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2F1D
Biol. Unit 3
Info
Asym.Unit (395 KB)
Biol.Unit 1 (571 KB)
Biol.Unit 2 (196 KB)
Biol.Unit 3 (573 KB)
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(1)
Title
:
X-RAY STRUCTURE OF IMIDAZOLEGLYCEROL-PHOSPHATE DEHYDRATASE
Authors
:
D. W. Rice, S. E. Glynn, P. J. Baker, S. E. Sedelnikova, C. L. Davies, T. C.
Date
:
14 Nov 05 (Deposition) - 24 Jan 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,C,D,E,F,G,H (3x)
Biol. Unit 2: I,J,K,L,M,N,O,P (1x)
Biol. Unit 3: I,J,K,L,M,N,O,P (3x)
Keywords
:
Igpd, Herbicide, Manganese, Histidine Biosynthesis, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. E. Glynn, P. J. Baker, S. E. Sedelnikova, C. L. Davies, T. C. Eadsforth, C. W. Levy, H. F. Rodgers, G. M. Blackburn, T. R. Hawkes R. Viner, D. W. Rice
Structure And Mechanism Of Imidazoleglycerol-Phosphate Dehydratase.
Structure V. 13 1809 2005
[
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Hetero Components
(1, 24)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1aa: MANGANESE (II) ION (MNaa)
1ab: MANGANESE (II) ION (MNab)
1ac: MANGANESE (II) ION (MNac)
1ad: MANGANESE (II) ION (MNad)
1ae: MANGANESE (II) ION (MNae)
1af: MANGANESE (II) ION (MNaf)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
1e: MANGANESE (II) ION (MNe)
1f: MANGANESE (II) ION (MNf)
1g: MANGANESE (II) ION (MNg)
1h: MANGANESE (II) ION (MNh)
1i: MANGANESE (II) ION (MNi)
1j: MANGANESE (II) ION (MNj)
1k: MANGANESE (II) ION (MNk)
1l: MANGANESE (II) ION (MNl)
1m: MANGANESE (II) ION (MNm)
1n: MANGANESE (II) ION (MNn)
1o: MANGANESE (II) ION (MNo)
1p: MANGANESE (II) ION (MNp)
1q: MANGANESE (II) ION (MNq)
1r: MANGANESE (II) ION (MNr)
1s: MANGANESE (II) ION (MNs)
1t: MANGANESE (II) ION (MNt)
1u: MANGANESE (II) ION (MNu)
1v: MANGANESE (II) ION (MNv)
1w: MANGANESE (II) ION (MNw)
1x: MANGANESE (II) ION (MNx)
1y: MANGANESE (II) ION (MNy)
1z: MANGANESE (II) ION (MNz)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
-1
Ligand/Ion
MANGANESE (II) ION
2
SO4
24
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(24, 24)
Info
All Sites
01: CC7 (SOFTWARE)
02: CC8 (SOFTWARE)
03: CC9 (SOFTWARE)
04: DC1 (SOFTWARE)
05: DC2 (SOFTWARE)
06: DC3 (SOFTWARE)
07: DC4 (SOFTWARE)
08: DC5 (SOFTWARE)
09: DC6 (SOFTWARE)
10: DC7 (SOFTWARE)
11: DC8 (SOFTWARE)
12: DC9 (SOFTWARE)
13: EC1 (SOFTWARE)
14: EC2 (SOFTWARE)
15: EC3 (SOFTWARE)
16: EC4 (SOFTWARE)
17: EC5 (SOFTWARE)
18: EC6 (SOFTWARE)
19: EC7 (SOFTWARE)
20: EC8 (SOFTWARE)
