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4LZB
Biol. Unit 5
Info
Asym.Unit (477 KB)
Biol.Unit 1 (89 KB)
Biol.Unit 2 (88 KB)
Biol.Unit 3 (83 KB)
Biol.Unit 4 (84 KB)
Biol.Unit 5 (85 KB)
Biol.Unit 6 (82 KB)
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(1)
Title
:
URACIL BINDING POCKET IN VACCINIA VIRUS URACIL DNA GLYCOSYLASE
Authors
:
N. Schormann, D. Chattopadhyay
Date
:
31 Jul 13 (Deposition) - 11 Dec 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.03
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,F (1x)
Biol. Unit 2: B,E (1x)
Biol. Unit 3: C,K (1x)
Biol. Unit 4: D,H (1x)
Biol. Unit 5: G,J (1x)
Biol. Unit 6: I,L (1x)
Keywords
:
Alpha/Beta Dna Glycosylase Fold, Viral Processivity Factor, Dna Binding Component, Dna Repair, A20, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Schormann, S. Banerjee, R. Ricciardi, D. Chattopadhyay
Structure Of The Uracil Complex Of Vaccinia Virus Uracil Dn Glycosylase.
Acta Crystallogr. , Sect. F V. 69 1328 2013
[
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
2a: DIMETHYL SULFOXIDE (DMSa)
2b: DIMETHYL SULFOXIDE (DMSb)
2c: DIMETHYL SULFOXIDE (DMSc)
2d: DIMETHYL SULFOXIDE (DMSd)
2e: DIMETHYL SULFOXIDE (DMSe)
2f: DIMETHYL SULFOXIDE (DMSf)
2g: DIMETHYL SULFOXIDE (DMSg)
2h: DIMETHYL SULFOXIDE (DMSh)
2i: DIMETHYL SULFOXIDE (DMSi)
2j: DIMETHYL SULFOXIDE (DMSj)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
4c: POTASSIUM ION (Kc)
4d: POTASSIUM ION (Kd)
4e: POTASSIUM ION (Ke)
4f: POTASSIUM ION (Kf)
4g: POTASSIUM ION (Kg)
4h: POTASSIUM ION (Kh)
4i: POTASSIUM ION (Ki)
4j: POTASSIUM ION (Kj)
5a: URACIL (URAa)
5b: URACIL (URAb)
5c: URACIL (URAc)
5d: URACIL (URAd)
5e: URACIL (URAe)
5f: URACIL (URAf)
5g: URACIL (URAg)
5h: URACIL (URAh)
5i: URACIL (URAi)
5j: URACIL (URAj)
5k: URACIL (URAk)
5l: URACIL (URAl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
DMS
2
Ligand/Ion
DIMETHYL SULFOXIDE
3
EDO
2
Ligand/Ion
1,2-ETHANEDIOL
4
K
-1
Ligand/Ion
POTASSIUM ION
5
URA
2
Ligand/Ion
URACIL
[
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]
Sites
(11, 11)
Info
All Sites
01: CC9 (SOFTWARE)
02: EC5 (SOFTWARE)
03: EC6 (SOFTWARE)
04: EC7 (SOFTWARE)
05: EC8 (SOFTWARE)
06: EC9 (SOFTWARE)
07: FC1 (SOFTWARE)
08: FC2 (SOFTWARE)
09: GC1 (SOFTWARE)
10: GC2 (SOFTWARE)
11: GC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
CC9
SOFTWARE
THR D:149 , LYS D:150 , HIS D:151 , VAL D:152 , VAL D:174 , ASP G:186
BINDING SITE FOR RESIDUE EDO D 304
02
EC5
SOFTWARE
TYR G:70 , SER G:88 , HOH G:446
BINDING SITE FOR RESIDUE CL G 301
03
EC6
SOFTWARE
TYR G:121 , TYR G:122 , ASP G:162 , HOH G:428
BINDING SITE FOR RESIDUE DMS G 302
04
EC7
SOFTWARE
ASP G:68 , PRO G:69 , URA G:306 , HOH G:539 , HOH G:540
BINDING SITE FOR RESIDUE K G 303
05
EC8
SOFTWARE
ILE G:103 , TYR G:105
BINDING SITE FOR RESIDUE EDO G 304
06
EC9
SOFTWARE
LYS G:160 , TYR G:180 , HIS G:181
BINDING SITE FOR RESIDUE CL G 305
07
FC1
SOFTWARE
GLY G:66 , ILE G:67 , ASP G:68 , TYR G:70 , PRO G:78 , PHE G:79 , ASN G:120 , HIS G:181 , K G:303 , HOH G:405 , HOH G:540
BINDING SITE FOR RESIDUE URA G 306
08
FC2
SOFTWARE
GLU G:32 , SER G:35 , TRP G:36
BINDING SITE FOR RESIDUE EDO G 307
09
GC1
SOFTWARE
GLY J:66 , ILE J:67 , ASP J:68 , TYR J:70 , PRO J:78 , PHE J:79 , ASN J:120 , HIS J:181 , K J:303 , HOH J:415
BINDING SITE FOR RESIDUE URA J 301
10
GC2
SOFTWARE
TYR J:121 , ASP J:162 , ASN J:165 , LYS J:169
BINDING SITE FOR RESIDUE DMS J 302
11
GC3
SOFTWARE
ASP J:68 , PRO J:69 , THR J:130 , URA J:301 , HOH J:505 , HOH J:506 , HOH J:507
BINDING SITE FOR RESIDUE K J 303
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (477 KB)
Header - Asym.Unit
Biol.Unit 1 (89 KB)
Header - Biol.Unit 1
Biol.Unit 2 (88 KB)
Header - Biol.Unit 2
Biol.Unit 3 (83 KB)
Header - Biol.Unit 3
Biol.Unit 4 (84 KB)
Header - Biol.Unit 4
Biol.Unit 5 (85 KB)
Header - Biol.Unit 5
Biol.Unit 6 (82 KB)
Header - Biol.Unit 6
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