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1RYW
Asym. Unit
Info
Asym.Unit (563 KB)
Biol.Unit 1 (286 KB)
Biol.Unit 2 (279 KB)
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(1)
Title
:
C115S MURA LIGANDED WITH REACTION PRODUCTS
Authors
:
S. Eschenburg, E. Schonbrunn
Date
:
22 Dec 03 (Deposition) - 09 Nov 04 (Release) - 27 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
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
:
Inside-Out Alpha-Beta Barrel, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Eschenburg, M. Priestman, E. Schonbrunn
Evidence That The Fosfomycin Target Cys115 In Udp-N-Acetylglucosamine Enolpyruvyl Transferase (Mura) Is Essential For Product Release.
J. Biol. Chem. V. 280 3757 2005
[
close entry info
]
Hetero Components
(4, 42)
Info
All Hetero Components
1a: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUa)
1b: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUb)
1c: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUc)
1d: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUd)
1e: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUe)
1f: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUf)
1g: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUg)
1h: URIDINE-DIPHOSPHATE-2(N-ACETYLGLUC... (EPUh)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
3a: BETA-L-ASPARTIC ACID (IASa)
3b: BETA-L-ASPARTIC ACID (IASb)
3c: BETA-L-ASPARTIC ACID (IASc)
3d: BETA-L-ASPARTIC ACID (IASd)
3e: BETA-L-ASPARTIC ACID (IASe)
3f: BETA-L-ASPARTIC ACID (IASf)
3g: BETA-L-ASPARTIC ACID (IASg)
3h: BETA-L-ASPARTIC ACID (IASh)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
4c: PHOSPHATE ION (PO4c)
4d: PHOSPHATE ION (PO4d)
4e: PHOSPHATE ION (PO4e)
4f: PHOSPHATE ION (PO4f)
4g: PHOSPHATE ION (PO4g)
4h: PHOSPHATE ION (PO4h)
4i: PHOSPHATE ION (PO4i)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPU
8
Ligand/Ion
URIDINE-DIPHOSPHATE-2(N-ACETYLGLUCOSAMINYL) BUTYRICACID
2
GOL
17
Ligand/Ion
GLYCEROL
3
IAS
8
Mod. Amino Acid
BETA-L-ASPARTIC ACID
4
PO4
9
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(34, 34)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:22 , ARG A:120 , ARG A:397 , HOH A:682 , HOH A:761 , HOH A:810 , EPU A:2450 , GOL A:2471
BINDING SITE FOR RESIDUE PO4 A 2461
02
AC2
SOFTWARE
LYS B:22 , ARG B:120 , ARG B:397 , HOH B:621 , HOH B:1332 , EPU B:3450 , GOL B:3471
BINDING SITE FOR RESIDUE PO4 B 3461
03
AC3
SOFTWARE
LYS C:22 , ARG C:120 , ARG C:397 , HOH C:1146 , HOH C:1633 , EPU C:4450 , GOL C:4471
BINDING SITE FOR RESIDUE PO4 C 4461
04
AC4
SOFTWARE
LYS D:22 , ARG D:120 , HOH D:452 , EPU D:5450 , GOL D:5471
BINDING SITE FOR RESIDUE PO4 D 5461
05
AC5
SOFTWARE
LYS E:22 , ARG E:120 , ARG E:397 , HOH E:583 , HOH E:752 , EPU E:6450 , GOL E:6471
BINDING SITE FOR RESIDUE PO4 E 6461
06
AC6
SOFTWARE
LYS F:22 , ARG F:120 , HOH F:424 , EPU F:7450 , GOL F:7471
BINDING SITE FOR RESIDUE PO4 F 7461
07
AC7
SOFTWARE
LYS G:22 , ARG G:120 , ARG G:397 , HOH G:436 , HOH G:1037 , EPU G:8450 , GOL G:8471
