All structure family : Guanylate Kinase phosphate binding domain
 
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Entry Information
Entry status  (1)
REL
(33)
 
Experimental methods  (1)
X-ray diffraction
(33)
 
Authors  (171)
Cherfils J
(9)
Hible G
(9)
Christova P
(7)
Renault L
(7)
Gilles AM
(5)
Girard E
(4)
Munier-Lehmann H
(4)
Seclaman E
(4)
Thompson A
(4)
Evrin C
(3)
Li Y
(3)
Prehoda KE
(3)
Radulescu AZ
(3)
Schaeffer F
(3)
Zoe Radulescu A
(3)
Blaszczyk J
(2)
Bochkarev A
(2)
Brunger AT
(2)
Chan S
(2)
Daalova P
(2)
Doe CQ
(2)
Ji X
(2)
Johnston CA
(2)
Konrad M
(2)
Lavie A
(2)
Panepucci EH
(2)
Perry LJ
(2)
Sawaya MR
(2)
Shang Y
(2)
Spangenberg O
(2)
Structural Genomics Consortium (SGC)
(2)
Tavares GA
(2)
Tempel W
(2)
Yan H
(2)
Zhang M
(2)
Zhu J
(2)
Abendroth J
(1)
Akiyama T
(1)
Alam Z
(1)
Amador-Noguez D
(1)
Amani M
(1)
Anderson WF
(1)
Arakawa A
(1)
Arrowsmith C
(1)
Arrowsmith CH
(1)
Artz J
(1)
Bountra C
(1)
Bray J
(1)
Bredt DS
(1)
Brokx S
(1)
Brunzelle JS
(1)
Burshteyn F
(1)
Carlier PR
(1)
Cassidy M
(1)
Center for Structural Genomics of Infectious Diseases (CSGID)
(1)
Charles I
(1)
Cheung J
(1)
Choe J
(1)
Choi B
(1)
Claas KR
(1)
Dakoji SR
(1)
Davies D
(1)
Dhaliwal B
(1)
Diassiti A
(1)
Dong A
(1)
Edwards A
(1)
Edwards AM
(1)
Eisenberg D
(1)
El Omari K
(1)
Feng G
(1)
Franklin M
(1)
Franklin MC
(1)
Gao M
(1)
Gary E
(1)
Guan X
(1)
Handa N
(1)
Hawkins AR
(1)
Hillerich B
(1)
Hills T
(1)
Houston S
(1)
Huang X
(1)
Hui R
(1)
Kain K
(1)
Ke X
(1)
Keck JL
(1)
Klock HE
(1)
Kozieradzki I
(1)
Krasny K
(1)
Kreusch A
(1)
Kwok J
(1)
Le Trong I
(1)
Lesley SA
(1)
Lew J
(1)
Li H
(1)
Li SSC
(1)
Lim WA
(1)
Liu K
(1)
Lockyer M
(1)
Loppnau P
(1)
Love J
(1)
 
More...
 
Homo / hetero assembly  (2)
homo
(30)
hetero
(3)
 
Assembly composition  (2)
protein structure
(30)
protein/protein complex
(3)
 
Assembly polymer count  (3)
monomer
(18)
dimer
(11)
hexamer
(4)
 
Resolution distribution
1.0 - 1.5
(1)
1.5 - 2
(11)
2.0 - 2.5
(17)
2.5 - 3
(2)
3.0 - 3.5
(2)
 
Release year distribution
1990 - 1995
(1)
2000 - 2005
(18)
2005 - 2010
(15)
2010 - 2015
(9)
2015 - 2020
(2)
 
Journal  (12)
To be published
(8)
J Mol Biol
(6)
Proteins
(5)
Mol Cell
(4)
Biochimie
(2)
J Biol Chem
(2)
Acta Crystallogr Sect F Struct Biol Cryst Commun
(1)
Biochem Biophys Res Commun
(1)
Cell Rep
(1)
EMBO J
(1)
Mol Biochem Parasitol
(1)
Proc Natl Acad Sci U S A
(1)
 
