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2W95
Asym. Unit
Info
Asym.Unit (151 KB)
Biol.Unit 1 (144 KB)
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(1)
Title
:
STRUCTURE OF THE DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM IN COMPLEX WITH GALNAC AT 1.75 ANGSTROM RESOLUTION
Authors
:
K. Saboia Aragao, A. Imberty, A. Varrot
Date
:
21 Jan 09 (Deposition) - 31 Mar 10 (Release) - 21 Jul 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Cell Adhesion, H Type 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
(6, 21)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
2a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
2b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
2c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
2d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
3a: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDa)
3b: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDb)
3c: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDc)
4a: N-ACETYL-D-GALACTOSAMINE (NGAa)
4b: N-ACETYL-D-GALACTOSAMINE (NGAb)
4c: N-ACETYL-D-GALACTOSAMINE (NGAc)
5a: NICKEL (II) ION (NIa)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
3
Ligand/Ion
CALCIUM ION
2
MPD
4
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
3
MRD
3
Ligand/Ion
(4R)-2-METHYLPENTANE-2,4-DIOL
4
NGA
3
Ligand/Ion
N-ACETYL-D-GALACTOSAMINE
5
NI
1
Ligand/Ion
NICKEL (II) ION
6
SO4
7
Ligand/Ion
SULFATE ION
[
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]
Sites
(21, 21)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:213 , ARG A:215 , TRP A:235 , ASN A:236 , HOH A:2366 , HOH A:2367 , ASP C:206
BINDING SITE FOR RESIDUE NGA A 254
02
AC2
SOFTWARE
TYR A:23 , ARG A:79 , GLN A:84 , HIS A:142 , THR B:41 , HOH B:2085
BINDING SITE FOR RESIDUE MPD A 256
03
AC3
SOFTWARE
ARG A:104 , VAL A:109 , THR A:110 , HIS A:121 , HOH A:2193 , HOH A:2368
BINDING SITE FOR RESIDUE SO4 A 257
04
AC4
SOFTWARE
ARG A:92 , TRP A:100 , HOH A:2187 , HOH A:2369 , HOH A:2370 , ASN C:12
BINDING SITE FOR RESIDUE MPD A 258
05
AC5
SOFTWARE
LYS A:187 , HOH A:2371 , GLY C:178 , LYS C:179 , HOH C:2307
BINDING SITE FOR RESIDUE SO4 A 259
06
AC6
SOFTWARE
ASP A:164 , ASP A:203 , ASP A:246 , GLN B:219 , HOH B:2293 , HOH B:2295
BINDING SITE FOR RESIDUE CA A 260
07
AC7
SOFTWARE
ASP A:206 , TYR A:241 , GLN B:213 , ARG B:215 , TRP B:235 , ASN B:236 , HOH B:2342 , HOH B:2344
BINDING SITE FOR RESIDUE NGA B 254
08
AC8
SOFTWARE
SER A:157 , VAL A:158 , THR A:159 , SER B:157 , VAL B:158 , THR B:159 , HOH B:2242 , SER C:157 , VAL C:158 , THR C:159
BINDING SITE FOR RESIDUE SO4 B 255
09
AC9
SOFTWARE
THR A:41 , HOH A:2094 , TYR B:23 , ARG B:79 , GLN B:84 , HIS B:142 , HOH B:2051
BINDING SITE FOR RESIDUE MPD B 256
10
BC1
SOFTWARE
ARG B:104 , VAL B:109 , THR B:110 , HIS B:121 , HOH B:2345
BINDING SITE FOR RESIDUE SO4 B 257
11
BC2
SOFTWARE
HOH B:2346 , GLU C:181 , VAL C:231 , TYR C:233
BINDING SITE FOR RESIDUE MRD B 258
12
BC3
SOFTWARE
ASP B:114 , ARG B:115 , ASN B:116 , HOH B:2193 , HOH B:2347 , HOH B:2348 , HOH B:2349 , HOH B:2350
BINDING SITE FOR RESIDUE SO4 B 259
13
BC4
SOFTWARE
ASP B:164 , ASP B:203 , ASP B:246 , GLN C:219 , HOH C:2280 , HOH C:2281
BINDING SITE FOR RESIDUE CA B 260
14
BC5
SOFTWARE
HIS A:16 , HIS B:16 , HIS C:16
BINDING SITE FOR RESIDUE NI B 261
15
BC6
SOFTWARE
ASP B:206 , GLN C:213 , ARG C:215 , TRP C:235 , ASN C:236 , HOH C:2323 , HOH C:2324
BINDING SITE FOR RESIDUE NGA C 254
16
BC7
SOFTWARE
GLN B:204 , ARG B:244 , TRP C:235 , HOH C:2325
BINDING SITE FOR RESIDUE MRD C 255
17
BC8
SOFTWARE
THR C:41 , ARG C:79 , GLN C:84 , HIS C:142 , HOH C:2041
BINDING SITE FOR RESIDUE MPD C 256
18
BC9
SOFTWARE
ARG C:104 , VAL C:109 , THR C:110 , HIS C:121 , HOH C:2175 , HOH C:2326 , HOH C:2328
BINDING SITE FOR RESIDUE SO4 C 257
19
CC1
SOFTWARE
ALA B:11 , ARG C:18 , TYR C:60 , ARG C:92 , HIS C:135 , HOH C:2329
BINDING SITE FOR RESIDUE MRD C 258
20
CC2
SOFTWARE
GLY A:168 , ASP A:169 , HOH A:2270 , ARG C:221 , ASN C:222 , HOH C:2330 , HOH C:2331 , HOH C:2332
BINDING SITE FOR RESIDUE SO4 C 259
21
CC3
SOFTWARE
GLN A:219 , HOH A:2317 , HOH A:2334 , ASP C:164 , ASP C:203 , ASP C:246
BINDING SITE FOR RESIDUE CA C 260
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: FA58C_3 (A:1-152,B:1-152,C:1-152)
2: FA58C_1 (A:49-78,B:49-78,C:49-78)
;
View:
Select:
Label:
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
3
A:1-152
B: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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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.
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
View:
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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_2w95C01 (C:16-149)
1b: PFAM_F5_F8_type_C_2w95C02 (C:16-149)
1c: PFAM_F5_F8_type_C_2w95C03 (C:16-149)
2a: PFAM_H_lectin_2w95C04 (C:180-252)
2b: PFAM_H_lectin_2w95C05 (C:180-252)
2c: PFAM_H_lectin_2w95C06 (C:180-252)
View:
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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-2w95C01
C:16-149
1b
F5_F8_type_C-2w95C02
C:16-149
1c
F5_F8_type_C-2w95C03
C:16-149
Clan
:
no clan defined [family: H_lectin]
(8)
Family
:
H_lectin
(8)
Dictyostelium discoideum (Slime mold)
(8)
2a
H_lectin-2w95C04
C:180-252
2b
H_lectin-2w95C05
C:180-252
2c
H_lectin-2w95C06
C:180-252
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