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3P5H
Asym. Unit
Info
Asym.Unit (108 KB)
Biol.Unit 1 (28 KB)
Biol.Unit 2 (29 KB)
Biol.Unit 3 (28 KB)
Biol.Unit 4 (28 KB)
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(1)
Title
:
STRUCTURE OF THE CARBOHYDRATE-RECOGNITION DOMAIN OF HUMAN LANGERIN WITH LAMINARITRIOSE
Authors
:
H. Feinberg, M. E. Taylor, N. Razi, R. Mcbride, Y. A. Knirel, S. A. Graham K. Drickamer, W. I. Weis
Date
:
08 Oct 10 (Deposition) - 08 Dec 10 (Release) - 26 Jan 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.61
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
C-Type Lectin, Carbohydrate-Binding, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Feinberg, M. E. Taylor, N. Razi, R. Mcbride, Y. A. Knirel, S. A. Graham, K. Drickamer, W. I. Weis
Structural Basis For Langerin Recognition Of Diverse Pathogen And Mammalian Glycans Through A Single Binding Site.
J. Mol. Biol. V. 405 1027 2011
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
1e: BETA-D-GLUCOSE (BGCe)
1f: BETA-D-GLUCOSE (BGCf)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
6
Ligand/Ion
BETA-D-GLUCOSE
2
CA
4
Ligand/Ion
CALCIUM ION
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Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:285 , ASN A:287 , GLU A:293 , ASN A:307 , ASP A:308 , CA A:500 , HOH A:676
BINDING SITE FOR RESIDUE BGC A 400
02
AC2
SOFTWARE
GLU A:285 , ASN A:287 , GLU A:293 , ASN A:307 , ASP A:308 , BGC A:400
BINDING SITE FOR RESIDUE CA A 500
03
AC3
SOFTWARE
GLU B:285 , ASN B:287 , GLU B:293 , ASN B:307 , ASP B:308 , HOH B:337 , BGC B:401 , CA B:500 , HOH B:607
BINDING SITE FOR RESIDUE BGC B 400
04
AC4
SOFTWARE
LYS A:200 , PHE A:241 , THR A:245 , HOH A:344 , HOH B:161 , GLU B:285 , ASN B:287 , BGC B:400 , HOH B:443
BINDING SITE FOR RESIDUE BGC B 401
05
AC5
SOFTWARE
GLU B:285 , ASN B:287 , GLU B:293 , ASN B:307 , ASP B:308 , BGC B:400
BINDING SITE FOR RESIDUE CA B 500
06
AC6
SOFTWARE
HOH C:172 , GLU C:285 , ASN C:287 , GLU C:293 , ASN C:307 , ASP C:308 , HOH C:356 , CA C:500
BINDING SITE FOR RESIDUE BGC C 402
07
AC7
SOFTWARE
GLU C:285 , ASN C:287 , GLU C:293 , ASN C:307 , ASP C:308 , BGC C:402
BINDING SITE FOR RESIDUE CA C 500
08
AC8
SOFTWARE
GLU D:285 , ASN D:287 , GLU D:293 , LYS D:299 , ASN D:307 , ASP D:308 , HOH D:331 , BGC D:401 , CA D:500
BINDING SITE FOR RESIDUE BGC D 400
09
AC9
SOFTWARE
LYS B:200 , PHE B:241 , THR B:245 , HOH B:335 , HOH B:363 , GLU D:285 , ASN D:287 , BGC D:400 , HOH D:716 , HOH D:717
BINDING SITE FOR RESIDUE BGC D 401
10
BC1
SOFTWARE
GLU D:285 , ASN D:287 , GLU D:293 , ASN D:307 , ASP D:308 , BGC D:400
BINDING SITE FOR RESIDUE CA D 500
[
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SAPs(SNPs)/Variants
(5, 20)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_054782 (P213S, chain A/B/C/D, )
2: VAR_063828 (W264R, chain A/B/C/D, )
3: VAR_054783 (A278A, chain A/B/C/D, )
4: VAR_054784 (N288D, chain A/B/C/D, )
5: VAR_059448 (A300P, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_054782
P
213
S
CLC4K_HUMAN
Polymorphism
17006436
A/B/C/D
P
213
S
2
UniProt
VAR_063828
W
264
R
CLC4K_HUMAN
Disease (BIRGD)
---
A/B/C/D
W
264
R
3
UniProt
VAR_054783
V
278
A
CLC4K_HUMAN
Polymorphism
741326
A/B/C/D
A
278
A
4
UniProt
VAR_054784
N
288
D
CLC4K_HUMAN
Polymorphism
13383830
A/B/C/D
N
288
D
5
UniProt
VAR_059448
A
300
P
CLC4K_HUMAN
Polymorphism
2080391
A/B/C/D
A
300
P
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: C_TYPE_LECTIN_2 (A:202-320,B:202-320,C:202-320,D:20...)
2: C_TYPE_LECTIN_1 (A:295-319,B:295-319,C:295-319,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.
CLC4K_HUMAN
202-320
4
A:202-320
B:202-320
C:202-320
D:202-320
2
C_TYPE_LECTIN_1
PS00615
C-type lectin domain signature.
CLC4K_HUMAN
295-319
4
A:295-319
B:295-319
C:295-319
D:295-319
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3p5ha_ (A:)
1b: SCOP_d3p5hb_ (B:)
1c: SCOP_d3p5hc_ (C:)
1d: SCOP_d3p5hd_ (D:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
automated matches
(88)
Protein domain
:
automated matches
(88)
Human (Homo sapiens) [TaxId: 9606]
(60)
1a
d3p5ha_
A:
1b
d3p5hb_
B:
1c
d3p5hc_
C:
1d
d3p5hd_
D:
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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
(1, 4)
Info
all PFAM domains
1a: PFAM_Lectin_C_3p5hD01 (D:212-321)
1b: PFAM_Lectin_C_3p5hD02 (D:212-321)
1c: PFAM_Lectin_C_3p5hD03 (D:212-321)
1d: PFAM_Lectin_C_3p5hD04 (D:212-321)
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Clans
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)
Clan
:
C_Lectin
(98)
Family
:
Lectin_C
(85)
Homo sapiens (Human)
(39)
1a
Lectin_C-3p5hD01
D:212-321
1b
Lectin_C-3p5hD02
D:212-321
1c
Lectin_C-3p5hD03
D:212-321
1d
Lectin_C-3p5hD04
D:212-321
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Chain D
Asymmetric Unit 1
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Asym.Unit (108 KB)
Header - Asym.Unit
Biol.Unit 1 (28 KB)
Header - Biol.Unit 1
Biol.Unit 2 (29 KB)
Header - Biol.Unit 2
Biol.Unit 3 (28 KB)
Header - Biol.Unit 3
Biol.Unit 4 (28 KB)
Header - Biol.Unit 4
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