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4OI9
Asym. Unit
Info
Asym.Unit (143 KB)
Biol.Unit 1 (136 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ICAM-5 D1-D4 ECTODOMAIN FRAGMENT, SPACE GROUP P21
Authors
:
R. Recacha, D. Jimenez, L. Tian, R. Barredo, C. Ghamberg, J. M. Casasnov
Date
:
19 Jan 14 (Deposition) - 16 Jul 14 (Release) - 16 Jul 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Cell Adhesion, Cell Surface, Neurons, Immunoglobulin Superfamily, Intercellular Adhesion Molecules, Icam-5, Telencephalin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Recacha, D. Jimenez, L. Tian, R. Barredo, C. G. Gahmberg, J. M. Casasnovas
Crystal Structures Of An Icam-5 Ectodomain Fragment Show Electrostatic-Based Homophilic Adhesions.
Acta Crystallogr. , Sect. D V. 70 1934 2014
[
close entry info
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Hetero Components
(4, 46)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: 1,2-ETHANEDIOL (EDOa)
2aa: 1,2-ETHANEDIOL (EDOaa)
2ab: 1,2-ETHANEDIOL (EDOab)
2ac: 1,2-ETHANEDIOL (EDOac)
2ad: 1,2-ETHANEDIOL (EDOad)
2ae: 1,2-ETHANEDIOL (EDOae)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: ALPHA-D-MANNOSE (MANa)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
EDO
31
Ligand/Ion
1,2-ETHANEDIOL
3
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
13
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(40, 40)
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)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:16 , ARG A:60 , PRO A:62 , THR A:85 , PHE A:86 , GLN A:87 , ARG A:146
BINDING SITE FOR RESIDUE EDO A 2316
02
AC2
SOFTWARE
ARG A:119 , PHE A:138 , VAL A:149
BINDING SITE FOR RESIDUE EDO A 2317
03
AC3
SOFTWARE
ARG A:230 , VAL A:231 , VAL A:244
BINDING SITE FOR RESIDUE EDO A 2318
04
AC4
SOFTWARE
ARG A:80
BINDING SITE FOR RESIDUE EDO A 2319
05
AC5
SOFTWARE
PRO A:96 , LEU A:97 , ARG A:188 , GLU A:189 , EDO A:2332
BINDING SITE FOR RESIDUE EDO A 2320
06
AC6
SOFTWARE
ARG A:174 , GLY A:177 , LEU A:178 , GLY A:179
BINDING SITE FOR RESIDUE EDO A 2321
07
AC7
SOFTWARE
ASP A:198 , ALA A:199
BINDING SITE FOR RESIDUE EDO A 2322
08
AC8
SOFTWARE
VAL A:11 , HOH A:2454
BINDING SITE FOR RESIDUE EDO A 2323
09
AC9
SOFTWARE
SER A:19 , GLN A:55
BINDING SITE FOR RESIDUE EDO A 2324
10
BC1
SOFTWARE
GLU A:63 , HOH A:2471
BINDING SITE FOR RESIDUE EDO A 2325
11
BC2
SOFTWARE
ARG A:84 , SER A:121 , HIS A:176
BINDING SITE FOR RESIDUE EDO A 2326
12
BC3
SOFTWARE
THR A:123 , GLU A:170 , ASP A:172 , ARG A:174 , HOH A:2435
BINDING SITE FOR RESIDUE EDO A 2327
13
BC4
SOFTWARE
ARG A:60
BINDING SITE FOR RESIDUE EDO A 2328
14
BC5
SOFTWARE
ARG A:41 , HOH A:2457
BINDING SITE FOR RESIDUE EDO A 2329
15
BC6
SOFTWARE
ALA A:293 , ARG A:367
BINDING SITE FOR RESIDUE EDO A 2330
16
BC7
SOFTWARE
