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3K2H
Asym. Unit
Info
Asym.Unit (189 KB)
Biol.Unit 1 (182 KB)
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(1)
Title
:
CO-CRYSTAL STRUCTURE OF DIHYDROFOLATE REDUCTASE/THYMIDYLATE SYNTHASE FROM BABESIA BOVIS WITH DUMP, PEMETREXED AND NADP
Authors
:
Seattle Structural Genomics Center For Infectious Disease (S
Date
:
30 Sep 09 (Deposition) - 13 Oct 09 (Release) - 21 Sep 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Niaid, Ssgcid, Seattle Structural Genomics Center For Infectious Disease, Alimta, Folic Acid Analog, Thya, Folate Antimetabolites, Tic-Borne Parasitic Protozoan, Babesiosis, Malaria-Like Disease, Methyltransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Begley, T. E. Edwards, A. C. Raymond, E. R. Smith, R. C. Hartley, J. Abendroth, B. Sankaran, D. D. Lorimer, P. J. Myler, B. L. Staker, L. J. Stewart
Inhibitor-Bound Complexes Of Dihydrofolate Reductase-Thymidylate Synthase From Babesia Bovis.
Acta Crystallogr. , Sect. F V. 67 1070 2011
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Hetero Components
(4, 13)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
2a: 2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO... (LYAa)
2b: 2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO... (LYAb)
2c: 2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO... (LYAc)
2d: 2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO... (LYAd)
3a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
3b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
4a: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (UMPa)
4b: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE (UMPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
2
LYA
4
Ligand/Ion
2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-PENTANEDIOICACID
3
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
4
UMP
2
Ligand/Ion
2'-DEOXYURIDINE 5'-MONOPHOSPHATE
[
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Sites
(13, 13)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:248 , LEU A:390 , CYS A:393 , HIS A:394 , GLN A:412 , ARG A:413 , SER A:414 , CYS A:415 , ASP A:416 , ASN A:424 , HIS A:454 , TYR A:456 , LYA A:513 , HOH A:566 , HOH A:730 , ARG B:373 , ARG B:374
BINDING SITE FOR RESIDUE UMP A 512
02
AC2
SOFTWARE
ALA A:278 , SER A:281 , ILE A:306 , ASN A:310 , LEU A:390 , ASP A:416 , LEU A:419 , GLY A:420 , PHE A:423 , TYR A:456 , MET A:509 , SER A:510 , UMP A:512 , HOH A:559 , HOH A:653 , HOH A:690 , HOH A:694 , HOH A:710 , HOH A:735 , HOH A:794 , HOH A:843
BINDING SITE FOR RESIDUE LYA A 513
03
AC3
SOFTWARE
PHE A:14 , VAL A:15 , ALA A:16 , ASP A:37 , PHE A:38 , ARG A:39 , LEU A:41 , ARG A:42 , SER A:77 , ARG A:83 , LEU A:123 , TYR A:129 , THR A:144 , NAP A:515 , HOH A:571 , HOH A:575 , HOH A:608 , HOH A:664
BINDING SITE FOR RESIDUE LYA A 514
04
AC4
SOFTWARE
VAL A:15 , ALA A:16 , ILE A:23 , GLY A:24 , HIS A:25 , ASN A:27 , GLN A:28 , ILE A:29 , TRP A:31 , GLY A:66 , ARG A:67 , LYS A:68 , THR A:69 , SER A:72 , LEU A:88 , SER A:89 , ARG A:90 , THR A:91 , GLU A:102 , ASP A:103 , LEU A:104 , LEU A:123 , GLY A:125 , SER A:126 , PHE A:127 , TYR A:129 , GLU A:131 , THR A:154 , LYA A:514 , HOH A:587 , HOH A:721 , ARG B:305
BINDING SITE FOR RESIDUE NAP A 515
05
AC5
SOFTWARE
GLN A:358 , GLU A:361 , ILE A:376 , HOH A:858 , TRP B:380 , VAL B:382 , LEU B:385
