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3SNG
Asym. Unit
Info
Asym.Unit (58 KB)
Biol.Unit 1 (52 KB)
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(1)
Title
:
X-RAY STRUCTURE OF FULLY GLYCOSYLATED BIFUNCTIONAL NUCLEASE TBN1 FROM SOLANUM LYCOPERSICUM (TOMATO)
Authors
:
T. Koval, A. Stepankova, P. Lipovova, T. Podzimek, J. Matousek, J. Dusk T. Skalova, J. Hasek, J. Dohnalek
Date
:
29 Jun 11 (Deposition) - 04 Jul 12 (Release) - 20 Feb 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.16
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Mainly Alpha Helical, Trinuclear Metal Centre, Bi-Functional, Endonuclease, 3'-Nucleotidase, Nucleic Acids, Mononucleotides, Cytosol Membrane Associated, Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
T. Koval', P. Lipovova, T. Podzimek, J. Matousek, J. Duskova, T. Skalova, A. Stepankova, J. Hasek, J. Dohnalek
Plant Multifunctional Nuclease Tbn1 With Unexpected Phospholipase Activity: Structural Study And Reaction-Mechanism Analysis.
Acta Crystallogr. , Sect. D V. 69 213 2013
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Hetero Components
(7, 16)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
2a: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-... (BTBa)
3a: CHLORIDE ION (CLa)
4a: ALPHA-D-MANNOSE (MANa)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
6a: SULFATE ION (SO4a)
7a: ZINC ION (ZNa)
7b: ZINC ION (ZNb)
7c: ZINC ION (ZNc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
BMA
3
Ligand/Ion
BETA-D-MANNOSE
2
BTB
1
Ligand/Ion
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3
CL
1
Ligand/Ion
CHLORIDE ION
4
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
SO4
1
Ligand/Ion
SULFATE ION
7
ZN
3
Ligand/Ion
ZINC 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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:26 , HIS A:31 , SER A:132 , ASP A:151 , ZN A:402 , HOH A:701
BINDING SITE FOR RESIDUE ZN A 401
02
AC2
SOFTWARE
ASP A:70 , HIS A:85 , HIS A:147 , ASP A:151 , ZN A:401 , HOH A:701
BINDING SITE FOR RESIDUE ZN A 402
03
AC3
SOFTWARE
SER A:132 , HIS A:157 , HIS A:181 , ASP A:185 , SO4 A:601
BINDING SITE FOR RESIDUE ZN A 403
04
AC4
SOFTWARE
TRP A:80 , LEU A:84 , ASP A:110 , MET A:111 , ALA A:116 , ASN A:119 , PHE A:120 , GLN A:123 , NAG A:502
BINDING SITE FOR RESIDUE NAG A 501
05
AC5
SOFTWARE
TRP A:80 , ARG A:135 , NAG A:501 , BMA A:503
BINDING SITE FOR RESIDUE NAG A 502
06
AC6
SOFTWARE
NAG A:502 , HOH A:708 , HOH A:731
BINDING SITE FOR RESIDUE BMA A 503
07
AC7
SOFTWARE
TRP A:68 , LYS A:79 , SER A:82 , ASN A:137 , GLU A:140 , NAG A:512 , HOH A:725 , HOH A:735
BINDING SITE FOR RESIDUE NAG A 511
08
AC8
SOFTWARE
PRO A:55 , TYR A:57 , LYS A:79 , LEU A:143 , NAG A:511 , BMA A:513 , CL A:602 , HOH A:735
BINDING SITE FOR RESIDUE NAG A 512
09
AC9
SOFTWARE
NAG A:512 , MAN A:514
BINDING SITE FOR RESIDUE BMA A 513
10
BC1
SOFTWARE
BMA A:513
BINDING SITE FOR RESIDUE MAN A 514
11
BC2
SOFTWARE
TYR A:197 , LEU A:204 , ASN A:211 , ILE A:216 , NAG A:522
BINDING SITE FOR RESIDUE NAG A 521
12
BC3
SOFTWARE
TYR A:196 , NAG A:521 , BMA A:523
BINDING SITE FOR RESIDUE NAG A 522
13
BC4
SOFTWARE
TYR A:196 , NAG A:522
BINDING SITE FOR RESIDUE BMA A 523
14
BC5
SOFTWARE
ARG A:73 , HIS A:85 , PHE A:86 , SER A:132 , ARG A:134 , HIS A:157 , ASN A:167 , HIS A:181 , ZN A:403
BINDING SITE FOR RESIDUE SO4 A 601
15
BC6
SOFTWARE
TRP A:68 , NAG A:512
BINDING SITE FOR RESIDUE CL A 602
16
BC7
SOFTWARE
ASP A:97 , GLU A:99 , GLN A:118 , ASN A:229 , PHE A:231 , HOH A:807 , HOH A:821 , HOH A:826 , HOH A:827
BINDING SITE FOR RESIDUE BTB A 603
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Sorry, no Info available
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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
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3snga_ (A:)
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Class
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All alpha proteins
(14657)
Fold
:
Phospholipase C/P1 nuclease
(20)
Superfamily
:
Phospholipase C/P1 nuclease
(20)
Family
:
automated matches
(4)
Protein domain
:
automated matches
(4)
Solanum lycopersicum [TaxId: 4081]
(3)
1a
d3snga_
A:
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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