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3MJF
Asym. Unit
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Asym.Unit (171 KB)
Biol.Unit 1 (164 KB)
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(1)
Title
:
PHOSPHORIBOSYLAMINE-GLYCINE LIGASE FROM YERSINIA PESTIS
Authors
:
J. Osipiuk, M. Zhou, L. Papazisi, W. F. Anderson, A. Joachimiak
Date
:
12 Apr 10 (Deposition) - 26 May 10 (Release) - 26 May 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.47
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Structural Genomics, Phosphoribosylamine-Glycine Ligase, Center For Structural Genomics Of Infectious Diseases, Csgid, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Osipiuk, M. Zhou, L. Papazisi, W. F. Anderson, A. Joachimiak
X-Ray Crystal Structure Of Phosphoribosylamine-Glycine Ligase From Yersinia Pestis.
To Be Published
[
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Hetero Components
(8, 23)
Info
All Hetero Components
1a: BETA-MERCAPTOETHANOL (BMEa)
2a: 1,2-ETHANEDIOL (EDOa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
5a: SODIUM ION (NAa)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
7a: TRIETHYLENE GLYCOL (PGEa)
8a: SULFATE ION (SO4a)
8b: SULFATE ION (SO4b)
8c: SULFATE ION (SO4c)
8d: SULFATE ION (SO4d)
8e: SULFATE ION (SO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BME
1
Ligand/Ion
BETA-MERCAPTOETHANOL
2
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
2
Ligand/Ion
GLYCEROL
4
MSE
11
Mod. Amino Acid
SELENOMETHIONINE
5
NA
1
Ligand/Ion
SODIUM ION
6
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
7
PGE
1
Ligand/Ion
TRIETHYLENE GLYCOL
8
SO4
5
Ligand/Ion
SULFATE ION
[
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Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:193 , GLU A:194 , GLN A:213 , ASP A:214 , HIS A:215 , ASP A:222 , TYR A:421 , ARG A:422 , HOH A:589
BINDING SITE FOR RESIDUE GOL A 501
02
AC2
SOFTWARE
GLN A:398 , LYS A:417 , HOH A:441 , HOH A:668
BINDING SITE FOR RESIDUE GOL A 502
03
AC3
SOFTWARE
LYS A:27 , SER A:62 , HIS A:63 , GLN A:96 , ALA A:97 , GLN A:100 , ASN A:264 , HOH A:675 , HOH A:860
BINDING SITE FOR RESIDUE PGE A 504
04
AC4
SOFTWARE
GLU A:162 , GLU A:165 , THR A:166 , ASN A:169 , ASP A:170
BINDING SITE FOR RESIDUE PEG A 505
05
AC5
SOFTWARE
ALA A:210 , ARG A:302 , TRP A:326 , SO4 A:509 , HOH A:796
BINDING SITE FOR RESIDUE EDO A 506
06
AC6
SOFTWARE
GLN A:409 , CYS A:415 , LYS A:417 , HOH A:429 , HOH A:740
BINDING SITE FOR RESIDUE BME A 507
07
AC7
SOFTWARE
ARG A:383 , HOH A:432 , HOH A:433 , HOH A:838 , HOH A:916 , HOH A:927
BINDING SITE FOR RESIDUE SO4 A 508
08
AC8
SOFTWARE
ALA A:210 , THR A:211 , EDO A:506 , HOH A:576 , HOH A:696 , HOH A:782
BINDING SITE FOR RESIDUE SO4 A 509
09
AC9
SOFTWARE
ILE A:48 , ALA A:261 , GLU A:262 , GLY A:263 , HOH A:490 , HOH A:742 , HOH A:793
BINDING SITE FOR RESIDUE SO4 A 510
10
BC1
SOFTWARE
GLY A:152 , LYS A:153 , GLY A:154 , VAL A:155 , HOH A:836
BINDING SITE FOR RESIDUE SO4 A 511
11
BC2
SOFTWARE
SER A:104 , LYS A:105 , ALA A:106 , HOH A:907 , HOH A:908
BINDING SITE FOR RESIDUE SO4 A 512
12
BC3
SOFTWARE
ASP A:214 , LYS A:216 , GLY A:228 , ARG A:290 , ASP A:293 , PRO A:294 , GLU A:295
BINDING SITE FOR RESIDUE NA A 513
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: GARS (A:290-297)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GARS
PS00184
Phosphoribosylglycinamide synthetase signature.
PUR2_YERPE
290-297
1
A:290-297
[
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Exons
(0, 0)
Info
All Exons
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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
(3, 3)
Info
All SCOP Domains
1a: SCOP_d3mjfa3 (A:328-428)
2a: SCOP_d3mjfa2 (A:104-327)
3a: SCOP_d3mjfa1 (A:0-103)
View:
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Classes
(
)
(
)
Folds
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(
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Superfamilies
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(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Barrel-sandwich hybrid
(185)
Superfamily
:
Rudiment single hybrid motif
(69)
Family
:
automated matches
(17)
Protein domain
:
automated matches
(17)
Yersinia pestis [TaxId: 214092]
(1)
1a
d3mjfa3
A:328-428
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ATP-grasp
(191)
Superfamily
:
Glutathione synthetase ATP-binding domain-like
(158)
Family
:
BC ATP-binding domain-like
(53)
Protein domain
:
automated matches
(3)
Yersinia pestis [TaxId: 214092]
(1)
2a
d3mjfa2
A:104-327
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PreATP-grasp domain
(131)
Superfamily
:
PreATP-grasp domain
(131)
Family
:
automated matches
(45)
Protein domain
:
automated matches
(45)
Yersinia pestis [TaxId: 214092]
(2)
3a
d3mjfa1
A:0-103
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(3, 3)
Info
all PFAM domains
1a: PFAM_GARS_A_3mjfA01 (A:103-296)
2a: PFAM_GARS_C_3mjfA02 (A:330-424)
3a: PFAM_GARS_N_3mjfA03 (A:1-102)
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Clans
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
ATP-grasp
(83)
Family
:
GARS_A
(12)
Yersinia pestis
(1)
1a
GARS_A-3mjfA01
A:103-296
Clan
:
no clan defined [family: GARS_C]
(12)
Family
:
GARS_C
(12)
Yersinia pestis
(1)
2a
GARS_C-3mjfA02
A:330-424
Clan
:
no clan defined [family: GARS_N]
(12)
Family
:
GARS_N
(12)
Yersinia pestis
(1)
3a
GARS_N-3mjfA03
A:1-102
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Protein & NOT Site
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Chain A
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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