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2JHK
Asym. Unit
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Asym.Unit (85 KB)
Biol.Unit 1 (80 KB)
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(1)
Title
:
STRUCTURE OF GLOBULAR HEADS OF M-FICOLIN COMPLEXED WITH N-ACETYL-D-GLUCOSAMINE
Authors
:
V. Garlatti, L. Martin, E. Gout, J. B. Reiser, G. J. Arlaud, N. M. Thielens, C. Gaboriaud
Date
:
22 Feb 07 (Deposition) - 09 Oct 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : F
Biol. Unit 1: F (1x)
Keywords
:
Lectin, Collagen, Acidic Ph, Complement, Sugar-Binding Protein, Glycoprotein, Polymorphism, Innate Immunity
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Garlatti, L. Martin, E. Gout, J. B. Reiser, T. Fujita, G. J. Arlaud, N. M. Thielens, C. Gaboriaud
Structural Basis For Innate Immune Sensing By M- Ficolin And Its Control By A Ph-Dependent Conformational Switch.
J. Biol. Chem. V. 282 35814 2007
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP F:233 , ASP F:235 , SER F:237 , SER F:239 , HOH F:2083 , HOH F:2105
BINDING SITE FOR RESIDUE CA F1298
2
AC2
SOFTWARE
SER F:81 , CYS F:82 , ASP F:253 , CYS F:254 , HIS F:255 , ALA F:272 , TYR F:283 , HOH F:2013 , HOH F:2122
BINDING SITE FOR RESIDUE NAG F1299
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_024450 (H97H, chain F, )
2: VAR_036341 (Y146C, chain F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_024450
Y
126
H
FCN1_HUMAN
Polymorphism
17549179
F
H
97
H
2
UniProt
VAR_036341
Y
175
C
FCN1_HUMAN
Unclassified
---
F
Y
146
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: FIBRINOGEN_C_1 (F:249-261)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FIBRINOGEN_C_1
PS00514
Fibrinogen C-terminal domain signature.
FCN1_HUMAN
278-290
1
F:249-261
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Exons
(5, 5)
Info
All Exons
Exon 1.5 (F:81-85)
Exon 1.6 (F:85-127)
Exon 1.7b (F:128-171)
Exon 1.8 (F:171-216)
Exon 1.9b (F:216-297)
View:
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All Exon Boundaries
1: Boundary 1.4/1.5
2: Boundary 1.5/1.6
3: Boundary 1.6/1.7b
4: Boundary 1.7b/1.8
5: Boundary 1.8/1.9b
6: Boundary 1.9b/-
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
ENST00000371806
1
ENSE00001096640
chr9:
137809809-137809615
195
FCN1_HUMAN
1-35
35
0
-
-
1.2
ENST00000371806
2
ENSE00000828380
chr9:
137808307-137808194
114
FCN1_HUMAN
35-73
39
0
-
-
1.3
ENST00000371806
3
ENSE00000828382
chr9:
137806655-137806602
54
FCN1_HUMAN
73-91
19
0
-
-
1.4
ENST00000371806
4
ENSE00000418292
chr9:
137806266-137806231
36
FCN1_HUMAN
91-103
13
0
-
-
1.5
ENST00000371806
5
ENSE00000828385
chr9:
137805459-137805427
33
FCN1_HUMAN
103-114
12
1
F:81-85
5
1.6
ENST00000371806
6
ENSE00001727220
chr9:
137804989-137804862
128
FCN1_HUMAN
114-156
43
1
F:85-127
43
1.7b
ENST00000371806
7b
ENSE00002182807
chr9:
137804461-137804332
130
FCN1_HUMAN
157-200
44
1
F:128-171
44
1.8
ENST00000371806
8
ENSE00001719849
chr9:
137803113-137802979
135
FCN1_HUMAN
200-245
46
1
F:171-216
46
1.9b
ENST00000371806
9b
ENSE00001740230
chr9:
137801891-137801431
461
FCN1_HUMAN
245-326
82
1
F:216-297
82
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2jhkf_ (F:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Fibrinogen C-terminal domain-like
(70)
Superfamily
:
Fibrinogen C-terminal domain-like
(70)
Family
:
automated matches
(27)
Protein domain
:
automated matches
(27)
Human (Homo sapiens) [TaxId: 9606]
(27)
1a
d2jhkf_
F:
[
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2jhkF01 (F:81-215,F:289-297)
2a: CATH_2jhkF02 (F:216-288)
View:
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(
)
(
)
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)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Gamma Fibrinogen; Chain A, domain 1
(58)
Homologous Superfamily
:
Gamma Fibrinogen, chain A, domain 1
(58)
Human (Homo sapiens)
(53)
1a
2jhkF01
F:81-215,F:289-297
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Gamma-fibrinogen Carboxyl Terminal Fragment; domain 2
(58)
Homologous Superfamily
:
Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2
(58)
Human (Homo sapiens)
(53)
2a
2jhkF02
F:216-288
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Fibrinogen_C_2jhkF01 (F:85-297)
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Clans
(
)
(
)
Families
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)
(
)
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(
)
(
)
Clan
:
Fibrinogen_C
(23)
Family
:
Fibrinogen_C
(23)
Homo sapiens (Human)
(19)
1a
Fibrinogen_C-2jhkF01
F:85-297
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Chain F
Asymmetric Unit 1
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