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3SB5
Asym. Unit
Info
Asym.Unit (227 KB)
Biol.Unit 1 (162 KB)
Biol.Unit 2 (165 KB)
Biol.Unit 3 (167 KB)
Biol.Unit 4 (171 KB)
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(1)
Title
:
ZN-MEDIATED TRIMER OF T4 LYSOZYME R125C/E128C BY SYNTHETIC SYMMETRIZATION
Authors
:
A. Laganowsky, A. B. Soriaga, M. Zhao, M. R. Sawaya, D. Cascio, T. O. Yeat
Date
:
03 Jun 11 (Deposition) - 21 Sep 11 (Release) - 02 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.46
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: B (3x)
Biol. Unit 2: A (3x)
Biol. Unit 3: C (3x)
Biol. Unit 4: D (3x)
Keywords
:
Metal-Mediated Synthetic Symmetrization, Synthetic Symmetrization, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Laganowsky, M. Zhao, A. B. Soriaga, M. R. Sawaya, D. Cascio, T. O. Yeates
An Approach To Crystallizing Proteins By Metal-Mediated Synthetic Symmetrization.
Protein Sci. V. 20 1876 2011
[
close entry info
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Hetero Components
(4, 31)
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)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
4g: ZINC ION (ZNg)
4h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
8
Ligand/Ion
CHLORIDE ION
2
GOL
9
Ligand/Ion
GLYCEROL
3
MG
6
Ligand/Ion
MAGNESIUM ION
4
ZN
8
Ligand/Ion
ZINC ION
[
close Hetero Component info
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Sites
(31, 31)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:125 , CYS A:128 , CL A:166
BINDING SITE FOR RESIDUE ZN A 163
02
AC2
SOFTWARE
CYS A:128 , CL A:169
BINDING SITE FOR RESIDUE ZN A 164
03
AC3
SOFTWARE
CYS D:125 , CYS D:128 , CL D:167
BINDING SITE FOR RESIDUE ZN D 163
04
AC4
SOFTWARE
CYS D:128 , CL D:171
BINDING SITE FOR RESIDUE ZN D 164
05
AC5
SOFTWARE
CYS B:128 , CL B:170
BINDING SITE FOR RESIDUE ZN B 163
06
AC6
SOFTWARE
CYS B:125 , CYS B:128 , CL B:165
BINDING SITE FOR RESIDUE ZN B 164
07
AC7
SOFTWARE
CYS C:125 , CYS C:128 , CL C:165
BINDING SITE FOR RESIDUE ZN C 163
08
AC8
SOFTWARE
CYS C:128 , CL C:167
BINDING SITE FOR RESIDUE ZN C 164
09
AC9
SOFTWARE
GLN C:123 , CYS C:125 , ASP C:127 , CYS C:128 , ZN C:163
BINDING SITE FOR RESIDUE CL C 165
10
BC1
SOFTWARE
GLU A:11 , ILE A:29 , GLY A:30 , ASP A:70 , PHE A:104
BINDING SITE FOR RESIDUE GOL A 165
11
BC2
SOFTWARE
CYS B:125 , ASP B:127 , CYS B:128 , ZN B:164
BINDING SITE FOR RESIDUE CL B 165
12
BC3
SOFTWARE
GLN A:123 , ASP A:127 , CYS A:128 , ZN A:163
BINDING SITE FOR RESIDUE CL A 166
13
BC4
SOFTWARE
TYR C:25 , PRO C:37 , SER C:38 , LEU C:39 , ILE D:9 , ASP D:10 , ASN D:144 , ARG D:145 , ARG D:148 , MG D:166 , HOH D:193 , HOH D:223
BINDING SITE FOR RESIDUE GOL D 165
14
BC5
SOFTWARE
THR B:142 , ASN B:144 , ARG B:145 , GOL B:169
