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Getting 'Exon' information from database.
3P70
Asym. Unit
Info
Asym.Unit (413 KB)
Biol.Unit 1 (104 KB)
Biol.Unit 2 (103 KB)
Biol.Unit 3 (105 KB)
Biol.Unit 4 (105 KB)
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Title
:
STRUCTURAL BASIS OF THROMBIN-MEDIATED FACTOR V ACTIVATION: ESSENTIAL ROLE OF THE HIRUDIN-LIKE SEQUENCE GLU666-GLU672 FOR PROCESSING AT THE HEAVY CHAIN-B DOMAIN JUNCTION
Authors
:
M. A. Corral-Rodriguez, P. E. Bock, E. Hernandez-Carvajal, R. Gutierr Gallego, P. Fuentes-Prior
Date
:
11 Oct 10 (Deposition) - 28 Sep 11 (Release) - 29 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,M,N,O,P
Biol. Unit 1: A,B,M (1x)
Biol. Unit 2: C,D,N (1x)
Biol. Unit 3: E,F,O (1x)
Biol. Unit 4: G,H,P (1x)
Keywords
:
Trypsin-Like Serine Proteinase, Blood Coagulation, N-Glycosylation, Blood Plasma, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Corral-Rodriguez, P. E. Bock, E. Hernandez-Carvajal, R. Gutierrez-Gallego, P. Fuentes-Prior
Structural Basis Of Thrombin-Mediated Factor V Activation: The Glu666-Glu672 Sequence Is Critical For Processing At Th Heavy Chain-B Domain Junction.
Blood V. 117 7164 2011
[
close entry info
]
Hetero Components
(4, 20)
Info
All Hetero Components
1a: BENZAMIDINE (BENa)
1b: BENZAMIDINE (BENb)
1c: BENZAMIDINE (BENc)
1d: BENZAMIDINE (BENd)
2a: BETA-D-GLUCOSE (BGCa)
2b: BETA-D-GLUCOSE (BGCb)
2c: BETA-D-GLUCOSE (BGCc)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
3g: SODIUM ION (NAg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BEN
4
Ligand/Ion
BENZAMIDINE
2
BGC
3
Ligand/Ion
BETA-D-GLUCOSE
3
NA
7
Ligand/Ion
SODIUM ION
4
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(20, 20)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN B:416
BINDING SITE FOR RESIDUE NAG B 1416
02
AC2
SOFTWARE
ASN D:416 , THR D:418
BINDING SITE FOR RESIDUE NAG D 1416
03
AC3
SOFTWARE
LEU F:409 , ASN F:416 , THR F:418 , NAG F:1417
BINDING SITE FOR RESIDUE NAG F 1416
04
AC4
SOFTWARE
NAG F:1416
BINDING SITE FOR RESIDUE NAG F 1417
05
AC5
SOFTWARE
ASN H:416 , THR H:418 , NAG H:1417
BINDING SITE FOR RESIDUE NAG H 1416
06
AC6
SOFTWARE
NAG H:1416
BINDING SITE FOR RESIDUE NAG H 1417
07
AC7
SOFTWARE
ASP B:562 , ALA B:563 , GLU B:565 , SER B:568 , VAL B:588 , SER B:589 , TRP B:590 , GLY B:591 , GLY B:593 , GLY B:601
BINDING SITE FOR RESIDUE BEN B 2001
08
AC8
SOFTWARE
ASP D:562 , ALA D:563 , SER D:568 , VAL D:588 , SER D:589 , TRP D:590 , GLY D:591 , GLY D:593 , GLY D:601
BINDING SITE FOR RESIDUE BEN D 2001
09
AC9
SOFTWARE
ASP F:562 , ALA F:563 , GLU F:565 , SER F:568 , VAL F:588 , SER F:589 , GLY F:591 , GLY F:593 , CYS F:594 , GLY F:601
BINDING SITE FOR RESIDUE BEN F 2001
10
BC1
SOFTWARE
ASP H:562 , ALA H:563 , GLU H:565 , SER H:568 , VAL H:588 , GLY H:591 , GLY H:593 , GLY H:601
