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5ESO
Asym. Unit
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Asym.Unit (349 KB)
Biol.Unit 1 (341 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF M. TUBERCULOSIS MEND WITH THDP, MG2+ AND ISOCHORISMATE BOUND
Authors
:
J. M. Johnston, E. N. M. Jirgis, G. Bashiri, E. M. M. Bulloch, E. N. Baker
Date
:
16 Nov 15 (Deposition) - 22 Jun 16 (Release) - 20 Jul 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Menaquinone Biosynthesis, Mend, 2-Succinyl-5-Enolpyruvyl-6-Hydroxy-3- Cyclohexadiene-1-Carboxylate Synthase, Thiamin-Diphosphate Dependent Enzyme, Pyruvate Oxidase Family, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. N. Jirgis, G. Bashiri, E. M. Bulloch, J. M. Johnston, E. N. Baker
Structural Views Along The Mycobacterium Tuberculosis Mend Reaction Pathway Illuminate Key Aspects Of Thiamin Diphosphate-Dependent Enzyme Mechanisms.
Structure V. 24 1167 2016
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Hetero Components
(6, 19)
Info
All Hetero Components
1a: BETA-MERCAPTOETHANOL (BMEa)
1b: BETA-MERCAPTOETHANOL (BMEb)
2a: FORMIC ACID (FMTa)
2b: FORMIC ACID (FMTb)
2c: FORMIC ACID (FMTc)
2d: FORMIC ACID (FMTd)
2e: FORMIC ACID (FMTe)
2f: FORMIC ACID (FMTf)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
4a: (5S,6S)-5-[(1-CARBOXYETHENYL)OXY]-... (ISCa)
4b: (5S,6S)-5-[(1-CARBOXYETHENYL)OXY]-... (ISCb)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
6a: THIAMIN DIPHOSPHATE (TDPa)
6b: THIAMIN DIPHOSPHATE (TDPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BME
2
Ligand/Ion
BETA-MERCAPTOETHANOL
2
FMT
6
Ligand/Ion
FORMIC ACID
3
GOL
3
Ligand/Ion
GLYCEROL
4
ISC
2
Ligand/Ion
(5S,6S)-5-[(1-CARBOXYETHENYL)OXY]-6-HYDROXYCYCLOHEXA-1,3-DIENE-1-CARBOXYLIC ACID
5
MG
4
Ligand/Ion
MAGNESIUM ION
6
TDP
2
Ligand/Ion
THIAMIN DIPHOSPHATE
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Sites
(19, 19)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:440 , ASP A:469 , HOH A:823 , HOH A:835 , HOH A:899 , HOH A:904
binding site for residue MG A 601
02
AC2
SOFTWARE
GLY A:28 , SER A:29 , ARG A:30 , THR A:78 , ARG A:107 , ASN A:117 , GLN A:118 , HOH A:736 , HOH A:758 , ARG D:282 , ARG D:381 , LEU D:478
binding site for residue ISC A 602
03
AC3
SOFTWARE
ARG A:97 , THR A:299 , PRO A:305
binding site for residue FMT A 603
04
AC4
SOFTWARE
THR A:245 , VAL A:246 , ALA A:247 , ARG A:253 , PRO A:258 , LEU A:259
binding site for residue GOL A 604
05
AC5
SOFTWARE
GLU A:140 , ALA A:142 , THR A:146 , LEU A:149 , TRP A:153
binding site for residue GOL A 605
06
AC6
SOFTWARE
ASP B:440 , ASP B:469 , GLY B:471 , FMT B:604 , HOH B:701 , HOH B:850
binding site for residue MG B 601
07
AC7
SOFTWARE
GLY B:28 , SER B:29 , ARG B:30 , THR B:78 , ARG B:107 , GLN B:118 , HOH B:711 , HOH B:786 , HOH B:832 , ARG C:282 , ARG C:381 , LEU C:478 , TDP C:605
binding site for residue ISC B 602
08
AC8
SOFTWARE
GLU B:140 , ALA B:142 , THR B:146 , TRP B:153
binding site for residue FMT B 603
09
AC9
SOFTWARE
GLY B:439 , ASP B:440 , LEU B:441 , THR B:442 , MG B:601 , HOH B:701
binding site for residue FMT B 604
10
AD1
SOFTWARE
THR B:245 , ALA B:247 , ARG B:253 , PRO B:258 , LEU B:259 , HOH B:713 , HOH B:738
binding site for residue GOL B 605
11
AD2
SOFTWARE
ASP C:440 , ASP C:469 , GLY C:471 , TDP C:605 , HOH C:730
binding site for residue MG C 601
12
AD3
SOFTWARE
ASN B:117 , ALA C:376 , SER C:377 , ARG C:381 , ARG C:399 , ALA C:402
binding site for residue FMT C 602
13
AD4
SOFTWARE
ARG C:394 , ARG C:396
binding site for residue FMT C 603
14
AD5
SOFTWARE
ILE C:393 , ARG C:394 , VAL C:395 , ARG C:396 , HOH C:741
binding site for residue FMT C 604
15
AD6
SOFTWARE
PRO B:27 , GLU B:55 , THR B:81 , ISC B:602 , SER C:377 , ASN C:378 , PRO C:379 , ALA C:402 , GLY C:403 , ILE C:404 , ASP C:405 , GLY C:439 , ASP C:440 , LEU C:441 , THR C:442 , ASP C:469 , GLY C:471 , GLY C:472 , GLY C:473 , ILE C:474 , PHE C:475 , MG C:601 , HOH C:730 , HOH C:731 , HOH C:824
binding site for residue TDP C 605
16
AD7
SOFTWARE
LEU C:25 , CYS C:26 , GLU C:55 , ALA C:58 , ALA C:76 , ALA C:82 , LEU C:86
binding site for residue BME C 606
17
AD8
SOFTWARE
ASP D:440 , ASP D:469 , GLY D:471 , TDP D:602 , HOH D:715
binding site for residue MG D 601
18
AD9
SOFTWARE
PRO A:27 , GLU A:55 , HOH A:813 , SER D:377 , ASN D:378 , PRO D:379 , ALA D:402 , GLY D:403 , ILE D:404 , ASP D:405 , GLY D:439 , ASP D:440 , LEU D:441 , THR D:442 , ASP D:469 , GLY D:471 , GLY D:472 , GLY D:473 , ILE D:474 , MG D:601 , HOH D:715
binding site for residue TDP D 602
19
AE1
SOFTWARE
LEU D:25 , CYS D:26 , ALA D:76 , MET D:77 , THR D:78 , ALA D:82
binding site for residue BME D 603
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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Exons
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Asymmetric Unit 1
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Asym.Unit (349 KB)
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