21: EC9 (SOFTWARE)
22: FC1 (SOFTWARE)
23: FC2 (SOFTWARE)
24: FC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
CC7
SOFTWARE
HIS I:170 , HIS J:73 , GLU J:77 , HIS J:145
BINDING SITE FOR RESIDUE MN I 300
02
CC8
SOFTWARE
HIS I:47 , HIS I:169 , GLU I:173 , HIS J:74
BINDING SITE FOR RESIDUE MN I 301
03
CC9
SOFTWARE
HIS I:55 , ARG I:99 , LYS I:177
BINDING SITE FOR RESIDUE SO4 I 398
04
DC1
SOFTWARE
HIS J:170 , HIS O:73 , GLU O:77 , HIS O:145
BINDING SITE FOR RESIDUE MN J 300
05
DC2
SOFTWARE
HIS J:47 , HIS J:169 , GLU J:173 , HIS O:74
BINDING SITE FOR RESIDUE MN J 301
06
DC3
SOFTWARE
HIS J:55 , LYS J:177 , ARG K:99
BINDING SITE FOR RESIDUE SO4 J 398
07
DC4
SOFTWARE
HIS K:170 , HIS P:73 , GLU P:77 , HIS P:145
BINDING SITE FOR RESIDUE MN K 300
08
DC5
SOFTWARE
HIS K:47 , HIS K:169 , GLU K:173 , HIS P:74
BINDING SITE FOR RESIDUE MN K 301
09
DC6
SOFTWARE
GLN K:51 , HIS K:55 , LYS K:177 , ARG L:99
BINDING SITE FOR RESIDUE SO4 K 398
10
DC7
SOFTWARE
HIS I:73 , GLU I:77 , HIS I:145 , HIS L:170
BINDING SITE FOR RESIDUE MN L 300
11
DC8
SOFTWARE
HIS I:74 , HIS L:47 , HIS L:169 , GLU L:173
BINDING SITE FOR RESIDUE MN L 301
12
DC9
SOFTWARE
ARG J:99 , GLN L:51 , HIS L:55 , LYS L:177
BINDING SITE FOR RESIDUE SO4 L 398
13
EC1
SOFTWARE
HIS M:170 , HIS N:73 , GLU N:77 , HIS N:145
BINDING SITE FOR RESIDUE MN M 300
14
EC2
SOFTWARE
HIS M:47 , HIS M:169 , GLU M:173 , HIS N:74
BINDING SITE FOR RESIDUE MN M 301
15
EC3
SOFTWARE
HIS M:55 , ARG M:99 , LYS M:177
BINDING SITE FOR RESIDUE SO4 M 398
16
EC4
SOFTWARE
HIS K:73 , GLU K:77 , HIS K:145 , HIS N:170
BINDING SITE FOR RESIDUE MN N 300
17
EC5
SOFTWARE
HIS K:74 , HIS N:47 , HIS N:169 , GLU N:173
BINDING SITE FOR RESIDUE MN N 301
18
EC6
SOFTWARE
HIS N:55 , LYS N:177 , ARG O:99
BINDING SITE FOR RESIDUE SO4 N 398
19
EC7
SOFTWARE
HIS L:73 , GLU L:77 , HIS L:145 , HIS O:170
BINDING SITE FOR RESIDUE MN O 300
20
EC8
SOFTWARE
HIS L:74 , HIS O:47 , HIS O:169 , GLU O:173
BINDING SITE FOR RESIDUE MN O 301
21
EC9
SOFTWARE
GLN O:51 , HIS O:55 , LYS O:177 , ARG P:99
BINDING SITE FOR RESIDUE SO4 O 398
22
FC1
SOFTWARE
HIS M:73 , GLU M:77 , HIS M:145 , HIS P:170
BINDING SITE FOR RESIDUE MN P 300
23
FC2
SOFTWARE
HIS M:74 , HIS P:47 , HIS P:169 , GLU P:173
BINDING SITE FOR RESIDUE MN P 301
24
FC3
SOFTWARE
ARG N:99 , GLN P:51 , HIS P:55 , LYS P:177
BINDING SITE FOR RESIDUE SO4 P 398
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 48)
Info
All PROSITE Patterns/Profiles
1: IGP_DEHYDRATASE_1 (I:70-83,J:70-83,K:70-83,L:70-83,M:...)