BINDING SITE FOR RESIDUE BEN H 2001
11
BC2
SOFTWARE
ARG B:596 , LYS B:599 , HOH B:3503 , HOH B:3517
BINDING SITE FOR RESIDUE NA B 1500
12
BC3
SOFTWARE
SER B:394 , LEU B:402 , GLY B:569 , GLY B:570 , GLN B:584
BINDING SITE FOR RESIDUE NA B 1501
13
BC4
SOFTWARE
ARG D:596 , LYS D:599
BINDING SITE FOR RESIDUE NA D 1500
14
BC5
SOFTWARE
ASP F:595 , ARG F:596 , LYS F:599 , HOH F:3505
BINDING SITE FOR RESIDUE NA F 1500
15
BC6
SOFTWARE
ARG H:596 , LYS H:599 , HOH H:3501
BINDING SITE FOR RESIDUE NA H 1500
16
BC7
SOFTWARE
TYR A:359 , TYR B:497 , TYR G:359 , TYR H:497
BINDING SITE FOR RESIDUE NA G 1501
17
BC8
SOFTWARE
ILE H:530 , VAL H:531 , GLU H:532 , ARG H:533 , PHE H:549 , CYS H:550 , HIS H:605
BINDING SITE FOR RESIDUE BGC H 4201
18
BC9
SOFTWARE
GLU B:509
BINDING SITE FOR RESIDUE BGC B 4202
19
CC1
SOFTWARE
VAL F:531 , GLU F:532 , ARG F:533 , PHE F:549 , HIS F:605
BINDING SITE FOR RESIDUE BGC F 4203
20
CC2
SOFTWARE
TYR C:359 , HOH C:3511 , TYR D:497 , TYR E:359 , TYR F:497
BINDING SITE FOR RESIDUE NA C 3200
[
close Site info
]
SAPs(SNPs)/Variants
(8, 32)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_006714 (M380T, chain B/D/F/H, )
2: VAR_011782 (P386T, chain B/D/F/H, )
3: VAR_006715 (R425C, chain B/D/F/H, )
4: VAR_006716 (R431H, chain B/D/F/H, )
5: VAR_006717 (R461W, chain B/D/F/H, )
6: VAR_006718 (E509A, chain B/D/F/H, )
7: VAR_068913 (E532Q, chain B/D/F/H, )
8: VAR_006719 (G601V, chain B/D/F/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_006714
M
380
T
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
M
380
T
2
UniProt
VAR_011782
P
386
T
THRB_HUMAN
Polymorphism
5897
B/D/F/H
P
386
T
3
UniProt
VAR_006715
R
425
C
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
425
C
4
UniProt
VAR_006716
R
431
H
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
431
H
5
UniProt
VAR_006717
R
461
W
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
R
461
W
6
UniProt
VAR_006718
E
509
A
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
E
509
A
7
UniProt
VAR_068913
E
532
Q
THRB_HUMAN
Polymorphism
---
B/D/F/H
E
532
Q
8
UniProt
VAR_006719
G
601
V
THRB_HUMAN
Disease (FA2D)
---
B/D/F/H
G
601
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (B:364-618,D:364-618,F:364-618,H:36...)
2: TRYPSIN_HIS (B:402-407,D:402-407,F:402-407,H:40...)
3: TRYPSIN_SER (B:562-573,D:562-573,F:562-573,H:56...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
THRB_HUMAN
364-618
4
B:364-618
D:364-618
F:364-618
H:364-618
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
THRB_HUMAN
402-407
4
B:402-407
D:402-407
F:402-407
H:402-407
3
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
THRB_HUMAN
562-573
4
B:562-573
D:562-573
F:562-573
H:562-573
[
close PROSITE info
]
Exons
(8, 36)
Info
All Exons
Exon 1.8 (A:334-335 | - | C:334-335 | - | E:...)
Exon 1.9 (A:335-362 | B:364-377 | C:335-362 ...)
