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1JN9
Biol. Unit 1
Info
Asym.Unit (98 KB)
Biol.Unit 1 (92 KB)
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(1)
Title
:
STRUCTURE OF PUTATIVE ASPARAGINASE ENCODED BY ESCHERICHIA COLI YBIK GENE
Authors
:
D. Borek, M. Jaskolski
Date
:
23 Jul 01 (Deposition) - 09 Sep 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Ntn Hydrolase, Asparaginase, 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: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: S,S-(2-HYDROXYETHYL)THIOCYSTEINE (CMEa)
3b: S,S-(2-HYDROXYETHYL)THIOCYSTEINE (CMEb)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
CME
2
Mod. Amino Acid
S,S-(2-HYDROXYETHYL)THIOCYSTEINE
4
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
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 401
2
AC2
SOFTWARE
GLN A:23 , ILE D:310 , TYR D:311
BINDING SITE FOR RESIDUE CL A 403
3
AC3
SOFTWARE
MET A:114 , SER A:117 , HOH A:413 , HOH A:414 , HOH A:415 , HOH A:416 , HOH A:487
BINDING SITE FOR RESIDUE CA A 407
4
AC4
SOFTWARE
ASP A:51 , HOH A:467 , HOH A:468 , HOH A:469 , HOH A:470 , GLU C:125
BINDING SITE FOR RESIDUE CA A 408
5
AC5
SOFTWARE
ASP B:304 , HOH B:453 , HOH B:454 , ASP D:188
BINDING SITE FOR RESIDUE CA B 409
6
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 402
7
AC7
SOFTWARE
ILE B:310 , TYR B:311 , LEU C:22
BINDING SITE FOR RESIDUE CL C 405
8
AC8
SOFTWARE
ALA C:14 , THR D:292 , GLU D:293
BINDING SITE FOR RESIDUE CL D 404
9
AC9
SOFTWARE
ARG D:262 , LYS D:267
BINDING SITE FOR RESIDUE CL D 406
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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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_d1jn9_1 (A:,B:)
1b: SCOP_d1jn9_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
d1jn9.1
A:,B:
1b
d1jn9.2
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_1jn9D01 (D:179-313)
1b: PFAM_Asparaginase_2_1jn9D02 (D:179-313)
1c: PFAM_Asparaginase_2_1jn9D03 (D:179-313)
1d: PFAM_Asparaginase_2_1jn9D04 (D:179-313)
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Clans
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(
)
Organisms
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)
(
)
Clan
:
NTN
(93)
Family
:
Asparaginase_2
(8)
Escherichia coli (strain K12)
(5)
1a
Asparaginase_2-1jn9D01
D:179-313
1b
Asparaginase_2-1jn9D02
D:179-313
1c
Asparaginase_2-1jn9D03
D:179-313
1d
Asparaginase_2-1jn9D04
D:179-313
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Asymmetric Unit 1
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Asym.Unit (98 KB)
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