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1YEX
Asym. Unit
Info
Asym.Unit (147 KB)
Biol.Unit 1 (282 KB)
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(1)
Title
:
STRUCTURAL AND BIOCHEMICAL ANALYSIS OF THE LINK BETWEEN ENZYMATIC ACTIVITY AND OLIGOMERIZATION IN AHPC, A BACTERIAL PEROXIREDOXIN.
Authors
:
D. Parsonage, D. S. Youngblood, G. N. Sarma, Z. A. Wood, P. A. Karplus, L.
Date
:
28 Dec 04 (Deposition) - 16 Aug 05 (Release) - 09 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (2x)
Keywords
:
Ahpc, Peroxiredoxin, Peroxidase, Oxidoreductase
(Keyword Search:
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Reference
:
D. Parsonage, D. S. Youngblood, G. N. Sarma, Z. A. Wood, P. A. Karplus, L. B. Poole
Analysis Of The Link Between Enzymatic Activity And Oligomeric State In Ahpc, A Bacterial Peroxiredoxin.
Biochemistry V. 44 10583 2005
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Hetero Components
(1, 8)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
8
Ligand/Ion
SULFATE ION
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PRO B:47 , SER B:85 , GLU B:86 , THR B:87
BINDING SITE FOR RESIDUE SO4 B 812
2
AC2
SOFTWARE
PRO B:47 , LEU B:50 , ARG B:119 , HOH B:2064
BINDING SITE FOR RESIDUE SO4 B 802
3
AC3
SOFTWARE
SER D:85 , GLU D:86 , THR D:87
BINDING SITE FOR RESIDUE SO4 D 814
4
AC4
SOFTWARE
PRO C:47 , SER C:85 , GLU C:86 , THR C:87
BINDING SITE FOR RESIDUE SO4 C 813
5
AC5
SOFTWARE
TYR A:38 , CYS A:46 , GLU A:49 , LEU A:50 , ARG A:119 , HOH A:1064
BINDING SITE FOR RESIDUE SO4 A 801
6
AC6
SOFTWARE
TYR C:38 , VAL C:45 , PRO C:47 , GLU C:49 , ARG C:119 , HOH C:3064
BINDING SITE FOR RESIDUE SO4 C 803
7
AC7
SOFTWARE
CYS D:46 , PRO D:47 , GLU D:49 , LEU D:50 , ARG D:119 , ARG D:142
BINDING SITE FOR RESIDUE SO4 D 804
8
AC8
SOFTWARE
TYR E:38 , VAL E:45 , PRO E:47 , GLU E:49 , LEU E:50 , ARG E:119
BINDING SITE FOR RESIDUE SO4 E 805
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 5)
Info
All PROSITE Patterns/Profiles
1: THIOREDOXIN_2 (A:1-156,B:1-156,C:1-156,D:1-156,E:...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOREDOXIN_2
PS51352
Thioredoxin domain profile.
AHPC_SALTY
2-157
5
A:1-156
B:1-156
C:1-156
D:1-156
E:1-156
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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
(1, 5)
Info
All SCOP Domains
1a: SCOP_d1yexa1 (A:1-166)
1b: SCOP_d1yexb_ (B:)
1c: SCOP_d1yexc_ (C:)
1d: SCOP_d1yexd_ (D:)
1e: SCOP_d1yexe_ (E:)
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thioredoxin fold
(994)
Superfamily
:
Thioredoxin-like
(992)
Family
:
Glutathione peroxidase-like
(136)
Protein domain
:
Alkyl hydroperoxide reductase AhpC
(9)
Salmonella typhimurium [TaxId: 90371]
(5)
1a
d1yexa1
A:1-166
1b
d1yexb_
B:
1c
d1yexc_
C:
1d
d1yexd_
D:
1e
d1yexe_
E:
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CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_1yexC00 (C:1-163)
1b: CATH_1yexB00 (B:1-165)
1c: CATH_1yexE00 (E:1-165)
1d: CATH_1yexD00 (D:1-166)
1e: CATH_1yexA00 (A:1-167)
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Topologies
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Glutaredoxin
(620)
Homologous Superfamily
:
Glutaredoxin
(617)
Salmonella typhimurium. Organism_taxid: 602.
(6)
1a
1yexC00
C:1-163
1b
1yexB00
B:1-165
1c
1yexE00
E:1-165
1d
1yexD00
D:1-166
1e
1yexA00
A:1-167
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Pfam Domains
(2, 10)
Info
all PFAM domains
1a: PFAM_AhpC_TSA_1yexE01 (E:3-133)
1b: PFAM_AhpC_TSA_1yexE02 (E:3-133)
1c: PFAM_AhpC_TSA_1yexE03 (E:3-133)
1d: PFAM_AhpC_TSA_1yexE04 (E:3-133)
1e: PFAM_AhpC_TSA_1yexE05 (E:3-133)
2a: PFAM_1_cysPrx_C_1yexE06 (E:153-165)
2b: PFAM_1_cysPrx_C_1yexE07 (E:153-165)
2c: PFAM_1_cysPrx_C_1yexE08 (E:153-165)
2d: PFAM_1_cysPrx_C_1yexE09 (E:153-165)
2e: PFAM_1_cysPrx_C_1yexE10 (E:153-165)
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Clans
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Families
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)
Organisms
(
)
(
)
Clan
:
Thioredoxin
(367)
Family
:
AhpC-TSA
(28)
Salmonella typhimurium
(5)
1a
AhpC-TSA-1yexE01
E:3-133
1b
AhpC-TSA-1yexE02
E:3-133
1c
AhpC-TSA-1yexE03
E:3-133
1d
AhpC-TSA-1yexE04
E:3-133
1e
AhpC-TSA-1yexE05
E:3-133
Clan
:
no clan defined [family: 1-cysPrx_C]
(19)
Family
:
1-cysPrx_C
(19)
Salmonella typhimurium
(5)
2a
1-cysPrx_C-1yexE06
E:153-165
2b
1-cysPrx_C-1yexE07
E:153-165
2c
1-cysPrx_C-1yexE08
E:153-165
2d
1-cysPrx_C-1yexE09
E:153-165
2e
1-cysPrx_C-1yexE10
E:153-165
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Asym.Unit (147 KB)
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