Exon 1.10 (- | B:377-433 | - | D:377-433 | - ...)
Exon 1.11b (- | B:433-491 | - | D:433-491 | - ...)
Exon 1.12 (- | B:491-552 (gaps) | - | D:491-5...)
Exon 1.13 (- | B:552-575 | - | D:552-575 | - ...)
Exon 1.14c (- | B:576-622 | - | D:576-620 | - ...)
Exon 2.13 (M:667-672 | N:667-671 | O:667-671 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.7b/1.8
02: Boundary 1.8/1.9
03: Boundary 1.9/1.10
04: Boundary 1.10/1.11b
05: Boundary 1.11b/1.12
06: Boundary 1.12/1.13
07: Boundary 1.13/1.14c
08: Boundary 1.14c/-
09: Boundary 2.12b/2.13
10: Boundary 2.13/2.14
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
ENST00000311907
1a
ENSE00001931088
chr11:
46740730-46740864
135
THRB_HUMAN
1-27
27
0
-
-
1.2a
ENST00000311907
2a
ENSE00001181543
chr11:
46741252-46741412
161
THRB_HUMAN
27-80
54
0
-
-
1.3
ENST00000311907
3
ENSE00001181538
chr11:
46742073-46742097
25
THRB_HUMAN
81-89
9
0
-
-
1.4
ENST00000311907
4
ENSE00001181532
chr11:
46742340-46742390
51
THRB_HUMAN
89-106
18
0
-
-
1.6a
ENST00000311907
6a
ENSE00001181527
chr11:
46744730-46744835
106
THRB_HUMAN
106-141
36
0
-
-
1.6c
ENST00000311907
6c
ENSE00001181524
chr11:
46744932-46745068
137
THRB_HUMAN
141-187
47
0
-
-
1.7b
ENST00000311907
7b
ENSE00001688723
chr11:
46747409-46747723
315
THRB_HUMAN
187-292
106
0
-
-
1.8
ENST00000311907
8
ENSE00002179953
chr11:
46748048-46748176
129
THRB_HUMAN
292-335
44
4
A:334-335
-
C:334-335
-
E:334-335
-
G:334-335
-
2
-
2
-
2
-
2
-
1.9
ENST00000311907
9
ENSE00001770269
chr11:
46748261-46748387
127
THRB_HUMAN
335-377
43
8
A:335-362
B:364-377
C:335-362
D:364-377
E:335-362
F:364-377
G:335-361
H:364-377
28
14
28
14
28
14
27
14
1.10
ENST00000311907
10
ENSE00001650441
chr11:
46749546-46749713
168
THRB_HUMAN
377-433
57
4
-
B:377-433
-
D:377-433
-
F:377-433
-
H:377-433
-
57
-
57
-
57
-
57
1.11b
ENST00000311907
11b
ENSE00001657931
chr11:
46750214-46750387
174
THRB_HUMAN
433-491
59
4
-
B:433-491
-
D:433-491
-
F:433-491 (gaps)
-
H:433-491 (gaps)
-
59
-
59
-
59
-
59
1.12
ENST00000311907
12
ENSE00001646362
chr11:
46750930-46751111
182
THRB_HUMAN
491-552
62
4
-
B:491-552 (gaps)
-
D:491-552 (gaps)
-
F:491-552 (gaps)
-
H:491-552 (gaps)
-
62
-
62
-
62
-
62
1.13
ENST00000311907
13
ENSE00001680217
chr11:
46760598-46760668
71
THRB_HUMAN
552-575
24
4
-
B:552-575
-
D:552-575
-
F:552-575
-
H:552-575
-
24
-
24
-
24
-
24
1.14c
ENST00000311907
14c
ENSE00001227030
chr11:
46760815-46761056
242
THRB_HUMAN
576-622
47
4
-
B:576-622
-
D:576-620
-
F:576-620
-
H:576-621
-
47
-
45
-
45
-
46
2.1
ENST00000367797
1
ENSE00001673787
chr1:
169555826-169555467
360
FA5_HUMAN
1-53
53
0
-
-
2.2
ENST00000367797
2
ENSE00000789613
chr1:
169551760-169551669
92
FA5_HUMAN
53-84
32
0
-
-
2.3
ENST00000367797
3
ENSE00000789612
