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1N6D
Asym. Unit
Info
Asym.Unit (1007 KB)
Biol.Unit 1 (995 KB)
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(1)
Title
:
TRICORN PROTEASE IN COMPLEX WITH TETRAPEPTIDE CHLOROMETHYL KETONE DERIVATIVE
Authors
:
J. -S. Kim, M. Groll, R. Huber, H. Brandstetter
Date
:
10 Nov 02 (Deposition) - 30 Dec 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Keywords
:
Tricorn Protease, Hydrolase, Propeller
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. -S. Kim, M. Groll, H. -J. Musiol, R. Behrendt, M. Kaiser, L. Moroder, R. Huber, H. Brandstetter
Navigation Inside A Protease: Substrate Selection And Product Exit In The Tricorn Protease From Thermoplasma Acidophilum
J. Mol. Biol. V. 324 1041 2002
(for further references see the
PDB file header
)
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: 1,3-DICHLORO-PROPAN-2-ONE (CHMa)
1b: 1,3-DICHLORO-PROPAN-2-ONE (CHMb)
1c: 1,3-DICHLORO-PROPAN-2-ONE (CHMc)
1d: 1,3-DICHLORO-PROPAN-2-ONE (CHMd)
1e: 1,3-DICHLORO-PROPAN-2-ONE (CHMe)
1f: 1,3-DICHLORO-PROPAN-2-ONE (CHMf)
2a: DECANE (D10a)
2b: DECANE (D10b)
2c: DECANE (D10c)
2d: DECANE (D10d)
2e: DECANE (D10e)
2f: DECANE (D10f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CHM
6
Ligand/Ion
1,3-DICHLORO-PROPAN-2-ONE
2
D10
6
Ligand/Ion
DECANE
[
close Hetero Component info
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Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:995 , PRO A:996 , LYS A:997 , HOH G:259 , ARG G:1101
BINDING SITE FOR RESIDUE D10 G 2101
02
AC2
SOFTWARE
HIS A:746 , SER A:965 , GLY A:990 , HOH G:444 , LYS G:1104
BINDING SITE FOR RESIDUE CHM G 1105
03
AC3
SOFTWARE
THR B:995 , PRO B:996 , LYS B:997 , ARG H:1101
BINDING SITE FOR RESIDUE D10 H 2101
04
AC4
SOFTWARE
HIS B:746 , SER B:965 , GLY B:990 , LYS H:1104
BINDING SITE FOR RESIDUE CHM H 1105
05
AC5
SOFTWARE
THR C:995 , PRO C:996 , LYS C:997 , ARG I:1101
BINDING SITE FOR RESIDUE D10 I 2101
06
AC6
SOFTWARE
HIS C:746 , SER C:965 , GLY C:990 , LYS I:1104
BINDING SITE FOR RESIDUE CHM I 1105
07
AC7
SOFTWARE
THR D:995 , PRO D:996 , LYS D:997 , ARG J:1101
BINDING SITE FOR RESIDUE D10 J 2101
08
AC8
SOFTWARE
HIS D:746 , SER D:965 , GLY D:990 , LYS J:1104
BINDING SITE FOR RESIDUE CHM J 1105
09
AC9
SOFTWARE
THR E:995 , PRO E:996 , LYS E:997 , ARG K:1101
BINDING SITE FOR RESIDUE D10 K 2101
10
BC1
SOFTWARE
HIS E:746 , SER E:965 , GLY E:990 , LYS K:1104
BINDING SITE FOR RESIDUE CHM K 1105
11
BC2
SOFTWARE
THR F:995 , PRO F:996 , LYS F:997 , ARG L:1101
BINDING SITE FOR RESIDUE D10 L 2101
12
BC3
SOFTWARE
HIS F:746 , SER F:965 , GLY F:990 , LYS L:1104
BINDING SITE FOR RESIDUE CHM L 1105
[
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]
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
(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:
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
(4, 24)
Info
All SCOP Domains
1a: SCOP_d1n6da2 (A:39-319)
1b: SCOP_d1n6db2 (B:39-319)
1c: SCOP_d1n6dc2 (C:39-319)
1d: SCOP_d1n6dd2 (D:39-319)
1e: SCOP_d1n6de2 (E:39-319)
1f: SCOP_d1n6df2 (F:39-319)
2a: SCOP_d1n6da3 (A:320-679)
2b: SCOP_d1n6db3 (B:320-679)
2c: SCOP_d1n6dc3 (C:320-679)
2d: SCOP_d1n6dd3 (D:320-679)
2e: SCOP_d1n6de3 (E:320-679)
