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_3ffkB01 (B:6-34,B:71-134,B:337-368)
1b: CATH_3ffkE01 (E:5-31,E:73-138,E:338-370)
1c: CATH_3ffkE03 (E:139-185,E:275-337)
1d: CATH_3ffkB03 (B:136-181,B:271-332)
2a: CATH_3ffkA01 (A:28-154)
2b: CATH_3ffkA03 (A:261-374)
2c: CATH_3ffkD03 (D:261-372)
2d: CATH_3ffkD01 (D:27-154)
2e: CATH_3ffkA02 (A:155-260)
2f: CATH_3ffkD02 (D:155-260)
3a: CATH_3ffkB04 (B:182-267)
3b: CATH_3ffkE04 (E:186-274)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.40, no name defined]
(217)
Human (Homo sapiens)
(36)
1a
3ffkB01
B:6-34,B:71-134,B:337-368
1b
3ffkE01
E:5-31,E:73-138,E:338-370
1c
3ffkE03
E:139-185,E:275-337
1d
3ffkB03
B:136-181,B:271-332
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Severin
(74)
Homologous Superfamily
:
Severin
(74)
Human (Homo sapiens)
(36)
2a
3ffkA01
A:28-154
2b
3ffkA03
A:261-374
2c
3ffkD03
D:261-372
2d
3ffkD01
D:27-154
2e
3ffkA02
A:155-260
2f
3ffkD02
D:155-260
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Actin; Chain A, domain 4
(156)
Homologous Superfamily
:
Actin; Chain A, domain 4
(155)
Human (Homo sapiens)
(29)
3a
3ffkB04
B:182-267
3b
3ffkE04
E:186-274
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
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