BINDING SITE FOR RESIDUE PO4 G 8461
08
AC8
SOFTWARE
GLY G:114 , SER G:115 , ALA G:116 , HOH G:438 , MET H:366
BINDING SITE FOR RESIDUE PO4 G 8462
09
AC9
SOFTWARE
LYS H:22 , ARG H:120 , ARG H:397 , HOH H:567 , EPU H:9450 , GOL H:9471
BINDING SITE FOR RESIDUE PO4 H 9461
10
BC1
SOFTWARE
LYS E:22 , ASN E:23 , TRP E:95 , ARG E:120 , PRO E:121 , VAL E:122 , ASP E:123 , LEU E:124 , HIS E:125 , LYS E:160 , SER E:162 , VAL E:163 , GLY E:164 , THR E:304 , ASP E:305 , ILE E:327 , PHE E:328 , ARG E:331 , ARG E:371 , HOH E:424 , HOH E:425 , HOH E:431 , HOH E:433 , HOH E:436 , HOH E:438 , HOH E:465 , HOH E:596 , HOH E:756 , HOH E:798 , PO4 E:6461 , GOL E:6471
BINDING SITE FOR RESIDUE EPU E 6450
11
BC2
SOFTWARE
LYS B:22 , ASN B:23 , TRP B:95 , ARG B:120 , PRO B:121 , VAL B:122 , ASP B:123 , LEU B:124 , LYS B:160 , SER B:162 , VAL B:163 , GLY B:164 , THR B:304 , ASP B:305 , ILE B:327 , PHE B:328 , ARG B:331 , ARG B:371 , HOH B:422 , HOH B:430 , HOH B:431 , HOH B:434 , HOH B:445 , HOH B:451 , HOH B:452 , HOH B:458 , HOH B:472 , HOH B:658 , HOH B:917 , HOH B:1438 , PO4 B:3461 , GOL B:3471
BINDING SITE FOR RESIDUE EPU B 3450
12
BC3
SOFTWARE
LYS C:22 , ASN C:23 , TRP C:95 , ARG C:120 , PRO C:121 , VAL C:122 , ASP C:123 , LEU C:124 , HIS C:125 , LYS C:160 , SER C:162 , VAL C:163 , GLY C:164 , THR C:304 , ASP C:305 , ILE C:327 , PHE C:328 , ARG C:331 , ARG C:371 , HOH C:420 , HOH C:421 , HOH C:424 , HOH C:425 , HOH C:433 , HOH C:445 , HOH C:459 , HOH C:522 , HOH C:592 , PO4 C:4461 , GOL C:4471
BINDING SITE FOR RESIDUE EPU C 4450
13
BC4
SOFTWARE
LYS D:22 , ASN D:23 , TRP D:95 , ARG D:120 , PRO D:121 , VAL D:122 , ASP D:123 , LEU D:124 , HIS D:125 , LYS D:160 , SER D:162 , VAL D:163 , GLY D:164 , THR D:304 , ASP D:305 , ILE D:327 , PHE D:328 , ARG D:331 , ARG D:371 , HOH D:427 , HOH D:438 , HOH D:444 , HOH D:448 , HOH D:451 , HOH D:459 , HOH D:464 , HOH D:473 , HOH D:641 , HOH D:703 , HOH D:1114 , PO4 D:5461 , GOL D:5471
BINDING SITE FOR RESIDUE EPU D 5450
14
BC5
SOFTWARE
LYS A:22 , ASN A:23 , TRP A:95 , ARG A:120 , PRO A:121 , VAL A:122 , ASP A:123 , LEU A:124 , HIS A:125 , LYS A:160 , SER A:162 , VAL A:163 , GLY A:164 , THR A:304 , ASP A:305 , ILE A:327 , PHE A:328 , ARG A:331 , ARG A:371 , HOH A:422 , HOH A:425 , HOH A:429 , HOH A:432 , HOH A:439 , HOH A:454 , HOH A:462 , HOH A:465 , HOH A:667 , HOH A:1742 , HOH A:1766 , PO4 A:2461 , GOL A:2471
BINDING SITE FOR RESIDUE EPU A 2450
15
BC6
SOFTWARE
LYS F:22 , ASN F:23 , TRP F:95 , ARG F:120 , PRO F:121 , VAL F:122 , ASP F:123 , LEU F:124 , HIS F:125 , LYS F:160 , SER F:162 , VAL F:163 , GLY F:164 , THR F:304 , ASP F:305 , ILE F:327 , PHE F:328 , ARG F:331 , ARG F:371 , HOH F:420 , HOH F:427 , HOH F:429 , HOH F:447 , HOH F:465 , HOH F:580 , HOH F:912 , HOH F:1101 , HOH F:1171 , PO4 F:7461 , GOL F:7471
BINDING SITE FOR RESIDUE EPU F 7450
16
BC7
SOFTWARE