chr1:
169541581-169541459
123
FA5_HUMAN
84-125
42
0
-
-
2.4
ENST00000367797
4
ENSE00000789611
chr1:
169530004-169529792
213
FA5_HUMAN
125-196
72
0
-
-
2.5
ENST00000367797
5
ENSE00000789610
chr1:
169528534-169528391
144
FA5_HUMAN
196-244
49
0
-
-
2.6
ENST00000367797
6
ENSE00001435704
chr1:
169526105-169525884
222
FA5_HUMAN
244-318
75
0
-
-
2.7
ENST00000367797
7
ENSE00001435673
chr1:
169524585-169524420
166
FA5_HUMAN
318-373
56
0
-
-
2.8
ENST00000367797
8
ENSE00000789607
chr1:
169521972-169521795
178
FA5_HUMAN
373-432
60
0
-
-
2.9
ENST00000367797
9
ENSE00000789606
chr1:
169519977-169519878
100
FA5_HUMAN
433-466
34
0
-
-
2.10
ENST00000367797
10
ENSE00000789605
chr1:
169519253-169519039
215
FA5_HUMAN
466-537
72
0
-
-
2.11
ENST00000367797
11
ENSE00000789604
chr1:
169515830-169515680
151
FA5_HUMAN
538-588
51
0
-
-
2.12b
ENST00000367797
12b
ENSE00000789603
chr1:
169513746-169513534
213
FA5_HUMAN
588-659
72
0
-
-
2.13
ENST00000367797
13
ENSE00000814494
chr1:
169512352-169509532
2821
FA5_HUMAN
659-1599
941
4
M:667-672
N:667-671
O:667-671
P:666-670
6
5
5
5
2.14
ENST00000367797
14
ENSE00000814495
chr1:
169505918-169505744
175
FA5_HUMAN
1599-1657
59
0
-
-
2.15
ENST00000367797
15
ENSE00000814496
chr1:
169500260-169500024
237
FA5_HUMAN
1658-1736
79
0
-
-
2.16
ENST00000367797
16
ENSE00001376235
chr1:
169499056-169498846
211
FA5_HUMAN
1737-1807
71
0
-
-
2.17
ENST00000367797
17
ENSE00001388919
chr1:
169497332-169497153
180
FA5_HUMAN
1807-1867
61
0
-
-
2.18
ENST00000367797
18
ENSE00001367181
chr1:
169495255-169495139
117
FA5_HUMAN
1867-1906
40
0
-
-
2.19
ENST00000367797
19
ENSE00001168291
chr1:
169494146-169494075
72
FA5_HUMAN
1906-1930
25
0
-
-
2.20
ENST00000367797
20
ENSE00001168281
chr1:
169493142-169493039
104
FA5_HUMAN
1930-1964
35
0
-
-
2.21
ENST00000367797
21
ENSE00000814502
chr1:
169492590-169492435
156
FA5_HUMAN
1965-2016
52
0
-
-
2.22
ENST00000367797
22
ENSE00000814503
chr1:
169489902-169489758
145
FA5_HUMAN
2017-2065
49
0
-
-
2.23
ENST00000367797
23
ENSE00001168273
chr1:
169487801-169487650
152
FA5_HUMAN
2065-2115
51
0
-
-
2.24b
ENST00000367797
24b
ENSE00000814505
chr1:
169484864-169484682
183
FA5_HUMAN
2116-2176
61
0
-
-
2.25
ENST00000367797
25
ENSE00001627321
chr1:
169483697-169483404
294
FA5_HUMAN
2177-2224
48
0
-
-
[
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SCOP Domains
(0, 0)
Info
All SCOP Domains
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
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all PFAM domains
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Atom Selection
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Asym.Unit (413 KB)
Header - Asym.Unit
Biol.Unit 1 (104 KB)
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