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4C9F
Asym. Unit
Info
Asym.Unit (104 KB)
Biol.Unit 1 (50 KB)
Biol.Unit 2 (51 KB)
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(1)
Title
:
STRUCTURE OF SIGN-R1 IN COMPLEX WITH SULFODEXTRAN
Authors
:
N. Silva-Martin, S. G. Bartual, A. Rodriguez, E. Ramirez, P. Chacon, R. M. Anthony, C. G. Park, J. A. Hermoso
Date
:
02 Oct 13 (Deposition) - 15 Oct 14 (Release) - 25 Feb 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Membrane Protein, C-Type Lectin, Innate Immunity
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Silva-Martin, S. G. Bartual, A. Rodriguez, E. Ramirez, P. Chacon, R. M. Anthony, C. G. Park, J. A. Hermoso
Structural Basis For Selective Recognition Of Endogenous And Microbial Polysaccharides By Macrophage Receptor Sign-R1
Structure V. 22 1595 2014
[
close entry info
]
Hetero Components
(5, 20)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: 4-O-SULFO-ALPHA-D-GLUCOPYRANOSE (GQ1a)
2b: 4-O-SULFO-ALPHA-D-GLUCOPYRANOSE (GQ1b)
2c: 4-O-SULFO-ALPHA-D-GLUCOPYRANOSE (GQ1c)
3a: 6-O-ALPHA-D-GLUCOPYRANOSYL-4-O-SUL... (GQ2a)
3b: 6-O-ALPHA-D-GLUCOPYRANOSYL-4-O-SUL... (GQ2b)
4a: ALPHA-D-GLUCOPYRANOSYL-(1->6)-ALPH... (GQ4a)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
GQ1
3
Ligand/Ion
4-O-SULFO-ALPHA-D-GLUCOPYRANOSE
3
GQ2
2
Ligand/Ion
6-O-ALPHA-D-GLUCOPYRANOSYL-4-O-SULFO-ALPHA-D-GLUCOPYRANOSE
4
GQ4
1
Ligand/Ion
ALPHA-D-GLUCOPYRANOSYL-(1->6)-ALPHA-D-GLUCOPYRANOSYL-(1->6)-ALPHA-D-GLUCOPYRANOSYL-(1->6)-4-O-SULFO-ALPHA-D-GLUCOPYRANOSE
5
SO4
10
Ligand/Ion
SULFATE ION
[
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Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:285 , ASN A:287 , GLU A:292 , ASP A:304 , GQ2 A:1324
BINDING SITE FOR RESIDUE CA A 401
02
AC2
SOFTWARE
LYS A:211 , LYS A:249 , ARG B:193 , LEU B:194 , CYS B:195 , HOH B:2006 , HOH B:2011
BINDING SITE FOR RESIDUE SO4 B1324
03
AC3
SOFTWARE
GLU B:285 , ASN B:287 , GLU B:292 , ASP B:304 , GQ2 B:1329
BINDING SITE FOR RESIDUE CA B 401
04
AC4
SOFTWARE
LEU B:203 , ASN B:205 , ASN B:234 , SER B:235 , GLU B:238 , LYS B:316 , GQ1 D:1327
BINDING SITE FOR RESIDUE SO4 B1325
05
AC5
SOFTWARE
SER B:235 , ASP B:236 , GLU B:237 , SO4 B:1327
BINDING SITE FOR RESIDUE SO4 B1326
06
AC6
SOFTWARE
ARG A:193 , LEU A:194 , CYS A:195 , PHE A:201 , HOH A:2006 , LYS B:211 , LYS B:249
BINDING SITE FOR RESIDUE SO4 A1323
07
AC7
SOFTWARE
GLU C:285 , ASN C:287 , GLU C:292 , ASP C:304 , GQ4 C:1325
BINDING SITE FOR RESIDUE CA C 401
08
AC8
SOFTWARE
SER C:235 , ASP C:236 , GLU C:237 , ARG C:276 , HOH C:2038 , HOH C:2039
BINDING SITE FOR RESIDUE SO4 C1323
09
AC9
SOFTWARE
LYS C:211 , LYS C:249 , HOH C:2004 , ARG D:193 , LEU D:194 , CYS D:195 , HOH D:2007
BINDING SITE FOR RESIDUE SO4 D1324
10
BC1
SOFTWARE
GLU D:285 , ASN D:287 , GLU D:292 , ASP D:304
BINDING SITE FOR RESIDUE CA D 401
11
BC2
SOFTWARE
SER B:235 , ASP B:236 , ARG B:276 , SO4 B:1326 , HOH B:2022 , HOH B:2044
BINDING SITE FOR RESIDUE SO4 B1327
12
BC3
SOFTWARE
TRP A:199 , VAL A:226 , TRP C:199 , VAL C:226 , HOH C:2036
BINDING SITE FOR RESIDUE SO4 C1324
13
BC4
SOFTWARE
PHE B:208 , SER B:210 , LYS B:211 , SER B:212
BINDING SITE FOR RESIDUE SO4 B1328
14
BC5
SOFTWARE
LYS B:260 , GLN C:213 , LYS C:249 , PRO C:251 , GLU C:285 , ASN C:287 , ASN C:288 , GLU C:292 , GLU C:296 , SER C:305 , LEU C:309 , LYS C:311 , CA C:401 , SO4 C:1326 , HOH C:2040 , THR D:323
BINDING SITE FOR RESIDUE GQ4 C1325
15
BC6
SOFTWARE
GLU A:285 , ASN A:287 , ASN A:288 , GLU A:292 , GLU A:296 , ASP A:304 , SER A:305 , LEU A:309 , LYS A:311 , CA A:401
BINDING SITE FOR RESIDUE GQ2 A1324
16
BC7
SOFTWARE
PRO B:251 , GLU B:285 , ASN B:287 , ASN B:288 , GLU B:296 , ASN B:303 , SER B:305 , LYS B:311 , CA B:401
BINDING SITE FOR RESIDUE GQ2 B1329
17
BC8
SOFTWARE
ASN D:234 , SER D:235 , ASP D:236 , GLU D:237 , ARG D:276
BINDING SITE FOR RESIDUE GQ1 D1325
18
BC9
SOFTWARE
LYS D:279 , ASN D:287 , ASN D:288 , ILE D:289
BINDING SITE FOR RESIDUE GQ1 D1326
19
CC1
SOFTWARE
LEU B:259 , LYS B:260 , GQ4 C:1325
BINDING SITE FOR RESIDUE SO4 C1326
20
CC2
SOFTWARE
ASN B:234 , SO4 B:1325 , ASN D:205 , ASN D:234 , SER D:235 , GLU D:238 , LYS D:316 , HOH D:2008 , HOH D:2009
BINDING SITE FOR RESIDUE GQ1 D1327
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (A:202-316,B:202-316,C:202-316,D:20...)
2: C_TYPE_LECTIN_1 (A:294-315,B:294-315,C:294-315,D:29...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
C209B_MOUSE
202-316
4
A:202-316
B:202-316
C:202-316
D:202-316
2
C_TYPE_LECTIN_1
PS00615
C-type lectin domain signature.
C209B_MOUSE
294-315
4
A:294-315
B:294-315
C:294-315
D:294-315
[
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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
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Sidechain
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Protein & NOT Site
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Chain A
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Chain C
Chain D
Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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Asym.Unit (104 KB)
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