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1NL2
Asym. Unit
Info
Asym.Unit (36 KB)
Biol.Unit 1 (29 KB)
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(1)
Title
:
BOVINE PROTHROMBIN FRAGMENT 1 IN COMPLEX WITH CALCIUM AND LYSOPHOSPHOTIDYLSERINE
Authors
:
M. Huang, G. Huang, B. Furie, B. Seaton, B. C. Furie
Date
:
06 Jan 03 (Deposition) - 16 Sep 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Huang, A. C. Rigby, X. Morelli, M. A. Grant, G. Huang, B. Furie, B. Seaton, B. C. Furie
Structural Basis Of Membrane Binding By Gla Domains Of Vitamin K-Dependent Proteins.
Nat. Struct. Biol. V. 10 751 2003
[
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Hetero Components
(5, 24)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
2a: GAMMA-CARBOXY-GLUTAMIC ACID (CGUa)
2b: GAMMA-CARBOXY-GLUTAMIC ACID (CGUb)
2c: GAMMA-CARBOXY-GLUTAMIC ACID (CGUc)
2d: GAMMA-CARBOXY-GLUTAMIC ACID (CGUd)
2e: GAMMA-CARBOXY-GLUTAMIC ACID (CGUe)
2f: GAMMA-CARBOXY-GLUTAMIC ACID (CGUf)
2g: GAMMA-CARBOXY-GLUTAMIC ACID (CGUg)
2h: GAMMA-CARBOXY-GLUTAMIC ACID (CGUh)
2i: GAMMA-CARBOXY-GLUTAMIC ACID (CGUi)
2j: GAMMA-CARBOXY-GLUTAMIC ACID (CGUj)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
4a: O-{HYDROXY[((2R)-2-HYDROXY-3-{[(1S... (LPSa)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
7
Ligand/Ion
CALCIUM ION
2
CGU
10
Mod. Amino Acid
GAMMA-CARBOXY-GLUTAMIC ACID
3
CL
3
Ligand/Ion
CHLORIDE ION
4
LPS
1
Ligand/Ion
O-{HYDROXY[((2R)-2-HYDROXY-3-{[(1S)-1-HYDROXYPENTADECYL]OXY}PROPYL)OXY]PHOSPHORYL}-L-SERINE
5
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(14, 14)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:77 , GLU A:112 , PHE A:114 , NAG A:302
BINDING SITE FOR RESIDUE NAG A 301
02
AC2
SOFTWARE
NAG A:301
BINDING SITE FOR RESIDUE NAG A 302
03
AC3
SOFTWARE
ASN A:101 , SER A:102 , THR A:103
BINDING SITE FOR RESIDUE NAG A 303
04
AC4
SOFTWARE
CGU A:26 , CGU A:30
BINDING SITE FOR RESIDUE CA A 201
05
AC5
SOFTWARE
CGU A:8 , CGU A:27 , CGU A:30 , HOH A:504 , HOH A:507 , HOH A:509
BINDING SITE FOR RESIDUE CA A 202
06
AC6
SOFTWARE
CGU A:8 , CGU A:17 , CGU A:27 , CGU A:30 , CA A:204 , HOH A:514 , HOH A:519 , HOH A:522
BINDING SITE FOR RESIDUE CA A 203
07
AC7
SOFTWARE
ALA A:1 , ASN A:2 , CGU A:7 , CGU A:8 , CGU A:17 , CGU A:27 , CA A:203
BINDING SITE FOR RESIDUE CA A 204
08
AC8
SOFTWARE
ALA A:1 , CGU A:7 , CGU A:17 , CGU A:21 , LPS A:451 , HOH A:527
BINDING SITE FOR RESIDUE CA A 205
09
AC9
SOFTWARE
CGU A:21 , LPS A:451 , HOH A:557
BINDING SITE FOR RESIDUE CA A 206
10
BC1
SOFTWARE
CGU A:15 , CGU A:20 , HOH A:537
BINDING SITE FOR RESIDUE CA A 207
11
BC2
SOFTWARE
TRP A:126 , ARG A:136 , HOH A:513 , HOH A:560
BINDING SITE FOR RESIDUE CL A 250
12
BC3
SOFTWARE
LYS A:97 , ARG A:135 , GLN A:146
BINDING SITE FOR RESIDUE CL A 251
13
BC4
SOFTWARE
ARG A:91 , GLU A:112
BINDING SITE FOR RESIDUE CL A 252
14
BC5
SOFTWARE
LYS A:3 , PHE A:5 , LEU A:6 , CGU A:7 , ARG A:10 , ARG A:16 , CGU A:17 , CGU A:21 , SER A:34 , ALA A:37 , CA A:205 , CA A:206 , HOH A:545 , HOH A:550 , HOH A:557
BINDING SITE FOR RESIDUE LPS A 451
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: GLA_2 (A:1-47)
2: GLA_1 (A:17-42)
3: KRINGLE_2 (A:65-144|-)
4: KRINGLE_1 (A:114-127|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLA_2
PS50998
Gla domain profile.
