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1G0R
Biol. Unit 1
Info
Asym.Unit (873 KB)
Biol.Unit 1 (439 KB)
Biol.Unit 2 (433 KB)
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Title
:
THE STRUCTURAL BASIS OF THE CATALYTIC MECHANISM AND REGULATION OF GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE (RMLA). THYMIDINE/GLUCOSE-1-PHOSPHATE COMPLEX.
Authors
:
W. Blankenfeldt, M. Asuncion, J. S. Lam, J. H. Naismith
Date
:
07 Oct 00 (Deposition) - 27 Dec 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.87
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
L-Rhamnose, Nucleotidyltransferase, Pyrophosphorylase, Thymidylyltransferase, Allostery, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Blankenfeldt, M. Asuncion, J. S. Lam, J. H. Naismith
The Structural Basis Of The Catalytic Mechanism And Regulation Of Glucose-1-Phosphate Thymidylyltransferase (Rmla).
Embo J. V. 19 6652 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 24)
Info
All Hetero Components
1a: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pa)
1b: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pb)
1c: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pc)
1d: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pd)
1e: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pe)
1f: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pf)
1g: ALPHA-D-GLUCOSE-1-PHOSPHATE (G1Pg)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
2v: SULFATE ION (SO4v)
2w: SULFATE ION (SO4w)
3a: THYMIDINE (THMa)
3b: THYMIDINE (THMb)
3c: THYMIDINE (THMc)
3d: THYMIDINE (THMd)
3e: THYMIDINE (THMe)
3f: THYMIDINE (THMf)
3g: THYMIDINE (THMg)
3h: THYMIDINE (THMh)
3i: THYMIDINE (THMi)
3j: THYMIDINE (THMj)
3k: THYMIDINE (THMk)
3l: THYMIDINE (THMl)
3m: THYMIDINE (THMm)
3n: THYMIDINE (THMn)
3o: THYMIDINE (THMo)
3p: THYMIDINE (THMp)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
G1P
4
Ligand/Ion
ALPHA-D-GLUCOSE-1-PHOSPHATE
2
SO4
12
Ligand/Ion
SULFATE ION
3
THM
8
Ligand/Ion
THYMIDINE
[
close Hetero Component info
]
Sites
(25, 25)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC8 (SOFTWARE)
06: AC9 (SOFTWARE)
07: BC1 (SOFTWARE)
08: BC2 (SOFTWARE)
09: BC3 (SOFTWARE)
10: BC4 (SOFTWARE)
11: BC5 (SOFTWARE)
12: BC6 (SOFTWARE)
13: BC7 (SOFTWARE)
14: BC8 (SOFTWARE)
15: BC9 (SOFTWARE)
16: CC7 (SOFTWARE)
17: DC2 (SOFTWARE)
18: DC4 (SOFTWARE)
19: DC5 (SOFTWARE)
20: DC6 (SOFTWARE)
21: DC7 (SOFTWARE)
22: EC3 (SOFTWARE)
23: EC4 (SOFTWARE)
24: EC5 (SOFTWARE)
25: EC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:88 , LEU A:108 , ASN A:111 , TYR A:145 , GLY A:146 , GLU A:161 , LYS A:162 , VAL A:172 , THR A:200 , TRP A:223 , THM A:2530 , HOH A:2564 , HOH A:2623 , HOH A:2688 , HOH A:2818
BINDING SITE FOR RESIDUE G1P A 2500
02
AC2
SOFTWARE
