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Asym. Unit
Info
Asym.Unit (698 KB)
Biol.Unit 1 (691 KB)
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(1)
Title
:
UNIQUE CONFORMATION OF URIDINE AND ASYMMETRY OF THE HEXAMERIC MOLECULE REVEALED IN THE HIGH-RESOLUTION STRUCTURES OF SHEWANELLA ONEIDENSIS URIDINE PHOSPHORYLASE IN THE FREE FORM AND IN COMPLEX WITH URIDINE
Authors
:
T. N. Safonova, N. N. Mordkovich, V. A. Manuvera, V. P. Veiko, V. O. Popov K. M. Polyakov
Date
:
13 Aug 14 (Deposition) - 10 Dec 14 (Release) - 07 Jan 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
0.93
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Uridine Phosphorylase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. N. Safonova, S. N. Mikhailov, V. P. Veiko, N. N. Mordkovich, V. A. Manuvera, C. S. Alekseev, M. V. Kovalchuk, V. O. Popov, K. M. Polyakov
High-Syn Conformation Of Uridine And Asymmetry Of The Hexameric Molecule Revealed In The High-Resolution Structures Of Shewanella Oneidensis Mr-1 Uridine Phosphorylase In The Free Form And In Complex With Uridine.
Acta Crystallogr. , Sect. D V. 70 3310 2014
[
close entry info
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Hetero Components
(3, 31)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
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)
2r: GLYCEROL (GOLr)
2s: GLYCEROL (GOLs)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
GOL
19
Ligand/Ion
GLYCEROL
3
SO4
8
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(31, 31)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY C:23 , ARG C:27 , ARG C:88 , VAL C:89 , GLY C:90 , THR C:91 , GOL C:303 , ARG D:45
BINDING SITE FOR RESIDUE SO4 C 301
02
AC2
SOFTWARE
GLY C:93 , GLN C:163 , ARG C:165 , HOH C:434 , HOH C:485
BINDING SITE FOR RESIDUE CL C 302
03
AC3
SOFTWARE
ILE C:66 , ARG C:88 , THR C:91 , GLU C:193 , MET C:194 , GLU C:195 , SO4 C:301 , HOH C:436 , HOH C:485 , ARG D:45 , HOH D:461
BINDING SITE FOR RESIDUE GOL C 303
04
AC4
SOFTWARE
ASN C:130 , ALA C:204 , HOH C:405 , HOH C:411 , HOH C:435 , HOH C:465 , HOH C:482 , HOH C:587
BINDING SITE FOR RESIDUE GOL C 304
05
AC5
SOFTWARE
ARG C:176 , GLU C:183 , HOH C:452 , ARG E:175 , PRO F:122 , GLU F:124
BINDING SITE FOR RESIDUE GOL C 305
06
AC6
SOFTWARE
ALA C:140 , ASP C:143 , ALA C:144 , ALA C:244 , LYS C:248 , HOH C:441 , HOH C:513
BINDING SITE FOR RESIDUE GOL C 306
07
AC7
SOFTWARE
ARG C:45 , GLY D:23 , ARG D:27 , ARG D:88 , VAL D:89 , GLY D:90 , THR D:91 , GOL D:303
BINDING SITE FOR RESIDUE SO4 D 301
08
AC8
SOFTWARE
GLY D:93 , GLN D:163 , ARG D:165 , HOH D:403 , HOH D:460
BINDING SITE FOR RESIDUE CL D 302
09
AC9
SOFTWARE
ARG C:45 , HOH C:455 , ILE D:66 , ARG D:88 , THR D:91 , GLU D:193 , MET D:194 , GLU D:195 , SO4 D:301 , HOH D:452 , HOH D:460
BINDING SITE FOR RESIDUE GOL D 303
10
BC1
SOFTWARE
PRO A:122 , GLU A:124 , ARG B:175 , ARG D:176 , GLU D:183 , HOH D:468 , HOH D:560
BINDING SITE FOR RESIDUE GOL D 304
11
BC2
SOFTWARE
ASN D:130 , ALA D:204 , HOH D:407 , HOH D:420 , HOH D:429 , HOH D:450 , HOH D:476 , HOH D:597
BINDING SITE FOR RESIDUE GOL D 305
12
BC3
SOFTWARE
ARG A:175 , ARG C:175 , ARG E:175 , HOH E:519 , HOH E:541