2f: SCOP_d1n6df3 (F:320-679)
3a: SCOP_d1n6da1 (A:763-853)
3b: SCOP_d1n6db1 (B:763-853)
3c: SCOP_d1n6dc1 (C:763-853)
3d: SCOP_d1n6dd1 (D:763-853)
3e: SCOP_d1n6de1 (E:763-853)
3f: SCOP_d1n6df1 (F:763-853)
4a: SCOP_d1n6da4 (A:680-762,A:854-1061)
4b: SCOP_d1n6db4 (B:680-762,B:854-1061)
4c: SCOP_d1n6dc4 (C:680-762,C:854-1061)
4d: SCOP_d1n6dd4 (D:680-762,D:854-1061)
4e: SCOP_d1n6de4 (E:680-762,E:854-1061)
4f: SCOP_d1n6df4 (F:680-762,F:854-1061)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
6-bladed beta-propeller
(327)
Superfamily
:
Tricorn protease N-terminal domain
(4)
Family
:
Tricorn protease N-terminal domain
(4)
Protein domain
:
Tricorn protease N-terminal domain
(4)
Thermoplasma acidophilum [TaxId: 2303]
(4)
1a
d1n6da2
A:39-319
1b
d1n6db2
B:39-319
1c
d1n6dc2
C:39-319
1d
d1n6dd2
D:39-319
1e
d1n6de2
E:39-319
1f
d1n6df2
F:39-319
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
Tricorn protease domain 2
(4)
Family
:
Tricorn protease domain 2
(4)
Protein domain
:
Tricorn protease domain 2
(4)
Thermoplasma acidophilum [TaxId: 2303]
(4)
2a
d1n6da3
A:320-679
2b
d1n6db3
B:320-679
2c
d1n6dc3
C:320-679
2d
d1n6dd3
D:320-679
2e
d1n6de3
E:320-679
2f
d1n6df3
F:320-679
Fold
:
PDZ domain-like
(299)
Superfamily
:
PDZ domain-like
(299)
Family
:
Tail specific protease PDZ domain
(8)
Protein domain
:
Tricorn protease
(4)
Thermoplasma acidophilum [TaxId: 2303]
(4)
3a
d1n6da1
A:763-853
3b
d1n6db1
B:763-853
3c
d1n6dc1
C:763-853
3d
d1n6dd1
D:763-853
3e
d1n6de1
E:763-853
3f
d1n6df1
F:763-853
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ClpP/crotonase
(207)
Superfamily
:
ClpP/crotonase
(207)
Family
:
Tail specific protease, catalytic domain
(9)
Protein domain
:
Tricorn protease
(4)
Thermoplasma acidophilum [TaxId: 2303]
(4)
4a
d1n6da4
A:680-762,A:854-1061
4b
d1n6db4
B:680-762,B:854-1061
4c
d1n6dc4
C:680-762,C:854-1061
4d
d1n6dd4
D:680-762,D:854-1061
4e
d1n6de4
E:680-762,E:854-1061
4f
d1n6df4
F:680-762,F:854-1061
[
close SCOP info
]
CATH Domains
(5, 30)
Info
all CATH domains
1a: CATH_1n6dA03 (A:681-752)
1b: CATH_1n6dB03 (B:681-752)
1c: CATH_1n6dC03 (C:681-752)
1d: CATH_1n6dD03 (D:681-752)
1e: CATH_1n6dE03 (E:681-752)
1f: CATH_1n6dF03 (F:681-752)
2a: CATH_1n6dA05 (A:856-1061)
2b: CATH_1n6dB05 (B:856-1061)
2c: CATH_1n6dC05 (C:856-1061)
2d: CATH_1n6dD05 (D:856-1061)
2e: CATH_1n6dE05 (E:856-1061)
2f: CATH_1n6dF05 (F:856-1061)
3a: CATH_1n6dA01 (A:39-310)
3b: CATH_1n6dB01 (B:39-310)
3c: CATH_1n6dC01 (C:39-310)
3d: CATH_1n6dD01 (D:39-310)
3e: CATH_1n6dE01 (E:39-310)
3f: CATH_1n6dF01 (F:39-310)
4a: CATH_1n6dA02 (A:326-675)
4b: CATH_1n6dB02 (B:326-675)
4c: CATH_1n6dC02 (C:326-675)
4d: CATH_1n6dD02 (D:326-675)
4e: CATH_1n6dE02 (E:326-675)
4f: CATH_1n6dF02 (F:326-675)
5a: CATH_1n6dA04 (A:761-855)
5b: CATH_1n6dB04 (B:761-855)
5c: CATH_1n6dC04 (C:761-855)
5d: CATH_1n6dD04 (D:761-855)
5e: CATH_1n6dE04 (E:761-855)
5f: CATH_1n6dF04 (F:761-855)
View:
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Classes
(
)
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)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Transcription Regulator spoIIAA
(28)
Homologous Superfamily
:
[code=3.30.750.44, no name defined]
(4)
Thermoplasma acidophilum. Organism_taxid: 2303.
