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3ZZF
Asym. Unit
Info
Asym.Unit (402 KB)
Biol.Unit 1 (388 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE AMINO ACID KINASE DOMAIN FROM SACCHAROMYCES CEREVISIAE ACETYLGLUTAMATE KINASE COMPLEXED WITH ITS SUBSTRATE N-ACETYLGLUTAMATE
Authors
:
S. De Cima, F. Gil-Ortiz, M. Crabeel, I. Fita, V. Rubio
Date
:
01 Sep 11 (Deposition) - 02 May 12 (Release) - 09 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Transferase, N-Acetyl-L-Glutamate, Arginine Biosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. De Cima, F. Gil-Ortiz, M. Crabeel, I. Fita, V. Rubio
Insight On An Arginine Synthesis Metabolon From The Tetrameric Structure Of Yeast Acetylglutamate Kinase
Plos One V. 7 34734 2012
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Hetero Components
(5, 36)
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)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
4a: MERCURY (II) ION (HGa)
4b: MERCURY (II) ION (HGb)
4c: MERCURY (II) ION (HGc)
4d: MERCURY (II) ION (HGd)
4e: MERCURY (II) ION (HGe)
4f: MERCURY (II) ION (HGf)
4g: MERCURY (II) ION (HGg)
4h: MERCURY (II) ION (HGh)
5a: N-ACETYL-L-GLUTAMATE (NLGa)
5b: N-ACETYL-L-GLUTAMATE (NLGb)
5c: N-ACETYL-L-GLUTAMATE (NLGc)
5d: N-ACETYL-L-GLUTAMATE (NLGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
7
Ligand/Ion
CHLORIDE ION
2
EDO
13
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
4
Ligand/Ion
GLYCEROL
4
HG
8
Ligand/Ion
MERCURY (II) ION
5
NLG
4
Ligand/Ion
N-ACETYL-L-GLUTAMATE
[
close Hetero Component info
]
Sites
(36, 36)
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)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:212 , VAL A:248 , ASN A:249
BINDING SITE FOR RESIDUE EDO A1353
02
AC2
SOFTWARE
GLY B:212 , ASN B:249 , VAL B:252
BINDING SITE FOR RESIDUE EDO B1352
03
AC3
SOFTWARE
SER D:69 , THR D:70 , GLN D:73 , PHE D:122 , HIS D:125 , HOH D:2041
BINDING SITE FOR RESIDUE EDO D1353
04
AC4
SOFTWARE
LYS A:265 , ILE A:266 , SER A:325 , GLU A:337 , HOH A:2069
BINDING SITE FOR RESIDUE EDO A1354
05
AC5
SOFTWARE
ASN A:270 , LYS A:309 , HOH A:2014 , HOH A:2086
BINDING SITE FOR RESIDUE EDO A1355
06
AC6
SOFTWARE
HOH A:2037 , TYR B:202 , THR B:240 , SER B:242 , GLN B:244
BINDING SITE FOR RESIDUE EDO B1353
07
AC7
SOFTWARE
GLN B:86 , LYS B:89 , TYR B:90 , LEU B:264 , HOH B:2015 , HOH B:2021 , HOH B:2128
BINDING SITE FOR RESIDUE EDO B1354
08
AC8
SOFTWARE
ASP A:111 , ASN A:112 , LEU A:113 , HIS A:114 , GLU A:115 , HOH A:2017 , LYS C:298
BINDING SITE FOR RESIDUE EDO A1356
09
AC9
SOFTWARE
THR B:70 , GLN B:73 , ALA B:121 , PHE B:122 , HIS B:125 , HOH B:2045 , HOH B:2129
BINDING SITE FOR RESIDUE EDO B1355
10
BC1
SOFTWARE
GLN B:97 , GLN B:98 , PHE B:99 , TYR B:129 , ILE B:226 , HOH B:2052
BINDING SITE FOR RESIDUE EDO B1356
11
BC2
SOFTWARE
GLU C:220 , GLU C:223 , ALA C:224 , LYS C:227 , HOH C:2078
BINDING SITE FOR RESIDUE EDO C1353
12
BC3
SOFTWARE
ASN C:270 , GLU C:271 , LYS C:272 , GOL C:1355
BINDING SITE FOR RESIDUE EDO C1354
13
BC4
SOFTWARE
GLY B:156 , GLY B:305
BINDING SITE FOR RESIDUE EDO B1357
14
BC5
SOFTWARE
GLY A:156 , GLY A:305
BINDING SITE FOR RESIDUE GOL A1357
15
BC6
SOFTWARE
LYS B:103 , ASN B:270 , LYS B:309 , HOH B:2030 , HOH B:2031 , HOH B:2105 , HOH B:2107