BINDING SITE FOR RESIDUE SO4 E 301
13
BC4
SOFTWARE
ILE E:66 , ARG E:88 , THR E:91 , GLU E:193 , MET E:194 , GLU E:195 , SO4 E:303 , HOH E:449 , HOH E:562
BINDING SITE FOR RESIDUE GOL E 302
14
BC5
SOFTWARE
GLY E:23 , ARG E:27 , ARG E:88 , VAL E:89 , GLY E:90 , THR E:91 , GOL E:302 , HOH E:554 , HOH E:561 , HOH E:562 , ARG F:45
BINDING SITE FOR RESIDUE SO4 E 303
15
BC6
SOFTWARE
ASN E:130 , ALA E:204 , HOH E:409 , HOH E:419 , HOH E:421 , HOH E:422 , HOH E:475 , HOH E:548
BINDING SITE FOR RESIDUE GOL E 304
16
BC7
SOFTWARE
ARG A:175 , PRO B:122 , GLU B:124 , ARG E:176 , GLU E:183 , HOH E:437 , HOH E:543 , HOH E:550
BINDING SITE FOR RESIDUE GOL E 305
17
BC8
SOFTWARE
ARG E:45 , GLY F:23 , ARG F:27 , ARG F:88 , VAL F:89 , GLY F:90 , THR F:91 , GOL F:305
BINDING SITE FOR RESIDUE SO4 F 301
18
BC9
SOFTWARE
GLY F:93 , GLN F:163 , ARG F:165 , HOH F:413 , HOH F:452
BINDING SITE FOR RESIDUE CL F 302
19
CC1
SOFTWARE
PRO C:122 , GLU C:124 , ARG D:175 , LEU F:113 , ARG F:176 , GLU F:183 , HOH F:454
BINDING SITE FOR RESIDUE GOL F 303
20
CC2
SOFTWARE
ASN F:130 , ALA F:204 , HOH F:410 , HOH F:411 , HOH F:429 , HOH F:437 , HOH F:457 , HOH F:527
BINDING SITE FOR RESIDUE GOL F 304
21
CC3
SOFTWARE
ARG E:45 , HOH E:482 , ILE F:66 , ARG F:88 , THR F:91 , GLU F:193 , MET F:194 , GLU F:195 , SO4 F:301 , HOH F:433 , HOH F:452
BINDING SITE FOR RESIDUE GOL F 305
22
CC4
SOFTWARE
GLY A:23 , ARG A:27 , ARG A:88 , VAL A:89 , GLY A:90 , THR A:91 , GOL A:303 , ARG B:45
BINDING SITE FOR RESIDUE SO4 A 301
23
CC5
SOFTWARE
GLY A:93 , GLN A:163 , ARG A:165 , HOH A:456
BINDING SITE FOR RESIDUE CL A 302
24
CC6
SOFTWARE
ILE A:66 , ARG A:88 , THR A:91 , GLU A:193 , MET A:194 , GLU A:195 , SO4 A:301 , HOH A:419 , HOH A:456 , ARG B:45 , HOH B:455
BINDING SITE FOR RESIDUE GOL A 303
25
CC7
SOFTWARE
ASN A:130 , ALA A:204 , HOH A:421 , HOH A:427 , HOH A:433 , HOH A:443 , HOH A:501 , HOH A:550
BINDING SITE FOR RESIDUE GOL A 304
26
CC8
SOFTWARE
ARG A:176 , GLU A:183 , HOH A:471 , HOH A:525 , HOH A:584 , ARG C:175 , PRO D:122 , GLU D:124
BINDING SITE FOR RESIDUE GOL A 305
27
CC9
SOFTWARE
ARG B:175 , HOH B:490 , HOH B:527 , HOH B:530 , HOH B:561 , ARG D:175 , ARG F:175
BINDING SITE FOR RESIDUE SO4 B 301
28
DC1
SOFTWARE
ASN B:130 , ALA B:204 , HOH B:408 , HOH B:409 , HOH B:416 , HOH B:453 , HOH B:469 , HOH B:548
BINDING SITE FOR RESIDUE GOL B 302
29
DC2
SOFTWARE
ILE B:66 , ARG B:88 , GLU B:193 , MET B:194 , GLU B:195 , SO4 B:304 , HOH B:441 , HOH B:518 , HOH B:532
BINDING SITE FOR RESIDUE GOL B 303
30
DC3
SOFTWARE
ARG A:45 , GLY B:23 , ARG B:27 , ARG B:88 , VAL B:89 , GLY B:90 , THR B:91 , GOL B:303 , HOH B:532
BINDING SITE FOR RESIDUE SO4 B 304
31
DC4
SOFTWARE
LEU B:113 , ARG B:176 , SER B:180 , GLU B:183 , TRP B:184 , HOH B:444 , HOH B:549 , HOH B:552 , HOH B:558 , PRO E:122 , GLU E:124 , ARG F:175
BINDING SITE FOR RESIDUE GOL B 305
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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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Info
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All Exon Boundaries
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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