Structure of PDB 5ded Chain F

Receptor sequence
>5dedF (length=192) Species: 1415167 (Bacillus subtilis PY79) [Search protein sequence]
DKQWERFLVPYRQAVEELKVKLKGIRTLYEYEDDHSPIEFVTGRVKPVAS
ILEKARRKSIPLHEIETMQDIAGLRIMCQFVDDIQIVKEMLFARKDFTVV
DQRDYIAEHKESGYRSYHLVVLYPLQTVSGEKHVLVEIQIRTLAMNFWAT
IEHSLNYKSGNIPEKVKLRLQRASEAASRLDEEMSEIRGEVQ
3D structure
PDB5ded Catalytic mechanism and allosteric regulation of an oligomeric (p)ppGpp synthetase by an alarmone.
ChainF
Resolution2.942 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.6.5: GTP diphosphokinase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 0O2 F K48 R59 R105 Y107 K112 S114 Y116 H120 E139 Q141 A151 E154 H155 K46 R57 R103 Y105 K110 S112 Y114 H118 E137 Q139 A149 E152 H153
BS02 0O2 F K21 K25 R28 F42 T44 K19 K23 R26 F40 T42
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0005525 GTP binding
GO:0008728 GTP diphosphokinase activity
GO:0016301 kinase activity
GO:0046872 metal ion binding
Biological Process
GO:0015969 guanosine tetraphosphate metabolic process
GO:0015970 guanosine tetraphosphate biosynthetic process
GO:0016310 phosphorylation

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Molecular Function
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Biological Process
External links
PDB RCSB:5ded, PDBe:5ded, PDBj:5ded
PDBsum5ded
PubMed26460002
UniProtO31611|YJBM_BACSU GTP pyrophosphokinase YjbM (Gene Name=yjbM)

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