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Asym. Unit
Info
Asym.Unit (99 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (32 KB)
Biol.Unit 3 (33 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A PUTATIVE ENZYME (POSSIBLE NUDIX HYDROLASE) FROM ESCHERICHIA COLI K12
Authors
:
B. Nocek, E. Evdokimova, M. Kudritska, A. Savchenko, A. Edwards, A. Joa Midwest Center For Structural Genomics (Mcsg)
Date
:
04 Jan 06 (Deposition) - 21 Feb 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Putative Protein, Mad, Structural Genomics, Escherichia Coli K12, Putative Nudix Hydrolase, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Nocek, E. Evdokimova, M. Kudritska, A. Savchenko, A. Edwards, A. Joachimiak
Crystal Structure Of A Putative Enzyme (Possible Nudix Hydrolase) From Escherichia Coli K12
To Be Published
[
close entry info
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Hetero Components
(5, 32)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
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)
3a: MAGNESIUM ION (MGa)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
4l: SELENOMETHIONINE (MSEl)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
GOL
9
Ligand/Ion
GLYCEROL
3
MG
1
Ligand/Ion
MAGNESIUM ION
4
MSE
12
Mod. Amino Acid
SELENOMETHIONINE
5
SO4
6
Ligand/Ion
SULFATE ION
[
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]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:45 , GLY A:47 , MSE A:48 , GLY A:49
BINDING SITE FOR RESIDUE SO4 A 401
02
AC2
SOFTWARE
LYS A:60 , ASP A:61 , HOH A:1034
BINDING SITE FOR RESIDUE SO4 A 402
03
AC3
SOFTWARE
ARG A:86 , PRO A:99 , PHE A:100 , HOH A:1015 , HOH A:1016 , HOH A:1050 , HIS C:125 , GLY C:126
BINDING SITE FOR RESIDUE SO4 A 403
04
AC4
SOFTWARE
HIS C:45 , GLY C:47 , MSE C:48 , GLY C:49
BINDING SITE FOR RESIDUE SO4 C 404
05
AC5
SOFTWARE
HIS A:125 , ARG C:86 , PRO C:99 , PHE C:100 , HOH C:928
BINDING SITE FOR RESIDUE SO4 C 405
06
AC6
SOFTWARE
ARG B:38 , HOH B:936
BINDING SITE FOR RESIDUE SO4 B 406
07
AC7
SOFTWARE
HIS B:45 , GLY B:47 , MSE B:48 , GLY B:49
BINDING SITE FOR RESIDUE ACT B 801
08
AC8
SOFTWARE
ALA A:23 , HOH A:913 , TRP B:140
BINDING SITE FOR RESIDUE ACT B 802
09
AC9
SOFTWARE
ARG B:86 , PRO B:99 , PHE B:100 , HIS B:125 , HOH B:964
BINDING SITE FOR RESIDUE ACT B 803
10
BC1
SOFTWARE
ALA B:23 , HOH B:935 , TRP C:140 , HOH C:983
BINDING SITE FOR RESIDUE ACT C 804
11
BC2
SOFTWARE
GLU A:88 , GOL A:904 , HOH A:957 , HOH A:1035 , HOH A:1041
BINDING SITE FOR RESIDUE MG A 910
12
BC3
SOFTWARE
ARG B:27 , ARG B:31 , ARG B:56 , LYS B:60 , ASP B:61 , VAL B:74 , GLU B:88 , HOH B:910 , HOH B:911
BINDING SITE FOR RESIDUE GOL B 900
13
BC4
SOFTWARE
HIS A:45 , HIS A:103 , SER A:121 , CYS A:122 , ASN A:168 , HOH A:996
BINDING SITE FOR RESIDUE GOL A 901
14
BC5
SOFTWARE
ASN A:16 , GLU A:17 , ARG A:36 , HOH A:1048
BINDING SITE FOR RESIDUE GOL A 902
15
BC6
SOFTWARE
GLU A:20 , VAL A:21 , ARG A:38
BINDING SITE FOR RESIDUE GOL A 903
16
BC7
SOFTWARE
ARG A:27 , ARG A:56 , LYS A:60 , GLY A:73 , VAL A:74 , MG A:910 , HOH A:1034 , HOH A:1041
BINDING SITE FOR RESIDUE GOL A 904
17
BC8
SOFTWARE
HIS C:45 , ALA C:101 , HIS C:103 , SER C:121 , CYS C:122 , ASN C:168 , HOH C:957
BINDING SITE FOR RESIDUE GOL C 905
18
BC9
SOFTWARE
VAL C:21 , ARG C:38
BINDING SITE FOR RESIDUE GOL C 906
19
CC1
SOFTWARE
ARG C:27 , ARG C:31 , ARG C:56 , LYS C:60 , GLY C:73 , VAL C:74 , HOH C:944
BINDING SITE FOR RESIDUE GOL C 907
20
CC2
SOFTWARE
ASN C:16 , GLU C:17 , ILE C:22 , ARG C:36 , HOH C:981
BINDING SITE FOR RESIDUE GOL C 908
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: NUDIX (A:35-163,B:35-163,C:35-163)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NUDIX
PS51462
Nudix hydrolase domain profile.
YFCD_ECOLI
35-163
3
A:35-163
B:35-163
C:35-163
[
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]
Exons
(0, 0)
Info
All Exons
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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
(2, 3)
Info
All SCOP Domains
1a: SCOP_d2fkbb_ (B:)
1b: SCOP_d2fkbc_ (C:)
2a: SCOP_d2fkba1 (A:8-168)
View:
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)
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(
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Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Nudix
(141)
Superfamily
:
Nudix
(141)
Family
:
IPP isomerase-like
(23)
Protein domain
:
automated matches
(4)
Escherichia coli K-12 [TaxId: 83333]
(1)
1a
d2fkbb_
B:
1b
d2fkbc_
C:
Protein domain
:
Hypothetical protein YfcD
(1)
Escherichia coli [TaxId: 562]
(1)
2a
d2fkba1
A:8-168
[
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]
CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2fkbC00 (C:2-168)
1b: CATH_2fkbA00 (A:8-168)
1c: CATH_2fkbB00 (B:8-168)
View:
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Architectures
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(
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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Nucleoside Triphosphate Pyrophosphohydrolase
(89)
Homologous Superfamily
:
Nucleoside Triphosphate Pyrophosphohydrolase
(89)
Escherichia coli k12. Organism_taxid: 83333. Strain: k 12.
(1)
1a
2fkbC00
C:2-168
1b
2fkbA00
A:8-168
1c
2fkbB00
B:8-168
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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