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1K2X
Asym. Unit
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Asym.Unit (107 KB)
Biol.Unit 1 (100 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PUTATIVE ASPARAGINASE ENCODED BY ESCHERICHIA COLI YBIK GENE
Authors
:
D. Borek, M. Jaskolski
Date
:
30 Sep 01 (Deposition) - 09 Sep 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Ntn Hydrolase, Asparginase, Autoproteolysis, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Michalska, D. Borek, A. Hernandez-Santoyo, M. Jaskolski
Crystal Packing Of Plant-Type L-Asparaginase From Escherichia Coli.
Acta Crystallogr. , Sect. D V. 64 309 2008
(for further references see the
PDB file header
)
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Hetero Components
(3, 13)
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)
2a: S,S-(2-HYDROXYETHYL)THIOCYSTEINE (CMEa)
2b: S,S-(2-HYDROXYETHYL)THIOCYSTEINE (CMEb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
9
Ligand/Ion
CHLORIDE ION
2
CME
2
Mod. Amino Acid
S,S-(2-HYDROXYETHYL)THIOCYSTEINE
3
NA
2
Ligand/Ion
SODIUM ION
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Sites
(11, 11)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:60 , GLU A:61 , CME A:63 , PHE A:66 , ALA A:68 , ILE A:70
BINDING SITE FOR RESIDUE NA A 801
02
AC2
SOFTWARE
GLN A:23 , ILE D:310 , TYR D:311
BINDING SITE FOR RESIDUE CL A 803
03
AC3
SOFTWARE
THR A:146 , SER A:147
BINDING SITE FOR RESIDUE CL A 808
04
AC4
SOFTWARE
GLY A:13 , ALA A:14 , HOH A:1038 , THR B:292 , GLU B:293
BINDING SITE FOR RESIDUE CL A 810
05
AC5
SOFTWARE
ARG A:104 , VAL A:139 , HOH A:841
BINDING SITE FOR RESIDUE CL A 811
06
AC6
SOFTWARE
LEU C:60 , GLU C:61 , CME C:63 , PHE C:66 , ALA C:68 , ILE C:70
BINDING SITE FOR RESIDUE NA C 802
07
AC7
SOFTWARE
ILE B:310 , TYR B:311 , HOH B:353 , GLN C:23
BINDING SITE FOR RESIDUE CL C 804
08
AC8
SOFTWARE
ARG C:104 , VAL C:139 , HOH C:897
BINDING SITE FOR RESIDUE CL C 807
09
AC9
SOFTWARE
THR C:146 , SER C:147
BINDING SITE FOR RESIDUE CL C 809
10
BC1
SOFTWARE
TYR B:251 , ARG D:262 , LYS D:267
BINDING SITE FOR RESIDUE CL D 805
11
BC2
SOFTWARE
THR D:292 , GLU D:293
BINDING SITE FOR RESIDUE CL D 806
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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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, 2)
Info
All SCOP Domains
1a: SCOP_d1k2x_1 (A:,B:)
1b: SCOP_d1k2x_2 (C:,D:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
(Glycosyl)asparaginase
(14)
Protein domain
:
Glycosylasparaginase (aspartylglucosaminidase, AGA)
(13)
Escherichia coli [TaxId: 562]
(3)
1a
d1k2x.1
A:,B:
1b
d1k2x.2
C:,D:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Asparaginase_2_1k2xD01 (D:179-313)
1b: PFAM_Asparaginase_2_1k2xD02 (D:179-313)
1c: PFAM_Asparaginase_2_1k2xD03 (D:179-313)
1d: PFAM_Asparaginase_2_1k2xD04 (D:179-313)
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Clans
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(
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(
)
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)
(
)
Clan
:
NTN
(93)
Family
:
Asparaginase_2
(8)
Escherichia coli (strain K12)
(5)
1a
Asparaginase_2-1k2xD01
D:179-313
1b
Asparaginase_2-1k2xD02
D:179-313
1c
Asparaginase_2-1k2xD03
D:179-313
1d
Asparaginase_2-1k2xD04
D:179-313
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Asymmetric Unit 1
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