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2GQ2
Asym. Unit
Info
Asym.Unit (165 KB)
Biol.Unit 1 (156 KB)
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(1)
Title
:
MYCOBACTERIUM TUBERCULOSIS THYX-NADP COMPLEX
Authors
:
P. Sampathkumar, S. Turley, C. H. Sibley, W. G. Hol
Date
:
19 Apr 06 (Deposition) - 27 Jun 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
M. Tuberculosis, Thyx, Fdts, Tscp, Flavin Dependent Thymidylate Synthase, Inhibitor Design, Bivalent Drugs, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Sampathkumar, S. Turley, C. H. Sibley, W. G. Hol
Nadp+ Expels Both The Co-Factor And A Substrate Analog From The Mycobacterium Tuberculosis Thyx Active Site: Opportunities For Anti-Bacterial Drug Design.
J. Mol. Biol. V. 360 1 2006
(for further references see the
PDB file header
)
[
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Hetero Components
(6, 47)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
2a: IODIDE ION (IODa)
2b: IODIDE ION (IODb)
2c: IODIDE ION (IODc)
2d: IODIDE ION (IODd)
2e: IODIDE ION (IODe)
2f: IODIDE ION (IODf)
2g: IODIDE ION (IODg)
2h: IODIDE ION (IODh)
2i: IODIDE ION (IODi)
2j: IODIDE ION (IODj)
2k: IODIDE ION (IODk)
2l: IODIDE ION (IODl)
2m: IODIDE ION (IODm)
2n: IODIDE ION (IODn)
2o: IODIDE ION (IODo)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
3c: POTASSIUM ION (Kc)
3d: POTASSIUM ION (Kd)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
4l: SELENOMETHIONINE (MSEl)
4m: SELENOMETHIONINE (MSEm)
4n: SELENOMETHIONINE (MSEn)
4o: SELENOMETHIONINE (MSEo)
4p: SELENOMETHIONINE (MSEp)
5a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
5b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
5c: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPc)
5d: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPd)
6a: TRIETHYLENE GLYCOL (PGEa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
7
Ligand/Ion
GLYCEROL
2
IOD
15
Ligand/Ion
IODIDE ION
3
K
4
Ligand/Ion
POTASSIUM ION
4
MSE
16
Mod. Amino Acid
SELENOMETHIONINE
5
NAP
4
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
6
PGE
1
Ligand/Ion
TRIETHYLENE GLYCOL
[
close Hetero Component info
]
Sites
(28, 28)
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)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:115
BINDING SITE FOR RESIDUE IOD A 501
02
AC2
SOFTWARE
ARG A:87 , ARG D:87
BINDING SITE FOR RESIDUE IOD A 502
03
AC3
SOFTWARE
ASN A:177 , ARG D:87
BINDING SITE FOR RESIDUE IOD D 503
04
AC4
SOFTWARE
THR D:239 , GLU D:240 , GOL D:408
BINDING SITE FOR RESIDUE IOD D 505
05
AC5
SOFTWARE
VAL D:206
BINDING SITE FOR RESIDUE IOD D 507
06
AC6
SOFTWARE
ASN B:177 , ARG C:87 , GLN C:106 , ARG C:172
BINDING SITE FOR RESIDUE IOD C 509
07
AC7
SOFTWARE
ARG B:87 , ARG B:172
BINDING SITE FOR RESIDUE IOD B 510
08
AC8
SOFTWARE
HIS B:98 , HIS C:98
BINDING SITE FOR RESIDUE IOD C 511
09
AC9
SOFTWARE
HIS A:98 , HOH A:800
BINDING SITE FOR RESIDUE IOD D 512
10
BC1
SOFTWARE
HOH B:690
BINDING SITE FOR RESIDUE IOD C 513
11
BC2
SOFTWARE
ASP A:205
BINDING SITE FOR RESIDUE IOD D 514
12
BC3
SOFTWARE
GLY A:121 , VAL A:206
BINDING SITE FOR RESIDUE IOD A 515
13
BC4
SOFTWARE
NAP A:300 , NAP B:300 , HOH B:628
BINDING SITE FOR RESIDUE K C 601
14
BC5
SOFTWARE
NAP A:300 , NAP B:300
BINDING SITE FOR RESIDUE K D 602
15
BC6
SOFTWARE
