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1NJF
Biol. Unit 1
Info
Asym.Unit (165 KB)
Biol.Unit 1 (43 KB)
Biol.Unit 2 (42 KB)
Biol.Unit 3 (42 KB)
Biol.Unit 4 (42 KB)
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(1)
Title
:
NUCLEOTIDE BOUND FORM OF AN ISOLATED E. COLI CLAMP LOADER GAMMA SUBUNIT
Authors
:
M. Podobnik, T. F. Weitze, M. O'Donnell, J. Kuriyan
Date
:
30 Dec 02 (Deposition) - 08 Apr 03 (Release) - 07 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Protein-Nucleotide Complex, Rossman-Like Fold, Aaa+ Atpase Domains, Sensor 1, Sensor 2, Transferase
(Keyword Search:
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Reference
:
M. Podobnik, T. F. Weitze, M. O'Donnell, J. Kuriyan
Nucleotide-Induced Conformational Changes In An Isolated Escherichia Coli Dna Polymerase Iii Clamp Loader Subunit
Structure V. 11 253 2003
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
2a: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLA... (AGSa)
2b: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLA... (AGSb)
2c: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLA... (AGSc)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ADP
-1
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
AGS
1
Ligand/Ion
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
3
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC4 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:64 , CYS A:73 , GLY A:74 , CYS A:76 , CYS A:79
BINDING SITE FOR RESIDUE ZN A 401
2
AC2
SOFTWARE
ALA A:7 , TRP A:10 , ARG A:11 , PRO A:12 , VAL A:18 , VAL A:19 , ARG A:47 , GLY A:48 , VAL A:49 , GLY A:50 , LYS A:51 , THR A:52 , SER A:53 , LEU A:214 , ARG A:215 , LEU A:218 , HOH A:508 , ARG B:98
BINDING SITE FOR RESIDUE AGS A 402
3
AC4
SOFTWARE
ARG A:98 , ALA B:7 , TRP B:10 , ARG B:11 , VAL B:18 , VAL B:19 , ARG B:47 , GLY B:48 , VAL B:49 , GLY B:50 , LYS B:51 , THR B:52 , SER B:53 , THR B:157 , LEU B:214 , ARG B:215 , LEU B:218 , HOH B:435
BINDING SITE FOR RESIDUE AGS B 302
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1njfa_ (A:)
1b: SCOP_d1njfb_ (B:)
1c: SCOP_d1njfc_ (C:)
1d: SCOP_d1njfd_ (D:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Extended AAA-ATPase domain
(92)
Protein domain
:
delta prime subunit of DNA polymerase III, N-domain
(6)
Escherichia coli [TaxId: 562]
(6)
1a
d1njfa_
A:
1b
d1njfb_
B:
1c
d1njfc_
C:
1d
d1njfd_
D:
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1njfA01 (A:5-177)
1b: CATH_1njfB01 (B:5-177)
1c: CATH_1njfC01 (C:5-177)
1d: CATH_1njfD01 (D:5-177)
2a: CATH_1njfA02 (A:178-243)
2b: CATH_1njfB02 (B:178-243)
2c: CATH_1njfC02 (C:178-243)
2d: CATH_1njfD02 (D:178-243)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Escherichia coli. Organism_taxid: 562.
(54)
1a
1njfA01
A:5-177
1b
1njfB01
B:5-177
1c
1njfC01
C:5-177
1d
1njfD01
D:5-177
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
[code=1.10.8.60, no name defined]
(73)
Escherichia coli. Organism_taxid: 562.
(5)
2a
1njfA02
A:178-243
2b
1njfB02
B:178-243
2c
1njfC02
C:178-243
2d
1njfD02
D:178-243
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_DNA_pol3_delta2_1njfD01 (D:20-179)
1b: PFAM_DNA_pol3_delta2_1njfD02 (D:20-179)
1c: PFAM_DNA_pol3_delta2_1njfD03 (D:20-179)
1d: PFAM_DNA_pol3_delta2_1njfD04 (D:20-179)
2a: PFAM_DNA_pol3_gamma3_1njfD05 (D:232-243)
2b: PFAM_DNA_pol3_gamma3_1njfD06 (D:232-243)
2c: PFAM_DNA_pol3_gamma3_1njfD07 (D:232-243)
2d: PFAM_DNA_pol3_gamma3_1njfD08 (D:232-243)
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(
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Organisms
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(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
DNA_pol3_delta2
(6)
Escherichia coli (strain K12)
(5)
1a
DNA_pol3_delta2-1njfD01
D:20-179
1b
DNA_pol3_delta2-1njfD02
D:20-179
1c
DNA_pol3_delta2-1njfD03
D:20-179
1d
DNA_pol3_delta2-1njfD04
D:20-179
Clan
:
no clan defined [family: DNA_pol3_gamma3]
(5)
Family
:
DNA_pol3_gamma3
(5)
Escherichia coli (strain K12)
(5)
2a
DNA_pol3_gamma3-1njfD05
D:232-243
2b
DNA_pol3_gamma3-1njfD06
D:232-243
2c
DNA_pol3_gamma3-1njfD07
D:232-243
2d
DNA_pol3_gamma3-1njfD08
D:232-243
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Chain A
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (165 KB)
Header - Asym.Unit
Biol.Unit 1 (43 KB)
Header - Biol.Unit 1
Biol.Unit 2 (42 KB)
Header - Biol.Unit 2
Biol.Unit 3 (42 KB)
Header - Biol.Unit 3
Biol.Unit 4 (42 KB)
Header - Biol.Unit 4
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