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2WN2
Asym. Unit
Info
Asym.Unit (154 KB)
Biol.Unit 1 (147 KB)
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(1)
Title
:
STRUCTURE OF THE DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM IN COMPLEX WITH GALACTOSE BETA 1-3 GALNAC AT 1.8 A RESOLUTION.
Authors
:
S. Mathieu, A. Imberty, A. Varrot
Date
:
07 Jul 09 (Deposition) - 26 May 10 (Release) - 21 Jul 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.82
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Type-H Lectin, Cell Adhesion, Discoidin Domain, Lectin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Mathieu, K. Saboia Aragao, A. Imberty, A. Varrot
Discoidin I From Dictyostelium Discoideum And Interactions With Oligosaccharides: Specificity, Affinity, Crystal Structures And Comparison With Discoidin Ii.
J. Mol. Biol. V. 400 540 2010
[
close entry info
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Hetero Components
(7, 22)
Info
All Hetero Components
1a: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHO... (1PGa)
2a: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ga)
2b: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gb)
2c: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gc)
3a: CALCIUM ION (CAa)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
4a: BETA-D-GALACTOSE (GALa)
4b: BETA-D-GALACTOSE (GALb)
4c: BETA-D-GALACTOSE (GALc)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
5f: GLYCEROL (GOLf)
5g: GLYCEROL (GOLg)
5h: GLYCEROL (GOLh)
6a: N-ACETYL-D-GALACTOSAMINE (NGAa)
6b: N-ACETYL-D-GALACTOSAMINE (NGAb)
6c: N-ACETYL-D-GALACTOSAMINE (NGAc)
7a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PG
1
Ligand/Ion
2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
2
A2G
3
Ligand/Ion
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
3
CA
3
Ligand/Ion
CALCIUM ION
4
GAL
3
Ligand/Ion
BETA-D-GALACTOSE
5
GOL
8
Ligand/Ion
GLYCEROL
6
NGA
3
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
7
SO4
1
Ligand/Ion
SULFATE ION
[
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]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:164 , ASP A:203 , ASP A:246 , GLN B:219 , HOH B:2299 , HOH B:2300
BINDING SITE FOR RESIDUE CA A 400
02
AC2
SOFTWARE
SER A:157 , THR A:159 , SER B:157 , VAL B:158 , THR B:159 , SER C:157 , THR C:159
BINDING SITE FOR RESIDUE SO4 A 401
03
AC3
SOFTWARE
ARG A:104 , VAL A:109 , THR A:110 , HIS A:121
BINDING SITE FOR RESIDUE GOL A 500
04
AC4
SOFTWARE
TYR A:23 , HIS A:27 , CYS A:51 , ARG A:79 , GLN A:84 , HOH A:2383 , THR B:41 , ASN B:42
BINDING SITE FOR RESIDUE GOL A 501
05
AC5
SOFTWARE
ARG A:18 , TYR A:60 , LYS A:90 , ARG A:92 , TRP A:100 , GLU A:102 , HIS A:135 , HOH A:2172 , HOH A:2277 , HOH A:2384 , GLN C:8 , ALA C:11
BINDING SITE FOR RESIDUE 1PG A 502
06
AC6
SOFTWARE
ASP B:164 , ASP B:203 , ASP B:246 , GLN C:219 , HOH C:2270 , HOH C:2271
BINDING SITE FOR RESIDUE CA B 400
07
AC7
SOFTWARE
ARG B:104 , VAL B:109 , THR B:110 , HOH B:2361 , HOH B:2362
