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1QDO
Asym. Unit
Info
Asym.Unit (156 KB)
Biol.Unit 1 (150 KB)
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(1)
Title
:
MAN(APLHA1-3)MAN(ALPHA1-O)METHYL CONCANAVALIN A COMPLEX
Authors
:
J. Bouckaert, R. Loris, L. Wyns
Date
:
24 May 99 (Deposition) - 14 Oct 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Plant Lectin, Carbohydrate Binding, Dimannose, Concanavalin A, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Bouckaert, T. W. Hamelryck, L. Wyns, R. Loris
The Crystal Structures Of Man(Alpha1-3)Man(Alpha1-O)Me And Man(Alpha1-6)Man(Alpha1-O)Me In Complex With Concanavalin A.
J. Biol. Chem. V. 274 29188 1999
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 16)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
3a: O1-METHYL-MANNOSE (MMAa)
3b: O1-METHYL-MANNOSE (MMAb)
3c: O1-METHYL-MANNOSE (MMAc)
3d: O1-METHYL-MANNOSE (MMAd)
4a: MANGANESE (II) ION (MNa)
4b: MANGANESE (II) ION (MNb)
4c: MANGANESE (II) ION (MNc)
4d: MANGANESE (II) ION (MNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
3
MMA
4
Ligand/Ion
O1-METHYL-MANNOSE
4
MN
4
Ligand/Ion
MANGANESE (II) ION
[
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]
Sites
(16, 16)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:14 , GLY A:98 , LEU A:99 , TYR A:100 , ALA A:207 , ASP A:208 , GLY A:227 , ARG A:228 , MMA A:239
BINDING SITE FOR RESIDUE MAN A 238
02
AC2
SOFTWARE
LEU A:99 , MAN A:238
BINDING SITE FOR RESIDUE MMA A 239
03
AC3
SOFTWARE
ASN B:14 , GLY B:98 , LEU B:99 , TYR B:100 , ALA B:207 , ASP B:208 , GLY B:227 , ARG B:228 , MMA B:1239
BINDING SITE FOR RESIDUE MAN B 1238
04
AC4
SOFTWARE
TYR B:100 , MAN B:1238
BINDING SITE FOR RESIDUE MMA B 1239
05
AC5
SOFTWARE
ASN C:14 , GLY C:98 , LEU C:99 , TYR C:100 , ALA C:207 , ASP C:208 , GLY C:227 , ARG C:228 , MMA C:2239
BINDING SITE FOR RESIDUE MAN C 2238
06
AC6
SOFTWARE
LEU C:99 , MAN C:2238
BINDING SITE FOR RESIDUE MMA C 2239
07
AC7
SOFTWARE
ASN D:14 , GLY D:98 , LEU D:99 , TYR D:100 , ALA D:207 , ASP D:208 , GLY D:227 , ARG D:228 , MMA D:3239
BINDING SITE FOR RESIDUE MAN D 3238
08
AC8
SOFTWARE
LEU D:99 , MAN D:3238
BINDING SITE FOR RESIDUE MMA D 3239
09
AC9
SOFTWARE
GLU A:8 , ASP A:10 , ASP A:19 , HIS A:24 , SER A:34
BINDING SITE FOR RESIDUE MN A 240
10
BC1
SOFTWARE
ASP A:10 , TYR A:12 , ASN A:14 , ASP A:19
BINDING SITE FOR RESIDUE CA A 241
11
BC2
SOFTWARE
GLU B:8 , ASP B:10 , ASP B:19 , HIS B:24 , HOH B:1242
BINDING SITE FOR RESIDUE MN B 242
12
BC3
SOFTWARE
ASP B:10 , TYR B:12 , ASN B:14 , ASP B:19 , HOH B:1240
BINDING SITE FOR RESIDUE CA B 243
13
BC4
SOFTWARE
GLU C:8 , ASP C:10 , ASP C:19 , HIS C:24 , SER C:34
BINDING SITE FOR RESIDUE MN C 244
14
BC5
SOFTWARE
ASP C:10 , TYR C:12 , ASN C:14 , ASP C:19
BINDING SITE FOR RESIDUE CA C 245
15
BC6
SOFTWARE
GLU D:8 , ASP D:10 , ASP D:19 , HIS D:24 , HOH D:3243
BINDING SITE FOR RESIDUE MN D 246
16
BC7
SOFTWARE
ASP D:10 , TYR D:12 , ASN D:14 , ASP D:19
BINDING SITE FOR RESIDUE CA D 247
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: LECTIN_LEGUME_BETA (A:5-11,B:5-11,C:5-11,D:5-11)
2: LECTIN_LEGUME_ALPHA (A:85-94,B:85-94,C:85-94,D:85-94)
;
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.
CONA_CANBR
5-11
4
A:5-11
B:5-11
C:5-11
D:5-11
2
LECTIN_LEGUME_ALPHA
PS00308
Legume lectins alpha-chain signature.
CONA_CANBR
85-94
4
A:85-94
B:85-94
C:85-94
D:85-94
[
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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_d1qdoa_ (A:)
1b: SCOP_d1qdob_ (B:)
1c: SCOP_d1qdoc_ (C:)
1d: SCOP_d1qdod_ (D:)
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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
:
Concanavalin A
(59)
Jack bean (Canavalia ensiformis) [TaxId: 3823]
(52)
1a
d1qdoa_
A:
1b
d1qdob_
B:
1c
d1qdoc_
C:
1d
d1qdod_
D:
[
close SCOP info
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1qdoA00 (A:1-237)
1b: CATH_1qdoB00 (B:1-237)
1c: CATH_1qdoC00 (C:1-237)
1d: CATH_1qdoD00 (D:1-237)
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Homologous Superfamilies
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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)
Jack bean (Canavalia ensiformis)
(50)
1a
1qdoA00
A:1-237
1b
1qdoB00
B:1-237
1c
1qdoC00
C:1-237
1d
1qdoD00
D:1-237
[
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]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Lectin_legB_1qdoD01 (D:124-237)
1b: PFAM_Lectin_legB_1qdoD02 (D:124-237)
1c: PFAM_Lectin_legB_1qdoD03 (D:124-237)
1d: PFAM_Lectin_legB_1qdoD04 (D:124-237)
1e: PFAM_Lectin_legB_1qdoD05 (D:124-237)
1f: PFAM_Lectin_legB_1qdoD06 (D:124-237)
1g: PFAM_Lectin_legB_1qdoD07 (D:124-237)
1h: PFAM_Lectin_legB_1qdoD08 (D:124-237)
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Organisms
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)
(
)
Clan
:
Concanavalin
(293)
Family
:
Lectin_legB
(93)
Canavalia brasiliensis (Brazilian jack bean)
(3)
1a
Lectin_legB-1qdoD01
D:124-237
1b
Lectin_legB-1qdoD02
D:124-237
1c
Lectin_legB-1qdoD03
D:124-237
1d
Lectin_legB-1qdoD04
D:124-237
1e
Lectin_legB-1qdoD05
D:124-237
1f
Lectin_legB-1qdoD06
D:124-237
1g
Lectin_legB-1qdoD07
D:124-237
1h
Lectin_legB-1qdoD08
D:124-237
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