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1QVR
Asym. Unit
Info
Asym.Unit (407 KB)
Biol.Unit 1 (397 KB)
Biol.Unit 2 (398 KB)
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(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF CLPB
Authors
:
S. Lee, M. E. Sowa, Y. Watanabe, P. B. Sigler, W. Chiu, M. Yoshida, F. T. F. Tsai
Date
:
28 Aug 03 (Deposition) - 21 Oct 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: A,B,C (1x)
Keywords
:
Coiled Coil, Aaa Atpase, Chaperone
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Lee, M. E. Sowa, Y. Watanabe, P. B. Sigler, W. Chiu, M. Yoshida, F. T. F. Tsai
The Structure Of Clpb: A Molecular Chaperone That Rescues Proteins From An Aggregated State
Cell(Cambridge, Mass. ) V. 115 229 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 29)
Info
All Hetero Components
1a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
1b: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPb)
1c: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPc)
1d: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPd)
1e: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPe)
1f: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPf)
2a: PLATINUM (II) ION (PTa)
2b: PLATINUM (II) ION (PTb)
2c: PLATINUM (II) ION (PTc)
2d: PLATINUM (II) ION (PTd)
2e: PLATINUM (II) ION (PTe)
2f: PLATINUM (II) ION (PTf)
2g: PLATINUM (II) ION (PTg)
2h: PLATINUM (II) ION (PTh)
2i: PLATINUM (II) ION (PTi)
2j: PLATINUM (II) ION (PTj)
2k: PLATINUM (II) ION (PTk)
2l: PLATINUM (II) ION (PTl)
2m: PLATINUM (II) ION (PTm)
2n: PLATINUM (II) ION (PTn)
2o: PLATINUM (II) ION (PTo)
2p: PLATINUM (II) ION (PTp)
2q: PLATINUM (II) ION (PTq)
2r: PLATINUM (II) ION (PTr)
2s: PLATINUM (II) ION (PTs)
2t: PLATINUM (II) ION (PTt)
2u: PLATINUM (II) ION (PTu)
2v: PLATINUM (II) ION (PTv)
2w: PLATINUM (II) ION (PTw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ANP
6
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2
PT
23
Ligand/Ion
PLATINUM (II) ION
[
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]
Sites
(26, 26)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
MET B:24
BINDING SITE FOR RESIDUE PT B 855
02
AC2
SOFTWARE
LYS B:606 , MET B:619
BINDING SITE FOR RESIDUE PT B 856
03
AC3
SOFTWARE
LYS C:606 , MET C:619
BINDING SITE FOR RESIDUE PT C 855
04
AC4
SOFTWARE
LYS A:606 , MET A:619
BINDING SITE FOR RESIDUE PT A 855
05
AC5
SOFTWARE
MET B:394 , ARG C:180 , PRO C:221
BINDING SITE FOR RESIDUE PT B 857
06
AC6
SOFTWARE
MET C:624 , TYR C:627
BINDING SITE FOR RESIDUE PT C 856
07
AC7
SOFTWARE
MET A:24 , LYS A:73
BINDING SITE FOR RESIDUE PT A 856
08
AC8
SOFTWARE
MET B:394 , ARG C:180
BINDING SITE FOR RESIDUE PT B 858
09
AC9
SOFTWARE
THR B:625 , MET B:628
BINDING SITE FOR RESIDUE PT B 859
10
BC1
SOFTWARE
THR C:625 , MET C:628
BINDING SITE FOR RESIDUE PT C 857
11
BC2
SOFTWARE
MET A:234
BINDING SITE FOR RESIDUE PT A 858
12
BC3
SOFTWARE
THR A:625 , MET A:628
BINDING SITE FOR RESIDUE PT A 859
13
BC4
SOFTWARE
MET A:394
BINDING SITE FOR RESIDUE PT A 860
14
BC5
SOFTWARE
MET C:234 , PHE C:247
BINDING SITE FOR RESIDUE PT C 858
15
BC6
SOFTWARE
ARG C:391 , MET C:394
BINDING SITE FOR RESIDUE PT C 859
16
BC7
SOFTWARE
MET B:624 , TYR B:627
BINDING SITE FOR RESIDUE PT B 861
17
BC8
SOFTWARE
MET C:24
BINDING SITE FOR RESIDUE PT C 860
18
BC9
SOFTWARE
ALA A:390 , ARG A:393 , MET A:394 , GLN B:184
BINDING SITE FOR RESIDUE PT A 861
19
CC1
SOFTWARE
