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3VKL
Biol. Unit 1
Info
Asym.Unit (108 KB)
Biol.Unit 1 (53 KB)
Biol.Unit 2 (53 KB)
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(1)
Title
:
PROTEASE-RESISTANT MUTANT FORM OF HUMAN GALECTIN-8 IN COMPLEX WITH TWO LACTOSE MOLECULES
Authors
:
S. Kamitori, H. Yoshida
Date
:
18 Nov 11 (Deposition) - 12 Sep 12 (Release) - 03 Jul 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Beta-Sandwich, Carbohydrate Binding, Oligosaccharide, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Yoshida, S. Yamashita, M. Teraoka, A. Itoh, S. Nakakita, N. Nishi, S. Kamitori
X-Ray Structure Of A Protease-Resistant Mutant Form Of Huma Galectin-8 With Two Carbohydrate Recognition Domains
Febs J. V. 279 3937 2012
[
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
2a: 1,2-ETHANEDIOL (EDOa)
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)
3a: BETA-D-GALACTOSE (GALa)
3b: BETA-D-GALACTOSE (GALb)
3c: BETA-D-GALACTOSE (GALc)
3d: BETA-D-GALACTOSE (GALd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
EDO
12
Ligand/Ion
1,2-ETHANEDIOL
3
GAL
2
Ligand/Ion
BETA-D-GALACTOSE
[
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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: CC2 (SOFTWARE)
18: CC5 (SOFTWARE)
19: CC7 (SOFTWARE)
20: CC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:45 , HIS A:65 , ASN A:67 , ARG A:69 , ASN A:79 , TRP A:86 , GLU A:89 , BGC A:402 , HOH A:509
BINDING SITE FOR RESIDUE GAL A 401
02
AC2
SOFTWARE
ARG A:69 , GLU A:89 , GAL A:401
BINDING SITE FOR RESIDUE BGC A 402
03
AC3
SOFTWARE
HIS A:229 , ASN A:231 , ARG A:233 , ASN A:242 , TRP A:249 , GLU A:252 , BGC A:404
BINDING SITE FOR RESIDUE GAL A 403
04
AC4
SOFTWARE
ARG A:233 , GLU A:252 , ARG A:254 , GAL A:403 , SER B:248
BINDING SITE FOR RESIDUE BGC A 404
05
AC5
SOFTWARE
ARG A:45 , PHE A:46 , GLN A:47 , ASN A:67 , GLY A:142
BINDING SITE FOR RESIDUE EDO A 405
06
AC6
SOFTWARE
GLN A:115 , ALA A:117 , HIS A:122 , MET B:265 , ASN B:283
BINDING SITE FOR RESIDUE EDO A 406
07
AC7
SOFTWARE
GLU A:90 , LEU A:125 , GLY A:127
BINDING SITE FOR RESIDUE EDO A 407
08
AC8
SOFTWARE
ASN A:14 , LYS A:237 , HOH A:572
BINDING SITE FOR RESIDUE EDO A 408
09
AC9
SOFTWARE
LEU A:8 , ILE A:11 , ARG A:36 , GLU A:104
BINDING SITE FOR RESIDUE EDO A 409
10
BC1
SOFTWARE
GLU A:253 , ARG A:254 , ASN A:255
BINDING SITE FOR RESIDUE EDO A 410
11
BC2
SOFTWARE
ASP A:44 , LYS A:71
BINDING SITE FOR RESIDUE EDO A 411
12
BC3
SOFTWARE
LYS A:71 , ARG A:72 , ALA A:73 , HOH A:529
BINDING SITE FOR RESIDUE EDO A 412
13
BC4
SOFTWARE
ASN A:119
BINDING SITE FOR RESIDUE EDO A 413
14
BC5
SOFTWARE
VAL A:20 , GLN A:51 , SER A:54 , SER A:55 , ARG A:59 , ALA A:60 , TYR A:141 , HOH A:561
BINDING SITE FOR RESIDUE EDO A 414
15
BC6
SOFTWARE
GLY A:30 , LEU A:32 , EDO A:416
BINDING SITE FOR RESIDUE EDO A 415
16
BC7
SOFTWARE
ASN A:7 , ARG A:315 , EDO A:415 , HOH A:547
BINDING SITE FOR RESIDUE EDO A 416
17
CC2
SOFTWARE
GLU A:251 , ARG B:233 , GLU B:252 , ARG B:254 , GAL B:403 , HOH B:589
BINDING SITE FOR RESIDUE BGC B 404
18
CC5
SOFTWARE
ILE A:91 , TYR A:93 , ILE B:12 , PHE B:19 , THR B:22
BINDING SITE FOR RESIDUE EDO B 407
19
CC7
SOFTWARE
HOH A:564 , THR B:92 , THR B:123 , LEU B:124 , LEU B:125 , EDO B:405
BINDING SITE FOR RESIDUE EDO B 409
20
CC8
SOFTWARE
GLN A:9 , ASN A:10 , ARG A:184 , GLY B:87 , GLU B:89 , BGC B:402
BINDING SITE FOR RESIDUE EDO B 410
[
close Site info
]
SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_012990 (F19Y, chain A, )
2: VAR_009710 (R36C, chain A, )
3: VAR_012991 (M56V, chain A, )
4: VAR_063506 (R184S, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_012990
F
19
Y
LEG8_HUMAN
Polymorphism
2737713
A
F
19
Y
2
UniProt
VAR_009710
R
36
C
LEG8_HUMAN
Polymorphism
1041935
A
R
36
C
3
UniProt
VAR_012991
M
56
V
LEG8_HUMAN
Polymorphism
1041937
A
M
56
V
4
UniProt
VAR_063506
R
184
S
LEG8_HUMAN
Polymorphism
2243525
A
R
184
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: GALECTIN (A:19-152,A:187-317)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GALECTIN
PS51304
Galactoside-binding lectin (galectin) domain profile.
LEG8_HUMAN
19-152
187-317
2
A:19-152
-
A:187-317
-
[
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Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3vkla1 (A:3-154)
1b: SCOP_d3vkla2 (A:155-317)
1c: SCOP_d3vklb1 (B:3-154)
1d: SCOP_d3vklb2 (B:155-317)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
automated matches
(133)
Protein domain
:
automated matches
(133)
Human (Homo sapiens) [TaxId: 9606]
(36)
1a
d3vkla1
A:3-154
1b
d3vkla2
A:155-317
1c
d3vklb1
B:3-154
1d
d3vklb2
B:155-317
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
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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Protein & NOT Site
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Chain A
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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