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3Q3G
Biol. Unit 1
Info
Asym.Unit (421 KB)
Biol.Unit 1 (112 KB)
Biol.Unit 2 (111 KB)
Biol.Unit 3 (109 KB)
Biol.Unit 4 (111 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A-DOMAIN IN COMPLEX WITH ANTIBODY
Authors
:
B. Mahalingam, J. P. Xiong, M. A. Arnaout
Date
:
21 Dec 10 (Deposition) - 30 Nov 11 (Release) - 28 Dec 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: C,D,G (1x)
Biol. Unit 2: A,B,E (1x)
Biol. Unit 3: F,H,I (1x)
Biol. Unit 4: J,K,L (1x)
Keywords
:
Immune System-Cell Adhesion Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Mahalingam, K. Ajroud, J. L. Alonso, S. Anand, B. D. Adair, A. L. Horenstein, F. Malavasi, J. P. Xiong, M. A. Arnaout
Stable Coordination Of The Inhibitory Ca2+ Ion At The Metal Ion-Dependent Adhesion Site In Integrin Cd11B/Cd18 By An Antibody-Derived Ligand Aspartate: Implications For Integri Regulation And Structure-Based Drug Design.
J. Immunol. V. 187 6393 2011
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Hetero Components
(2, 13)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
3q: 1,2-ETHANEDIOL (EDOq)
3r: 1,2-ETHANEDIOL (EDOr)
3s: 1,2-ETHANEDIOL (EDOs)
3t: 1,2-ETHANEDIOL (EDOt)
3u: 1,2-ETHANEDIOL (EDOu)
3v: 1,2-ETHANEDIOL (EDOv)
3w: 1,2-ETHANEDIOL (EDOw)
3x: 1,2-ETHANEDIOL (EDOx)
3y: 1,2-ETHANEDIOL (EDOy)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
4d: GLYCEROL (GOLd)
4e: GLYCEROL (GOLe)
4f: GLYCEROL (GOLf)
4g: GLYCEROL (GOLg)
4h: GLYCEROL (GOLh)
4i: GLYCEROL (GOLi)
4j: GLYCEROL (GOLj)
4k: GLYCEROL (GOLk)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
EDO
8
Ligand/Ion
1,2-ETHANEDIOL
4
GOL
5
Ligand/Ion
GLYCEROL
5
NA
-1
Ligand/Ion
SODIUM ION
6
PEG
-1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
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Sites
(18, 18)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC5 (SOFTWARE)
03: AC6 (SOFTWARE)
04: AC7 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC6 (SOFTWARE)
07: BC7 (SOFTWARE)
08: BC8 (SOFTWARE)
09: CC3 (SOFTWARE)
10: CC4 (SOFTWARE)
11: CC5 (SOFTWARE)
12: CC6 (SOFTWARE)
13: CC7 (SOFTWARE)
14: CC8 (SOFTWARE)
15: CC9 (SOFTWARE)
16: DC1 (SOFTWARE)
17: DC2 (SOFTWARE)
18: FC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP D:107 , SER G:142 , SER G:144 , THR G:209 , ASP G:242 , HOH G:1008 , HOH G:1009
BINDING SITE FOR RESIDUE CA G 500
02
AC5
SOFTWARE
SER C:33 , ASP G:242 , HOH G:1008
BINDING SITE FOR RESIDUE EDO G 620
03
AC6
SOFTWARE
LYS D:59 , PHE G:180 , ILE G:182 , LYS G:217 , GLU G:221
BINDING SITE FOR RESIDUE GOL G 703
04
AC7
SOFTWARE
ASP G:260 , VAL G:264
BINDING SITE FOR RESIDUE CL G 907
05
AC9
SOFTWARE
TYR D:104 , ARG E:152
BINDING SITE FOR RESIDUE EDO E 627
06
BC6
SOFTWARE
PHE C:104 , HOH C:1242 , LEU D:47
BINDING SITE FOR RESIDUE EDO C 609
07
BC7
SOFTWARE
ASN C:144 , ASP C:173 , GLY D:173 , VAL D:174 , HIS D:175
