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2D04
Asym. Unit
Info
Asym.Unit (151 KB)
Biol.Unit 1 (39 KB)
Biol.Unit 2 (39 KB)
Biol.Unit 3 (38 KB)
Biol.Unit 4 (40 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF NEOCULIN, A SWEET PROTEIN WITH TASTE-MODIFYING ACTIVITY.
Authors
:
A. Shimizu-Ibuka, Y. Morita, T. Terada, T. Asakura, K. Nakajima, S. Iwa T. Misaka, H. Sorimachi, S. Arai, K. Abe
Date
:
25 Jul 05 (Deposition) - 20 Jun 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.76
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
All Beta, Plant Protein
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
A. Shimizu-Ibuka, Y. Morita, T. Terada, T. Asakura, K. Nakajima, S. Iwata, T. Misaka, H. Sorimachi, S. Arai, K. Abe
Crystal Structure Of Neoculin: Insights Into Its Sweetness And Taste-Modifying Activity
J. Mol. Biol. V. 359 148 2006
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
2a: BETA-L-FUCOSE (FULa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
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Label:
No.
Name
Count
Type
Full Name
1
BMA
1
Ligand/Ion
BETA-D-MANNOSE
2
FUL
1
Ligand/Ion
BETA-L-FUCOSE
3
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:58 , ASN A:81 , GLY A:82
BINDING SITE FOR RESIDUE NAG A 801
2
AC2
SOFTWARE
SER G:58 , ASN G:81 , GLY G:82 , THR G:83 , NAG G:902 , FUL G:904
BINDING SITE FOR RESIDUE NAG G 901
3
AC3
SOFTWARE
NAG G:901 , BMA G:903 , FUL G:904
BINDING SITE FOR RESIDUE NAG G 902
4
AC4
SOFTWARE
NAG G:902 , ARG H:93
BINDING SITE FOR RESIDUE BMA G 903
5
AC5
SOFTWARE
PRO D:106 , ASN D:107 , NAG G:901 , NAG G:902
BINDING SITE FOR RESIDUE FUL G 904
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SAPs(SNPs)/Variants
(1, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_CURC2_CURLA_001 (S58N, chain A/C/E/G, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_CURC2_CURLA_001
*
S
80
N
CURC2_CURLA
---
---
A/C/E/G
S
58
N
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: BULB_LECTIN (B:1-109,D:1-109,F:1-109,H:1-109,A:...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BULB_LECTIN
PS50927
Bulb-type lectin domain profile.
CURC1_MOLLA
23-131
4
B:1-109
D:1-109
F:1-109
H:1-109
CURC2_MOLLA
23-131
4
A:1-109
C:1-109
E:1-109
G:1-109
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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, 8)
Info
All SCOP Domains
1a: SCOP_d2d04a_ (A:)
1b: SCOP_d2d04g_ (G:)
1c: SCOP_d2d04h_ (H:)
1d: SCOP_d2d04b_ (B:)
1e: SCOP_d2d04c_ (C:)
1f: SCOP_d2d04d_ (D:)
1g: SCOP_d2d04e_ (E:)
1h: SCOP_d2d04f_ (F:)
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Protein Domains
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Organisms
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Class
:
All beta proteins
(24004)
Fold
:
beta-Prism II
(19)
Superfamily
:
alpha-D-mannose-specific plant lectins
(19)
Family
:
automated matches
(7)
Protein domain
:
automated matches
(7)
Curculigo latifolia [TaxId: 4676]
(2)
1a
d2d04a_
A:
1b
d2d04g_
G:
1c
d2d04h_
H:
1d
d2d04b_
B:
1e
d2d04c_
C:
1f
d2d04d_
D:
1g
d2d04e_
E:
1h
d2d04f_
F:
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2d04B00 (B:1-111)
1b: CATH_2d04G00 (G:1-110)
1c: CATH_2d04C00 (C:1-113)
1d: CATH_2d04D00 (D:1-111)
1e: CATH_2d04H00 (H:1-111)
1f: CATH_2d04F00 (F:1-110)
1g: CATH_2d04A00 (A:1-111)
1h: CATH_2d04E00 (E:1-111)
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Organisms
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Class
:
Mainly Beta
(13760)
Architecture
:
Orthogonal Prism
(16)
Topology
:
Agglutinin, subunit A
(16)
Homologous Superfamily
:
Agglutinin, subunit A
(16)
Lumbah (Curculigo latifolia)
(2)
1a
2d04B00
B:1-111
1b
2d04G00
G:1-110
1c
2d04C00
C:1-113
1d
2d04D00
D:1-111
1e
2d04H00
H:1-111
1f
2d04F00
F:1-110
1g
2d04A00
A:1-111
1h
2d04E00
E:1-111
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain H
Asymmetric Unit 1
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Asym.Unit (151 KB)
Header - Asym.Unit
Biol.Unit 1 (39 KB)
Header - Biol.Unit 1
Biol.Unit 2 (39 KB)
Header - Biol.Unit 2
Biol.Unit 3 (38 KB)
Header - Biol.Unit 3
Biol.Unit 4 (40 KB)
Header - Biol.Unit 4
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