Macromolecules
Organism superkingdom  (2)
Bacteria
(17)
Eukaryota
(16)
 
Organism name  (16)
Escherichia coli
(6)
Mycobacterium tuberculosis
(5)
Rattus norvegicus
(5)
Homo sapiens
(3)
Saccharomyces cerevisiae
(3)
Anaplasma phagocytophilum str. HZ
(1)
Coxiella burnetii
(1)
Drosophila melanogaster
(1)
Listeria monocytogenes
(1)
Mus musculus
(1)
Mycobacterium tuberculosis H37Rv
(1)
Plasmodium falciparum 3D7
(1)
Plasmodium vivax
(1)
Saccharomyces cerevisiae S288C
(1)
Staphylococcus aureus
(1)
Staphylococcus aureus USA300-ISMMS1
(1)
 
Molecule name  (25)
Guanylate kinase
(23)
GMP kinase
(22)
Disks large homolog 4
(4)
PSD-95
(4)
Postsynaptic density protein 95
(4)
SAP-90
(4)
SAP90
(4)
Synapse-associated protein 90
(4)
Disks large homolog 1
(2)
SAP-97
(2)
SAP97
(2)
Synapse-associated protein 97
(2)
guanylate kinase
(2)
55 kDa erythrocyte membrane protein
(1)
Calcium/calmodulin-dependent serine protein kinase
(1)
Disks large 1 tumor suppressor protein
(1)
Dlg
(1)
Guanylate kinase 1
(1)
Guanylate kinase, putative
(1)
Membrane protein, palmitoylated 1
(1)
Peripheral plasma membrane protein CASK
(1)
Protein lin-2 homolog
(1)
hCASK
(1)
hDlg
(1)
p55
(1)
 
Molecule type  (1)
Protein
(33)
 
Gene names  (32)
gmk
(17)
JW3623
(6)
MTCY21B4.06
(6)
Rv1389
(6)
b3648
(6)
spoR
(6)
D9461.39
(4)
Dlg4
(4)
Dlgh4
(4)
GUK1
(4)
Psd95
(4)
YDR454C
(4)
APH_0170
(1)
AZ30_05805
(1)
CASK
(1)
CBU_0301
(1)
CG1725
(1)
DLG1
(1)
DXS552E
(1)
Dlg1
(1)
Dlgh1
(1)
EMP55
(1)
Gmk
(1)
Guk1
(1)
LIN2
(1)
MPP1
(1)
PF3D7_0928900
(1)
PVX_099895
(1)
SACOL1221
(1)
dlg1
(1)
l(1)dlg1
(1)
lmo1827
(1)
 
Interacting Molecules  (3)
G-protein signaling modulator 2
(1)
RE22964p
(1)
Synthesized GK inhibitor
(1)
 
Interacting ligands  (18)
SO4 : SULFATE ION
(11)
5GP : GUANOSINE-5'-MONOPHOSPHATE
(10)
K : POTASSIUM ION
(4)
FMT : FORMIC ACID
(3)
GDP : GUANOSINE-5'-DIPHOSPHATE
(3)
0O2 : guanosine 5'-(tetrahydrogen triphosphate) 3'-(trihydrogen diphosphate)
(1)
ADP : ADENOSINE-5'-DIPHOSPHATE
(1)
CL : CHLORIDE ION
(1)
EDO : 1,2-ETHANEDIOL
(1)
EPE : 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
(1)
G5P : P1-(5'-ADENOSYL)-P5-(5'-GUANOSYL) PENTAPHOSPHATE
(1)
GAI : GUANIDINE
(1)
GMP : GUANOSINE
(1)
LGP : N9-1-HYDROXY-PROP-2-OXYMETHYL-GUANINE-3'-MONOPHOSPHATE
(1)
MPD : (4S)-2-METHYL-2,4-PENTANEDIOL
(1)
NA : SODIUM ION
(1)
PO4 : PHOSPHATE ION
(1)
POP : PYROPHOSPHATE 2-
(1)
 
