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1FAT
Asym. Unit
Info
Asym.Unit (155 KB)
Biol.Unit 1 (148 KB)
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(1)
Title
:
PHYTOHEMAGGLUTININ-L
Authors
:
T. Hamelryck, R. Loris
Date
:
12 Jun 96 (Deposition) - 23 Dec 96 (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
:
Glycoprotein, Plant Defense Protein, Lectin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. W. Hamelryck, M. H. Dao-Thi, F. Poortmans, M. J. Chrispeels, L. Wyns R. Loris
The Crystallographic Structure Of Phytohemagglutinin-L.
J. Biol. Chem. V. 271 20479 1996
(for further references see the
PDB file header
)
[
close entry info
]
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:
Select:
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
[
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: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: CAA (UNKNOWN)
14: CAB (UNKNOWN)
15: CAC (UNKNOWN)
16: CAD (UNKNOWN)
17: MNA (UNKNOWN)
18: MNB (UNKNOWN)
19: MNC (UNKNOWN)
20: MND (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:10 , ASN A:12 , GLU A:13 , VAL A:24 , SER A:25 , TRP B:202
BINDING SITE FOR RESIDUE NAG A 253
02
AC2
SOFTWARE
ARG B:10 , ASN B:12 , GLU B:13 , VAL B:24 , SER B:25
BINDING SITE FOR RESIDUE NAG B 253
03
AC3
SOFTWARE
ARG C:10 , ASN C:12 , GLU C:13 , VAL C:24 , SER C:25 , GLU D:201 , TRP D:202
BINDING SITE FOR RESIDUE NAG C 253
04
AC4
SOFTWARE
GLU C:201 , TRP C:202 , ARG D:10 , ASN D:12 , GLU D:13 , VAL D:24 , SER D:25
BINDING SITE FOR RESIDUE NAG D 253
05
AC5
SOFTWARE
GLU A:122 , ASP A:124 , ASP A:132 , HIS A:137 , SER A:147 , HOH A:307 , HOH A:308
BINDING SITE FOR RESIDUE MN A 254
06
AC6
SOFTWARE
ASP A:124 , LEU A:126 , ASN A:128 , ASP A:132 , HOH A:305 , HOH A:306
BINDING SITE FOR RESIDUE CA A 255
07
AC7
SOFTWARE
GLU B:122 , ASP B:124 , ASP B:132 , HIS B:137 , SER B:147 , HOH B:303 , HOH B:304
BINDING SITE FOR RESIDUE MN B 254
08
AC8
SOFTWARE
ASP B:124 , LEU B:126 , ASN B:128 , ASP B:132 , HOH B:301 , HOH B:302
BINDING SITE FOR RESIDUE CA B 255
09
AC9
SOFTWARE
GLU C:122 , ASP C:124 , ASP C:132 , HIS C:137 , HOH C:315 , HOH C:316
BINDING SITE FOR RESIDUE MN C 254
10
BC1
SOFTWARE
ASP C:124 , LEU C:126 , ASN C:128 , ASP C:132 , HOH C:313 , HOH C:314
BINDING SITE FOR RESIDUE CA C 255
11
BC2
SOFTWARE
GLU D:122 , ASP D:124 , ASP D:132 , HIS D:137 , HOH D:311 , HOH D:312
BINDING SITE FOR RESIDUE MN D 254
12
BC3
SOFTWARE
ASP D:124 , LEU D:126 , ASN D:128 , ASP D:132 , HOH D:309 , HOH D:310
BINDING SITE FOR RESIDUE CA D 255
13
CAA
UNKNOWN
ASP A:124 , LEU A:126 , ASN A:128 , ASP A:132
CALCIUM BINDING SITE IN CHAIN A
14
CAB
UNKNOWN
ASP B:124 , LEU B:126 , ASN B:128 , ASP B:132
CALCIUM BINDING SITE IN CHAIN B
15
CAC
UNKNOWN
ASP C:124 , LEU C:126 , ASN C:128 , ASP C:132
CALCIUM BINDING SITE IN CHAIN C
16
CAD
UNKNOWN
ASP D:124 , LEU D:126 , ASN D:128 , ASP D:132
CALCIUM BINDING SITE IN CHAIN D
17
MNA
UNKNOWN
GLU A:122 , ASP A:124 , ASP A:132 , HIS A:137
MANGANESE BINDING SITE IN CHAIN A
18
MNB
UNKNOWN
GLU B:122 , ASP B:124 , ASP B:132 , HIS B:137
MANGANESE BINDING SITE IN CHAIN B
19
MNC
UNKNOWN
GLU C:122 , ASP C:124 , ASP C:132 , HIS C:137
MANGANESE BINDING SITE IN CHAIN C
20
MND
UNKNOWN
GLU D:122 , ASP D:124 , ASP D:132 , HIS D:137
MANGANESE BINDING SITE IN CHAIN D
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
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:
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.
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
View:
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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_d1fata_ (A:)
1b: SCOP_d1fatd_ (D:)
1c: SCOP_d1fatb_ (B:)
1d: SCOP_d1fatc_ (C:)
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(
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(
)
Superfamilies
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)
(
)
Families
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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
:
Phytohemagglutinin-L, PHA-L, also arcelin
(5)
French bean (Phaseolus vulgaris) [TaxId: 3885]
(4)
1a
d1fata_
A:
1b
d1fatd_
D:
1c
d1fatb_
B:
1d
d1fatc_
C:
[
close SCOP info
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1fatD00 (D:1-233)
1b: CATH_1fatA00 (A:1-233)
1c: CATH_1fatC00 (C:1-233)
1d: CATH_1fatB00 (B:1-233)
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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)
Phaseolus vulgaris. Organism_taxid: 3885.
(2)
1a
1fatD00
D:1-233
1b
1fatA00
A:1-233
1c
1fatC00
C:1-233
1d
1fatB00
B:1-233
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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]
Atom Selection
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all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Asymmetric Unit 1
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Example Commands
Example Command
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (155 KB)
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