3C7Q Chain A
Vascular endothelial growth factor receptor 2 (KDR)
Inactive — 0.1%DFG-outαC-inType1 · XIN
Resolution
2.1 Å
R-value
0.221
Predicted activity confidence0.1%
Structure info
Alternate conformation—
Missing atoms0
Missing residues3
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
RLPYDASKWEFPRDRLKLGKPLGRGAFGQVIEADAFGIDKTATRTVAVKMLKEGATHSEHRALMSELKILIHIGHHLNVVNLLGACTKPGGPLMVIVEFCKFGNLSTYLRSKRNEFVPYKDFLTLEHLIYSFQVAKGMEFLASRKIHRDLAARNILLSEKNVVKICDFDIKDPDVRKGDARLPLKWMAPETIFDRVYTIQSDVWSFGVLLWEIFSLGASPYPGVKIDEEFCRRLKEGTRMRAPDYTTPEMYQTMLDCWHGEPSQRPTFSELVEHLGNLLQANAQQD
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----------------KPLGRGA----------------FGQVIEADA--FGIDKTA-------------------------------T-RTVAVKMLK--EGATHSE---------------------------HRALMSELKILIHI--G-----------------------HHLNVVNLLGACTKPG--G-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PLMVIVEFCKF--------------GNLSTYLRS--KRNEFVP----------------------------------------------------------YKD-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FLTLEHLI-YSFQVAKGMEFLASR---------------------------------------------K-IHRDL-----AARNILLSE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KNVVKICDF----DI-KDPD---VRK-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDARLPLKWMAPETIFD--------------------------------RVYT-IQSDVWSFGVLLWEIFSL--G--------------ASPYPG--V-----------------------------------------------KIDEEFCRRLKEG--TRMRAPDYTT-----------------------------------------------------------------------------------------------------PEMYQTMLDCWHGEPSQRPT--------------FSELVEHLGN
Activation segment
DF----DI-KDPD---VRK-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDARLPLKWMAPE
Binding pocket
KPLGRGAFGQVIEVAVKMLALMSELKILIHIGLNVVNLLGAMVIVEFCKFGNLSTYLRSFLASRKXIHRDLAARNILLICDF___
Ligand info
Orthosteric ligand
XIN
Allosteric ligand
None
Ligand typeType1
Consensus conformation
DFG conformationout
αC-helix conformationin
Predicted activityinactive
KinaDB — structure detail · data from Browse_each_pdb_structure.csv · PDB 3C7Q, Chain A