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5VYQ
Asym. Unit
Info
Asym.Unit (102 KB)
Biol.Unit 1 (94 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE N-FORMYLTRANSFERASE RV3404C FROM MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH YDP-QUI4N AND FOLINIC ACID
Authors
:
M. M. Dunsirn, J. B. Thoden, H. M. Holden
Date
:
26 May 17 (Deposition) - 12 Jul 17 (Release) - 12 Jul 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Formyltransferase, Deoxysugar, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. M. Dunsirn, J. B. Thoden, M. Gilbert, H. M. Holden
Biochemical Investigation Of Rv3404C From Mycobacterium Tuberculosis.
Biochemistry 2017
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Hetero Components
(9, 18)
Info
All Hetero Components
1a: DTDP-4-AMINO-4,6-DIDEOXYGLUCOSE (0FXa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
4a: 3-[4-(2-HYDROXYETHYL)PIPERAZIN-1-Y... (EP1a)
4b: 3-[4-(2-HYDROXYETHYL)PIPERAZIN-1-Y... (EP1b)
5a: N-{[4-({[(6R)-2-AMINO-5-FORMYL-4-O... (FONa)
6a: POTASSIUM ION (Ka)
7a: LITHIUM ION (LIa)
8a: SODIUM ION (NAa)
8b: SODIUM ION (NAb)
8c: SODIUM ION (NAc)
8d: SODIUM ION (NAd)
9a: THYMIDINE-5'-DIPHOSPHATE (TYDa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
0FX
1
Ligand/Ion
DTDP-4-AMINO-4,6-DIDEOXYGLUCOSE
2
CL
3
Ligand/Ion
CHLORIDE ION
3
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
4
EP1
2
Ligand/Ion
3-[4-(2-HYDROXYETHYL)PIPERAZIN-1-YL]PROPANE-1-SULFONICACID
5
FON
1
Ligand/Ion
N-{[4-({[(6R)-2-AMINO-5-FORMYL-4-OXO-1,4,5,6,7,8-HEXAHYDROPTERIDIN-6-YL]METHYL}AMINO)PHENYL]CARBONYL}-L-GLUTAMIC ACID
6
K
1
Ligand/Ion
POTASSIUM ION
7
LI
1
Ligand/Ion
LITHIUM ION
8
NA
4
Ligand/Ion
SODIUM ION
9
TYD
1
Ligand/Ion
THYMIDINE-5'-DIPHOSPHATE
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Sites
(18, 18)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:64 , GLN A:66 , ARG A:67 , PHE A:68 , ASN A:80 , TRP A:92 , ILE A:112 , ASP A:113 , GLN A:115 , LEU A:116 , ASP A:117 , LEU A:175 , LYS A:176 , 0FX A:302 , LI A:311 , HOH A:414 , HOH A:425 , HOH A:512
binding site for residue FON A 301
02
AC2
SOFTWARE
ASN A:10 , HIS A:63 , CYS A:64 , LYS A:65 , HIS A:82 , GLY A:91 , PHE A:93 , GLN A:95 , TYR A:139 , HIS A:205 , PHE A:208 , ASN A:210 , FON A:301 , LI A:311 , HOH A:425 , HOH A:433 , HOH A:477 , HOH A:486 , HOH A:489 , HOH A:500
binding site for residue 0FX A 302
03
AC3
SOFTWARE
SER A:131 , GLY A:194 , ASN A:198 , ARG A:201 , HOH A:430 , HOH A:479 , PHE B:213
binding site for residue EDO A 303
04
AC4
SOFTWARE
VAL A:225 , VAL A:226 , LEU A:227 , HOH A:488 , HOH A:514
binding site for residue EDO A 304
05
AC5
SOFTWARE
VAL A:53 , TYR A:56 , HOH A:434 , HOH A:480 , HOH A:615
binding site for residue NA A 305
06
AC6
SOFTWARE
MET A:1 , THR A:3 , ASP A:57 , HOH A:614 , HOH A:625 , HOH A:630
binding site for residue NA A 306
07
AC7
SOFTWARE
SER A:134 , GLY A:136 , ASP A:206 , HOH A:567 , HOH A:649
binding site for residue CL A 307
08
AC8
SOFTWARE
ASP A:206 , ASP A:207 , PHE A:208 , ARG A:209 , HOH A:432 , HOH A:473
binding site for residue EP1 A 308
09
AC9
SOFTWARE
ARG A:190 , SER A:217 , GLY B:191 , HOH B:622 , HOH B:657
binding site for residue CL A 309
10
AD1
SOFTWARE
TYR A:30
binding site for residue NA A 310
11
AD2
SOFTWARE
ASN A:80 , HIS A:82 , ASP A:117 , FON A:301 , 0FX A:302 , HOH A:425
binding site for residue LI A 311
12
AD3
SOFTWARE
ASN B:10 , HIS B:63 , LYS B:65 , PHE B:93 , GLN B:95 , TYR B:139 , HIS B:205 , PHE B:208 , ASN B:210 , HOH B:414 , HOH B:415 , HOH B:418 , HOH B:424 , HOH B:455 , HOH B:457 , HOH B:558
binding site for residue TYD B 301
13
AD4
SOFTWARE
PHE A:213 , SER B:131 , GLY B:194 , ASN B:198 , ARG B:201 , HOH B:412 , HOH B:500
binding site for residue EDO B 302
14
AD5
SOFTWARE
CYS B:64 , HIS B:110 , GLN B:115 , LEU B:116 , ASP B:117 , HOH B:512 , HOH B:530
binding site for residue EDO B 303
15
AD6
SOFTWARE
SER B:134 , GLY B:136 , ASP B:206 , HOH B:626 , HOH B:649
binding site for residue CL B 304
16
AD7
SOFTWARE
ASP B:206 , ASP B:207 , PHE B:208 , ARG B:209 , HOH B:464 , HOH B:565
binding site for residue EP1 B 305
17
AD8
SOFTWARE
VAL B:53 , TYR B:56 , HOH B:422 , HOH B:535 , HOH B:586 , HOH B:619
binding site for residue NA B 306
18
AD9
SOFTWARE
GLU A:111 , HOH A:648 , HOH A:658 , ASP B:74 , HOH B:470 , HOH B:538 , HOH B:553
binding site for residue K B 307
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (102 KB)
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