2: IGP_DEHYDRATASE_2 (I:165-177,J:165-177,K:165-177,L:16...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IGP_DEHYDRATASE_1
PS00954
Imidazoleglycerol-phosphate dehydratase signature 1.
HIS5A_ARATH
133-146
24
-
-
-
-
-
-
-
-
I:70-83
J:70-83
K:70-83
L:70-83
M:70-83
N:70-83
O:70-83
P:70-83
2
IGP_DEHYDRATASE_2
PS00955
Imidazoleglycerol-phosphate dehydratase signature 2.
HIS5A_ARATH
228-240
24
-
-
-
-
-
-
-
-
I:165-177
J:165-177
K:165-177
L:165-177
M:165-177
N:165-177
O:165-177
P:165-177
[
close PROSITE info
]
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 32)
Info
All SCOP Domains
1a: SCOP_d2f1db1 (B:10-95)
1b: SCOP_d2f1db2 (B:96-192)
1c: SCOP_d2f1dg1 (G:10-95)
1d: SCOP_d2f1dg2 (G:96-192)
1e: SCOP_d2f1dh1 (H:10-95)
1f: SCOP_d2f1dh2 (H:96-192)
1g: SCOP_d2f1di1 (I:10-95)
1h: SCOP_d2f1di2 (I:96-192)
1i: SCOP_d2f1dj1 (J:10-95)
1j: SCOP_d2f1dj2 (J:96-192)
1k: SCOP_d2f1dk1 (K:10-95)
1l: SCOP_d2f1dk2 (K:96-192)
1m: SCOP_d2f1dc1 (C:10-95)
1n: SCOP_d2f1dl1 (L:10-95)
1o: SCOP_d2f1dl2 (L:96-192)
1p: SCOP_d2f1dm1 (M:10-95)
1q: SCOP_d2f1dm2 (M:96-192)
1r: SCOP_d2f1dn1 (N:10-95)
1s: SCOP_d2f1dn2 (N:96-192)
1t: SCOP_d2f1do1 (O:10-95)
1u: SCOP_d2f1do2 (O:96-192)
1v: SCOP_d2f1dp1 (P:10-95)
1w: SCOP_d2f1dp2 (P:96-192)
1x: SCOP_d2f1dc2 (C:96-192)
1y: SCOP_d2f1dd1 (D:10-95)
1z: SCOP_d2f1dd2 (D:96-192)
1aa: SCOP_d2f1de1 (E:10-95)
1ab: SCOP_d2f1de2 (E:96-192)
1ac: SCOP_d2f1df1 (F:10-95)
1ad: SCOP_d2f1df2 (F:96-192)
2a: SCOP_d2f1da1 (A:10-95)
2b: SCOP_d2f1da2 (A:96-192)
View:
Select:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ribosomal protein S5 domain 2-like
(306)
Superfamily
:
Ribosomal protein S5 domain 2-like
(306)
Family
:
Imidazole glycerol phosphate dehydratase
(4)
Protein domain
:
automated matches
(1)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(1)
1a
d2f1db1
B:10-95
1b
d2f1db2
B:96-192
1c
d2f1dg1
G:10-95
1d
d2f1dg2
G:96-192
1e
d2f1dh1
H:10-95
1f
d2f1dh2
H:96-192
1g
d2f1di1
I:10-95
1h
d2f1di2
I:96-192
1i
d2f1dj1
J:10-95
1j
d2f1dj2
J:96-192
1k
d2f1dk1
K:10-95
1l
d2f1dk2
K:96-192
1m
d2f1dc1
C:10-95
1n
d2f1dl1
L:10-95
1o
d2f1dl2
L:96-192
1p
d2f1dm1
M:10-95
1q
d2f1dm2
M:96-192
1r
d2f1dn1
N:10-95
1s
d2f1dn2
N:96-192
1t
d2f1do1
O:10-95
1u
d2f1do2
O:96-192
1v
d2f1dp1
P:10-95
1w
d2f1dp2
P:96-192
1x
d2f1dc2
C:96-192
1y
