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2P1R
Biol. Unit 1
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
(1, 14)
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:
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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
MSE
14
Mod. Amino Acid
SELENOMETHIONINE
4
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC7 (SOFTWARE)
5: AC8 (SOFTWARE)
6: AC9 (SOFTWARE)
7: BC1 (SOFTWARE)
8: BC4 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
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
2
AC2
SOFTWARE
ASP A:125 , ASN A:200 , LEU A:215 , ASP A:218 , LEU A:220
BINDING SITE FOR RESIDUE CA A 301
3
AC3
SOFTWARE
SER A:242 , ASP A:243 , ASN A:245 , ILE A:248
BINDING SITE FOR RESIDUE CA A 302
4
AC7
SOFTWARE
ASP C:125 , ASN C:200 , LEU C:215 , ASP C:218 , LEU C:220
BINDING SITE FOR RESIDUE CA C 300
5
AC8
SOFTWARE
SER C:242 , ASP C:243 , ASN C:245 , ILE C:248
BINDING SITE FOR RESIDUE CA C 301
6
AC9
SOFTWARE
GLY B:94 , ARG C:81 , GLY C:83 , HOH C:400
BINDING SITE FOR RESIDUE CA C 302
7
BC1
SOFTWARE
ASN C:12 , GLY C:66 , THR C:69 , HOH C:351
BINDING SITE FOR RESIDUE CL C 303
8
BC4
SOFTWARE
GLY A:94 , ARG D:81 , GLY D:83 , HOH D:382
BINDING SITE FOR RESIDUE CA D 302
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: DAGK (A:2-133,C:2-133)
;
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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
2
A:2-133
-
C:2-133
-
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Exons
(0, 0)
Info
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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, 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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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)
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all CATH domains
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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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Clan
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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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Asymmetric Unit 1
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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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