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Asym. Unit
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Asym.Unit (53 KB)
Biol.Unit 1 (25 KB)
Biol.Unit 2 (25 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CLEC-2 IN COMPLEX WITH O-GLYCOSYLATED PODOPLANIN
Authors
:
M. Nagae, K. Morita-Matsumoto, M. Kato, M. Kato-Kaneko, Y. Kato, Y. Yam
Date
:
20 Mar 14 (Deposition) - 22 Oct 14 (Release) - 24 Dec 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.91
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
C-Type Lectin Fold, Cell Surface Receptor, Podoplanin, O- Glycosylated, Extracellular Region, Sugar Binding Protein
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
M. Nagae, K. Morita-Matsumoto, M. Kato, M. Kato-Kaneko, Y. Kato, Y. Yamaguchi
A Platform Of C-Type Lectin-Like Receptor Clec-2 For Bindin O-Glycosylated Podoplanin And Nonglycosylated Rhodocytin
Structure V. 22 1711 2014
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Ga)
1b: N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2Gb)
2a: BETA-D-GALACTOSE (GALa)
2b: BETA-D-GALACTOSE (GALb)
3a: O-SIALIC ACID (SIAa)
3b: O-SIALIC ACID (SIAb)
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No.
Name
Count
Type
Full Name
1
A2G
2
Ligand/Ion
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
3
SIA
2
Ligand/Ion
O-SIALIC ACID
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:105 , TRP A:106 , PHE A:116 , PHE A:117 , ARG A:118 , HIS A:119 , TYR A:129 , HOH A:302 , HOH A:321 , GLY B:191 , THR C:52 , GLY C:54 , HOH C:1101 , CYS D:55
BINDING SITE FOR CHAIN C OF SUGAR BOUND TO THR C 52 RESIDUES 1001 TO 1003
2
AC2
SOFTWARE
THR A:104 , ASN B:105 , TRP B:106 , PHE B:116 , PHE B:117 , ARG B:118 , HIS B:119 , TYR B:129 , HOH B:311 , THR D:52 , PRO D:53 , GLY D:54 , HOH D:1101 , HOH D:1102
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO THR D 52 RESIDUES 1001 TO 1003
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (A:109-217,B:109-217)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
C_TYPE_LECTIN_2
PS50041
C-type lectin domain profile.
CLC1B_HUMAN
109-217
2
A:109-217
B:109-217
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Exons
(3, 6)
Info
All Exons
Exon 1.4a (A:101-146 | B:101-146)
Exon 1.9b (A:147-182 | B:147-182)
Exon 1.14a (A:182-220 | B:182-220)
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1: Boundary 1.3/1.4a
2: Boundary 1.4a/1.9b
3: Boundary 1.9b/1.14a
4: Boundary 1.14a/-
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000298527
1
ENSE00002178372
chr12:
10151899-10151636
264
CLC1B_HUMAN
1-22
22
0
-
-
1.2
ENST00000298527
2
ENSE00001626056
chr12:
10150979-10150881
99
CLC1B_HUMAN
22-55
34
0
-
-
1.3
ENST00000298527
3
ENSE00001677545
chr12:
10149878-10149759
120
CLC1B_HUMAN
55-95
41
0
-
-
1.4a
ENST00000298527
4a
ENSE00001095413
chr12:
10149599-10149445
155
CLC1B_HUMAN
95-146
52
2
A:101-146
B:101-146
46
46
1.9b
ENST00000298527
9b
ENSE00001095422
chr12:
10147845-10147739
107
CLC1B_HUMAN
147-182
36
2
A:147-182
B:147-182
36
36
1.14a
ENST00000298527
14a
ENSE00001375569
chr12:
10145886-10145664
223
CLC1B_HUMAN
182-229
48
2
A:182-220
B:182-220
39
39
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SCOP Domains
(0, 0)
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CATH Domains
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Pfam Domains
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Asym.Unit (53 KB)
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