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1JSL
Asym. Unit
Info
Asym.Unit (229 KB)
Biol.Unit 1 (224 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ERWINIA CHRYSANTHEMI L-ASPARAGINASE COMPLEXED WITH 6-HYDROXY-D-NORLEUCINE
Authors
:
K. Aghaiypour, A. Wlodawer, J. Lubkowski
Date
:
17 Aug 01 (Deposition) - 09 Jan 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
L-Asparaginase, Amidohydrolase, Bacteria, Covalent Complex, Suicide Inhibitor, Don, Enzyme, Active Site, Tetramer, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Aghaiypour, A. Wlodawer, J. Lubkowski
Do Bacterial L-Asparaginases Utilize A Catalytic Triad Thr-Tyr-Glu?
Biochim. Biophys. Acta V. 1550 117 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 8)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
2a: 6-HYDROXY-D-NORLEUCINE (DDOa)
2b: 6-HYDROXY-D-NORLEUCINE (DDOb)
2c: 6-HYDROXY-D-NORLEUCINE (DDOc)
2d: 6-HYDROXY-D-NORLEUCINE (DDOd)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
1
Ligand/Ion
PENTAETHYLENE GLYCOL
2
DDO
4
Ligand/Ion
6-HYDROXY-D-NORLEUCINE
3
GOL
3
Ligand/Ion
GLYCEROL
[
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]
Sites
(8, 8)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:14 , THR A:15 , TYR A:29 , ALA A:61 , SER A:62 , GLU A:63 , GLY A:94 , THR A:95 , ASP A:96 , ALA A:120 , MET A:121 , HOH A:2502 , HOH A:2506 , HOH A:2508 , HOH A:2510
BINDING SITE FOR RESIDUE DDO A 2401
2
AC2
SOFTWARE
GLY B:14 , THR B:15 , TYR B:29 , ALA B:61 , SER B:62 , GLU B:63 , GLY B:94 , THR B:95 , ASP B:96 , ALA B:120 , MET B:121 , HOH B:2403 , HOH B:2408 , HOH D:2604
BINDING SITE FOR RESIDUE DDO B 2402
3
AC3
SOFTWARE
SER A:254 , HOH A:2740 , GLY C:14 , THR C:15 , TYR C:29 , ALA C:61 , SER C:62 , GLU C:63 , GLY C:94 , THR C:95 , ASP C:96 , ALA C:120 , MET C:121 , HOH C:2605 , HOH C:2609
BINDING SITE FOR RESIDUE DDO C 2403
4
AC4
SOFTWARE
SER B:254 , HOH B:2635 , GLY D:14 , THR D:15 , TYR D:29 , ALA D:61 , SER D:62 , GLU D:63 , GLY D:94 , THR D:95 , ASP D:96 , ALA D:120 , MET D:121 , HOH D:2609 , HOH D:2613 , HOH D:2615
BINDING SITE FOR RESIDUE DDO D 2404
5
AC5
SOFTWARE
GLY A:241 , LYS A:243 , HOH A:2628 , HOH A:2690 , ASP C:210 , ARG C:212 , THR C:312
BINDING SITE FOR RESIDUE 1PE A 2501
6
AC6
SOFTWARE
ASP A:68 , SER A:216 , LEU A:217 , LYS A:219 , MET A:308 , HOH A:2574 , THR C:215 , HOH C:2604 , HOH C:2624
BINDING SITE FOR RESIDUE GOL C 2601
7
AC7
SOFTWARE
LEU B:267 , PRO B:291 , GLY B:292 , PRO B:317 , HOH B:2444 , HOH B:2637 , ARG D:313 , THR D:314 , SER D:315 , ASP D:316 , HOH D:2607
BINDING SITE FOR RESIDUE GOL D 2602
8
AC8
SOFTWARE
ALA C:82 , ARG C:83 , ASP C:84 , ASP C:85
BINDING SITE FOR RESIDUE GOL C 2603
[
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]
SAPs(SNPs)/Variants
(4, 16)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_ASPG_DICCH_001 (I156I, chain A/B/C/D, )
2: VAR_ASPG_DICCH_002 (R178R, chain A/B/C/D, )
3: VAR_ASPG_DICCH_003 (L267L, chain A/B/C/D, )
4: VAR_ASPG_DICCH_004 (M274M, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_ASPG_DICCH_001
*
L
177
I
ASPG_DICCH
---
---
A/B/C/D
I
156
I
2
UniProt
VAR_ASPG_DICCH_002
*
K
199
R
ASPG_DICCH
---
---
A/B/C/D
R
178
R
3
UniProt
VAR_ASPG_DICCH_003
*
M
288
L
ASPG_DICCH
---
---
A/B/C/D
L
267
L
4
UniProt
VAR_ASPG_DICCH_004
*
I
295
M
ASPG_DICCH
---
---
A/B/C/D
M
274
M
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: ASN_GLN_ASE_3 (A:5-327,B:5-327,C:5-327,D:5-327)
2: ASN_GLN_ASE_1 (A:9-17,B:9-17,C:9-17,D:9-17)
3: ASN_GLN_ASE_2 (A:88-98,B:88-98,C:88-98,D:88-98)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ASN_GLN_ASE_3
PS51732
Asparaginase / glutaminase domain profile.
ASPG_DICCH
26-348
4
A:5-327
B:5-327
C:5-327
D:5-327
2
ASN_GLN_ASE_1
PS00144
Asparaginase / glutaminase active site signature 1.
ASPG_DICCH
30-38
4
A:9-17
B:9-17
C:9-17
D:9-17
3
ASN_GLN_ASE_2
PS00917
Asparaginase / glutaminase active site signature 2.
ASPG_DICCH
109-119
4
A:88-98
B:88-98
C:88-98
D:88-98
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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_d1jsla_ (A:)
1b: SCOP_d1jslc_ (C:)
1c: SCOP_d1jsld_ (D:)
1d: SCOP_d1jslb_ (B:)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Glutaminase/Asparaginase
(37)
Superfamily
:
Glutaminase/Asparaginase
(37)
Family
:
Glutaminase/Asparaginase
(33)
Protein domain
:
Asparaginase type II
(17)
Erwinia chrysanthemi [TaxId: 556]
(8)
1a
d1jsla_
A:
1b
d1jslc_
C:
1c
d1jsld_
D:
1d
d1jslb_
B:
[
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1jslA01 (A:4-218)
1b: CATH_1jslB01 (B:4-218)
1c: CATH_1jslC01 (C:4-218)
1d: CATH_1jslD01 (D:4-218)
2a: CATH_1jslA02 (A:219-327)
2b: CATH_1jslB02 (B:219-327)
2c: CATH_1jslC02 (C:219-327)
2d: CATH_1jslD02 (D:219-327)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1170, no name defined]
(27)
Erwinia chrysanthemi. Organism_taxid: 556
(3)
1a
1jslA01
A:4-218
1b
1jslB01
B:4-218
1c
1jslC01
C:4-218
1d
1jslD01
D:4-218
Homologous Superfamily
:
[code=3.40.50.40, no name defined]
(27)
Erwinia chrysanthemi. Organism_taxid: 556
(3)
2a
1jslA02
A:219-327
2b
1jslB02
B:219-327
2c
1jslC02
C:219-327
2d
1jslD02
D:219-327
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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