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2E53
Biol. Unit 1
Info
Asym.Unit (176 KB)
Biol.Unit 1 (87 KB)
Biol.Unit 2 (85 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BASIC WINGED BEAN LECTIN IN COMPLEX WITH B BLOOD GROUP DISACCHARIDE
Authors
:
K. A. Kulkarni, S. Katiyar, A. Surolia, M. Vijayan, K. Suguna
Date
:
18 Dec 06 (Deposition) - 26 Jun 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Winged Bean, Jelly Roll, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. A. Kulkarni, S. Katiyar, A. Surolia, M. Vijayan, K. Suguna
Generation Of Blood Group Specificity: New Insights From Structural Studies On The Complexes Of A- And B-Reactive Saccharides With Basic Winged Bean Agglutinin.
Proteins V. 68 762 2007
(for further references see the
PDB file header
)
[
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Hetero Components
(5, 18)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
3d: ALPHA-L-FUCOSE (FUCd)
3e: ALPHA-L-FUCOSE (FUCe)
3f: ALPHA-L-FUCOSE (FUCf)
3g: ALPHA-L-FUCOSE (FUCg)
4a: ALPHA D-GALACTOSE (GLAa)
4b: ALPHA D-GALACTOSE (GLAb)
4c: ALPHA D-GALACTOSE (GLAc)
4d: ALPHA D-GALACTOSE (GLAd)
4e: ALPHA D-GALACTOSE (GLAe)
4f: ALPHA D-GALACTOSE (GLAf)
4g: ALPHA D-GALACTOSE (GLAg)
4h: ALPHA D-GALACTOSE (GLAh)
5a: MANGANESE (II) ION (MNa)
5b: MANGANESE (II) ION (MNb)
5c: MANGANESE (II) ION (MNc)
5d: MANGANESE (II) ION (MNd)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6c: N-ACETYL-D-GLUCOSAMINE (NAGc)
6d: N-ACETYL-D-GLUCOSAMINE (NAGd)
6e: N-ACETYL-D-GLUCOSAMINE (NAGe)
6f: N-ACETYL-D-GLUCOSAMINE (NAGf)
6g: N-ACETYL-D-GLUCOSAMINE (NAGg)
6h: N-ACETYL-D-GLUCOSAMINE (NAGh)
6i: N-ACETYL-D-GLUCOSAMINE (NAGi)
6j: N-ACETYL-D-GLUCOSAMINE (NAGj)
6k: N-ACETYL-D-GLUCOSAMINE (NAGk)
6l: N-ACETYL-D-GLUCOSAMINE (NAGl)
6m: N-ACETYL-D-GLUCOSAMINE (NAGm)
6n: N-ACETYL-D-GLUCOSAMINE (NAGn)
6o: N-ACETYL-D-GLUCOSAMINE (NAGo)
7a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
4
GLA
4
Ligand/Ion
ALPHA D-GALACTOSE
5
MN
-1
Ligand/Ion
MANGANESE (II) ION
6
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
NDG
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
close Hetero Component info
]
Sites
(28, 28)
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: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC3 (SOFTWARE)
20: CC4 (SOFTWARE)
21: DC3 (SOFTWARE)
22: DC5 (SOFTWARE)
23: DC6 (SOFTWARE)
24: DC7 (SOFTWARE)
25: EC1 (SOFTWARE)
26: EC2 (SOFTWARE)
27: EC3 (SOFTWARE)
28: EC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
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 , BMA A:504 , HOH A:1416 , LYS D:53
BINDING SITE FOR RESIDUE NAG A 503
04
AC4
SOFTWARE
NAG A:503 , GLN D:12
BINDING SITE FOR RESIDUE BMA A 504
05
AC5
SOFTWARE
ASN A:44 , PRO A:213 , FUC A:602 , NAG A:603
BINDING SITE FOR RESIDUE NAG A 601
06
AC6
SOFTWARE
NAG A:601 , NAG A:603 , HOH A:1404 , SER D:60 , THR D:61
BINDING SITE FOR RESIDUE FUC A 602
07
AC7
SOFTWARE
NAG A:601 , FUC A:602
BINDING SITE FOR RESIDUE NAG A 603
08
AC8
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 , GLY A:215 , ALA A:220 , GLA A:401 , HOH A:1304 , HOH A:1305 , HOH A:1385
BINDING SITE FOR RESIDUE GLA A 400
09
AC9
SOFTWARE
SER A:214 , GLA A:400 , HOH A:1305 , HOH A:1385 , HOH A:1403
