3CPC Chain B
Vascular endothelial growth factor receptor 2 (KDR)
Inactive — 0.0%DFG-outαC-inType2 · C52
Resolution
2.4 Å
R-value
0.221
Predicted activity confidence0.0%
Structure info
Alternate conformation—
Missing atoms0
Missing residues6
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
LPYDASKWEFPRDRLKLGKPLGQVIEADAFGIDKTATCRTVAVKMLATHSEHRALMSELKILIHIGHHLNVVNLLGACTKPGGPLMVITEFCKFGNLSTYLRSKRNEFVPYKDFLTLEHLICYSFQVAKGMEFLASRKCIHRDLAARNILLSEKNVVKICDFGLPLKWMAPETIFDRVYTIQSDVWSFGVLLWEIFSLGASPYPGVKIDEEFCRRLKEGTRMRAPDYTTPEMYQTMLDCWHGEPSQRPTFSELVEHLGNLLQ
UniProt reference sequence
LKLGKPLGRGAFGQVIEADAFGIDKTATCRTVAVKMLKEGATHSEHRALMSELKILIHIGHHLNVVNLLGACTKPGGPLMVIVEFCKFGNLSTYLRSKRNEFVPYKTKGARFRQGKDYVGAIPVDLKRRLDSITSSQSSASSGFVEEKSLSDVEEEEAPEDLYKDFLTLEHLICYSFQVAKGMEFLASRKCIHRDLAARNILLSEKNVVKICDFGLARDIYKDPDYVRKGDARLPLKWMAPETIFDRVYTIQSDVWSFGVLLWEIFSLGASPYPGVKIDEEFCRRLKEGTRMRAPDYTTPEMYQTMLDCWHGEPSQRPTFSELVEHLGN
Aligned reference sequence
LKLG----------------KPLGRGA----------------FGQVIEADA--FGIDKTA-------------------------------TCRTVAVKMLK--EGATHSE---------------------------HRALMSELKILIHI--G-----------------------HHLNVVNLLGACTKPG--G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PLMVIVEFCKF--------------GNLSTYLRS--KRNEFVPYKTKGARFRQGKDYVGAIPVDLKRRLDSITSSQSSASSGFVEEKSLSDVEEEEAPEDLYKD-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FLTLEHLICYSFQVAKGMEFLASR---------------------------------------------KCIHRDL-----AARNILLSE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KNVVKICDFGLARDIYKDPDY--VRK-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDARLPLKWMAPETIFD--------------------------------RVYT-IQSDVWSFGVLLWEIFSL--G--------------ASPYPG--V-----------------------------------------------KIDEEFCRRLKEG--TRMRAPDYTT-----------------------------------------------------------------------------------------------------PEMYQTMLDCWHGEPSQRPT--------------FSELVEHLGN
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
LKLG----------------KPL---------------------GQVIEADA--FGIDKTA-------------------------------TCRTVAVKML-----ATHSE---------------------------HRALMSELKILIHI--G-----------------------HHLNVVNLLGACTKPG--G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PLMVITEFCKF--------------GNLSTYLRS--KRNEFVP----------------------------------------------------------YKD-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FLTLEHLICYSFQVAKGMEFLASR---------------------------------------------KCIHRDL-----AARNILLSE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KNVVKICDFG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LPLKWMAPETIFD--------------------------------RVYT-IQSDVWSFGVLLWEIFSL--G--------------ASPYPG--V-----------------------------------------------KIDEEFCRRLKEG--TRMRAPDYTT-----------------------------------------------------------------------------------------------------PEMYQTMLDCWHGEPSQRPT--------------FSELVEHLGN
Activation segment
DFG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LPLKWMAPE
Binding pocket
KPLG_____QVIEVAVKMLALMSELKILIHIGLNVVNLLGAMVITEFCKFGNLSTYLRSFLASRKCIHRDLAARNILLICDFGL_
Ligand info
Orthosteric ligand
C52
Allosteric ligand
None
Ligand typeType2
Consensus conformation
DFG conformationout
αC-helix conformationin
Predicted activityinactive
KinaDB — structure detail · data from Browse_each_pdb_structure.csv · PDB 3CPC, Chain B