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1W29
Asym. Unit
Info
Asym.Unit (132 KB)
Biol.Unit 1 (238 KB)
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(1)
Title
:
LUMAZINE SYNTHASE FROM MYCOBACTERIUM TUBERCULOSIS BOUND TO 3-(1,3,7-TRIHYDRO-9-D-RIBITYL-2,6,8-PURINETRIONE-7-YL) BUTANE 1-PHOSPHATE
Authors
:
E. Morgunova, W. Meining, B. Illarionov, I. Haase, M. Fischer, M. Cushm A. Bacher, R. Ladenstein
Date
:
01 Jul 04 (Deposition) - 03 Mar 05 (Release) - 13 Jul 11 (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
:
Transferase, Riboflavin Biosynthesis, Lumazine Synthase, Inhibitor Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Morgunova, W. Meining, B. Illarionov, I. Haase, G. Jin, A. Bacher, M. Cushman, M. Fischer, R. Ladenstein
Crystal Structure Of Lumazine Synthase From Mycobacterium Tuberculosis As A Target For Rational Drug Design: Binding Mode Of A New Class Of Purinetrione Inhibitors(, )
Biochemistry V. 44 2746 2005
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Hetero Components
(5, 23)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
2a: (4S,5S)-1,2-DITHIANE-4,5-DIOL (D1Da)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
3c: POTASSIUM ION (Kc)
3d: POTASSIUM ION (Kd)
3e: POTASSIUM ION (Ke)
3f: POTASSIUM ION (Kf)
3g: POTASSIUM ION (Kg)
3h: POTASSIUM ION (Kh)
3i: POTASSIUM ION (Ki)
3j: POTASSIUM ION (Kj)
3k: POTASSIUM ION (Kk)
3l: POTASSIUM ION (Kl)
3m: POTASSIUM ION (Km)
4a: 4-{2,6,8-TRIOXO-9-[(2S,3R,4R)-2,3,... (TS0a)
5a: 4-{2,6,8-TRIOXO-9-[(2R,3S,4R)-2,3,... (TS1a)
5b: 4-{2,6,8-TRIOXO-9-[(2R,3S,4R)-2,3,... (TS1b)
5c: 4-{2,6,8-TRIOXO-9-[(2R,3S,4R)-2,3,... (TS1c)
5d: 4-{2,6,8-TRIOXO-9-[(2R,3S,4R)-2,3,... (TS1d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
4
Ligand/Ion
ACETIC ACID
2
D1D
1
Ligand/Ion
(4S,5S)-1,2-DITHIANE-4,5-DIOL
3
K
13
Ligand/Ion
POTASSIUM ION
4
TS0
1
Ligand/Ion
4-{2,6,8-TRIOXO-9-[(2S,3R,4R)-2,3,4,5-TETRAHYDROXYPENTYL]-1,2,3,6,8,9-HEXAHYDRO-7H-PURIN-7-YL}BUTYL DIHYDROGEN PHOSPHATE
5
TS1
4
Ligand/Ion
4-{2,6,8-TRIOXO-9-[(2R,3S,4R)-2,3,4,5-TETRAHYDROXYPENTYL]-1,2,3,6,8,9-HEXAHYDRO-7H-PURIN-7-YL}BUTYL DIHYDROGEN PHOSPHATE
[
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Sites
(22, 22)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:34 , GLY A:38 , ALA A:129 , GLY A:130 , ASP A:137 , HOH A:2013 , HOH B:2029
BINDING SITE FOR RESIDUE K A1163
02
AC2
SOFTWARE
ALA A:70 , HIS A:73 , THR A:110 , HOH A:2048
BINDING SITE FOR RESIDUE K A1164
03
AC3
SOFTWARE
GLU A:155 , LEU A:156 , ARG A:157 , HIS A:159
BINDING SITE FOR RESIDUE K A1165
04
AC4
SOFTWARE
HOH A:2023 , ALA B:34 , GLY B:38 , ALA B:129 , GLY B:130 , ASP B:137 , HOH B:2027
BINDING SITE FOR RESIDUE K B1163
05
AC5
SOFTWARE
ALA B:70 , HIS B:73 , THR B:110 , HOH B:2056 , HOH B:2076
BINDING SITE FOR RESIDUE K B1164
06
AC6
SOFTWARE
GLU B:155 , LEU B:156 , ARG B:157 , LEU E:156 , ARG E:157
BINDING SITE FOR RESIDUE K B1165
07
AC7
SOFTWARE
ALA C:34 , ALA C:129 , GLY C:130 , ASP C:137
BINDING SITE FOR RESIDUE K C1162
08
AC8
SOFTWARE
ALA C:70 , HIS C:73 , THR C:110 , HOH C:2017 , HOH C:2058
BINDING SITE FOR RESIDUE K C1163
09
AC9
SOFTWARE
GLU C:155 , LEU C:156 , ARG C:157 , HOH C:2077 , GLU D:155 , LEU D:156 , ARG D:157 , HIS D:159
BINDING SITE FOR RESIDUE K C1164
10
BC1
SOFTWARE
ALA D:34 , ALA D:129 , GLY D:130 , ASP D:137
BINDING SITE FOR RESIDUE K D1163
11
BC2
SOFTWARE
ALA D:70 , HIS D:73 , THR D:110 , HOH D:2053
BINDING SITE FOR RESIDUE K D1164
12
BC3