NAP C:300 , NAP D:300 , HOH D:687
BINDING SITE FOR RESIDUE K A 603
16
BC7
SOFTWARE
HOH C:610 , NAP D:300
BINDING SITE FOR RESIDUE K B 604
17
BC8
SOFTWARE
TYR A:101 , SER A:102 , GLN A:103 , SER A:105 , HOH A:779 , HOH A:787 , HOH A:800 , HOH A:806 , NAP B:300 , SER C:71 , GLU C:74 , HIS C:98 , ASN C:188 , ARG C:190 , HIS C:194 , K C:601 , ARG D:95 , HIS D:96 , ARG D:97 , HIS D:98 , HIS D:194 , ARG D:199 , K D:602
BINDING SITE FOR RESIDUE NAP A 300
18
BC9
SOFTWARE
NAP A:300 , HOH A:779 , HOH A:806 , GLN B:103 , SER B:105 , HOH B:628 , HOH B:683 , ARG C:95 , HIS C:96 , ARG C:97 , HIS C:194 , ARG C:199 , K C:601 , SER D:71 , GLU D:74 , HIS D:98 , ASN D:188 , ARG D:190 , HIS D:194 , K D:602 , HOH D:634 , HOH D:676
BINDING SITE FOR RESIDUE NAP B 300
19
CC1
SOFTWARE
SER A:71 , GLU A:74 , HIS A:98 , ASN A:188 , ARG A:190 , HIS A:194 , K A:603 , PGE A:701 , HOH A:785 , ARG B:95 , HIS B:96 , ARG B:97 , HIS B:194 , ARG B:199 , TYR C:101 , SER C:102 , GLN C:103 , SER C:105 , HOH C:610 , HOH C:620 , HOH C:635 , HOH C:683 , HOH C:684 , NAP D:300 , HOH D:642
BINDING SITE FOR RESIDUE NAP C 300
20
CC2
SOFTWARE
TYR A:44 , GLY A:68 , HIS A:69 , PHE A:70 , SER A:71 , HOH A:810 , SER C:105 , NAP C:300
BINDING SITE FOR RESIDUE PGE A 701
21
CC3
SOFTWARE
ARG A:95 , HIS A:96 , ARG A:97 , HIS A:98 , HIS A:194 , ARG A:199 , K A:603 , SER B:71 , GLU B:74 , HIS B:98 , ASN B:188 , ARG B:190 , HIS B:194 , K B:604 , HOH B:611 , HOH B:680 , NAP C:300 , HOH C:635 , TYR D:101 , SER D:102 , GLN D:103 , SER D:105 , HOH D:624 , HOH D:642 , HOH D:687
BINDING SITE FOR RESIDUE NAP D 300
22
CC4
SOFTWARE
LYS A:14 , THR A:15 , GLY A:32 , SER A:77 , TYR A:189 , VAL A:222 , HOH A:766
BINDING SITE FOR RESIDUE GOL A 401
23
CC5
SOFTWARE
LYS B:14 , THR B:15 , GLY B:31 , GLY B:32 , VAL B:78 , TYR B:189 , VAL B:222 , HOH B:674
BINDING SITE FOR RESIDUE GOL B 402
24
CC6
SOFTWARE
LYS C:14 , THR C:15 , GLY C:32 , SER C:77 , TYR C:189 , VAL C:222
BINDING SITE FOR RESIDUE GOL C 403
25
CC7
SOFTWARE
LYS D:14 , THR D:15 , GLY D:32 , SER D:77 , VAL D:78 , TYR D:189 , VAL D:222
BINDING SITE FOR RESIDUE GOL D 404
26
CC8
SOFTWARE
TYR B:81 , ARG B:182 , ASP D:22 , VAL D:23 , PRO D:24 , GLN D:45 , TRP D:47
BINDING SITE FOR RESIDUE GOL D 405
27
CC9
SOFTWARE
ILE C:213 , GLU C:240 , HOH C:658 , HOH C:659
BINDING SITE FOR RESIDUE GOL C 407
28
DC1
SOFTWARE
ARG D:210 , THR D:239 , GLU D:240 , IOD D:505 , HOH D:640
BINDING SITE FOR RESIDUE GOL D 408
[
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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: THYX (A:7-233,B:7-233,C:7-233,D:7-233,A:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THYX
PS51331
Flavin-dependent thymidylate synthase (thyX) domain profile.
THYX_MYCTO
7-233
4
A:7-233
B:7-233
C:7-233
D:7-233
THYX_MYCTU
7-233
4
A:7-233
B:7-233
C:7-233
D:7-233
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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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
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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Protein & NOT Site
Protein & NOT PROSITE
Chain A
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Chain C
Chain D
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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