Function and Biology
EC number / name  (2)
2.7.4.8 : Guanylate kinase
(24)
2.7.11.1 : Non-specific serine/threonine protein kinase
(1)
 
Biological function  (10)
ATP binding
(24)
guanylate kinase activity
(24)
kinase activity
(24)
GDP binding
(6)
GMP binding
(6)
adenylate kinase activity
(6)
identical protein binding
(6)
magnesium ion binding
(6)
flavin adenine dinucleotide binding
(1)
oxidoreductase activity, acting on the CH-CH group of donors
(1)
 
Biological process  (8)
GMP metabolic process
(24)
purine nucleotide metabolic process
(24)
GDP metabolic process
(20)
nucleoside monophosphate phosphorylation
(6)
GDP biosynthetic process
(4)
dGDP biosynthetic process
(1)
obsolete dGDP phosphorylation
(1)
xenobiotic metabolic process
(1)
 
Biological cell component  (4)
cytosol
(24)
cytoplasm
(22)
nucleus
(4)
photoreceptor inner segment
(1)
 
Sequence and Structure classification
SCOP fold  (2)
P-loop containing nucleoside triphosphate hydrolases
(19)
SH3-like barrel
(3)
 
SCOP family  (2)
Nucleotide and nucleoside kinases
(19)
SH3-domain
(3)
 
CATH class  (2)
Alpha Beta
(33)
Mainly Beta
(6)
 
CATH topology  (3)
Guanylate Kinase phosphate binding domain
(33)
Rossmann fold
(33)
SH3 type barrels.
(6)
 
Pfam accession / name  (2)
PF00625 : Guanylate_kin
(33)
PF00018 : SH3_1
(6)
 