BINDING SITE FOR RESIDUE EDO A 516
06
AC6
SOFTWARE
TRP A:380 , VAL A:382 , LEU A:385 , ILE B:356 , GLN B:358 , GLU B:361 , ILE B:362 , ILE B:376 , HOH B:622
BINDING SITE FOR RESIDUE EDO A 517
07
AC7
SOFTWARE
ARG A:374 , ASN B:319 , ALA B:389 , PRO B:391 , HOH B:691
BINDING SITE FOR RESIDUE EDO B 517
08
AC8
SOFTWARE
ARG A:373 , ARG A:374 , ARG B:248 , LEU B:390 , CYS B:393 , HIS B:394 , GLN B:412 , ARG B:413 , SER B:414 , CYS B:415 , ASP B:416 , ASN B:424 , HIS B:454 , TYR B:456 , LYA B:513 , HOH B:544 , HOH B:717
BINDING SITE FOR RESIDUE UMP B 512
09
AC9
SOFTWARE
ALA B:278 , SER B:281 , ILE B:306 , ASN B:310 , LEU B:390 , ASP B:416 , LEU B:419 , GLY B:420 , PHE B:423 , MET B:509 , SER B:510 , UMP B:512 , HOH B:524 , HOH B:545 , HOH B:552 , HOH B:556 , HOH B:566 , HOH B:595 , HOH B:718 , HOH B:737 , HOH B:763 , HOH B:804
BINDING SITE FOR RESIDUE LYA B 513
10
BC1
SOFTWARE
PHE B:14 , VAL B:15 , ALA B:16 , ASP B:37 , PHE B:38 , ARG B:39 , LEU B:41 , ARG B:42 , LEU B:80 , ARG B:83 , LEU B:123 , THR B:144 , NAP B:515 , HOH B:534 , HOH B:629 , HOH B:713
BINDING SITE FOR RESIDUE LYA B 514
11
BC2
SOFTWARE
ARG A:305 , VAL B:15 , ALA B:16 , ILE B:23 , GLY B:24 , ASN B:27 , GLN B:28 , ILE B:29 , TRP B:31 , GLY B:66 , ARG B:67 , LYS B:68 , THR B:69 , SER B:72 , LEU B:88 , SER B:89 , ARG B:90 , THR B:91 , GLU B:102 , ASP B:103 , LEU B:123 , GLY B:125 , SER B:126 , PHE B:127 , TYR B:129 , GLU B:131 , THR B:154 , LYA B:514
BINDING SITE FOR RESIDUE NAP B 515
12
BC3
SOFTWARE
ARG A:248 , ALA A:389 , PRO A:391 , HOH A:820 , ARG B:374
BINDING SITE FOR RESIDUE EDO B 516
13
BC4
SOFTWARE
PHE A:340 , GLY A:341 , ASN A:381 , SER A:383 , PHE B:340 , GLY B:341 , ASN B:381 , SER B:383
BINDING SITE FOR RESIDUE EDO B 518
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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
(0, 0)
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3k2ha2 (A:205-511)
1b: SCOP_d3k2hb2 (B:205-511)
2a: SCOP_d3k2ha1 (A:4-187)
2b: SCOP_d3k2hb1 (B:4-187)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Thymidylate synthase/dCMP hydroxymethylase
(193)
Superfamily
:
Thymidylate synthase/dCMP hydroxymethylase
(193)
Family
:
automated matches
(10)
Protein domain
:
automated matches
(10)
Babesia bovis [TaxId: 484906]
(3)
1a
d3k2ha2
A:205-511
1b
d3k2hb2
B:205-511
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Dihydrofolate reductase-like
(332)
Superfamily
:
Dihydrofolate reductase-like
(332)
Family
:
automated matches
(76)
Protein domain
:
automated matches
(76)
Babesia bovis [TaxId: 484906]
(3)
2a
d3k2ha1
A:4-187
2b
d3k2hb1
B:4-187
[
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CATH Domains
(0, 0)
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_DHFR_1_3k2hB01 (B:10-186)
1b: PFAM_DHFR_1_3k2hB02 (B:10-186)
2a: PFAM_Thymidylat_synt_3k2hB03 (B:228-511)
2b: PFAM_Thymidylat_synt_3k2hB04 (B:228-511)
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Organisms
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(
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Clan
:
DHFred
(95)
Family
:
DHFR_1
(89)
Babesia bovis
(2)
1a
DHFR_1-3k2hB01
B:10-186
1b
DHFR_1-3k2hB02
B:10-186
Clan
:
no clan defined [family: Thymidylat_synt]
(68)
Family
:
Thymidylat_synt
(68)
Babesia bovis
(2)
2a
Thymidylat_synt-3k2hB03
B:228-511
2b
Thymidylat_synt-3k2hB04
B:228-511
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