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1G8W
Asym. Unit
Info
Asym.Unit (154 KB)
Biol.Unit 1 (147 KB)
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(1)
Title
:
IMPROVED STRUCTURE OF PHYTOHEMAGGLUTININ-L FROM THE KIDNEY BEAN
Authors
:
L. Buts, T. W. Hamelryck, M. Dao-Thi, R. Loris, L. Wyns, M. E. Etzler
Date
:
21 Nov 00 (Deposition) - 13 Dec 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Jelly-Roll Fold, Legume Lectin, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Buts, M. H. Dao-Thi, R. Loris, L. Wyns, M. Etzler, T. Hamelryck
Weak Protein-Protein Interactions In Lectins: The Crystal Structure Of A Vegetative Lectin From The Legume Dolichos Biflorus.
J. Mol. Biol. V. 309 193 2001
(for further references see the
PDB file header
)
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
MN
4
Ligand/Ion
MANGANESE (II) ION
3
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(12, 12)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:12 , GLU A:13 , SER A:25 , GLU B:201 , TRP B:202
BINDING SITE FOR RESIDUE NAG A 259
02
AC2
SOFTWARE
GLU A:201 , TRP A:202 , ASN B:12 , GLU B:13 , VAL B:24 , SER B:25
BINDING SITE FOR RESIDUE NAG B 259
03
AC3
SOFTWARE
ASN C:12 , GLU C:13 , VAL C:24 , SER C:25 , GLU D:201 , TRP D:202
BINDING SITE FOR RESIDUE NAG C 259
04
AC4
SOFTWARE
GLU C:201 , TRP C:202 , PHE D:11 , ASN D:12 , GLU D:13 , SER D:25
BINDING SITE FOR RESIDUE NAG D 259
05
AC5
SOFTWARE
GLU A:122 , ASP A:124 , ASP A:132 , HIS A:137 , HOH A:1254 , HOH A:1255
BINDING SITE FOR RESIDUE MN A 253
06
AC6
SOFTWARE
ASP A:124 , LEU A:126 , ASN A:128 , ASP A:132 , HOH A:1257 , HOH A:1258
BINDING SITE FOR RESIDUE CA A 256
07
AC7
SOFTWARE
GLU B:122 , ASP B:124 , ASP B:132 , HIS B:137 , HOH B:2254 , HOH B:2255
BINDING SITE FOR RESIDUE MN B 253
08
AC8
SOFTWARE
ASP B:124 , LEU B:126 , ASN B:128 , ASP B:132 , HOH B:2257 , HOH B:2258
BINDING SITE FOR RESIDUE CA B 256
09
AC9
SOFTWARE
GLU C:122 , ASP C:124 , ASP C:132 , HIS C:137 , HOH C:3254 , HOH C:3255
BINDING SITE FOR RESIDUE MN C 253
10
BC1
SOFTWARE
ASP C:124 , LEU C:126 , ASN C:128 , ASP C:132 , HOH C:3257 , HOH C:3258
BINDING SITE FOR RESIDUE CA C 256
11
BC2
SOFTWARE
GLU D:122 , ASP D:124 , ASP D:132 , HIS D:137 , HOH D:4254 , HOH D:4255
BINDING SITE FOR RESIDUE MN D 253
12
BC3
SOFTWARE
ASP D:124 , LEU D:126 , ASN D:128 , ASP D:132 , HOH D:4257 , HOH D:4258
BINDING SITE FOR RESIDUE CA D 256
[
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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:119-125,B:119-125,C:119-125,D:11...)
2: LECTIN_LEGUME_ALPHA (A:199-208,B:199-208,C:199-208,D:19...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LECTIN_LEGUME_BETA
PS00307
Legume lectins beta-chain signature.
PHAL_PHAVU
139-145
4
A:119-125
B:119-125
C:119-125
D:119-125
2
LECTIN_LEGUME_ALPHA
PS00308
Legume lectins alpha-chain signature.
PHAL_PHAVU
219-228
4
A:199-208
B:199-208
C:199-208
D:199-208
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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_d1g8wa_ (A:)
1b: SCOP_d1g8wb_ (B:)
1c: SCOP_d1g8wc_ (C:)
1d: SCOP_d1g8wd_ (D:)
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)
Protein Domains
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)
(
)
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
:
Phytohemagglutinin-L, PHA-L, also arcelin
(5)
French bean (Phaseolus vulgaris) [TaxId: 3885]
(4)
1a
d1g8wa_
A:
1b
d1g8wb_
B:
1c
d1g8wc_
C:
1d
d1g8wd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1g8wA00 (A:1-233)
1b: CATH_1g8wB00 (B:1-233)
1c: CATH_1g8wC00 (C:1-233)
1d: CATH_1g8wD00 (D:1-233)
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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)
Phaseolus vulgaris. Organism_taxid: 3885.
(2)
1a
1g8wA00
A:1-233
1b
1g8wB00
B:1-233
1c
1g8wC00
C:1-233
1d
1g8wD00
D:1-233
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain D
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (154 KB)
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Header - Biol.Unit 1
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