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1K2X
Biol. Unit 1
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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
(1, 2)
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
-1
Ligand/Ion
CHLORIDE ION
2
CME
2
Mod. Amino Acid
S,S-(2-HYDROXYETHYL)THIOCYSTEINE
3
NA
-1
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)
View:
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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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PROSITE Patterns/Profiles
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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.
(no "Exon" information available for biological units yet)
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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)
(
)
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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