BINDING SITE FOR RESIDUE GOL B 500
08
AC8
SOFTWARE
THR A:41 , ASN A:42 , HOH A:2093 , TYR B:23 , HIS B:27 , CYS B:51 , ARG B:79 , GLN B:84
BINDING SITE FOR RESIDUE GOL B 501
09
AC9
SOFTWARE
ALA A:11 , ARG B:18 , VAL B:62 , ALA B:133 , HIS B:135 , HOH B:2363
BINDING SITE FOR RESIDUE GOL B 502
10
BC1
SOFTWARE
GLN A:219 , HOH A:2321 , HOH A:2322 , ASP C:164 , ASP C:203 , ASP C:246
BINDING SITE FOR RESIDUE CA C 400
11
BC2
SOFTWARE
ARG C:104 , THR C:110 , HIS C:121 , HOH C:2332 , HOH C:2333
BINDING SITE FOR RESIDUE GOL C 500
12
BC3
SOFTWARE
TYR C:23 , HIS C:27 , THR C:41 , ASN C:42 , ARG C:79 , GLN C:84 , HIS C:142
BINDING SITE FOR RESIDUE GOL C 501
13
BC4
SOFTWARE
ALA B:11 , ARG C:18 , ARG C:92 , ALA C:133 , HIS C:135
BINDING SITE FOR RESIDUE GOL C 502
14
BC5
SOFTWARE
TYR A:166 , ASP A:206 , TYR A:241 , SER A:242 , HOH A:2324 , HOH A:2373 , HOH A:2374 , HOH A:2375 , HOH A:2376 , HOH A:2377 , HOH A:2378 , HOH A:2379 , HOH A:2381 , HOH A:2382 , GLN B:213 , ARG B:215 , TRP B:235 , ASN B:236
BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 300 TO 302
15
BC6
SOFTWARE
TYR B:166 , GLN B:204 , ASP B:206 , TYR B:241 , SER B:242 , HOH B:2350 , HOH B:2351 , HOH B:2352 , HOH B:2353 , HOH B:2354 , HOH B:2355 , HOH B:2356 , HOH B:2357 , HOH B:2358 , HOH B:2359 , HOH B:2360 , GLN C:213 , ARG C:215 , TRP C:235 , ASN C:236
BINDING SITE FOR CHAIN B OF POLYSACCHARIDE RESIDUES 300 TO 302
16
BC7
SOFTWARE
ARG A:215 , TRP A:235 , ASN A:236 , TYR C:166 , GLN C:204 , ASP C:206 , TYR C:241 , SER C:242 , HOH C:2273 , HOH C:2325 , HOH C:2326 , HOH C:2328 , HOH C:2329 , HOH C:2330 , HOH C:2331
BINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 300 TO 302
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 5)
Info
All PROSITE Patterns/Profiles
1: FA58C_3 (A:1-152,C:1-152)
2: FA58C_1 (A:49-78,B:49-78,C:49-78)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FA58C_3
PS50022
Coagulation factors 5/8 type C domain (FA58C) profile.
DIS1A_DICDI
1-152
2
A:1-152
C:1-152
2
FA58C_1
PS01285
Coagulation factors 5/8 type C domain (FA58C) signature 1.
DIS1A_DICDI
49-78
3
A:49-78
B:49-78
C:49-78
[
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
[
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Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_F5_F8_type_C_2wn2C01 (C:16-149)
1b: PFAM_F5_F8_type_C_2wn2C02 (C:16-149)
1c: PFAM_F5_F8_type_C_2wn2C03 (C:16-149)
2a: PFAM_H_lectin_2wn2C04 (C:180-252)
2b: PFAM_H_lectin_2wn2C05 (C:180-252)
2c: PFAM_H_lectin_2wn2C06 (C:180-252)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GBD
(153)
Family
:
F5_F8_type_C
(45)
Dictyostelium discoideum (Slime mold)
(8)
1a
F5_F8_type_C-2wn2C01
C:16-149
1b
F5_F8_type_C-2wn2C02
C:16-149
1c
F5_F8_type_C-2wn2C03
C:16-149
Clan
:
no clan defined [family: H_lectin]
(8)
Family
:
H_lectin
(8)
Dictyostelium discoideum (Slime mold)
(8)
2a
H_lectin-2wn2C04
C:180-252
2b
H_lectin-2wn2C05
C:180-252
2c
H_lectin-2wn2C06
C:180-252
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