SOFTWARE
ALA E:34 , ALA E:129 , GLY E:130 , ASP E:137
BINDING SITE FOR RESIDUE K E1163
13
BC4
SOFTWARE
ALA E:70 , HIS E:73 , THR E:110 , HOH E:2053
BINDING SITE FOR RESIDUE K E1164
14
BC5
SOFTWARE
TRP A:27 , HIS A:28 , GLY A:58 , ALA A:59 , ILE A:60 , GLU A:61 , VAL A:81 , VAL A:82 , ILE A:83 , GLY A:85 , GLN A:86 , THR A:87 , HIS A:89 , HOH A:2062 , HOH A:2110 , HOH A:2111 , HOH A:2113 , HOH A:2114 , ALA B:113 , ASN B:114 , ARG B:128 , LYS B:138 , HOH B:2093
BINDING SITE FOR RESIDUE TS1 A1162
15
BC6
SOFTWARE
TRP B:27 , HIS B:28 , ALA B:59 , ILE B:60 , GLU B:61 , VAL B:81 , VAL B:82 , ILE B:83 , GLY B:85 , GLN B:86 , THR B:87 , HOH B:2010 , HOH B:2063 , HOH B:2101 , HOH B:2102 , HOH B:2103 , ALA C:113 , ASN C:114 , ARG C:128 , LYS C:138
BINDING SITE FOR RESIDUE TS1 B1162
16
BC7
SOFTWARE
TRP C:27 , HIS C:28 , ALA C:59 , ILE C:60 , GLU C:61 , VAL C:81 , VAL C:82 , ILE C:83 , GLY C:85 , GLN C:86 , THR C:87 , HIS C:89 , HOH C:2082 , HOH C:2083 , ALA D:113 , ASN D:114 , ARG D:128 , LYS D:138 , HOH D:2073
BINDING SITE FOR RESIDUE TS1 C1161
17
BC8
SOFTWARE
TRP D:27 , HIS D:28 , GLY D:58 , ALA D:59 , ILE D:60 , GLU D:61 , VAL D:81 , VAL D:82 , ILE D:83 , GLY D:85 , GLN D:86 , THR D:87 , HOH D:2004 , HOH D:2079 , HOH D:2080 , ALA E:113 , ASN E:114 , ARG E:128 , LYS E:138 , HOH E:2059
BINDING SITE FOR RESIDUE TS0 D1162
18
BC9
SOFTWARE
ALA A:113 , ASN A:114 , ARG A:128 , LYS A:138 , HOH A:2099 , TRP E:27 , HIS E:28 , GLY E:58 , ALA E:59 , ILE E:60 , GLU E:61 , VAL E:81 , VAL E:82 , ILE E:83 , GLY E:85 , GLN E:86 , THR E:87 , HOH E:2046 , HOH E:2086 , HOH E:2087
BINDING SITE FOR RESIDUE TS1 E1162
19
CC1
SOFTWARE
LYS D:41 , VAL D:42 , GLY D:45 , CYS D:46 , GLY E:45 , CYS E:46
BINDING SITE FOR RESIDUE D1D E1165
20
CC2
SOFTWARE
VAL A:56 , LEU A:57 , HOH A:2109
BINDING SITE FOR RESIDUE ACY A1161
21
CC3
SOFTWARE
ARG B:55 , HOH B:2100
BINDING SITE FOR RESIDUE ACY B1161
22
CC4
SOFTWARE
VAL E:56 , LEU E:57
BINDING SITE FOR RESIDUE ACY E1161
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
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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
(0, 0)
Info
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CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_1w29B00 (B:14-160)
1b: CATH_1w29A00 (A:15-160)
1c: CATH_1w29C00 (C:15-160)
1d: CATH_1w29D00 (D:15-160)
1e: CATH_1w29E00 (E:15-160)
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(
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.960, no name defined]
(36)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(8)
1a
1w29B00
B:14-160
1b
1w29A00
A:15-160
1c
1w29C00
C:15-160
1d
1w29D00
D:15-160
1e
1w29E00
E:15-160
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Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_DMRL_synthase_1w29E01 (E:15-156)
1b: PFAM_DMRL_synthase_1w29E02 (E:15-156)
1c: PFAM_DMRL_synthase_1w29E03 (E:15-156)
1d: PFAM_DMRL_synthase_1w29E04 (E:15-156)
1e: PFAM_DMRL_synthase_1w29E05 (E:15-156)
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(
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Organisms
(
)
(
)
Clan
:
no clan defined [family: DMRL_synthase]
(19)
Family
:
DMRL_synthase
(19)
Mycobacterium tuberculosis
(3)
1a
DMRL_synthase-1w29E01
E:15-156
1b
DMRL_synthase-1w29E02
E:15-156
1c
DMRL_synthase-1w29E03
E:15-156
1d
DMRL_synthase-1w29E04
E:15-156
1e
DMRL_synthase-1w29E05
E:15-156
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