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Getting 'Biological Unit' information from database.
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Getting 'Exon' information from database.
1JMJ
Asym. Unit
Info
Asym.Unit (143 KB)
Biol.Unit 1 (137 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF NATIVE HEPARIN COFACTOR II
Authors
:
T. P. Baglin, R. W. Carrell, F. C. Church, J. A. Huntington
Date
:
18 Jul 01 (Deposition) - 30 Aug 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Serpin, Thrombin Inhibitor, Heparin, Blood Clotting
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. P. Baglin, R. W. Carrell, F. C. Church, C. T. Esmon, J. A. Huntington
Crystal Structures Of Native And Thrombin-Complexed Heparin Cofactor Ii Reveal A Multistep Allosteric Mechanism.
Proc. Natl. Acad. Sci. Usa V. 99 11079 2002
[
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: CALCIUM ION (CAa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
CA
1
Ligand/Ion
CALCIUM ION
3
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:368 , NAG A:482 , HOH A:595 , HOH A:648
BINDING SITE FOR RESIDUE NAG A 481
2
AC2
SOFTWARE
NAG A:481 , BMA A:483
BINDING SITE FOR RESIDUE NAG A 482
3
AC3
SOFTWARE
NAG A:482
BINDING SITE FOR RESIDUE BMA A 483
4
AC4
SOFTWARE
ASN B:312 , ASN B:368
BINDING SITE FOR RESIDUE NAG B 481
5
AC5
SOFTWARE
HIS A:290 , HIS A:292 , HOH A:551 , HOH A:631
BINDING SITE FOR RESIDUE CA A 501
[
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SAPs(SNPs)/Variants
(7, 13)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051953 (S68N, chain A, )
2: VAR_051954 (L110V, chain A/B, )
3: VAR_007112 (R189H, chain A/B, )
4: VAR_011748 (K218R, chain A/B, )
5: VAR_011749 (T423M, chain A/B, )
6: VAR_054977 (E428K, chain A/B, )
7: VAR_054978 (P443L, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051953
S
87
N
HEP2_HUMAN
Polymorphism
34324685
A
S
68
N
2
UniProt
VAR_051954
L
129
V
HEP2_HUMAN
Polymorphism
11542069
A/B
L
110
V
3
UniProt
VAR_007112
R
208
H
HEP2_HUMAN
Disease (THPH10)
5907
A/B
R
189
H
4
UniProt
VAR_011748
K
237
R
HEP2_HUMAN
Polymorphism
1042435
A/B
K
218
R
5
UniProt
VAR_011749
T
442
M
HEP2_HUMAN
Polymorphism
5904
A/B
T
423
M
6
UniProt
VAR_054977
E
447
K
HEP2_HUMAN
Disease (THPH10)
---
A/B
E
428
K
7
UniProt
VAR_054978
P
462
L
HEP2_HUMAN
Disease (THPH10)
---
A/B
P
443
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: SERPIN (A:450-460,B:450-460)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SERPIN
PS00284
Serpins signature.
HEP2_HUMAN
469-479
2
A:450-460
B:450-460
[
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Exons
(4, 8)
Info
All Exons
Exon 1.2b (A:61-278 (gaps) | B:94-278)
Exon 1.3 (A:278-369 | B:278-369)
Exon 1.4 (A:369-417 | B:369-417)
Exon 1.5b (A:418-480 | B:418-480)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1/1.2b
2: Boundary 1.2b/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5b
5: Boundary 1.5b/-
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
ENST00000215727
1
ENSE00001320327
chr22:
21128167-21128433
267
HEP2_HUMAN
-
0
0
-
-
1.2b
ENST00000215727
2b
ENSE00001299470
chr22:
21133585-21134489
905
HEP2_HUMAN
1-297
297
2
A:61-278 (gaps)
B:94-278
218
185
1.3
ENST00000215727
3
ENSE00000650952
chr22:
21138260-21138533
274
HEP2_HUMAN
297-388
92
2
A:278-369
B:278-369
92
92
1.4
ENST00000215727
4
ENSE00000650953
chr22:
21140292-21140436
145
HEP2_HUMAN
388-436
49
2
A:369-417
B:369-417
49
49
1.5b
ENST00000215727
5b
ENSE00000879274
chr22:
21141163-21142008
846
HEP2_HUMAN
437-499
63
2
A:418-480
B:418-480
63
63
[
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]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1jmja_ (A:)
1b: SCOP_d1jmjb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Serpins
(120)
Superfamily
:
Serpins
(120)
Family
:
Serpins
(100)
Protein domain
:
Heparin cofactor II (Hc-II, leuserpin 2)
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1jmja_
A:
1b
d1jmjb_
B:
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1jmjA01 (A:101-278,A:378-426)
1b: CATH_1jmjB01 (B:101-278,B:378-426)
2a: CATH_1jmjA02 (A:279-377,A:427-477)
2b: CATH_1jmjB02 (B:279-377,B:427-477)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Antithrombin; Chain I, domain 2
(100)
Homologous Superfamily
:
Antithrombin, subunit I, domain 2
(100)
Human (Homo sapiens)
(80)
1a
1jmjA01
A:101-278,A:378-426
1b
1jmjB01
B:101-278,B:378-426
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Alpha-1-antitrypsin; domain 1
(101)
Homologous Superfamily
:
Alpha-1-antitrypsin, domain 1
(101)
Human (Homo sapiens)
(81)
2a
1jmjA02
A:279-377,A:427-477
2b
1jmjB02
B:279-377,B:427-477
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Serpin_1jmjB01 (B:110-477)
1b: PFAM_Serpin_1jmjB02 (B:110-477)
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Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Serpin]
(63)
Family
:
Serpin
(63)
Homo sapiens (Human)
(41)
1a
Serpin-1jmjB01
B:110-477
1b
Serpin-1jmjB02
B:110-477
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]
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Asymmetric Unit 1
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Asym.Unit (143 KB)
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