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1TJL
Asym. Unit
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Asym.Unit (265 KB)
Biol.Unit 1 (29 KB)
Biol.Unit 10 (29 KB)
Biol.Unit 11 (54 KB)
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Biol.Unit 3 (28 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF TRANSCRIPTION FACTOR DKSA FROM E. COLI
Authors
:
A. Perederina, V. Svetlov, M. N. Vassylyeva, I. Artsimovitch, S. Yokoy D. G. Vassylyev, Riken Structural Genomics/Proteomics Initiati
Date
:
06 Jun 04 (Deposition) - 07 Sep 04 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: I (1x)
Biol. Unit 10: J (1x)
Biol. Unit 11: A,C (1x)
Keywords
:
Dksa, Transcription Factor, Rna Polymerase, Stringent Response, Ppgpp, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics, Transcription
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Perederina, V. Svetlov, M. N. Vassylyeva, T. H. Tahirov, S. Yokoyama, I. Artsimovitch, D. G. Vassylyev
Regulation Through The Secondary Channel--Structural Framework For Ppgpp-Dksa Synergism During Transcription
Cell(Cambridge, Mass. ) V. 118 297 2004
[
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Hetero Components
(1, 10)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
1c: ZINC ION (ZNc)
1d: ZINC ION (ZNd)
1e: ZINC ION (ZNe)
1f: ZINC ION (ZNf)
1g: ZINC ION (ZNg)
1h: ZINC ION (ZNh)
1i: ZINC ION (ZNi)
1j: ZINC ION (ZNj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
10
Ligand/Ion
ZINC ION
[
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Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:114 , CYS A:117 , CYS A:135 , CYS A:138
BINDING SITE FOR RESIDUE ZN A 200
02
AC2
SOFTWARE
CYS B:114 , SER B:116 , CYS B:117 , CYS B:135 , CYS B:138
BINDING SITE FOR RESIDUE ZN B 200
03
AC3
SOFTWARE
CYS C:114 , CYS C:117 , CYS C:135 , CYS C:138
BINDING SITE FOR RESIDUE ZN C 200
04
AC4
SOFTWARE
CYS D:114 , CYS D:117 , CYS D:135 , CYS D:138
BINDING SITE FOR RESIDUE ZN D 200
05
AC5
SOFTWARE
CYS E:114 , CYS E:117 , CYS E:135 , CYS E:138
BINDING SITE FOR RESIDUE ZN E 200
06
AC6
SOFTWARE
CYS F:114 , CYS F:117 , CYS F:135 , CYS F:138
BINDING SITE FOR RESIDUE ZN F 200
07
AC7
SOFTWARE
CYS G:114 , CYS G:117 , CYS G:135 , CYS G:138
BINDING SITE FOR RESIDUE ZN G 200
08
AC8
SOFTWARE
CYS H:114 , CYS H:117 , CYS H:135 , CYS H:138
BINDING SITE FOR RESIDUE ZN H 200
09
AC9
SOFTWARE
CYS I:114 , CYS I:117 , CYS I:135 , CYS I:138
BINDING SITE FOR RESIDUE ZN I 200
10
BC1
SOFTWARE
CYS J:114 , CYS J:117 , CYS J:135 , CYS J:138
BINDING SITE FOR RESIDUE ZN J 200
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 20)
Info
All PROSITE Patterns/Profiles
1: ZF_DKSA_2 (A:71-151,B:71-151,C:71-151,D:71-15...)
2: ZF_DKSA_1 (A:114-138,B:114-138,C:114-138,D:11...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_DKSA_2
PS51128
Prokaryotic dksA C4-type zinc finger profiles.
DKSA_ECOLI
71-151
10
A:71-151
B:71-151
C:71-151
D:71-151
E:71-151
F:71-151
G:71-151
H:71-151
I:71-151
J:71-151
2
ZF_DKSA_1
PS01102
Prokaryotic dksA C4-type zinc finger.
DKSA_ECOLI
114-138
10
A:114-138
B:114-138
C:114-138
D:114-138
E:114-138
F:114-138
G:114-138
H:114-138
I:114-138
J:114-138
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Exons
(0, 0)
Info
All 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.