BINDING SITE FOR RESIDUE GOL B1358
16
BC7
SOFTWARE
LYS C:103 , ASN C:270 , LYS C:272 , LYS C:309 , EDO C:1354 , HOH C:2005 , HOH C:2006
BINDING SITE FOR RESIDUE GOL C1355
17
BC8
SOFTWARE
LYS D:103 , ASN D:270 , LYS D:309 , HOH D:2027 , HOH D:2030 , HOH D:2104 , HOH D:2136
BINDING SITE FOR RESIDUE GOL D1354
18
BC9
SOFTWARE
CYS A:119 , CL A:1362
BINDING SITE FOR RESIDUE HG A1358
19
CC1
SOFTWARE
GLU B:115 , CYS B:119 , GLN B:335 , CL B:1364 , HOH B:2009 , HOH B:2044
BINDING SITE FOR RESIDUE HG B1359
20
CC2
SOFTWARE
CYS C:119
BINDING SITE FOR RESIDUE HG C1356
21
CC3
SOFTWARE
GLU D:115 , CYS D:119 , GLN D:335 , CL D:1358 , HOH D:2007 , HOH D:2040
BINDING SITE FOR RESIDUE HG D1355
22
CC4
SOFTWARE
VAL A:167 , CYS A:171 , CL A:1361
BINDING SITE FOR RESIDUE HG A1359
23
CC5
SOFTWARE
ARG B:143 , VAL B:167 , CYS B:171 , CL B:1362 , CL B:1363
BINDING SITE FOR RESIDUE HG B1360
24
CC6
SOFTWARE
ARG C:143 , VAL C:167 , CYS C:171 , CL C:1359 , HOH C:2024
BINDING SITE FOR RESIDUE HG C1357
25
CC7
SOFTWARE
THR B:280 , GLY B:281 , ARG D:143 , VAL D:167 , LYS D:170 , CYS D:171 , HOH D:2056 , HOH D:2070 , HOH D:2071
BINDING SITE FOR RESIDUE HG D1356
26
CC8
SOFTWARE
GLY A:135 , THR A:136 , GLY A:137 , ARG A:158 , ASN A:247 , VAL A:248 , ASN A:249 , ALA A:250 , HOH A:2012 , HOH A:2013 , HOH A:2034
BINDING SITE FOR RESIDUE NLG A1360
27
CC9
SOFTWARE
GLY B:135 , THR B:136 , GLY B:137 , ARG B:158 , ASN B:247 , VAL B:248 , ASN B:249 , ALA B:250 , HOH B:2029 , HOH B:2030 , HOH B:2061 , HOH B:2064
BINDING SITE FOR RESIDUE NLG B1361
28
DC1
SOFTWARE
GLY C:135 , THR C:136 , GLY C:137 , ARG C:158 , ASN C:247 , VAL C:248 , ASN C:249 , ALA C:250 , HOH C:2006 , HOH C:2007 , HOH C:2020
BINDING SITE FOR RESIDUE NLG C1358
29
DC2
SOFTWARE
GLY D:135 , THR D:136 , GLY D:137 , ARG D:158 , ASN D:247 , VAL D:248 , ASN D:249 , ALA D:250 , HOH D:2027 , HOH D:2029 , HOH D:2061 , HOH D:2064
BINDING SITE FOR RESIDUE NLG D1357
30
DC3
SOFTWARE
ARG B:143 , LYS B:170 , CYS B:171 , GLU B:174 , HG B:1360 , CL B:1363
BINDING SITE FOR RESIDUE CL B1362
31
DC4
SOFTWARE
HG B:1360 , CL B:1362
BINDING SITE FOR RESIDUE CL B1363
32
DC5
SOFTWARE
HG B:1359
BINDING SITE FOR RESIDUE CL B1364
33
DC6
SOFTWARE
HG D:1355
BINDING SITE FOR RESIDUE CL D1358
34
DC7
SOFTWARE
ARG A:143 , LYS A:170 , HG A:1359
BINDING SITE FOR RESIDUE CL A1361
35
DC8
SOFTWARE
CYS A:119 , GLN A:335 , HG A:1358
BINDING SITE FOR RESIDUE CL A1362
36
DC9
SOFTWARE
ARG C:143 , CYS C:171 , HG C:1357 , HOH C:2024
BINDING SITE FOR RESIDUE CL C1359
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
View:
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3zzfa_ (A:)
1b: SCOP_d3zzfb_ (B:)
1c: SCOP_d3zzfc_ (C:)
1d: SCOP_d3zzfd_ (D:)
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Classes
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Carbamate kinase-like
(63)
Superfamily
:
Carbamate kinase-like
(63)
Family
:
automated matches
(24)
Protein domain
:
automated matches
(24)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(3)
1a
d3zzfa_
A:
1b
d3zzfb_
B:
1c
d3zzfc_
C:
1d
d3zzfd_
D:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
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Asym.Unit (402 KB)
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