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4KXY
Asym. Unit
Info
Asym.Unit (481 KB)
Biol.Unit 1 (473 KB)
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(1)
Title
:
HUMAN TRANSKETOLASE IN COMPLEX WITH THDP ANALOGUE (R)-2-(1,2-DIHYDROXYETHYL)-3-DEAZA-THDP
Authors
:
P. Neumann, S. Luedtke, K. M. Erixon, F. Leeper, R. Kluger, R. Ficner, K.
Date
:
28 May 13 (Deposition) - 21 Aug 13 (Release) - 04 Sep 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.26
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Thiamin Diphosphate, Enzyme Catalysis, Pentose Phosphate Pathway, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Ludtke, P. Neumann, K. M. Erixon, F. Leeper, R. Kluger, R. Ficner, K. Tittmann
Sub-Angstrom-Resolution Crystallography Reveals Physical Distortions That Enhance Reactivity Of A Covalent Enzymatic Intermediate.
Nat Chem V. 5 762 2013
[
close entry info
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Hetero Components
(5, 35)
Info
All Hetero Components
1a: 2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5... (1U0a)
1b: 2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5... (1U0b)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: 1,2-ETHANEDIOL (EDOa)
3aa: 1,2-ETHANEDIOL (EDOaa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
3q: 1,2-ETHANEDIOL (EDOq)
3r: 1,2-ETHANEDIOL (EDOr)
3s: 1,2-ETHANEDIOL (EDOs)
3t: 1,2-ETHANEDIOL (EDOt)
3u: 1,2-ETHANEDIOL (EDOu)
3v: 1,2-ETHANEDIOL (EDOv)
3w: 1,2-ETHANEDIOL (EDOw)
3x: 1,2-ETHANEDIOL (EDOx)
3y: 1,2-ETHANEDIOL (EDOy)
3z: 1,2-ETHANEDIOL (EDOz)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1U0
2
Ligand/Ion
2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-5-[(1R)-1,2-DIHYDROXYETHYL]-3-METHYLTHIOPHEN-2-YL}ETHYLTRIHYDROGEN DIPHOSPHATE
2
CA
2
Ligand/Ion
CALCIUM ION
3
EDO
27
Ligand/Ion
1,2-ETHANEDIOL
4
NA
2
Ligand/Ion
SODIUM ION
5
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(35, 35)
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)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:423 , LYS A:597 , HOH A:8169 , HOH A:8187 , ALA B:33 , ARG B:101 , LYS B:102 , HOH B:1549
BINDING SITE FOR RESIDUE EDO A 701
02
AC2
SOFTWARE
ARG A:21 , ALA A:84 , GLU A:88 , GLU A:94 , LEU A:97 , HOH A:8490 , HOH A:8519
BINDING SITE FOR RESIDUE EDO A 702
03
AC3
SOFTWARE
PHE A:71 , VAL A:72 , LEU A:73 , LEU A:82 , PHE A:117 , THR A:118 , HOH A:8072 , HOH A:8088 , HOH A:8130
BINDING SITE FOR RESIDUE EDO A 703
04
AC4
SOFTWARE
TYR A:564 , ALA A:588 , ASN A:590 , HOH A:8071 , HOH A:8079 , HOH A:8137 , HOH A:8638
BINDING SITE FOR RESIDUE EDO A 704
05
AC5
SOFTWARE
GLN A:189 , SER A:256 , TRP A:257 , HIS A:258 , HOH A:8056 , HOH A:8357 , ASN B:344
BINDING SITE FOR RESIDUE EDO A 705
06
AC6
SOFTWARE
PRO A:63 , ASN A:68 , ASP A:69 , ARG A:70 , PHE A:71 , ARG A:379 , HOH A:8241
BINDING SITE FOR RESIDUE EDO A 706
07
AC7
SOFTWARE
ASP A:155 , ASN A:185 , LEU A:187 , 1U0 A:709 , HOH A:8484
BINDING SITE FOR RESIDUE CA A 707
08
AC8
SOFTWARE
ASN A:411 , ALA A:461 , THR A:464 , CYS A:468 , HOH A:8041 , HOH A:8042
BINDING SITE FOR RESIDUE NA A 708
09
AC9
SOFTWARE
HIS A:37 , SER A:40 , LYS A:75 , HIS A:77 , HIS A:110 , GLY A:123 , SER A:124 , LEU A:125 , GLY A:154 , ASP A:155 , GLY A:156 , GLU A:157 , GLU A:160 , ASN A:185 , LEU A:187 , GLN A:189 , LYS A:244 , HIS A:258 , CA A:707 , HOH A:8053 , HOH A:8484 , HOH A:8571 , ILE B:364 , GLU B:366 , PHE B:392 , ARG B:395 , ASP B:424 , GLN B:428 , HOH B:1328
BINDING SITE FOR RESIDUE 1U0 A 709
10
BC1
SOFTWARE
GLU A:165 , PHE A:169 , CYS A:362 , ASN A:368 , HOH A:8281 , HOH A:8553 , SER B:159 , EDO B:1008
BINDING SITE FOR RESIDUE EDO A 710
11
BC2
SOFTWARE
GLN A:10 , HOH A:8273
BINDING SITE FOR RESIDUE EDO A 711
12
BC3
SOFTWARE
TYR A:137 , TYR A:141 , TYR A:173 , HOH A:8383 , HOH A:8486 , HOH A:8688