MET A:624 , TYR A:627
BINDING SITE FOR RESIDUE PT A 862
20
CC2
SOFTWARE
ARG A:188 , MET C:394
BINDING SITE FOR RESIDUE PT C 861
21
CC3
SOFTWARE
VAL A:172 , ILE A:173 , GLU A:199 , PRO A:200 , GLY A:201 , VAL A:202 , GLY A:203 , LYS A:204 , THR A:205 , ALA A:206 , ASP A:270 , ILE A:340 , LEU A:344 , ILE A:382
BINDING SITE FOR RESIDUE ANP A 901
22
CC4
SOFTWARE
ARG A:559 , VAL A:560 , VAL A:561 , THR A:597 , GLY A:598 , VAL A:599 , GLY A:600 , LYS A:601 , THR A:602 , GLU A:603 , ILE A:765 , ALA A:805 , ARG A:806
BINDING SITE FOR RESIDUE ANP A 911
23
CC5
SOFTWARE
PRO B:171 , VAL B:172 , ILE B:173 , GLU B:199 , PRO B:200 , GLY B:201 , VAL B:202 , GLY B:203 , LYS B:204 , THR B:205 , ALA B:206 , GLU B:271 , ILE B:340 , LEU B:344 , ILE B:382 , PRO C:318 , GLU C:321 , ARG C:322
BINDING SITE FOR RESIDUE ANP B 902
24
CC6
SOFTWARE
ARG B:559 , VAL B:560 , VAL B:561 , THR B:597 , GLY B:598 , VAL B:599 , GLY B:600 , LYS B:601 , THR B:602 , GLU B:603 , ARG B:621 , ILE B:765 , GLN B:769 , ALA B:805 , ARG B:806
BINDING SITE FOR RESIDUE ANP B 912
25
CC7
SOFTWARE
PRO C:171 , VAL C:172 , ILE C:173 , PRO C:200 , GLY C:201 , VAL C:202 , GLY C:203 , LYS C:204 , THR C:205 , ALA C:206 , GLU C:209 , ILE C:340 , LEU C:344 , ILE C:382
BINDING SITE FOR RESIDUE ANP C 903
26
CC8
SOFTWARE
ARG C:559 , VAL C:560 , VAL C:561 , THR C:597 , GLY C:598 , VAL C:599 , GLY C:600 , LYS C:601 , THR C:602 , GLU C:603 , ILE C:765 , ALA C:805 , ARG C:806
BINDING SITE FOR RESIDUE ANP C 913
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: CLPAB_1 (A:291-298,B:291-298,C:291-298)
2: CLPAB_2 (A:621-636,B:621-636,C:621-636)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CLPAB_1
PS00870
Chaperonins clpA/B signature 1.
CLPB_THET8
286-298
3
A:291-298
B:291-298
C:291-298
2
CLPAB_2
PS00871
Chaperonins clpA/B signature 2.
CLPB_THET8
621-639
3
A:621-636
B:621-636
C:621-636
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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
(2, 9)
Info
All SCOP Domains
1a: SCOP_d1qvra1 (A:4-148)
1b: SCOP_d1qvrb1 (B:4-148)
1c: SCOP_d1qvrc1 (C:4-148)
2a: SCOP_d1qvra2 (A:149-535)
2b: SCOP_d1qvra3 (A:536-850)
2c: SCOP_d1qvrb2 (B:149-535)
2d: SCOP_d1qvrb3 (B:536-850)
2e: SCOP_d1qvrc2 (C:149-535)
2f: SCOP_d1qvrc3 (C:536-850)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Double Clp-N motif
(13)
Superfamily
:
Double Clp-N motif
(13)
Family
:
Double Clp-N motif
(13)
Protein domain
:
N-terminal domain of ClpB (heat shock protein F84.1)
(2)
Thermus thermophilus [TaxId: 274]
(1)
1a
d1qvra1
A:4-148
1b
d1qvrb1
B:4-148
1c
d1qvrc1
C:4-148
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
:
ClpB, AAA+ modules
(2)
Thermus thermophilus [TaxId: 274]
(1)
2a
d1qvra2
A:149-535
2b
d1qvra3
A:536-850
2c
d1qvrb2
B:149-535
2d
d1qvrb3
B:536-850
2e
d1qvrc2
C:149-535
2f
d1qvrc3
C:536-850
[
close SCOP info
]
CATH Domains
(3, 13)
Info
all CATH domains
1a: CATH_1qvrC02 (C:143-331)
1b: CATH_1qvrA02 (A:151-331)
1c: CATH_1qvrB02 (B:151-331)
1d: CATH_1qvrC05 (C:541-756)
1e: CATH_1qvrA04 (A:545-756)
1f: CATH_1qvrB04 (B:545-756)
2a: CATH_1qvrC01 (C:4-142)
2b: CATH_1qvrA01 (A:4-135)
2c: CATH_1qvrB01 (B:4-135)
3a: CATH_1qvrC03 (C:332-400,C:514-540)
3b: CATH_1qvrB05 (B:757-850)
3c: CATH_1qvrC06 (C:757-850)
3d: CATH_1qvrA05 (A:757-850)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
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)
Thermus thermophilus. Organism_taxid: 274.