LYS G:22 , ASN G:23 , TRP G:95 , ARG G:120 , PRO G:121 , VAL G:122 , ASP G:123 , LEU G:124 , HIS G:125 , LYS G:160 , SER G:162 , VAL G:163 , GLY G:164 , THR G:304 , ASP G:305 , ILE G:327 , PHE G:328 , ARG G:331 , ARG G:371 , HOH G:420 , HOH G:425 , HOH G:426 , HOH G:462 , HOH G:476 , HOH G:481 , HOH G:485 , HOH G:492 , HOH G:532 , HOH G:1354 , PO4 G:8461 , GOL G:8471
BINDING SITE FOR RESIDUE EPU G 8450
17
BC8
SOFTWARE
LYS H:22 , ASN H:23 , TRP H:95 , ARG H:120 , PRO H:121 , VAL H:122 , ASP H:123 , LEU H:124 , HIS H:125 , LYS H:160 , SER H:162 , VAL H:163 , GLY H:164 , THR H:304 , ASP H:305 , ILE H:327 , PHE H:328 , ARG H:331 , ARG H:371 , HOH H:434 , HOH H:440 , HOH H:443 , HOH H:446 , HOH H:447 , HOH H:461 , HOH H:467 , HOH H:472 , HOH H:509 , HOH H:934 , PO4 H:9461 , GOL H:9471
BINDING SITE FOR RESIDUE EPU H 9450
18
BC9
SOFTWARE
ARG A:91 , ALA A:92 , ILE A:94 , TRP A:95 , HIS A:125 , GLY A:164 , HOH A:429 , EPU A:2450 , PO4 A:2461
BINDING SITE FOR RESIDUE GOL A 2471
19
CC1
SOFTWARE
ARG A:252 , TRP A:279 , HOH A:1610
BINDING SITE FOR RESIDUE GOL A 2472
20
CC2
SOFTWARE
TYR A:393 , ARG C:391
BINDING SITE FOR RESIDUE GOL C 2473
21
CC3
SOFTWARE
ARG B:91 , ALA B:92 , TRP B:95 , HIS B:125 , GLY B:164 , HOH B:430 , HOH B:621 , EPU B:3450 , PO4 B:3461
BINDING SITE FOR RESIDUE GOL B 3471
22
CC4
SOFTWARE
ARG B:252
BINDING SITE FOR RESIDUE GOL B 3472
23
CC5
SOFTWARE
ARG A:391 , TYR C:393
BINDING SITE FOR RESIDUE GOL C 3473
24
CC6
SOFTWARE
ARG C:91 , ILE C:94 , TRP C:95 , ARG C:120 , HIS C:125 , HOH C:420 , EPU C:4450 , PO4 C:4461
BINDING SITE FOR RESIDUE GOL C 4471
25
CC7
SOFTWARE
ARG C:252 , HOH C:1648
BINDING SITE FOR RESIDUE GOL C 4472
26
CC8
SOFTWARE
GLU A:329 , HOH A:1435 , GLU C:325 , PHE C:328 , GLU C:329 , ASN C:330 , ARG C:331 , PHE C:332 , HOH C:625
BINDING SITE FOR RESIDUE GOL C 4474
27
CC9
SOFTWARE
ARG D:91 , ALA D:92 , ILE D:94 , ARG D:120 , HIS D:125 , GLY D:164 , HOH D:427 , EPU D:5450 , PO4 D:5461
BINDING SITE FOR RESIDUE GOL D 5471
28
DC1
SOFTWARE
VAL D:250 , ARG D:252 , HOH D:1290
BINDING SITE FOR RESIDUE GOL D 5472
29
DC2
SOFTWARE
ARG E:91 , ALA E:92 , ILE E:94 , TRP E:95 , HIS E:125 , GLY E:164 , HOH E:425 , EPU E:6450 , PO4 E:6461
BINDING SITE FOR RESIDUE GOL E 6471
30
DC3
SOFTWARE
ARG F:91 , ALA F:92 , ILE F:94 , TRP F:95 , ARG F:120 , HIS F:125 , GLY F:164 , HOH F:447 , EPU F:7450 , PO4 F:7461
BINDING SITE FOR RESIDUE GOL F 7471
31
DC4
SOFTWARE
ARG G:91 , ALA G:92 , TRP G:95 , HIS G:125 , GLY G:164 , HOH G:420 , EPU G:8450 , PO4 G:8461
BINDING SITE FOR RESIDUE GOL G 8471
32
DC5
SOFTWARE
ARG E:252
BINDING SITE FOR RESIDUE GOL E 8472
33
DC6
SOFTWARE
ARG H:91 , ILE H:94 , TRP H:95 , ARG H:120 , HIS H:125 , GLY H:164 , EPU H:9450 , PO4 H:9461
BINDING SITE FOR RESIDUE GOL H 9471
34
DC7
SOFTWARE
VAL H:250 , ARG H:252 , TRP H:279
BINDING SITE FOR RESIDUE GOL H 9472
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1rywa_ (A:)
1b: SCOP_d1rywb_ (B:)
1c: SCOP_d1rywc_ (C:)
1d: SCOP_d1rywd_ (D:)
1e: SCOP_d1rywe_ (E:)
1f: SCOP_d1rywf_ (F:)
1g: SCOP_d1rywg_ (G:)
1h: SCOP_d1rywh_ (H:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
