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Asym. Unit
Info
Asym.Unit (194 KB)
Biol.Unit 1 (95 KB)
Biol.Unit 2 (96 KB)
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(1)
Title
:
THE STRUCTURE OF AN OLEISPIRA ANTARCTICA PHOSPHODIESTERASE OLEI02445 IN COMPLEX WITH THE PRODUCT SN-GLYCEROL-3-PHOSPHATE
Authors
:
A. U. Singer, O. Kagan, E. Evdokimova, M. E. Cuff, A. M. Edwards, A. Joach A. F. Yakunin, A. Savchenko, Midwest Center For Structural Genom (Mcsg)
Date
:
25 Feb 11 (Deposition) - 13 Apr 11 (Release) - 13 Apr 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,C (1x)
Keywords
:
Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Alpha-Beta Hydrolase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. U. Singer, O. Kagan, E. Evdokimova, M. E. Cuff, A. M. Edwards, A. Joachimiak, A. F. Yakunin, A. Savchenko
The Structure Of An Oleispira Antarctica Phosphodiesterase Olei02445 In Complex With The Product Sn-Glycerol-3-Phosphate
To Be Published
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Hetero Components
(8, 57)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
1q: CHLORIDE ION (CLq)
1r: CHLORIDE ION (CLr)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
3a: SN-GLYCEROL-3-PHOSPHATE (G3Pa)
3b: SN-GLYCEROL-3-PHOSPHATE (G3Pb)
3c: SN-GLYCEROL-3-PHOSPHATE (G3Pc)
3d: SN-GLYCEROL-3-PHOSPHATE (G3Pd)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
4e: MAGNESIUM ION (MGe)
4f: MAGNESIUM ION (MGf)
4g: MAGNESIUM ION (MGg)
4h: MAGNESIUM ION (MGh)
4i: MAGNESIUM ION (MGi)
4j: MAGNESIUM ION (MGj)
4k: MAGNESIUM ION (MGk)
4l: MAGNESIUM ION (MGl)
4m: MAGNESIUM ION (MGm)
5a: SELENOMETHIONINE (MSEa)
5b: SELENOMETHIONINE (MSEb)
5c: SELENOMETHIONINE (MSEc)
5d: SELENOMETHIONINE (MSEd)
5e: SELENOMETHIONINE (MSEe)
5f: SELENOMETHIONINE (MSEf)
5g: SELENOMETHIONINE (MSEg)
5h: SELENOMETHIONINE (MSEh)
5i: SELENOMETHIONINE (MSEi)
5j: SELENOMETHIONINE (MSEj)
6a: SODIUM ION (NAa)
6b: SODIUM ION (NAb)
6c: SODIUM ION (NAc)
6d: SODIUM ION (NAd)
6e: SODIUM ION (NAe)
6f: SODIUM ION (NAf)
6g: SODIUM ION (NAg)
7a: NICKEL (II) ION (NIa)
8a: DI(HYDROXYETHYL)ETHER (PEGa)
8b: DI(HYDROXYETHYL)ETHER (PEGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
18
Ligand/Ion
CHLORIDE ION
2
EDO
2
Ligand/Ion
1,2-ETHANEDIOL
3
G3P
4
Ligand/Ion
SN-GLYCEROL-3-PHOSPHATE
4
MG
13
Ligand/Ion
MAGNESIUM ION
5
MSE
10
Mod. Amino Acid
SELENOMETHIONINE
6
NA
7
Ligand/Ion
SODIUM ION
7
NI
1
Ligand/Ion
NICKEL (II) ION
8
PEG
2
Ligand/Ion
DI(HYDROXYETHYL)ETHER
[
close Hetero Component info
]
Sites
(45, 45)
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)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:14 , ARG A:15 , GLU A:41 , ASP A:43 , HIS A:56 , GLU A:116 , PHE A:150 , ASN A:170 , HOH A:265 , HOH A:287 , HOH A:289 , MG A:310 , HOH A:533