(3)
1a
1n6dA03
A:681-752
1b
1n6dB03
B:681-752
1c
1n6dC03
C:681-752
1d
1n6dD03
D:681-752
1e
1n6dE03
E:681-752
1f
1n6dF03
F:681-752
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
2-enoyl-CoA Hydratase; Chain A, domain 1
(89)
Homologous Superfamily
:
2-enoyl-CoA Hydratase; Chain A, domain 1
(89)
Thermoplasma acidophilum. Organism_taxid: 2303.
(3)
2a
1n6dA05
A:856-1061
2b
1n6dB05
B:856-1061
2c
1n6dC05
C:856-1061
2d
1n6dD05
D:856-1061
2e
1n6dE05
E:856-1061
2f
1n6dF05
F:856-1061
Class
:
Mainly Beta
(13760)
Architecture
:
6 Propellor
(215)
Topology
:
Neuraminidase
(215)
Homologous Superfamily
:
Tricorn protease N-terminal domain
(4)
Thermoplasma acidophilum. Organism_taxid: 2303.
(3)
3a
1n6dA01
A:39-310
3b
1n6dB01
B:39-310
3c
1n6dC01
C:39-310
3d
1n6dD01
D:39-310
3e
1n6dE01
E:39-310
3f
1n6dF01
F:39-310
Architecture
:
7 Propellor
(136)
Topology
:
Methylamine Dehydrogenase; Chain H
(136)
Homologous Superfamily
:
YVTN repeat-like/Quinoprotein amine dehydrogenase
(76)
Thermoplasma acidophilum. Organism_taxid: 2303.
(3)
4a
1n6dA02
A:326-675
4b
1n6dB02
B:326-675
4c
1n6dC02
C:326-675
4d
1n6dD02
D:326-675
4e
1n6dE02
E:326-675
4f
1n6dF02
F:326-675
Architecture
:
Roll
(1513)
Topology
:
Pdz3 Domain
(191)
Homologous Superfamily
:
[code=2.30.42.10, no name defined]
(191)
Thermoplasma acidophilum. Organism_taxid: 2303.
(3)
5a
1n6dA04
A:761-855
5b
1n6dB04
B:761-855
5c
1n6dC04
C:761-855
5d
1n6dD04
D:761-855
5e
1n6dE04
E:761-855
5f
1n6dF04
F:761-855
[
close CATH info
]
Pfam Domains
(2, 12)
Info
all PFAM domains
1a: PFAM_PD40_1n6dF01 (F:492-523)
1b: PFAM_PD40_1n6dF02 (F:492-523)
1c: PFAM_PD40_1n6dF03 (F:492-523)
1d: PFAM_PD40_1n6dF04 (F:492-523)
1e: PFAM_PD40_1n6dF05 (F:492-523)
1f: PFAM_PD40_1n6dF06 (F:492-523)
2a: PFAM_Peptidase_S41_1n6dF07 (F:878-1033)
2b: PFAM_Peptidase_S41_1n6dF08 (F:878-1033)
2c: PFAM_Peptidase_S41_1n6dF09 (F:878-1033)
2d: PFAM_Peptidase_S41_1n6dF10 (F:878-1033)
2e: PFAM_Peptidase_S41_1n6dF11 (F:878-1033)
2f: PFAM_Peptidase_S41_1n6dF12 (F:878-1033)
View:
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Clans
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)
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Families
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(
)
Organisms
(
)
(
)
Clan
:
Beta_propeller
(192)
Family
:
PD40
(5)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(4)
1a
PD40-1n6dF01
F:492-523
1b
PD40-1n6dF02
F:492-523
1c
PD40-1n6dF03
F:492-523
1d
PD40-1n6dF04
F:492-523
1e
PD40-1n6dF05
F:492-523
1f
PD40-1n6dF06
F:492-523
Clan
:
ClpP_crotonase
(88)
Family
:
Peptidase_S41
(5)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(4)
2a
Peptidase_S41-1n6dF07
F:878-1033
2b
Peptidase_S41-1n6dF08
F:878-1033
2c
Peptidase_S41-1n6dF09
F:878-1033
2d
Peptidase_S41-1n6dF10
F:878-1033
2e
Peptidase_S41-1n6dF11
F:878-1033
2f
Peptidase_S41-1n6dF12
F:878-1033
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