3NAY Chain B
3-phosphoinositide-dependent protein kinase 1 (PDPK1)
Active — 93.5%DFG-inαC-inType1 · MP6
Resolution
2.6 Å
R-value
0.211
Predicted activity confidence93.5%
Structure info
Alternate conformation—
Missing atoms0
Missing residues0
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
KKRPEDFKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFVKLYFTFQDDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILLNEDMHIQITDFGTAKVLSNFVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFRAGNEYLIFQKIIKLEYDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGYGPLKAHPFFESVTWENLHQQTPPKLTAYL
UniProt reference sequence
FKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFVKLYFTFQDDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILLNEDMHIQITDFGTAKVLSPESKQARANSFVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFRAGNEYLIFQKIIKLEYDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGYGPLKAHPFF
Aligned reference sequence
FKFG----------------KILGEGS----------------FSTVVLARE--LA------------------------------------TSREYAIKILE--KRHIIKENK-------------------------VPYVTRERDVMSRL--------------------------DHPFFVKLYFTFQDDE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KLYFGLSYAKN--------------GELLKYIRK--IG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SFDETCTRFYTAEIVSALEYLHGK---------------------------------------------GIIHRDL-----KPENILLNE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DMHIQITDFGTAKVLSPESKQ--ARA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NSFVGTAQYVSPELLTE--------------------------------KSAC-KSSDLWALGCIIYQLVAG-----------------LPPFRA--------------------------------------------------GNEYLIFQKIIKL--EYDFPEKFF------------------------------------------------------------------------------------------------------PKARDLVEKLLVLDATKRLG--CEEMEG------YGPLKAHPFF
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
FKFG----------------KILGEGS----------------FSTVVLARE--LA------------------------------------TSREYAIKILE--KRHIIKENK-------------------------VPYVTRERDVMSRL--------------------------DHPFFVKLYFTFQDDE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KLYFGLSYAKN--------------GELLKYIRK--IG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SFDETCTRFYTAEIVSALEYLHGK---------------------------------------------GIIHRDL-----KPENILLNE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DMHIQITDFGTAKVLS------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NFVGTAQYVSPELLTE--------------------------------KSAC-KSSDLWALGCIIYQLVAG-----------------LPPFRA--------------------------------------------------GNEYLIFQKIIKL--EYDFPEKFF------------------------------------------------------------------------------------------------------PKARDLVEKLLVLDATKRLG--CEEMEG------YGPLKAHPFF
Activation segment
DFGTAKVLS------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NFVGTAQYVSPE
Binding pocket
KILGEGSFSTVVLYAIKILYVTRERDVMSRLDPFFVKLYFTYFGLSYAKNGELLKYIRKYLHGKGIIHRDLKPENILLITDFGTA
Ligand info
Orthosteric ligand
MP6
Allosteric ligand
None
Ligand typeType1
Consensus conformation
DFG conformationin
αC-helix conformationin
Predicted activityactive
KinaDB — structure detail · data from Browse_each_pdb_structure.csv · PDB 3NAY, Chain B