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1ZGS
Asym. Unit
Info
Asym.Unit (148 KB)
Biol.Unit 1 (142 KB)
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(1)
Title
:
PARKIA PLATYCEPHALA SEED LECTIN IN COMPLEX WITH 5-BROMO-4-CHLORO-3-INDOLYL-A-D-MANNOSE
Authors
:
F. Gallego Del Sol, B. S. Cavada, J. J. Calvete
Date
:
22 Apr 05 (Deposition) - 11 Oct 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Beta Prism, Lectin, X-Man, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Gallego Del Sol, C. Nagano, B. S. Cavada, J. J. Calvete
The First Crystal Structure Of A Mimosoideae Lectin Reveals A Novel Quaternary Arrangement Of A Widespread Domain.
J. Mol. Biol. V. 353 574 2005
(for further references see the
PDB file header
)
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMa)
1b: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMb)
1c: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMc)
1d: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMd)
1e: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMe)
1f: (2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLO... (XMMf)
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No.
Name
Count
Type
Full Name
1
XMM
6
Ligand/Ion
(2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLORO-1H-INDOL-3-YLOXY)-TETRAHYDRO-6-(HYDROXYMETHYL)-2H-PYRAN-3,4,5-TRIOL
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:310 , GLY A:311 , PHE A:388 , GLY A:431 , ASP A:432 , TYR A:433 , ASP A:435 , HOH A:555 , XMM B:453
BINDING SITE FOR RESIDUE XMM A 450
2
AC2
SOFTWARE
ALA A:163 , GLY A:164 , ASP A:165 , PHE A:239 , GLY A:282 , TYR A:283 , TYR A:284 , ASP A:286 , HOH A:541
BINDING SITE FOR RESIDUE XMM A 451
3
AC3
SOFTWARE
GLY A:16 , ARG A:60 , GLY A:136 , TYR A:137 , TYR A:138 , ASP A:140 , ASP B:386 , XMM B:455
BINDING SITE FOR RESIDUE XMM A 452
4
AC4
SOFTWARE
ASP A:386 , XMM A:450 , GLY B:16 , ARG B:60 , GLY B:136 , TYR B:137 , TYR B:138 , ASP B:140
BINDING SITE FOR RESIDUE XMM B 453
5
AC5
SOFTWARE
ALA B:163 , GLY B:164 , ASP B:165 , PHE B:239 , GLY B:282 , TYR B:283 , TYR B:284 , ASP B:286 , HOH B:546
BINDING SITE FOR RESIDUE XMM B 454
6
AC6
SOFTWARE
ASN A:90 , XMM A:452 , GLY B:310 , GLY B:311 , PHE B:388 , GLY B:431 , ASP B:432 , TYR B:433 , ASP B:435 , HOH B:553
BINDING SITE FOR RESIDUE XMM B 455
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_LEC_PARPC_001 (I70V, chain A/B, )
2: VAR_LEC_PARPC_002 (K227R, chain A/B, )
3: VAR_LEC_PARPC_003 (D296N, chain A/B, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_LEC_PARPC_001
*
I
70
V
LEC_PARPC
---
---
A/B
I
70
V
2
UniProt
VAR_LEC_PARPC_002
*
K
227
R
LEC_PARPC
---
---
A/B
K
227
R
3
UniProt
VAR_LEC_PARPC_003
*
D
296
N
LEC_PARPC
---
---
A/B
D
296
N
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: JACALIN_LECTIN (A:5-148,B:5-148|A:153-294,B:153-29...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
JACALIN_LECTIN
PS51752
Jacalin-type lectin domain profile.
LEC_PARPC
5-148
153-294
300-443
6
A:5-148
B:5-148
A:153-294
B:153-294
A:300-443
B:300-443
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1zgsA01 (A:3-149)
1b: CATH_1zgsA03 (A:296-444)
1c: CATH_1zgsB03 (B:296-444)
1d: CATH_1zgsB01 (B:3-149)
1e: CATH_1zgsA02 (A:150-295)
1f: CATH_1zgsB02 (B:150-295)
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Class
:
Mainly Beta
(13760)
Architecture
:
Aligned Prism
(39)
Topology
:
Vitelline Membrane Outer Layer Protein I, subunit A
(39)
Homologous Superfamily
:
[code=2.100.10.30, no name defined]
(33)
Parkia platycephala. Organism_taxid: 185447.
(2)
1a
1zgsA01
A:3-149
1b
1zgsA03
A:296-444
1c
1zgsB03
B:296-444
1d
1zgsB01
B:3-149
1e
1zgsA02
A:150-295
1f
1zgsB02
B:150-295
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Jacalin_1zgsB01 (B:311-443)
1b: PFAM_Jacalin_1zgsB02 (B:311-443)
1c: PFAM_Jacalin_1zgsB03 (B:311-443)
1d: PFAM_Jacalin_1zgsB04 (B:311-443)
1e: PFAM_Jacalin_1zgsB05 (B:311-443)
1f: PFAM_Jacalin_1zgsB06 (B:311-443)
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Clan
:
no clan defined [family: Jacalin]
(35)
Family
:
Jacalin
(35)
Parkia platycephala
(2)
1a
Jacalin-1zgsB01
B:311-443
1b
Jacalin-1zgsB02
B:311-443
1c
Jacalin-1zgsB03
B:311-443
1d
Jacalin-1zgsB04
B:311-443
1e
Jacalin-1zgsB05
B:311-443
1f
Jacalin-1zgsB06
B:311-443
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Asym.Unit (148 KB)
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