BINDING SITE FOR RESIDUE G3P A 301
02
AC2
SOFTWARE
GLU A:41 , ASP A:43 , GLU A:116 , HOH A:287 , G3P A:301
BINDING SITE FOR RESIDUE MG A 310
03
AC3
SOFTWARE
HOH A:296 , HOH A:333 , HOH A:361 , HOH A:371 , HOH A:579 , HOH C:273
BINDING SITE FOR RESIDUE MG A 311
04
AC4
SOFTWARE
HOH A:374 , HOH A:504 , HOH A:605
BINDING SITE FOR RESIDUE MG A 252
05
AC5
SOFTWARE
PHE A:197 , LYS D:72
BINDING SITE FOR RESIDUE NA A 253
06
AC6
SOFTWARE
GLU A:90 , EDO A:263 , HOH A:353 , HOH B:460
BINDING SITE FOR RESIDUE NA A 255
07
AC7
SOFTWARE
GLY A:48 , PRO A:74
BINDING SITE FOR RESIDUE NA A 256
08
AC8
SOFTWARE
TYR A:59 , SER A:61 , GLY A:68
BINDING SITE FOR RESIDUE CL A 257
09
AC9
SOFTWARE
TRP A:162 , PRO A:163 , GLU A:164
BINDING SITE FOR RESIDUE CL A 258
10
BC1
SOFTWARE
PRO A:9 , GLN A:10 , HOH A:292
BINDING SITE FOR RESIDUE CL A 259
11
BC2
SOFTWARE
GLN A:194 , ASN A:218 , ASP A:219 , HOH A:573
BINDING SITE FOR RESIDUE CL A 260
12
BC3
SOFTWARE
GLN A:89 , HOH A:504
BINDING SITE FOR RESIDUE CL A 261
13
BC4
SOFTWARE
ALA A:208 , GLY A:209 , TYR A:210
BINDING SITE FOR RESIDUE PEG A 262
14
BC5
SOFTWARE
GLU A:90 , TYR A:91 , NA A:255 , HOH A:664
BINDING SITE FOR RESIDUE EDO A 263
15
BC6
SOFTWARE
HIS A:138 , HOH A:378 , HOH A:379 , HIS B:138 , HOH B:342
BINDING SITE FOR RESIDUE NI A 264
16
BC7
SOFTWARE
HIS B:14 , ARG B:15 , GLU B:41 , ASP B:43 , HIS B:56 , GLU B:116 , LYS B:118 , PHE B:150 , ASN B:170 , HOH B:268 , HOH B:284 , MG B:310
BINDING SITE FOR RESIDUE G3P B 301
17
BC8
SOFTWARE
GLU B:41 , ASP B:43 , GLU B:116 , HOH B:268 , G3P B:301
BINDING SITE FOR RESIDUE MG B 310
18
BC9
SOFTWARE
HOH A:334 , HOH A:353 , HOH A:664 , ASP B:204 , HOH B:308 , HOH B:319 , HOH B:386
BINDING SITE FOR RESIDUE MG B 311
19
CC1
SOFTWARE
GLU B:164 , HOH B:340 , HOH B:341 , HOH B:600 , HOH B:671
BINDING SITE FOR RESIDUE MG B 252
20
CC2
SOFTWARE
ASP B:58 , GLU B:121 , HOH B:343
BINDING SITE FOR RESIDUE MG B 253
21
CC3
SOFTWARE
PHE B:147 , ALA B:158 , TRP B:162 , ILE B:165 , ARG B:167
BINDING SITE FOR RESIDUE NA B 254
22
CC4
SOFTWARE
SER B:61 , ASP B:67 , GLY B:68
BINDING SITE FOR RESIDUE CL B 255
23
CC5
SOFTWARE
PRO B:9 , GLN B:10
BINDING SITE FOR RESIDUE CL B 256
24
CC6
SOFTWARE
GLN B:194 , ASN B:218 , ASP B:219
BINDING SITE FOR RESIDUE CL B 257
25
CC7
SOFTWARE
SER B:3 , TYR B:5 , HOH B:561 , HOH B:612
BINDING SITE FOR RESIDUE CL B 258
26
CC8
SOFTWARE
HOH A:548 , PRO B:52 , THR B:98 , LEU B:99 , LEU B:100
BINDING SITE FOR RESIDUE CL B 259
27
CC9
SOFTWARE
ASN A:228 , GLN A:229 , LYS B:225
BINDING SITE FOR RESIDUE CL B 260
28
DC1
SOFTWARE
GLY B:48 , ASP B:49 , LYS B:72 , PRO B:74
BINDING SITE FOR RESIDUE EDO B 261
