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2P1R
Asym. Unit
Info
Asym.Unit (194 KB)
Biol.Unit 1 (96 KB)
Biol.Unit 2 (96 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SALMONELLA TYPHIMURIUM YEGS, A PUTATIVE LIPID KINASE HOMOLOGOUS TO EUKARYOTIC SPHINGOSINE AND DIACYLGLYCEROL KINASES.
Authors
:
C. E. Nichols, H. K. Lamb, M. Lockyer, I. G. Charles, S. Pyne, A. R. Hawkin D. K. Stammers
Date
:
06 Mar 07 (Deposition) - 23 Oct 07 (Release) - 10 Sep 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Yegs, Diacylglycerol, Kinase, Lipid, Atp-Binding, Magnesium, Metal- Binding, Transferase, ----
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. E. Nichols, H. K. Lamb, M. Lockyer, I. G. Charles, S. Pyne, A. R. Hawkins, D. K. Stammers
Characterization Of Salmonella Typhimurium Yegs, A Putative Lipid Kinase Homologous To Eukaryotic Sphingosine And Diacylglycerol Kinases
Proteins: V. 68 13 2007 Struct. , Funct. , Genet.
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Hetero Components
(4, 42)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
3a: SELENOMETHIONINE (MSEa)
3aa: SELENOMETHIONINE (MSEaa)
3ab: SELENOMETHIONINE (MSEab)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
3q: SELENOMETHIONINE (MSEq)
3r: SELENOMETHIONINE (MSEr)
3s: SELENOMETHIONINE (MSEs)
3t: SELENOMETHIONINE (MSEt)
3u: SELENOMETHIONINE (MSEu)
3v: SELENOMETHIONINE (MSEv)
3w: SELENOMETHIONINE (MSEw)
3x: SELENOMETHIONINE (MSEx)
3y: SELENOMETHIONINE (MSEy)
3z: SELENOMETHIONINE (MSEz)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
10
Ligand/Ion
CALCIUM ION
2
CL
2
Ligand/Ion
CHLORIDE ION
3
MSE
28
Mod. Amino Acid
SELENOMETHIONINE
4
NA
2
Ligand/Ion
SODIUM ION
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Sites
(14, 14)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:67 , ILE A:70 , ASN A:97 , PHE A:99 , ALA A:100 , HOH A:305
BINDING SITE FOR RESIDUE NA A 300
02
AC2
SOFTWARE
ASP A:125 , ASN A:200 , LEU A:215 , ASP A:218 , LEU A:220
BINDING SITE FOR RESIDUE CA A 301
03
AC3
SOFTWARE
SER A:242 , ASP A:243 , ASN A:245 , ILE A:248
BINDING SITE FOR RESIDUE CA A 302
04
AC4
SOFTWARE
ASP B:67 , ILE B:70 , ASN B:97 , PHE B:99 , ALA B:100 , HOH B:339
BINDING SITE FOR RESIDUE NA B 300
05
AC5
SOFTWARE
ASP B:125 , ASN B:200 , LEU B:215 , ASP B:218 , LEU B:220
BINDING SITE FOR RESIDUE CA B 301
06
AC6
SOFTWARE
SER B:242 , ASP B:243 , ASN B:245 , ILE B:248
BINDING SITE FOR RESIDUE CA B 302
07
AC7
SOFTWARE
ASP C:125 , ASN C:200 , LEU C:215 , ASP C:218 , LEU C:220
BINDING SITE FOR RESIDUE CA C 300
08
AC8
SOFTWARE
SER C:242 , ASP C:243 , ASN C:245 , ILE C:248
BINDING SITE FOR RESIDUE CA C 301
09
AC9
SOFTWARE
GLY B:94 , ARG C:81 , GLY C:83 , HOH C:400
BINDING SITE FOR RESIDUE CA C 302
10
BC1
SOFTWARE
ASN C:12 , GLY C:66 , THR C:69 , HOH C:351
BINDING SITE FOR RESIDUE CL C 303
11
BC2
SOFTWARE
ASP D:125 , ASN D:200 , LEU D:215 , ASP D:218 , LEU D:220
BINDING SITE FOR RESIDUE CA D 300
12
BC3
SOFTWARE
SER D:242 , ASP D:243 , ASN D:245 , ILE D:248
BINDING SITE FOR RESIDUE CA D 301
13
BC4
SOFTWARE
GLY A:94 , ARG D:81 , GLY D:83 , HOH D:382
BINDING SITE FOR RESIDUE CA D 302
14
BC5
SOFTWARE
GLY D:66 , THR D:69 , HOH D:322
BINDING SITE FOR RESIDUE CL D 303
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: DAGK (A:2-133,B:2-133,C:2-133,D:2-133)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DAGK
PS50146
DAG-kinase catalytic (DAGKc) domain profile.
YEGS_SALTY
2-133
4
A:2-133
B:2-133
C:2-133
D:2-133
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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_d2p1ra1 (A:1-299)
1b: SCOP_d2p1rb_ (B:)
1c: SCOP_d2p1rc_ (C:)
1d: SCOP_d2p1rd_ (D:)
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Protein Domains
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Organisms
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(
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Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
NAD kinase/diacylglycerol kinase-like
(15)
Superfamily
:
NAD kinase/diacylglycerol kinase-like
(15)
Family
:
Diacylglycerol kinase-like
(5)
Protein domain
:
Lipid kinase YegS
(3)
Salmonella typhimurium [TaxId: 90371]
(1)
1a
d2p1ra1
A:1-299
1b
d2p1rb_
B:
1c
d2p1rc_
C:
1d
d2p1rd_
D:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_DAGK_cat_2p1rD01 (D:6-132)
1b: PFAM_DAGK_cat_2p1rD02 (D:6-132)
1c: PFAM_DAGK_cat_2p1rD03 (D:6-132)
1d: PFAM_DAGK_cat_2p1rD04 (D:6-132)
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Organisms
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)
(
)
Clan
:
PFK
(5)
Family
:
DAGK_cat
(4)
Salmonella typhimurium
(1)
1a
DAGK_cat-2p1rD01
D:6-132
1b
DAGK_cat-2p1rD02
D:6-132
1c
DAGK_cat-2p1rD03
D:6-132
1d
DAGK_cat-2p1rD04
D:6-132
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Chain D
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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Show PDB file:
Asym.Unit (194 KB)
Header - Asym.Unit
Biol.Unit 1 (96 KB)
Header - Biol.Unit 1
Biol.Unit 2 (96 KB)
Header - Biol.Unit 2
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