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2UYF
Asym. Unit
Info
Asym.Unit (85 KB)
Biol.Unit 1 (152 KB)
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(1)
Title
:
SINGLE MUTANT F111L DNTR FROM BURKHOLDERIA SP. STRAIN DNT IN COMPLEX WITH THIOCYANATE
Authors
:
R. Lonneborg, I. Smirova, C. Dian, G. A. Leonard, S. Mcsweeney, P. Brzezinski
Date
:
04 Apr 07 (Deposition) - 21 Aug 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Lttr, Lysr, Dna-Binding, Transcription, Transcription Regulation, Transcriptional Regulator
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Lonneborg, I. Smirova, C. Dian, G. A. Leonard, P. Brzezinski
In Vivo And In Vitro Investigation Of Transcriptional Regulation By Dntr.
J. Mol. Biol. V. 372 571 2007
[
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Hetero Components
(3, 17)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
3a: THIOCYANATE ION (SCNa)
3b: THIOCYANATE ION (SCNb)
3c: THIOCYANATE ION (SCNc)
3d: THIOCYANATE ION (SCNd)
3e: THIOCYANATE ION (SCNe)
3f: THIOCYANATE ION (SCNf)
3g: THIOCYANATE ION (SCNg)
3h: THIOCYANATE ION (SCNh)
3i: THIOCYANATE ION (SCNi)
3j: THIOCYANATE ION (SCNj)
3k: THIOCYANATE ION (SCNk)
3l: THIOCYANATE ION (SCNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
1
Ligand/Ion
ACETATE ION
2
GOL
4
Ligand/Ion
GLYCEROL
3
SCN
12
Ligand/Ion
THIOCYANATE ION
[
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Sites
(17, 17)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:107 , HIS A:169 , ILE A:273 , HOH A:2037 , HOH A:2101
BINDING SITE FOR RESIDUE SCN A1304
02
AC2
SOFTWARE
GLY B:107 , PHE B:167 , HIS B:169 , GOL B:1307 , HOH B:2100
BINDING SITE FOR RESIDUE SCN B1302
03
AC3
SOFTWARE
PRO B:133 , ASN B:134
BINDING SITE FOR RESIDUE SCN B1303
04
AC4
SOFTWARE
PHE A:229 , ILE A:230 , ILE A:232 , GLY A:233 , PHE A:249 , HOH A:2102
BINDING SITE FOR RESIDUE SCN A1305
05
AC5
SOFTWARE
ARG A:164 , ARG A:291
BINDING SITE FOR RESIDUE SCN A1306
06
AC6
SOFTWARE
PHE A:161 , HOH A:2045 , GLN B:292
BINDING SITE FOR RESIDUE SCN A1307
07
AC7
SOFTWARE
VAL B:199 , HIS B:206 , ASP B:210 , ARG B:220 , HOH B:2054
BINDING SITE FOR RESIDUE SCN B1304
08
AC8
SOFTWARE
TRP B:277 , ARG B:291 , GLN B:292
BINDING SITE FOR RESIDUE SCN B1305
09
AC9
SOFTWARE
ARG A:220 , HOH A:2103
BINDING SITE FOR RESIDUE SCN A1308
10
BC1
SOFTWARE
LEU A:212 , ALA A:216 , ILE A:218 , LYS A:267
BINDING SITE FOR RESIDUE SCN A1309
11
BC2
SOFTWARE
ARG A:165 , HOH A:2104 , PHE B:93 , ARG B:122 , TRP B:289 , HOH B:2024
BINDING SITE FOR RESIDUE SCN A1310
12
BC3
SOFTWARE
ARG A:165 , PHE B:90
BINDING SITE FOR RESIDUE SCN A1311
13
BC4
SOFTWARE
ASP A:105 , ARG A:132 , HIS A:228 , HOH A:2012 , HOH A:2105 , ASP B:105 , ARG B:132 , HIS B:228 , HOH B:2018
BINDING SITE FOR RESIDUE GOL A1312
14
BC5
SOFTWARE
MET A:116 , ALA A:120 , GLU B:195 , ARG B:223 , THR B:239 , ASP B:240 , HOH B:2101
BINDING SITE FOR RESIDUE GOL B1306
15
BC6
SOFTWARE
GLU A:195 , ARG A:223 , THR A:239 , ASP A:240 , LEU A:241 , HOH A:2106 , MET B:116 , ALA B:120
BINDING SITE FOR RESIDUE GOL A1313
16
BC7
SOFTWARE
THR B:104 , THR B:204 , GLY B:205 , HIS B:206 , ILE B:273 , SCN B:1302 , ACT B:1308 , HOH B:2102
BINDING SITE FOR RESIDUE GOL B1307
17
BC8
SOFTWARE
GLY B:152 , LEU B:153 , LEU B:154 , ASN B:203 , GOL B:1307
BINDING SITE FOR RESIDUE ACT B1308
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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Sorry, no Info available
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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, 2)
Info
All SCOP Domains
1a: SCOP_d2uyfa_ (A:)
1b: SCOP_d2uyfb_ (B:)
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Classes
(
)
(
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(
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Periplasmic binding protein-like II
(813)
Superfamily
:
Periplasmic binding protein-like II
(813)
Family
:
Phosphate binding protein-like
(463)
Protein domain
:
automated matches
(76)
Burkholderia cepacia [TaxId: 292]
(2)
1a
d2uyfa_
A:
1b
d2uyfb_
B:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2uyfB01 (B:76-170,B:270-301)
1b: CATH_2uyfA01 (A:89-170,A:270-303)
1c: CATH_2uyfA02 (A:171-269)
1d: CATH_2uyfB02 (B:171-269)
View:
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
D-Maltodextrin-Binding Protein; domain 2
(600)
Homologous Superfamily
:
Periplasmic binding protein-like II
(486)
Burkholderia cepacia. Organism_taxid: 292. Strain: strain dnt.
(2)
1a
2uyfB01
B:76-170,B:270-301
1b
2uyfA01
A:89-170,A:270-303
1c
2uyfA02
A:171-269
1d
2uyfB02
B:171-269
[
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_LysR_substrate_2uyfB01 (B:94-299)
1b: PFAM_LysR_substrate_2uyfB02 (B:94-299)
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Clan
:
PBP
(391)
Family
:
LysR_substrate
(13)
Burkholderia cepacia (Pseudomonas cepacia)
(2)
1a
LysR_substrate-2uyfB01
B:94-299
1b
LysR_substrate-2uyfB02
B:94-299
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Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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