d2f1dd1
D:10-95
1z
d2f1dd2
D:96-192
1aa
d2f1de1
E:10-95
1ab
d2f1de2
E:96-192
1ac
d2f1df1
F:10-95
1ad
d2f1df2
F:96-192
Protein domain
:
Imidazole glycerol phosphate dehydratase
(3)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(1)
2a
d2f1da1
A:10-95
2b
d2f1da2
A:96-192
[
close SCOP info
]
CATH Domains
(1, 32)
Info
all CATH domains
1a: CATH_2f1dA02 (A:99-192)
1b: CATH_2f1dB02 (B:99-192)
1c: CATH_2f1dK02 (K:99-192)
1d: CATH_2f1dL02 (L:99-192)
1e: CATH_2f1dM02 (M:99-192)
1f: CATH_2f1dN02 (N:99-192)
1g: CATH_2f1dO02 (O:99-192)
1h: CATH_2f1dP02 (P:99-192)
1i: CATH_2f1dA01 (A:10-98)
1j: CATH_2f1dB01 (B:10-98)
1k: CATH_2f1dC01 (C:10-98)
1l: CATH_2f1dD01 (D:10-98)
1m: CATH_2f1dC02 (C:99-192)
1n: CATH_2f1dE01 (E:10-98)
1o: CATH_2f1dF01 (F:10-98)
1p: CATH_2f1dG01 (G:10-98)
1q: CATH_2f1dH01 (H:10-98)
1r: CATH_2f1dI01 (I:10-98)
1s: CATH_2f1dJ01 (J:10-98)
1t: CATH_2f1dK01 (K:10-98)
1u: CATH_2f1dL01 (L:10-98)
1v: CATH_2f1dM01 (M:10-98)
1w: CATH_2f1dN01 (N:10-98)
1x: CATH_2f1dD02 (D:99-192)
1y: CATH_2f1dO01 (O:10-98)
1z: CATH_2f1dP01 (P:10-98)
1aa: CATH_2f1dE02 (E:99-192)
1ab: CATH_2f1dF02 (F:99-192)
1ac: CATH_2f1dG02 (G:99-192)
1ad: CATH_2f1dH02 (H:99-192)
1ae: CATH_2f1dI02 (I:99-192)
1af: CATH_2f1dJ02 (J:99-192)
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
:
Ribosomal Protein S5; domain 2
(189)
Homologous Superfamily
:
Imidazole glycerol phosphate dehydratase; domain 1
(3)
Thale cress (Arabidopsis thaliana)
(1)
1a
2f1dA02
A:99-192
1b
2f1dB02
B:99-192
1c
2f1dK02
K:99-192
1d
2f1dL02
L:99-192
1e
2f1dM02
M:99-192
1f
2f1dN02
N:99-192
1g
2f1dO02
O:99-192
1h
2f1dP02
P:99-192
1i
2f1dA01
A:10-98
1j
2f1dB01
B:10-98
1k
2f1dC01
C:10-98
1l
2f1dD01
D:10-98
1m
2f1dC02
C:99-192
1n
2f1dE01
E:10-98
1o
2f1dF01
F:10-98
1p
2f1dG01
G:10-98
1q
2f1dH01
H:10-98
1r
2f1dI01
I:10-98
1s
2f1dJ01
J:10-98
1t
2f1dK01
K:10-98
1u
2f1dL01
L:10-98
1v
2f1dM01
M:10-98
1w
2f1dN01
N:10-98
1x
2f1dD02
D:99-192
1y
2f1dO01
O:10-98
1z
2f1dP01
P:10-98
1aa
2f1dE02
E:99-192
1ab
2f1dF02
F:99-192
1ac
2f1dG02
G:99-192
1ad
2f1dH02
H:99-192
1ae
2f1dI02
I:99-192
1af
2f1dJ02
J:99-192
[
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Pfam Domains
(0, 0)
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all PFAM domains
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