BINDING SITE FOR RESIDUE GLA A 401
10
BC1
SOFTWARE
LEU A:113 , PHE B:80 , PRO B:83 , GLN B:217 , ASN B:219 , FUC B:502 , NAG B:503 , HOH B:2351
BINDING SITE FOR RESIDUE NAG B 501
11
BC2
SOFTWARE
NAG B:501 , NAG B:503
BINDING SITE FOR RESIDUE FUC B 502
12
BC3
SOFTWARE
NAG B:501 , FUC B:502 , BMA B:504
BINDING SITE FOR RESIDUE NAG B 503
13
BC4
SOFTWARE
NAG B:503
BINDING SITE FOR RESIDUE BMA B 504
14
BC5
SOFTWARE
ASN B:44 , FUC B:602 , NDG B:603
BINDING SITE FOR RESIDUE NAG B 601
15
BC6
SOFTWARE
NAG B:601 , NDG B:603 , LEU D:113 , SER D:114 , PRO D:115
BINDING SITE FOR RESIDUE FUC B 602
16
BC7
SOFTWARE
SER A:27 , NAG B:601 , FUC B:602
BINDING SITE FOR RESIDUE NDG B 603
17
BC8
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 , ALA B:220 , GLA B:401 , HOH B:2371 , HOH B:2385
BINDING SITE FOR RESIDUE GLA B 400
18
BC9
SOFTWARE
SER B:214 , GLY B:215 , GLA B:400 , HOH B:2386
BINDING SITE FOR RESIDUE GLA B 401
19
CC3
SOFTWARE
SER B:181 , GLU B:200 , NAG C:501 , FUC C:502 , BMA C:504
BINDING SITE FOR RESIDUE NAG C 503
20
CC4
SOFTWARE
ASP B:59 , SER B:60 , THR B:61 , GLU B:200 , NAG C:503 , HOH C:3350
BINDING SITE FOR RESIDUE BMA C 504
21
DC3
SOFTWARE
GLN B:217 , NAG D:503
BINDING SITE FOR RESIDUE BMA D 504
22
DC5
SOFTWARE
HOH B:2354 , NAG D:601 , NAG D:603
BINDING SITE FOR RESIDUE FUC D 602
23
DC6
SOFTWARE
HOH B:2386 , NAG D:601 , FUC D:602 , BMA D:604
BINDING SITE FOR RESIDUE NAG D 603
24
DC7
SOFTWARE
TYR B:106 , HOH B:2333 , NAG D:603
BINDING SITE FOR RESIDUE BMA D 604
25
EC1
SOFTWARE
ASP A:124 , PHE A:126 , ASN A:128 , ASP A:131 , HOH A:1367 , HOH A:1402
BINDING SITE FOR RESIDUE CA A 1303
26
EC2
SOFTWARE
GLU A:122 , ASP A:124 , ASP A:131 , HIS A:136 , HOH A:1362 , HOH A:1363
BINDING SITE FOR RESIDUE MN A 1300
27
EC3
SOFTWARE
ASP B:124 , PHE B:126 , ASN B:128 , ASP B:131 , HOH B:2338 , HOH B:2339
BINDING SITE FOR RESIDUE CA B 2303
28
EC4
SOFTWARE
GLU B:122 , ASP B:124 , ASP B:131 , HIS B:136 , HOH B:2340 , HOH B:2341
BINDING SITE FOR RESIDUE MN B 2300
[
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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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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2e53a_ (A:)
1b: SCOP_d2e53b_ (B:)
1c: SCOP_d2e53c_ (C:)
1d: SCOP_d2e53d_ (D:)
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Classes
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)
(
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Folds
(
)
(
)
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(
)
(
)
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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
d2e53a_
A:
1b
d2e53b_
B:
1c
d2e53c_
C:
1d
d2e53d_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2e53A00 (A:1-237)
1b: CATH_2e53B00 (B:1-237)
1c: CATH_2e53C00 (C:1-237)
1d: CATH_2e53D00 (D:1-237)
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Topologies
(
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(
)
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)
Winged bean (Psophocarpus tetragonolobus)
(13)
1a
2e53A00
A:1-237
1b
2e53B00
B:1-237
1c
2e53C00
C:1-237
1d
2e53D00
D:1-237
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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