29
DC2
SOFTWARE
HIS C:14 , ARG C:15 , GLU C:41 , ASP C:43 , HIS C:56 , GLU C:116 , PHE C:150 , ASN C:170 , PHE C:215 , HOH C:267 , HOH C:270 , MG C:310 , HOH C:451 , HOH C:900 , HOH C:925
BINDING SITE FOR RESIDUE G3P C 301
30
DC3
SOFTWARE
GLU C:41 , ASP C:43 , GLU C:116 , HOH C:270 , G3P C:301
BINDING SITE FOR RESIDUE MG C 310
31
DC4
SOFTWARE
SER C:61 , THR C:64 , HOH C:314 , HOH C:332 , HOH C:545 , HOH C:556
BINDING SITE FOR RESIDUE MG C 311
32
DC5
SOFTWARE
HOH C:360 , HOH C:723 , HOH C:790
BINDING SITE FOR RESIDUE NA C 252
33
DC6
SOFTWARE
TYR C:59 , SER C:61 , ASP C:67 , GLY C:68
BINDING SITE FOR RESIDUE CL C 253
34
DC7
SOFTWARE
GLN C:194 , ASN C:218 , ASP C:219 , HOH C:617
BINDING SITE FOR RESIDUE CL C 254
35
DC8
SOFTWARE
PRO C:9 , GLN C:10 , HOH C:284
BINDING SITE FOR RESIDUE CL C 255
36
DC9
SOFTWARE
TRP C:39 , PRO C:144 , HOH C:601 , HOH C:610 , HOH C:645
BINDING SITE FOR RESIDUE CL C 256
37
EC1
SOFTWARE
GLN C:137 , TRP C:139 , HOH C:338
BINDING SITE FOR RESIDUE PEG C 258
38
EC2
SOFTWARE
HIS D:14 , ARG D:15 , GLU D:41 , ASP D:43 , HIS D:56 , GLU D:116 , PHE D:150 , ASN D:170 , PHE D:215 , HOH D:262 , HOH D:263 , MG D:310 , HOH D:319 , HOH D:481 , HOH D:817
BINDING SITE FOR RESIDUE G3P D 301
39
EC3
SOFTWARE
GLU D:41 , ASP D:43 , GLU D:116 , HOH D:263 , G3P D:301
BINDING SITE FOR RESIDUE MG D 310
40
EC4
SOFTWARE
SER D:61 , THR D:64 , HOH D:296 , HOH D:304 , HOH D:407 , HOH D:841
BINDING SITE FOR RESIDUE MG D 311
41
EC5
SOFTWARE
HOH C:845 , HOH C:860 , HOH D:651 , HOH D:902 , HOH D:903
BINDING SITE FOR RESIDUE MG D 252
42
EC6
SOFTWARE
HOH D:329 , HOH D:354 , HOH D:387 , HOH D:449
BINDING SITE FOR RESIDUE MG D 253
43
EC7
SOFTWARE
ALA D:166 , ARG D:167 , ASP D:186 , ALA D:188 , HOH D:351
BINDING SITE FOR RESIDUE NA D 254
44
EC8
SOFTWARE
GLN D:35 , TYR D:238 , PRO D:239 , GLN D:240
BINDING SITE FOR RESIDUE CL D 255
45
EC9
SOFTWARE
GLN D:194 , ASN D:218 , ASP D:219
BINDING SITE FOR RESIDUE CL D 256
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
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Exons
(0, 0)
Info
All Exons
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3qvqa_ (A:)
1b: SCOP_d3qvqb_ (B:)
1c: SCOP_d3qvqc_ (C:)
1d: SCOP_d3qvqd_ (D:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
PLC-like phosphodiesterases
(46)
Family
:
automated matches
(11)
Protein domain
:
automated matches
(11)
Oleispira antarctica [TaxId: 188908]
(1)
1a
d3qvqa_
A:
1b
d3qvqb_
B:
1c
d3qvqc_
C:
1d
d3qvqd_
D:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
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Label:
Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asym.Unit (194 KB)
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