(12)
1a
1qvrC02
C:143-331
1b
1qvrA02
A:151-331
1c
1qvrB02
B:151-331
1d
1qvrC05
C:541-756
1e
1qvrA04
A:545-756
1f
1qvrB04
B:545-756
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Double Clp-N motif
(16)
Homologous Superfamily
:
Double Clp-N motif
(16)
Thermus thermophilus. Organism_taxid: 274.
(1)
2a
1qvrC01
C:4-142
2b
1qvrA01
A:4-135
2c
1qvrB01
B:4-135
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
[code=1.10.8.60, no name defined]
(73)
Thermus thermophilus. Organism_taxid: 274.
(8)
3a
1qvrC03
C:332-400,C:514-540
3b
1qvrB05
B:757-850
3c
1qvrC06
C:757-850
3d
1qvrA05
A:757-850
[
close CATH info
]
Pfam Domains
(4, 15)
Info
all PFAM domains
1a: PFAM_AAA_1qvrC01 (C:194-329)
1b: PFAM_AAA_1qvrC02 (C:194-329)
1c: PFAM_AAA_1qvrC03 (C:194-329)
2a: PFAM_AAA_2_1qvrC04 (C:586-751)
2b: PFAM_AAA_2_1qvrC05 (C:586-751)
2c: PFAM_AAA_2_1qvrC06 (C:586-751)
3a: PFAM_ClpB_D2_small_1qvrC07 (C:757-837)
3b: PFAM_ClpB_D2_small_1qvrC08 (C:757-837)
3c: PFAM_ClpB_D2_small_1qvrC09 (C:757-837)
4a: PFAM_Clp_N_1qvrC10 (C:94-137)
4b: PFAM_Clp_N_1qvrC11 (C:94-137)
4c: PFAM_Clp_N_1qvrC12 (C:94-137)
4d: PFAM_Clp_N_1qvrC13 (C:94-137)
4e: PFAM_Clp_N_1qvrC14 (C:94-137)
4f: PFAM_Clp_N_1qvrC15 (C:94-137)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
AAA
(26)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
1a
AAA-1qvrC01
C:194-329
1b
AAA-1qvrC02
C:194-329
1c
AAA-1qvrC03
C:194-329
Family
:
AAA_2
(9)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
2a
AAA_2-1qvrC04
C:586-751
2b
AAA_2-1qvrC05
C:586-751
2c
AAA_2-1qvrC06
C:586-751
Clan
:
no clan defined [family: ClpB_D2-small]
(9)
Family
:
ClpB_D2-small
(9)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
3a
ClpB_D2-small-1qvrC07
C:757-837
3b
ClpB_D2-small-1qvrC08
C:757-837
3c
ClpB_D2-small-1qvrC09
C:757-837
Clan
:
no clan defined [family: Clp_N]
(16)
Family
:
Clp_N
(16)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
4a
Clp_N-1qvrC10
C:94-137
4b
Clp_N-1qvrC11
C:94-137
4c
Clp_N-1qvrC12
C:94-137
4d
Clp_N-1qvrC13
C:94-137
4e
Clp_N-1qvrC14
C:94-137
4f
Clp_N-1qvrC15
C:94-137
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