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2ZMN
Biol. Unit 1
Info
Asym.Unit (167 KB)
Biol.Unit 1 (82 KB)
Biol.Unit 2 (81 KB)
Biol.Unit 3 (44 KB)
Biol.Unit 4 (44 KB)
Biol.Unit 5 (44 KB)
Biol.Unit 6 (43 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BASIC WINGED BEAN LECTIN IN COMPLEX WITH GAL-ALPHA- 1,6 GLC
Authors
:
K. A. Kulkarni, S. Katiyar, A. Surolia, M. Vijayan, K. Suguna
Date
:
19 Apr 08 (Deposition) - 29 Jul 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
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 Lectins, Sugar Specificity, Winged Bean Lectin, Sugar Binding Protein
(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, 14)
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: BETA-D-MANNOSE (BMAa)
3a: CALCIUM ION (CAa)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
3d: CALCIUM ION (CAd)
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)
7l: N-ACETYL-D-GLUCOSAMINE (NAGl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
2
Ligand/Ion
BETA-D-GLUCOSE
2
BMA
-1
Ligand/Ion
BETA-D-MANNOSE
3
CA
-1
Ligand/Ion
CALCIUM ION
4
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
5
GLA
2
Ligand/Ion
ALPHA D-GALACTOSE
6
MN
-1
Ligand/Ion
MANGANESE (II) ION
7
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
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: AC8 (SOFTWARE)
08: AD1 (SOFTWARE)
09: AD2 (SOFTWARE)
10: AD3 (SOFTWARE)
11: AD4 (SOFTWARE)
12: BC2 (SOFTWARE)
13: BC3 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC8 (SOFTWARE)
16: BC9 (SOFTWARE)
17: DC1 (SOFTWARE)
18: DC2 (SOFTWARE)
19: DC3 (SOFTWARE)
20: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:82 , PRO A:83 , GLN A:217 , ASN A:219 , FUC A:502 , NAG A:503
BINDING SITE FOR RESIDUE NAG A 501
02
AC2
SOFTWARE
NAG A:501 , NAG A:503 , ASN D:8
BINDING SITE FOR RESIDUE FUC A 502
03
AC3
SOFTWARE
NAG A:501 , FUC A:502 , HIS D:11 , LYS D:53
BINDING SITE FOR RESIDUE NAG A 503
04
AC4
SOFTWARE
ASN A:44 , FUC A:602
BINDING SITE FOR RESIDUE NAG A 601
05
AC5
SOFTWARE
NAG A:601 , SER D:60 , THR D:61
BINDING SITE FOR RESIDUE FUC A 602
06
AC6
SOFTWARE
HIS A:84 , ASP A:87 , GLY A:104 , GLY A:105 , PHE A:126 , ASN A:128 , GLY A:211 , ASP A:212 , BGC A:401
BINDING SITE FOR RESIDUE GLA A 400
07
AC8
SOFTWARE
GLA A:400 , HOH A:615
BINDING SITE FOR RESIDUE BGC A 401
08
AD1
SOFTWARE
PHE B:80 , PRO B:83 , GLN B:217 , ASN B:219 , FUC B:502 , NAG B:503
BINDING SITE FOR RESIDUE NAG B 501
09
AD2
SOFTWARE
NAG B:501 , NAG B:503
BINDING SITE FOR RESIDUE FUC B 502
10
AD3
SOFTWARE
NAG B:501 , FUC B:502
BINDING SITE FOR RESIDUE NAG B 503
11
AD4
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 , GLY B:215 , BGC B:401
BINDING SITE FOR RESIDUE GLA B 400
12
BC2
SOFTWARE
ASN B:44 , FUC B:602
BINDING SITE FOR RESIDUE NAG B 601
13
BC3
SOFTWARE
NAG B:601 , LEU D:113 , SER D:114
BINDING SITE FOR RESIDUE FUC B 602
14
BC5
SOFTWARE
GLA B:400
BINDING SITE FOR RESIDUE BGC B 401
15
BC8
SOFTWARE
SER B:181 , GLU B:200 , NAG C:501 , FUC C:502 , BMA C:504
BINDING SITE FOR RESIDUE NAG C 503
16
BC9
SOFTWARE
SER B:60 , THR B:61 , GLU B:200 , NAG C:503
BINDING SITE FOR RESIDUE BMA C 504
17
DC1
SOFTWARE
GLU A:122 , ASP A:124 , ASP A:131 , HIS A:136 , HOH A:603 , HOH A:604
BINDING SITE FOR RESIDUE MN A 300
18
DC2
SOFTWARE
ASP A:124 , PHE A:126 , ASN A:128 , ASP A:131 , HOH A:605 , HOH A:606
BINDING SITE FOR RESIDUE CA A 303
19
DC3
SOFTWARE
GLU B:122 , ASP B:124 , ASP B:131 , HIS B:136 , HOH B:622 , HOH B:623
BINDING SITE FOR RESIDUE MN B 300
20
DC4
SOFTWARE
ASP B:124 , PHE B:126 , ASN B:128 , ASP B:131 , HOH B:624 , HOH B:625
BINDING SITE FOR RESIDUE CA B 303
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: LECTIN_LEGUME_BETA (A:119-125,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
2
A:119-125
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_d2zmna_ (A:)
1b: SCOP_d2zmnb_ (B:)
1c: SCOP_d2zmnc_ (C:)
1d: SCOP_d2zmnd_ (D:)
View:
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)
(
)
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(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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
d2zmna_
A:
1b
d2zmnb_
B:
1c
d2zmnc_
C:
1d
d2zmnd_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2zmnA00 (A:1-237)
1b: CATH_2zmnC00 (C:1-237)
1c: CATH_2zmnD00 (D:1-237)
1d: CATH_2zmnB00 (B:1-237)
View:
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(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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
2zmnA00
A:1-237
1b
2zmnC00
C:1-237
1c
2zmnD00
D:1-237
1d
2zmnB00
B:1-237
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Lectin_legB_2zmnD01 (D:1-232)
1b: PFAM_Lectin_legB_2zmnD02 (D:1-232)
1c: PFAM_Lectin_legB_2zmnD03 (D:1-232)
1d: PFAM_Lectin_legB_2zmnD04 (D:1-232)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Concanavalin
(293)
Family
:
Lectin_legB
(93)
Psophocarpus tetragonolobus (Winged bean) (Dolichos tetragonolobus)
(5)
1a
Lectin_legB-2zmnD01
D:1-232
1b
Lectin_legB-2zmnD02
D:1-232
1c
Lectin_legB-2zmnD03
D:1-232
1d
Lectin_legB-2zmnD04
D:1-232
[
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]
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