SCOP Domains
(2, 20)
Info
All SCOP Domains
1a: SCOP_d1tjla1 (A:7-110)
1b: SCOP_d1tjlb1 (B:7-110)
1c: SCOP_d1tjlc1 (C:7-110)
1d: SCOP_d1tjld1 (D:7-110)
1e: SCOP_d1tjle1 (E:7-110)
1f: SCOP_d1tjlf1 (F:7-110)
1g: SCOP_d1tjlg1 (G:7-110)
1h: SCOP_d1tjlh1 (H:7-110)
1i: SCOP_d1tjli1 (I:7-110)
1j: SCOP_d1tjlj1 (J:7-110)
2a: SCOP_d1tjla2 (A:111-151)
2b: SCOP_d1tjlb2 (B:111-151)
2c: SCOP_d1tjlc2 (C:111-151)
2d: SCOP_d1tjld2 (D:111-151)
2e: SCOP_d1tjle2 (E:111-151)
2f: SCOP_d1tjlf2 (F:111-151)
2g: SCOP_d1tjlg2 (G:111-151)
2h: SCOP_d1tjlh2 (H:111-151)
2i: SCOP_d1tjli2 (I:111-151)
2j: SCOP_d1tjlj2 (J:111-151)
View:
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Classes
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)
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)
Folds
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Protein Domains
(
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(
)
Organisms
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(
)
Class
:
All alpha proteins
(14657)
Fold
:
Long alpha-hairpin
(315)
Superfamily
:
DnaK suppressor protein DksA, alpha-hairpin domain
(1)
Family
:
DnaK suppressor protein DksA, alpha-hairpin domain
(1)
Protein domain
:
DnaK suppressor protein DksA, alpha-hairpin domain
(1)
Escherichia coli [TaxId: 562]
(1)
1a
d1tjla1
A:7-110
1b
d1tjlb1
B:7-110
1c
d1tjlc1
C:7-110
1d
d1tjld1
D:7-110
1e
d1tjle1
E:7-110
1f
d1tjlf1
F:7-110
1g
d1tjlg1
G:7-110
1h
d1tjlh1
H:7-110
1i
d1tjli1
I:7-110
1j
d1tjlj1
J:7-110
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
Prokaryotic DksA/TraR C4-type zinc finger
(1)
Protein domain
:
DnaK suppressor protein DksA, zinc finger domain
(1)
Escherichia coli [TaxId: 562]
(1)
2a
d1tjla2
A:111-151
2b
d1tjlb2
B:111-151
2c
d1tjlc2
C:111-151
2d
d1tjld2
D:111-151
2e
d1tjle2
E:111-151
2f
d1tjlf2
F:111-151
2g
d1tjlg2
G:111-151
2h
d1tjlh2
H:111-151
2i
d1tjli2
I:111-151
2j
d1tjlj2
J:111-151
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
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Sorry, no Info available
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Pfam Domains
(1, 10)
Info
all PFAM domains
1a: PFAM_zf_dskA_traR_1tjlJ01 (J:109-147)
1b: PFAM_zf_dskA_traR_1tjlJ02 (J:109-147)
1c: PFAM_zf_dskA_traR_1tjlJ03 (J:109-147)
1d: PFAM_zf_dskA_traR_1tjlJ04 (J:109-147)
1e: PFAM_zf_dskA_traR_1tjlJ05 (J:109-147)
1f: PFAM_zf_dskA_traR_1tjlJ06 (J:109-147)
1g: PFAM_zf_dskA_traR_1tjlJ07 (J:109-147)
1h: PFAM_zf_dskA_traR_1tjlJ08 (J:109-147)
1i: PFAM_zf_dskA_traR_1tjlJ09 (J:109-147)
1j: PFAM_zf_dskA_traR_1tjlJ10 (J:109-147)
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Clans
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Clan
:
Zn_Beta_Ribbon
(109)
Family
:
zf-dskA_traR
(2)
Escherichia coli (strain K12)
(2)
1a
zf-dskA_traR-1tjlJ01
J:109-147
1b
zf-dskA_traR-1tjlJ02
J:109-147
1c
zf-dskA_traR-1tjlJ03
J:109-147
1d
zf-dskA_traR-1tjlJ04
J:109-147
1e
zf-dskA_traR-1tjlJ05
J:109-147
1f
zf-dskA_traR-1tjlJ06
J:109-147
1g
zf-dskA_traR-1tjlJ07
J:109-147
1h
zf-dskA_traR-1tjlJ08
J:109-147
1i
zf-dskA_traR-1tjlJ09
J:109-147
1j
zf-dskA_traR-1tjlJ10
J:109-147
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