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2ZMK
Biol. Unit 4
Info
Asym.Unit (168 KB)
Biol.Unit 1 (83 KB)
Biol.Unit 2 (81 KB)
Biol.Unit 3 (44 KB)
Biol.Unit 4 (44 KB)
Biol.Unit 5 (43 KB)
Biol.Unit 6 (43 KB)
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(1)
Title
:
CRYSTL STRUCTURE OF BASIC WINGED BEAN LECTIN IN COMPLEX WITH GAL-ALPHA-1,4-GAL-BETA-ETHYLENE
Authors
:
K. A. Kulkarni, S. Katiyar, A. Surolia, M. Vijayan
Date
:
19 Apr 08 (Deposition) - 29 Jul 08 (Release) - 18 Jun 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A (1x)
Biol. Unit 4: B (1x)
Biol. Unit 5: C (1x)
Biol. Unit 6: D (1x)
Keywords
:
Legume Lectin, Sugar Binding Protein, Sugar Specificity, Glycoprotein, Lectin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. A. Kulkarni, S. Katiyar, A. Surolia, M. Vijayan, K. Suguna
Structure And Sugar-Specificity Of Basic Winged-Bean Lectin Structures Of New Disaccharide Complexes And A Comparative Study With Other Known Disaccharide Complexes Of The Lectin
Acta Crystallogr. , Sect. D V. 64 730 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 6)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: ETHYL BETA-D-GALACTOPYRANOSIDE (EGAa)
3b: ETHYL BETA-D-GALACTOPYRANOSIDE (EGAb)
3c: ETHYL BETA-D-GALACTOPYRANOSIDE (EGAc)
3d: ETHYL BETA-D-GALACTOPYRANOSIDE (EGAd)
4a: ALPHA-L-FUCOSE (FUCa)
4b: ALPHA-L-FUCOSE (FUCb)
4c: ALPHA-L-FUCOSE (FUCc)
4d: ALPHA-L-FUCOSE (FUCd)
4e: ALPHA-L-FUCOSE (FUCe)
4f: ALPHA-L-FUCOSE (FUCf)
5a: ALPHA D-GALACTOSE (GLAa)
5b: ALPHA D-GALACTOSE (GLAb)
5c: ALPHA D-GALACTOSE (GLAc)
5d: ALPHA D-GALACTOSE (GLAd)
6a: MANGANESE (II) ION (MNa)
6b: MANGANESE (II) ION (MNb)
6c: MANGANESE (II) ION (MNc)
6d: MANGANESE (II) ION (MNd)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
7h: N-ACETYL-D-GLUCOSAMINE (NAGh)
7i: N-ACETYL-D-GLUCOSAMINE (NAGi)
7j: N-ACETYL-D-GLUCOSAMINE (NAGj)
7k: N-ACETYL-D-GLUCOSAMINE (NAGk)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
-1
Ligand/Ion
BETA-D-MANNOSE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
EGA
1
Ligand/Ion
ETHYL BETA-D-GALACTOPYRANOSIDE
4
FUC
1
Ligand/Ion
ALPHA-L-FUCOSE
5
GLA
1
Ligand/Ion
ALPHA D-GALACTOSE
6
MN
-1
Ligand/Ion
MANGANESE (II) ION
7
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(7, 7)
Info
All Sites
1: AC5 (SOFTWARE)
2: AC6 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
5: BC4 (SOFTWARE)
6: CC2 (SOFTWARE)
7: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC5
SOFTWARE
GLU B:122 , ASP B:124 , ASP B:131 , HIS B:136 , HOH B:401 , HOH B:402
BINDING SITE FOR RESIDUE MN B 301
2
AC6
SOFTWARE
ASP B:124 , PHE B:126 , ASN B:128 , ASP B:131 , HOH B:403 , HOH B:404
BINDING SITE FOR RESIDUE CA B 302
3
AC7
SOFTWARE
HIS B:84 , ASP B:87 , GLY B:104 , GLY B:105 , PHE B:126 , ASN B:128 , GLY B:211 , ASP B:212 , ALA B:220 , EGA B:308 , HOH B:421
BINDING SITE FOR RESIDUE GLA B 307
4
AC8
SOFTWARE
THR B:129 , SER B:214 , GLY B:215 , GLA B:307
BINDING SITE FOR RESIDUE EGA B 308
5
BC4
SOFTWARE
SER B:60 , THR B:61 , GLU B:200
BINDING SITE FOR RESIDUE BMA C 306
6
CC2
SOFTWARE
ARG A:24 , ASN B:44
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 44 RESIDUES 305 TO 306
7
CC3
SOFTWARE
PRO B:83 , GLN B:217 , ASN B:219
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 219 RESIDUES 303 TO 304
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: LECTIN_LEGUME_BETA (B:119-125)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LECTIN_LEGUME_BETA
PS00307
Legume lectins beta-chain signature.
LEC1_PSOTE
120-126
1
-
B:119-125
-
-
[
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Exons
(0, 0)
Info
All Exons
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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_d2zmka_ (A:)
1b: SCOP_d2zmkb_ (B:)
1c: SCOP_d2zmkc_ (C:)
1d: SCOP_d2zmkd_ (D:)
View:
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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
:
Legume lectins
(238)
Protein domain
:
Legume lectin
(110)
Winged bean (Psophocarpus tetragonolobus), basic agglutinin [TaxId: 3891]
(13)
1a
d2zmka_
A:
1b
d2zmkb_
B:
1c
d2zmkc_
C:
1d
d2zmkd_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2zmkA00 (A:1-237)
1b: CATH_2zmkB00 (B:1-237)
1c: CATH_2zmkC00 (C:1-237)
1d: CATH_2zmkD00 (D:1-237)
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(
)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.200, no name defined]
(421)
Goa bean (Psophocarpus tetragonolobus)
(3)
1a
2zmkA00
A:1-237
1b
2zmkB00
B:1-237
1c
2zmkC00
C:1-237
1d
2zmkD00
D:1-237
[
close CATH info
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Lectin_legB_2zmkD01 (D:1-232)
1b: PFAM_Lectin_legB_2zmkD02 (D:1-232)
1c: PFAM_Lectin_legB_2zmkD03 (D:1-232)
1d: PFAM_Lectin_legB_2zmkD04 (D:1-232)
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Clans
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(
)
Organisms
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)
(
)
Clan
:
Concanavalin
(293)
Family
:
Lectin_legB
(93)
Psophocarpus tetragonolobus (Winged bean) (Dolichos tetragonolobus)
(5)
1a
Lectin_legB-2zmkD01
D:1-232
1b
Lectin_legB-2zmkD02
D:1-232
1c
Lectin_legB-2zmkD03
D:1-232
1d
Lectin_legB-2zmkD04
D:1-232
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]
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain B
Asymmetric Unit 1
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Asym.Unit (168 KB)
Header - Asym.Unit
Biol.Unit 1 (83 KB)
Header - Biol.Unit 1
Biol.Unit 2 (81 KB)
Header - Biol.Unit 2
Biol.Unit 3 (44 KB)
Header - Biol.Unit 3
Biol.Unit 4 (44 KB)
Header - Biol.Unit 4
Biol.Unit 5 (43 KB)
Header - Biol.Unit 5
Biol.Unit 6 (43 KB)
Header - Biol.Unit 6
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