Representative Structures
Representative Structures
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Entries 1 to 10 of 33
Entries 1 to 10 of 33
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Conversion of the enzyme guanylate kinase into a mitotic spindle orienting protein by a single mutation that inhibits gmp- induced closing
Johnston CA, Whitney D, Volkman BF, Prehoda KE
Proc Natl Acad Sci U S A (2011) [PMID: 21990344  ]
Assembly composition: protein only structure
Bound ligands: SO4   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-147375 (Preferred)   search this ID
PDBe-KB: P15454   
X-ray diffraction
2.45Å resolution
Released: 13 Jun 2012
Model geometry
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4f4j
4f4j
4f4j
Crystal structure of guanylate kinase from Anaplasma phagocytophilum
Seattle Structural Genomics Center for Infectious Disease (SSGCID)
To be published
Assembly composition: protein only structure
Bound ligands: 5GP    5GP   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-173615 (Preferred)   search this ID
PDBe-KB: Q2GLF7   
X-ray diffraction
1.95Å resolution
Released: 16 Feb 2010
Model geometry
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3lnc
3lnc
3lnc
Guanylate Kinase Double Mutant A58C, T157C from Mycobacterium tuberculosis (Rv1389)
Chan S, Sawaya MR, Choi B, Zocchi G, Perry LJ, Mycobacterium Tuberculosis Structural Proteomics Project (XMTB)
To be published
Assembly composition: protein only structure
Bound ligands: FMT    FMT   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-161738 (Preferred)   search this ID
PDBe-KB: P9WKE9   
X-ray diffraction
2.5Å resolution
Released: 12 Apr 2005
Model geometry
Fit model/data
1z8f
1z8f
1z8f
Molecular mechanism and evolution of guanylate kinase regulation by (p)ppGpp
Liu K, Krasny K, Myers AR, Satyshur KA, Keck JL, Wnag JD
Mol Cell (2015) [PMID: 25661490  ]
Assembly composition: protein only structure
Bound ligands: 0O2    K    K    MG    0O2    SO4    MG    EDO   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-102251 (Preferred)   search this ID
PDBe-KB: A0A0J9X1Z9   
X-ray diffraction
1.65Å resolution
Released: 25 Feb 2015
Model geometry
Fit model/data
4qrh
4qrh
4qrh
Structure of guanylate kinase (gmk) from Coxiella burnetii
Cheung J, Franklin M, Rudolph M, Cassidy M, Gary E, Burshteyn F, Love J
Proteins (2015) [PMID: 26033498  ]
Source organism: Coxiella burnetii  
Assembly composition: protein only structure
Bound ligands: 5GP    SO4    5GP   
Modified residues: MSE    MSE   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-182941 (Preferred)   search this ID
PDBe-KB: Q83EL7   
X-ray diffraction
1.851Å resolution
Released: 21 Sep 2011
Model geometry
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3tr0
3tr0
3tr0
Crystal structure of the human DLG1 guanylate kinase domain
Mori S, Tezuka Y, Arakawa A, Handa N, Shirouzu M, Akiyama T, Yokoyama S
Biochem Biophys Res Commun (2013) [PMID: 23624197  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Modified residues: MSE    MSE   
Assembly name: Disks large homolog 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171455 (Preferred)   search this ID
PDBe-KB: Q12959   
X-ray diffraction
2.2Å resolution
Released: 26 Jun 2013
Model geometry
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3w9y
3w9y
3w9y
Crystal structure of guanylate kinase from Plasmodium falciparum
Mulichak AM, Lew J, Artz J, Choe J, Walker JR, Zhao Y, Sundstrom M, Arrowsmith C, Edwards A, Bochkarev A, Hui R, Gao M, Structural Genomics Consortium (SGC)
Mol Biochem Parasitol (2007) [PMID: 17125854  ]
Assembly composition: protein only structure
Bound ligands: SO4    EPE   
Assembly name: guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-184646 (Preferred)   search this ID
PDBe-KB: Q8I2M1   
X-ray diffraction
2.18Å resolution
Released: 5 Apr 2005
Model geometry
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1z6g
1z6g
1z6g
Crystal structure of Staphylococcus aureus guanylate monophosphate kinase
El Omari K, Dhaliwal B, Lockyer M, Charles I, Hawkins AR, Stammers DK
Acta Crystallogr Sect F Struct Biol Cryst Commun (2006) [PMID: 17012781  ]
Source organism: Staphylococcus aureus  
Assembly composition: protein only structure
Bound ligands: 5GP    K    K    SO4    5GP   
Assembly name: Guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-177196 (Preferred)   search this ID
PDBe-KB: Q5HGM3   
X-ray diffraction
1.9Å resolution
Released: 11 Oct 2006
Model geometry
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2j41
2j41
2j41
Crystal structure of Plasmodium vivax guanylate kinase
Merritt EA, Le Trong I, Structural Genomics of Pathogenic Protozoa Consortium (SGPP)
To be published
Source organism: Plasmodium vivax  
Assembly composition: protein only structure
Bound ligands: 5GP    POP    5GP    POP   
Modified residues: MSE    MSE   
Assembly name: guanylate kinase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-107673 (Preferred)   search this ID
PDBe-KB: A5K709   
X-ray diffraction
1.8Å resolution
Released: 7 Aug 2007
Model geometry
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2qor
2qor
2qor
Crystal structure of the kinase domain of MPP1/p55
Shen Y, Tong Y, Zhong N, Guan X, Tempel W, MacKenzie F, Arrowsmith CH, Edwards AM, Bountra C, Weigelt J, Bochkarev A, Park H, Structural Genomics Consortium (SGC)
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SO4   
Assembly name: 55 kDa erythrocyte membrane protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-169386 (Preferred)   search this ID
PDBe-KB: Q00013   
X-ray diffraction
2.26Å resolution
Released: 4 Aug 2010
Model geometry
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3ney
3ney
3ney
Entries 1 to 10 of 33
Entries 1 to 10 of 33