LEU B:88 , ASN B:111 , TYR B:145 , GLY B:146 , GLU B:161 , LYS B:162 , VAL B:172 , THM B:2531 , HOH B:2608 , HOH B:2627 , HOH B:2846
BINDING SITE FOR RESIDUE G1P B 2501
03
AC3
SOFTWARE
ASN C:111 , TYR C:145 , GLY C:146 , GLU C:161 , LYS C:162 , VAL C:172 , ARG C:194 , THR C:200 , TRP C:223 , THM C:2532 , HOH C:2615 , HOH C:2812
BINDING SITE FOR RESIDUE G1P C 2502
04
AC4
SOFTWARE
LEU D:88 , LEU D:108 , ASN D:111 , TYR D:145 , GLY D:146 , GLU D:161 , LYS D:162 , VAL D:172 , TRP D:223 , THM D:2533 , HOH D:2562
BINDING SITE FOR RESIDUE G1P D 2503
05
AC8
SOFTWARE
SER A:12 , GLY A:13 , THR A:14 , ARG A:15 , HOH A:2728 , HOH A:2824
BINDING SITE FOR RESIDUE SO4 A 2507
06
AC9
SOFTWARE
HIS A:116 , ASP A:117 , THM A:2538 , HOH A:2592 , HOH A:2621 , HOH A:2749 , HOH A:2782 , HOH A:2806 , GLY C:218 , ARG C:219 , GLY C:220
BINDING SITE FOR RESIDUE SO4 A 2508
07
BC1
SOFTWARE
ASP C:151 , GLN C:152 , HOH C:2620 , HOH C:2745 , ARG G:128 , GLU G:215 , HOH G:2613
BINDING SITE FOR RESIDUE SO4 C 2509
08
BC2
SOFTWARE
SER B:12 , GLY B:13 , THR B:14 , ARG B:15 , LYS B:25 , HOH B:2813
BINDING SITE FOR RESIDUE SO4 B 2510
09
BC3
SOFTWARE
HIS B:116 , ASP B:117 , THM B:2539 , HOH B:2588 , HOH B:2698 , HOH B:2705 , HOH B:2772 , HOH B:2776 , GLY D:218 , ARG D:219 , GLY D:220
BINDING SITE FOR RESIDUE SO4 B 2511
10
BC4
SOFTWARE
ASP D:151 , GLN D:152 , HOH D:2614 , HOH D:2725 , HOH D:2798 , ARG H:128 , GLU H:215 , HOH H:2623
BINDING SITE FOR RESIDUE SO4 D 2512
11
BC5
SOFTWARE
GLY A:218 , ARG A:219 , GLY A:220 , HIS C:116 , ASP C:117 , THM C:2540 , HOH C:2566 , HOH C:2609 , HOH C:2685 , HOH C:2776
BINDING SITE FOR RESIDUE SO4 C 2513
12
BC6
SOFTWARE
ARG C:62 , ARG D:62 , HOH D:2638
BINDING SITE FOR RESIDUE SO4 D 2514
13
BC7
SOFTWARE
ARG C:128 , GLN C:129 , THR C:130
BINDING SITE FOR RESIDUE SO4 C 2515
14
BC8
SOFTWARE
GLY B:218 , ARG B:219 , GLY B:220 , HIS D:116 , ASP D:117 , THM D:2541 , HOH D:2558 , HOH D:2598 , HOH D:2635 , HOH D:2705
BINDING SITE FOR RESIDUE SO4 D 2516
15
BC9
SOFTWARE
GLN D:127 , ARG D:128 , GLN D:129 , THR D:130
BINDING SITE FOR RESIDUE SO4 D 2517
16
CC7
SOFTWARE
ARG A:128 , GLU A:215 , HOH A:2690 , HOH A:2775 , ASP F:151 , GLN F:152 , HOH F:2719 , HOH F:2784
BINDING SITE FOR RESIDUE SO4 F 2524
17
DC2
SOFTWARE
ARG B:128 , GLU B:215 , HOH B:2606 , HOH B:2723 , ASP E:151 , GLN E:152
BINDING SITE FOR RESIDUE SO4 B 2528
18
DC4
SOFTWARE
LEU A:8 , GLY A:10 , GLY A:11 , GLN A:26 , GLN A:82 , PRO A:85 , ASP A:86 , GLY A:87 , LEU A:88 , GLY A:109 , ASP A:110 , G1P A:2500 , HOH A:2824
BINDING SITE FOR RESIDUE THM A 2530
19
DC5
SOFTWARE
LEU B:8 , GLY B:10 , GLY B:11 , GLN B:26 , GLN B:82 , PRO B:85 , ASP B:86 , GLY B:87 , GLY B:109 , ASP B:110 , GLU B:196 , G1P B:2501
BINDING SITE FOR RESIDUE THM B 2531
20
DC6
SOFTWARE
