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2J0G
Biol. Unit 2
Info
Asym.Unit (219 KB)
Biol.Unit 1 (107 KB)
Biol.Unit 2 (107 KB)
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(1)
Title
:
L-FICOLIN COMPLEXED TO N-ACETYL-MANNOSAMINE
Authors
:
V. Garlatti, C. Gaboriaud
Date
:
03 Aug 06 (Deposition) - 23 Jan 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.85
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Lectin, Glycoprotein, Innate Immunity, Fibrinogen-Like Domain, Collagen, Immunology, Lectin-Like, Pattern- Recognition-Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Garlatti, N. Belloy, L. Martin, M. Lacroix, M. Matsushita, Y. Endo, T. Fujita, J. C. Fontecilla-Camps, G. J. Arlaud, N. M. Thielens, C. Gaboriaud
Structural Insights Into The Innate Immune Recognition Specificities Of L- And H-Ficolins.
Embo J. V. 26 623 2007
[
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Hetero Components
(4, 7)
Info
All Hetero Components
1a: 2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MA... (BM3a)
1b: 2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MA... (BM3b)
1c: 2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MA... (BM3c)
1d: 2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MA... (BM3d)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BM3
2
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MANNOPYRANOSE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
FUC
1
Ligand/Ion
ALPHA-L-FUCOSE
4
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(12, 12)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC5 (SOFTWARE)
08: BC6 (SOFTWARE)
09: BC7 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
NAG B:1002 , MAN B:1004 , ASN E:244
BINDING SITE FOR RESIDUE MAN B1005
02
AC6
SOFTWARE
ASN E:215 , NAG E:1002 , FUC E:1003 , GLY F:260 , ASN F:275
BINDING SITE FOR RESIDUE NAG E1001
03
AC7
SOFTWARE
NAG E:1001 , MAN E:1004 , PHE F:262
BINDING SITE FOR RESIDUE NAG E1002
04
AC8
SOFTWARE
LEU E:227 , NAG E:1001
BINDING SITE FOR RESIDUE FUC E1003
05
AC9
SOFTWARE
NAG E:1002 , PHE F:262 , MAN F:402
BINDING SITE FOR RESIDUE MAN E1004
06
BC1
SOFTWARE
MAN E:1004 , PHE F:236 , PHE F:262 , TYR F:274
BINDING SITE FOR RESIDUE MAN F 402
07
BC5
SOFTWARE
ASP D:224 , ASN D:228 , THR D:229
BINDING SITE FOR RESIDUE CA D 500
08
BC6
SOFTWARE
ASP E:224 , ASP E:226 , ASN E:228 , GLY E:230
BINDING SITE FOR RESIDUE CA E 500
09
BC7
SOFTWARE
ASP F:224 , ASP F:226 , ASN F:228 , GLY F:230
BINDING SITE FOR RESIDUE CA F 500
10
BC9
SOFTWARE
ARG C:132 , ASP C:133 , THR C:136 , SER E:261
BINDING SITE FOR RESIDUE BM3 C 400
11
CC1
SOFTWARE
TYR E:131 , ARG E:132 , ASP E:133 , THR E:136
BINDING SITE FOR RESIDUE BM3 E 400
12
CC2
SOFTWARE
ARG F:132 , ASP F:133 , LYS F:221
BINDING SITE FOR RESIDUE BM3 F 400
[
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SAPs(SNPs)/Variants
(4, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_049072 (H88Y, chain D/E/F, )
2: VAR_049073 (G92S, chain D/E/F, )
3: VAR_049074 (T211M, chain D/E/F, )
4: VAR_049075 (A233S, chain D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_049072
H
113
Y
FCN2_HUMAN
Polymorphism
17549179
D/E/F
H
88
Y
2
UniProt
VAR_049073
G
117
S
FCN2_HUMAN
Polymorphism
12684476
D/E/F
G
92
S
3
UniProt
VAR_049074
T
236
M
FCN2_HUMAN
Polymorphism
17549193
D/E/F
T
211
M
4
UniProt
VAR_049075
A
258
S
FCN2_HUMAN
Polymorphism
7851696
D/E/F
A
233
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: FIBRINOGEN_C_2 (E:72-288)
2: FIBRINOGEN_C_1 (D:240-252,E:240-252,F:240-252)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FIBRINOGEN_C_2
PS51406
Fibrinogen C-terminal domain profile.
FCN2_HUMAN
96-313
1
E:72-288
2
FIBRINOGEN_C_1
PS00514
Fibrinogen C-terminal domain signature.
FCN2_HUMAN
265-277
3
-
-
-
D:240-252
E:240-252
F:240-252
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d2j0ga_ (A:)
1b: SCOP_d2j0gb_ (B:)
1c: SCOP_d2j0gc_ (C:)
1d: SCOP_d2j0gd_ (D:)
1e: SCOP_d2j0ge_ (E:)
1f: SCOP_d2j0gf_ (F:)
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)
Protein Domains
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(
)
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
d2j0ga_
A:
1b
d2j0gb_
B:
1c
d2j0gc_
C:
1d
d2j0gd_
D:
1e
d2j0ge_
E:
1f
d2j0gf_
F:
[
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CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_2j0gE01 (E:71-206,E:280-288)
1b: CATH_2j0gB01 (B:72-206,B:280-288)
1c: CATH_2j0gC01 (C:73-206,C:280-288)
1d: CATH_2j0gD01 (D:75-206,D:280-288)
1e: CATH_2j0gA01 (A:76-206,A:280-287)
1f: CATH_2j0gF01 (F:77-206,F:280-288)
2a: CATH_2j0gA02 (A:207-279)
2b: CATH_2j0gB02 (B:207-279)
2c: CATH_2j0gC02 (C:207-279)
2d: CATH_2j0gD02 (D:207-279)
2e: CATH_2j0gE02 (E:207-279)
2f: CATH_2j0gF02 (F:207-279)
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)
(
)
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(
)
(
)
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
2j0gE01
E:71-206,E:280-288
1b
2j0gB01
B:72-206,B:280-288
1c
2j0gC01
C:73-206,C:280-288
1d
2j0gD01
D:75-206,D:280-288
1e
2j0gA01
A:76-206,A:280-287
1f
2j0gF01
F:77-206,F:280-288
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
2j0gA02
A:207-279
2b
2j0gB02
B:207-279
2c
2j0gC02
C:207-279
2d
2j0gD02
D:207-279
2e
2j0gE02
E:207-279
2f
2j0gF02
F:207-279
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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