GLN A:46 , NAG A:2301
BINDING SITE FOR RESIDUE EDO A 2331
17
BC8
SOFTWARE
LEU A:97 , PRO A:98 , PRO A:99 , GLU A:189 , ARG A:191 , EDO A:2320
BINDING SITE FOR RESIDUE EDO A 2332
18
BC9
SOFTWARE
VAL A:113 , PRO A:114 , ALA A:148 , VAL A:149
BINDING SITE FOR RESIDUE EDO A 2333
19
CC1
SOFTWARE
GLU A:182 , ASN A:183 , SER A:184
BINDING SITE FOR RESIDUE EDO A 2334
20
CC2
SOFTWARE
LEU A:220 , ASP A:221
BINDING SITE FOR RESIDUE EDO A 2335
21
CC3
SOFTWARE
THR A:153
BINDING SITE FOR RESIDUE EDO A 2336
22
CC4
SOFTWARE
SER A:349 , SER A:368 , ALA A:369
BINDING SITE FOR RESIDUE EDO A 2337
23
CC5
SOFTWARE
ARG A:201
BINDING SITE FOR RESIDUE EDO A 2338
24
CC6
SOFTWARE
ALA A:315 , GLY A:316 , PRO A:334
BINDING SITE FOR RESIDUE EDO A 2339
25
CC7
SOFTWARE
ALA A:120 , GLY A:140
BINDING SITE FOR RESIDUE EDO A 2340
26
CC8
SOFTWARE
ARG A:84 , HIS A:176
BINDING SITE FOR RESIDUE EDO A 2341
27
CC9
SOFTWARE
ARG A:41 , ARG A:42 , ARG A:378 , EDO A:2344
BINDING SITE FOR RESIDUE EDO A 2342
28
DC1
SOFTWARE
ARG A:47 , TRP A:51
BINDING SITE FOR RESIDUE EDO A 2343
29
DC2
SOFTWARE
LEU A:36 , ARG A:54 , GLU A:343 , EDO A:2342
BINDING SITE FOR RESIDUE EDO A 2344
30
DC3
SOFTWARE
GLU A:264 , SER A:290
BINDING SITE FOR RESIDUE EDO A 2345
31
DC4
SOFTWARE
PRO A:242 , VAL A:244
BINDING SITE FOR RESIDUE EDO A 2346
32
DC5
SOFTWARE
ASN A:23 , GLN A:46 , TRP A:51 , EDO A:2331 , HOH A:2467
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 23 RESIDUES 2301 TO 2302
33
DC6
SOFTWARE
SER A:19 , ASN A:43 , VAL A:57
BINDING SITE FOR MONO-SACCHARIDE NAG A2303 BOUND TO ASN A 43
34
DC7
SOFTWARE
GLY A:104 , ASN A:106 , THR A:153
BINDING SITE FOR MONO-SACCHARIDE NAG A2304 BOUND TO ASN A 106
35
DC8
SOFTWARE
GLY A:162 , ASN A:164
BINDING SITE FOR MONO-SACCHARIDE NAG A2305 BOUND TO ASN A 164
36
DC9
SOFTWARE
ASP A:90 , ARG A:91 , VAL A:92 , ASN A:183 , HOH A:2429 , HOH A:2483
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 183 RESIDUES 2306 TO 2307
37
EC1
SOFTWARE
TYR A:232 , ASN A:272 , ASN A:279 , HOH A:2444
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 272 RESIDUES 2313 TO 2314
38
EC2
SOFTWARE
GLN A:268 , ASN A:285 , HOH A:2418 , HOH A:2448
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 285 RESIDUES 2308 TO 2311
39
EC3
SOFTWARE
GLN A:338 , ASN A:340 , HOH A:2433 , HOH A:2489 , HOH A:2497
BINDING SITE FOR MONO-SACCHARIDE NAG A2312 BOUND TO ASN A 340
40
EC4
SOFTWARE
ASN A:366 , HOH A:2436
BINDING SITE FOR MONO-SACCHARIDE NAG A2315 BOUND TO ASN A 366
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
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
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
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Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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