LEU C:8 , GLY C:10 , GLY C:11 , GLN C:26 , GLN C:82 , PRO C:85 , ASP C:86 , GLY C:87 , LEU C:88 , GLY C:109 , ASP C:110 , G1P C:2502
BINDING SITE FOR RESIDUE THM C 2532
21
DC7
SOFTWARE
LEU D:8 , ALA D:9 , GLY D:10 , GLY D:11 , GLN D:26 , GLN D:82 , PRO D:85 , ASP D:86 , GLY D:87 , LEU D:88 , GLY D:109 , ASP D:110 , G1P D:2503
BINDING SITE FOR RESIDUE THM D 2533
22
EC3
SOFTWARE
LEU A:45 , TYR A:114 , GLY A:115 , VAL A:250 , ALA A:251 , GLU A:255 , ILE A:256 , ARG A:259 , SO4 A:2508 , HOH A:2558 , HOH A:2565 , HOH A:2581 , HOH A:2663 , ARG C:219 , GLY C:220
BINDING SITE FOR RESIDUE THM A 2538
23
EC4
SOFTWARE
LEU B:45 , TYR B:114 , GLY B:115 , VAL B:250 , ALA B:251 , GLU B:255 , ILE B:256 , SO4 B:2511 , HOH B:2558 , HOH B:2576 , HOH B:2751 , HOH B:2842 , ARG D:219 , GLY D:220
BINDING SITE FOR RESIDUE THM B 2539
24
EC5
SOFTWARE
ARG A:219 , LEU C:45 , TYR C:114 , GLY C:115 , VAL C:250 , ALA C:251 , GLU C:255 , ILE C:256 , ARG C:259 , SO4 C:2513 , HOH C:2542 , HOH C:2559 , HOH C:2584
BINDING SITE FOR RESIDUE THM C 2540
25
EC6
SOFTWARE
ARG B:219 , LEU D:45 , TYR D:114 , GLY D:115 , VAL D:250 , ALA D:251 , GLU D:255 , ILE D:256 , SO4 D:2516 , HOH D:2550 , HOH D:2568 , HOH D:2577 , HOH D:2685
BINDING SITE FOR RESIDUE THM D 2541
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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[
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1g0ra_ (A:)
1b: SCOP_d1g0rb_ (B:)
1c: SCOP_d1g0rc_ (C:)
1d: SCOP_d1g0rd_ (D:)
1e: SCOP_d1g0re_ (E:)
1f: SCOP_d1g0rf_ (F:)
1g: SCOP_d1g0rg_ (G:)
1h: SCOP_d1g0rh_ (H:)
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(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleotide-diphospho-sugar transferases
(408)
Superfamily
:
Nucleotide-diphospho-sugar transferases
(408)
Family
:
glucose-1-phosphate thymidylyltransferase
(43)
Protein domain
:
RmlA (RfbA)
(27)
Pseudomonas aeruginosa [TaxId: 287]
(9)
1a
d1g0ra_
A:
1b
d1g0rb_
B:
1c
d1g0rc_
C:
1d
d1g0rd_
D:
1e
d1g0re_
E:
1f
d1g0rf_
F:
1g
d1g0rg_
G:
1h
d1g0rh_
H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1g0rA00 (A:2-293)
1b: CATH_1g0rB00 (B:2-293)
1c: CATH_1g0rC00 (C:2-293)
1d: CATH_1g0rD00 (D:2-293)
1e: CATH_1g0rE00 (E:2-293)
1f: CATH_1g0rG00 (G:2-293)
1g: CATH_1g0rH00 (H:2-293)
1h: CATH_1g0rF00 (F:1-293)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Homologous Superfamily
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Pseudomonas aeruginosa. Organism_taxid: 287.
(7)
1a
1g0rA00
A:2-293
1b
1g0rB00
B:2-293
1c
1g0rC00
C:2-293
1d
1g0rD00
D:2-293
1e
1g0rE00
E:2-293
1f
1g0rG00
G:2-293
1g
1g0rH00
H:2-293
1h
1g0rF00
F:1-293
[
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (873 KB)
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Header - Biol.Unit 1
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