BINDING SITE FOR RESIDUE MG B 166
15
BC6
SOFTWARE
THR D:142 , ASN D:144 , ARG D:145 , GOL D:165 , HOH D:193
BINDING SITE FOR RESIDUE MG D 166
16
BC7
SOFTWARE
THR A:142 , ASN A:144 , ARG A:145
BINDING SITE FOR RESIDUE MG A 167
17
BC8
SOFTWARE
GLN D:123 , CYS D:125 , ASP D:127 , CYS D:128 , ZN D:163
BINDING SITE FOR RESIDUE CL D 167
18
BC9
SOFTWARE
HOH B:177
BINDING SITE FOR RESIDUE MG B 167
19
CC1
SOFTWARE
SER A:90 , LEU A:91 , LEU A:121 , GLN A:122 , LYS A:124 , TRP A:126 , HOH A:178 , TRP D:126
BINDING SITE FOR RESIDUE GOL A 168
20
CC2
SOFTWARE
ALA B:130 , ALA B:134 , TYR B:139 , LYS B:147 , ILE B:150 , THR B:151 , HOH B:196 , HOH B:224
BINDING SITE FOR RESIDUE GOL B 168
21
CC3
SOFTWARE
GLU D:11 , HOH D:226 , HOH D:227 , HOH D:228 , HOH D:229 , HOH D:230 , HOH D:231
BINDING SITE FOR RESIDUE MG D 168
22
CC4
SOFTWARE
TYR D:88 , ALA D:93 , ARG D:96 , ILE D:100 , HOH D:177
BINDING SITE FOR RESIDUE GOL D 169
23
CC5
SOFTWARE
ILE C:29 , GLY C:30 , ASP C:70 , PHE C:104
BINDING SITE FOR RESIDUE GOL C 166
24
CC6
SOFTWARE
ASP B:10 , THR B:142 , ARG B:145 , ARG B:148 , MG B:166
BINDING SITE FOR RESIDUE GOL B 169
25
CC7
SOFTWARE
LYS C:35 , SER C:36 , TYR D:18 , LYS D:19 , HOH D:212
BINDING SITE FOR RESIDUE GOL D 170
26
CC8
SOFTWARE
CYS D:128 , ZN D:164
BINDING SITE FOR RESIDUE CL D 171
27
CC9
SOFTWARE
CYS A:128 , ZN A:164
BINDING SITE FOR RESIDUE CL A 169
28
DC1
SOFTWARE
ZN B:163
BINDING SITE FOR RESIDUE CL B 170
29
DC2
SOFTWARE
ZN C:164
BINDING SITE FOR RESIDUE CL C 167
30
DC3
SOFTWARE
ALA A:93
BINDING SITE FOR RESIDUE GOL A 170
31
DC4
SOFTWARE
PHE A:114 , SER A:117 , ASN A:132 , ARG B:137
BINDING SITE FOR RESIDUE MG A 171
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
Label:
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_d3sb5a_ (A:)
1b: SCOP_d3sb5b_ (B:)
1c: SCOP_d3sb5c_ (C:)
1d: SCOP_d3sb5d_ (D:)
View:
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Classes
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Folds
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Superfamilies
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Families
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Lysozyme-like
(1361)
Superfamily
:
Lysozyme-like
(1361)
Family
:
Phage lysozyme
(550)
Protein domain
:
Phage T4 lysozyme
(546)
Bacteriophage T4 [TaxId: 10665]
(546)
1a
d3sb5a_
A:
1b
d3sb5b_
B:
1c
d3sb5c_
C:
1d
d3sb5d_
D:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain D
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (227 KB)
Header - Asym.Unit
Biol.Unit 1 (162 KB)
Header - Biol.Unit 1
Biol.Unit 2 (165 KB)
Header - Biol.Unit 2
Biol.Unit 3 (167 KB)
Header - Biol.Unit 3
Biol.Unit 4 (171 KB)
Header - Biol.Unit 4
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