7VDQ Chain A
Cyclin-dependent kinase 5 (CDK5)
Active — 99.9%DFG-inαC-inType1 · 64V
Resolution
2.91 Å
R-value
0.254
Predicted activity confidence99.9%
Structure info
Alternate conformation—
Missing atoms0
Missing residues0
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
QKYEKLEKIGEGTYGTVFKAKNRETHEIVALKRVRLDDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLKKYFDSCNGDLDPEIVKSFLFQLLKGLGFCHSRNVLHRDLKPQNLLINRNGELKLADFGLARAFGIPVRCYSAEVVTLWYRPPDVLFGAKLYSTSIDMWSAGCIFAELANAGRPLFPGNDVDDQLKRIFRLLGTPTEEQWPSMTKLPDYKPYPMYPATTSLVNVVPKLNATGRDLLQNLLKCNPVQRISAEEALQHPYFSDFCP
UniProt reference sequence
YEKLEKIGEGTYGTVFKAKNRETHEIVALKRVRLDDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLKKYFDSCNGDLDPEIVKSFLFQLLKGLGFCHSRNVLHRDLKPQNLLINRNGELKLADFGLARAFGIPVRCYSAEVVTLWYRPPDVLFGAKLYSTSIDMWSAGCIFAELANAGRPLFPGNDVDDQLKRIFRLLGTPTEEQWPSMTKLPDYKPYPMYPATTSLVNVVPKLNATGRDLLQNLLKCNPVQRISAEEALQHPYF
Aligned reference sequence
YEKL----------------EKIGEGT----------------YGTVFKAKN--RE------------------------------------THEIVALKRVR--LDDDDEGV--------------------------PSSALREICLLKEL--------------------------KHKNIVRLHDVLHSDK--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KLTLVFEFCD---------------QDLKKYFDS--CNG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DLDPEIVKSFLFQLLKGLGFCHSR---------------------------------------------NVLHRDL-----KPQNLLINR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NGELKLADFGLARAFGIPVRC--Y---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SAEVVTLWYRPPDVLFG--A-----------------------------KLYS-TSIDMWSAGCIFAELANA--G--------------RPLFPG--------------------------------------------------NDVDDQLKRIFRL--LGTPTEEQWPSMTKLPDYKPYPMYPATTSLVNVVPKLN-------------------------------------------------------------------------ATGRDLLQNLLKCNPVQRIS--------------AEEALQHPYF
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
YEKL----------------EKIGEGT----------------YGTVFKAKN--RE------------------------------------THEIVALKRVR--LDDDDEGV--------------------------PSSALREICLLKEL--------------------------KHKNIVRLHDVLHSDK--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KLTLVFEFCD---------------QDLKKYFDS--CNG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DLDPEIVKSFLFQLLKGLGFCHSR---------------------------------------------NVLHRDL-----KPQNLLINR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NGELKLADFGLARAFGIPVRC--Y---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SAEVVTLWYRPPDVLFG--A-----------------------------KLYS-TSIDMWSAGCIFAELANA--G--------------RPLFPG--------------------------------------------------NDVDDQLKRIFRL--LGTPTEEQWPSMTKLPDYKPYPMYPATTSLVNVVPKLN-------------------------------------------------------------------------ATGRDLLQNLLKCNPVQRIS--------------AEEALQHPYF
Activation segment
DFGLARAFGIPVRC--Y---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SAEVVTLWYRPPD
Binding pocket
EKIGEGTYGTVFKVALKRVSALREICLLKELKKNIVRLHDVTLVFEFCD_QDLKKYFDSFCHSRNVLHRDLKPQNLLILADFGLA
Ligand info
Orthosteric ligand
64V
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 7VDQ, Chain A