BINDING SITE FOR RESIDUE EDO A 712
13
BC4
SOFTWARE
LEU A:158 , SER A:159 , TRP A:164 , HOH A:8238 , HOH A:8437 , TRP B:164 , GLU B:165 , PHE B:209
BINDING SITE FOR RESIDUE EDO A 713
14
BC5
SOFTWARE
LEU A:92 , LEU A:107 , GLN A:115 , HOH A:8082 , HOH A:8134 , HOH A:8183
BINDING SITE FOR RESIDUE EDO A 714
15
BC6
SOFTWARE
PRO A:475 , ASN A:477 , VAL A:510 , GLU A:514 , PRO A:598 , LEU A:602 , HOH A:8109 , HOH A:8340
BINDING SITE FOR RESIDUE EDO A 715
16
BC7
SOFTWARE
ARG A:318 , SER A:345 , HIS A:416 , ARG A:474 , HOH A:8126 , HOH A:8284 , HOH A:8365 , HOH A:8659
BINDING SITE FOR RESIDUE SO4 A 716
17
BC8
SOFTWARE
GLN A:127 , ALA A:131 , SER A:371 , VAL A:374 , GLN A:399 , ALA A:403 , HOH A:8112
BINDING SITE FOR RESIDUE EDO A 717
18
BC9
SOFTWARE
ASP A:333 , ARG A:358 , HOH A:8602
BINDING SITE FOR RESIDUE EDO A 718
19
CC1
SOFTWARE
ARG B:21 , ALA B:84 , GLU B:88 , GLU B:94 , LEU B:97 , LYS B:283 , HOH B:1514 , HOH B:1615
BINDING SITE FOR RESIDUE EDO B 1001
20
CC2
SOFTWARE
TYR B:564 , ALA B:588 , ASN B:590 , HOH B:1142 , HOH B:1169 , HOH B:1429 , HOH B:1454
BINDING SITE FOR RESIDUE EDO B 1002
21
CC3
SOFTWARE
PRO B:63 , ASN B:68 , ASP B:69 , ARG B:70 , PHE B:71 , ARG B:379 , HOH B:1705
BINDING SITE FOR RESIDUE EDO B 1003
22
CC4
SOFTWARE
PHE B:71 , VAL B:72 , LEU B:73 , LEU B:82 , PHE B:117 , THR B:118 , HOH B:1150 , HOH B:1160 , HOH B:1215
BINDING SITE FOR RESIDUE EDO B 1004
23
CC5
SOFTWARE
ASN A:344 , GLN B:189 , SER B:256 , TRP B:257 , HIS B:258 , HOH B:1153 , HOH B:1374
BINDING SITE FOR RESIDUE EDO B 1005
24
CC6
SOFTWARE
ASP A:341 , ILE A:364 , GLU A:366 , PHE A:392 , ARG A:395 , ASP A:424 , GLN A:428 , HIS B:37 , SER B:40 , LYS B:75 , HIS B:77 , HIS B:110 , GLY B:123 , SER B:124 , LEU B:125 , GLY B:154 , ASP B:155 , GLY B:156 , GLU B:157 , GLU B:160 , ASN B:185 , LEU B:187 , GLN B:189 , LYS B:244 , HIS B:258 , CA B:1007 , HOH B:1101 , HOH B:1122 , HOH B:1320 , HOH B:1334
BINDING SITE FOR RESIDUE 1U0 B 1006
25
CC7
SOFTWARE
ASP B:155 , ASN B:185 , LEU B:187 , 1U0 B:1006 , HOH B:1101
BINDING SITE FOR RESIDUE CA B 1007
26
CC8
SOFTWARE
TRP A:164 , GLU A:165 , PHE A:209 , EDO A:710 , LEU B:158 , SER B:159 , TRP B:164 , EDO B:1009
BINDING SITE FOR RESIDUE EDO B 1008
27
CC9
SOFTWARE
LEU B:158 , TRP B:164 , ARG B:205 , EDO B:1008 , HOH B:1172 , HOH B:1202
BINDING SITE FOR RESIDUE EDO B 1009
28
DC1
SOFTWARE
GLN B:10 , HOH B:1426
BINDING SITE FOR RESIDUE EDO B 1010
29
DC2
SOFTWARE
ALA A:33 , ARG A:101 , LYS A:102 , HOH A:8546 , GLU B:423 , LYS B:597 , HOH B:1354 , HOH B:1455
BINDING SITE FOR RESIDUE EDO B 1011
30
DC3
SOFTWARE
LEU B:92 , LEU B:107 , GLN B:115 , HOH B:1176 , HOH B:1189 , HOH B:1228
BINDING SITE FOR RESIDUE EDO B 1012
31
DC4
SOFTWARE
HOH A:8624 , ARG B:318 , SER B:345 , HIS B:416 , ARG B:474 , HOH B:1208 , HOH B:1299 , HOH B:1720 , HOH B:1724
BINDING SITE FOR RESIDUE SO4 B 1013
32
DC5
SOFTWARE
ASN B:411 , ALA B:461 , THR B:464 , CYS B:468 , HOH B:1131 , HOH B:1166
BINDING SITE FOR RESIDUE NA B 1014
33
DC6
SOFTWARE
PRO A:441 , LYS A:538 , HOH A:8347 , HOH A:8652 , TYR B:563 , TYR B:564 , GLU B:565 , VAL B:589 , ASN B:590 , HOH B:1295 , HOH B:1381
BINDING SITE FOR RESIDUE EDO B 1015
34
DC7
SOFTWARE
GLN B:127 , ALA B:131 , SER B:371 , HOH B:1240
BINDING SITE FOR RESIDUE EDO B 1016
35
DC8
SOFTWARE
TYR B:137 , TYR B:141 , TYR B:173 , HOH B:1421 , HOH B:1589 , HOH B:1680
BINDING SITE FOR RESIDUE EDO B 1017
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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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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select residue range 5 to 10 in chain 'A'
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Asym.Unit (481 KB)
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