BINDING SITE FOR RESIDUE EDO C 628
08
BC8
SOFTWARE
GLU C:61 , TYR D:104 , TYR D:109 , ASP D:112 , GLU E:155
BINDING SITE FOR RESIDUE GOL C 710
09
CC3
SOFTWARE
THR D:60 , LYS D:61 , TYR D:62
BINDING SITE FOR RESIDUE EDO D 604
10
CC4
SOFTWARE
SER C:168 , SER C:182 , THR C:184 , PRO D:178 , THR D:187 , LEU D:188 , SER D:189
BINDING SITE FOR RESIDUE EDO D 605
11
CC5
SOFTWARE
SER D:23 , THR D:25
BINDING SITE FOR RESIDUE EDO D 613
12
CC6
SOFTWARE
ASP D:75 , THR D:76 , SER D:77 , GOL D:702 , ASN H:166 , SER H:169 , THR H:203
BINDING SITE FOR RESIDUE EDO D 614
13
CC7
SOFTWARE
PRO B:129 , GLU C:129 , VAL D:132 , LYS D:219 , GOL D:708
BINDING SITE FOR RESIDUE EDO D 619
14
CC8
SOFTWARE
ASP D:58 , ALA D:74 , ASP D:75 , EDO D:614 , HOH D:1232 , GLU H:202
BINDING SITE FOR RESIDUE GOL D 702
15
CC9
SOFTWARE
LYS D:40 , GLU D:48 , GLU D:91 , ASP D:92
BINDING SITE FOR RESIDUE GOL D 705
16
DC1
SOFTWARE
PRO B:130 , VAL B:132 , LYS B:219 , PRO D:130 , THR D:215 , EDO D:619
BINDING SITE FOR RESIDUE GOL D 708
17
DC2
SOFTWARE
THR D:119
BINDING SITE FOR RESIDUE NA D 800
18
FC2
SOFTWARE
THR C:20 , MET C:21 , GLN K:67 , GLY K:68
BINDING SITE FOR RESIDUE GOL K 706
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: VWFA (G:134-312)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
VWFA
PS50234
VWFA domain profile.
ITAM_HUMAN
150-328
1
-
G:134-312
-
-
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Exons
(0, 0)
Info
All Exons
View:
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 12)
Info
All SCOP Domains
1a: SCOP_d3q3ga1 (A:1-113)
1b: SCOP_d3q3gc1 (C:1-113)
1c: SCOP_d3q3gf1 (F:1-113)
1d: SCOP_d3q3gj1 (J:1-113)
2a: SCOP_d3q3ga2 (A:114-220)
2b: SCOP_d3q3gc2 (C:114-220)
2c: SCOP_d3q3gf2 (F:114-220)
2d: SCOP_d3q3gj2 (J:114-220)
3a: SCOP_d3q3ge_ (E:)
3b: SCOP_d3q3gg_ (G:)
3c: SCOP_d3q3gi_ (I:)
3d: SCOP_d3q3gl_ (L:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Mouse (Mus musculus) [TaxId: 10090]
(360)
1a
d3q3ga1
A:1-113
1b
d3q3gc1
C:1-113
1c
d3q3gf1
F:1-113
1d
d3q3gj1
J:1-113
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Mouse (Mus musculus) [TaxId: 10090]
(309)
2a
d3q3ga2
A:114-220
2b
d3q3gc2
C:114-220
2c
d3q3gf2
F:114-220
2d
d3q3gj2
J:114-220
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
vWA-like
(111)
Superfamily
:
vWA-like
(111)
Family
:
Integrin A (or I) domain
(84)
Protein domain
:
Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit)
(11)
Human (Homo sapiens) [TaxId: 9606]
(11)
3a
d3q3ge_
E:
3b
d3q3gg_
G:
3c
d3q3gi_
I:
3d
d3q3gl_
L:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Atom Selection
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)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Chain D
Chain G
Asymmetric Unit 1
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Asym.Unit (421 KB)
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