IF3-like
(127)
Superfamily
:
EPT/RTPC-like
(82)
Family
:
Enolpyruvate transferase, EPT
(68)
Protein domain
:
UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ)
(27)
Enterobacter cloacae [TaxId: 550]
(12)
1a
d1rywa_
A:
1b
d1rywb_
B:
1c
d1rywc_
C:
1d
d1rywd_
D:
1e
d1rywe_
E:
1f
d1rywf_
F:
1g
d1rywg_
G:
1h
d1rywh_
H:
[
close SCOP info
]
CATH Domains
(1, 16)
Info
all CATH domains
1a: CATH_1rywA01 (A:1-18,A:230-418)
1b: CATH_1rywG01 (G:1-18,G:230-418)
1c: CATH_1rywH01 (H:1-18,H:230-418)
1d: CATH_1rywB01 (B:1-18,B:230-418)
1e: CATH_1rywA02 (A:21-228)
1f: CATH_1rywB02 (B:21-228)
1g: CATH_1rywC02 (C:21-228)
1h: CATH_1rywD02 (D:21-228)
1i: CATH_1rywE02 (E:21-228)
1j: CATH_1rywF02 (F:21-228)
1k: CATH_1rywG02 (G:21-228)
1l: CATH_1rywH02 (H:21-228)
1m: CATH_1rywC01 (C:1-18,C:230-418)
1n: CATH_1rywD01 (D:1-18,D:230-418)
1o: CATH_1rywE01 (E:1-18,E:230-418)
1p: CATH_1rywF01 (F:1-18,F:230-418)
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)
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)
Architectures
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)
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-beta prism
(50)
Topology
:
UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain
(50)
Homologous Superfamily
:
[code=3.65.10.10, no name defined]
(47)
Enterobacter cloacae. Organism_taxid: 550.
(4)
1a
1rywA01
A:1-18,A:230-418
1b
1rywG01
G:1-18,G:230-418
1c
1rywH01
H:1-18,H:230-418
1d
1rywB01
B:1-18,B:230-418
1e
1rywA02
A:21-228
1f
1rywB02
B:21-228
1g
1rywC02
C:21-228
1h
1rywD02
D:21-228
1i
1rywE02
E:21-228
1j
1rywF02
F:21-228
1k
1rywG02
G:21-228
1l
1rywH02
H:21-228
1m
1rywC01
C:1-18,C:230-418
1n
1rywD01
D:1-18,D:230-418
1o
1rywE01
E:1-18,E:230-418
1p
1rywF01
F:1-18,F:230-418
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_EPSP_synthase_1rywH01 (H:6-406)
1b: PFAM_EPSP_synthase_1rywH02 (H:6-406)
1c: PFAM_EPSP_synthase_1rywH03 (H:6-406)
1d: PFAM_EPSP_synthase_1rywH04 (H:6-406)
1e: PFAM_EPSP_synthase_1rywH05 (H:6-406)
1f: PFAM_EPSP_synthase_1rywH06 (H:6-406)
1g: PFAM_EPSP_synthase_1rywH07 (H:6-406)
1h: PFAM_EPSP_synthase_1rywH08 (H:6-406)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EPT_RTPC
(43)
Family
:
EPSP_synthase
(40)
Enterobacter cloacae subsp. cloacae (strain ATCC 13047 / DSM 30054 / NBRC 13535 / NCDC 279-56)
(6)
1a
EPSP_synthase-1rywH01
H:6-406
1b
EPSP_synthase-1rywH02
H:6-406
1c
EPSP_synthase-1rywH03
H:6-406
1d
EPSP_synthase-1rywH04
H:6-406
1e
EPSP_synthase-1rywH05
H:6-406
1f
EPSP_synthase-1rywH06
H:6-406
1g
EPSP_synthase-1rywH07
H:6-406
1h
EPSP_synthase-1rywH08
H:6-406
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Asymmetric Unit 1
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Miscellaneous
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Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
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Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
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