THRB_BOVIN
44-90
1
A:1-47
2
GLA_1
PS00011
Vitamin K-dependent carboxylation domain.
THRB_BOVIN
60-85
1
A:17-42
3
KRINGLE_2
PS50070
Kringle domain profile.
THRB_BOVIN
108-187
213-292
1
A:65-144
-
4
KRINGLE_1
PS00021
Kringle domain signature.
THRB_BOVIN
157-170
262-275
1
A:114-127
-
[
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]
Exons
(6, 6)
Info
All Exons
Exon 1.2 (A:1-38)
Exon 1.3 (A:39-47)
Exon 1.4 (A:47-64)
Exon 1.5 (A:64-99)
Exon 1.6 (A:99-145)
Exon 1.7 (A:145-146)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
6: Boundary 1.6/1.7
7: Boundary 1.7/1.8
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
1.1
ENSBTAT00000009406
1
ENSBTAE00000076598
chr15:
77004894-77005007
114
THRB_BOVIN
1-27
27
0
-
-
1.2
ENSBTAT00000009406
2
ENSBTAE00000076606
chr15:
77005352-77005515
164
THRB_BOVIN
27-81
55
1
A:1-38
38
1.3
ENSBTAT00000009406
3
ENSBTAE00000306249
chr15:
77006130-77006154
25
THRB_BOVIN
82-90
9
1
A:39-47
9
1.4
ENSBTAT00000009406
4
ENSBTAE00000076608
chr15:
77006384-77006434
51
THRB_BOVIN
90-107
18
1
A:47-64
18
1.5
ENSBTAT00000009406
5
ENSBTAE00000076609
chr15:
77007812-77007917
106
THRB_BOVIN
107-142
36
1
A:64-99
36
1.6
ENSBTAT00000009406
6
ENSBTAE00000076610
chr15:
77008015-77008151
137
THRB_BOVIN
142-188
47
1
A:99-145
47
1.7
ENSBTAT00000009406
7
ENSBTAE00000076611
chr15:
77009362-77009676
315
THRB_BOVIN
188-293
106
1
A:145-146
2
1.8
ENSBTAT00000009406
8
ENSBTAE00000076614
chr15:
77009972-77010106
135
THRB_BOVIN
293-338
46
0
-
-
1.9
ENSBTAT00000009406
9
ENSBTAE00000076615
chr15:
77010182-77010308
127
THRB_BOVIN
338-380
43
0
-
-
1.10
ENSBTAT00000009406
10
ENSBTAE00000076616
chr15:
77011290-77011457
168
THRB_BOVIN
380-436
57
0
-
-
1.11
ENSBTAT00000009406
11
ENSBTAE00000076617
chr15:
77011956-77012129
174
THRB_BOVIN
436-494
59
0
-
-
1.12
ENSBTAT00000009406
12
ENSBTAE00000306240
chr15:
77012378-77012559
182
THRB_BOVIN
494-555
62
0
-
-
1.13
ENSBTAT00000009406
13
ENSBTAE00000076620
chr15:
77018853-77018923
71
THRB_BOVIN
555-578
24
0
-
-
1.14
ENSBTAT00000009406
14
ENSBTAE00000076621
chr15:
77019058-77019320
263
THRB_BOVIN
579-625
47
0
-
-
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1nl2a2 (A:1-65)
2a: SCOP_d1nl2a1 (A:66-146)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
GLA-domain
(44)
Superfamily
:
GLA-domain
(44)
Family
:
GLA-domain
(37)
Protein domain
:
Prothrombin
(5)
Cow (Bos taurus) [TaxId: 9913]
(5)
1a
d1nl2a2
A:1-65
Fold
:
Kringle-like
(68)
Superfamily
:
Kringle-like
(68)
Family
:
Kringle modules
(54)
Protein domain
:
Prothrombin
(5)
Cow (Bos taurus) [TaxId: 9913]
(5)
2a
d1nl2a1
A:66-146
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Gla_1nl2A01 (A:6-47)
2a: PFAM_Kringle_1nl2A02 (A:66-144)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Gla]
(24)
Family
:
Gla
(24)
Bos taurus (Bovine)
(8)
1a
Gla-1nl2A01
A:6-47
Clan
:
no clan defined [family: Kringle]
(26)
Family
:
Kringle
(26)
Bos taurus (Bovine)
(5)
2a
Kringle-1nl2A02
A:66-144
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]
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Chain A
Asymmetric Unit 1
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