5L6O Chain A
Ephrin type-B receptor 3 (EPHB3)
Inactive — 0.3%DFG-outαC-inType1 · 6P6
Resolution
1.88 Å
R-value
0.19
Predicted activity confidence0.3%
Structure info
Alternate conformation—
Missing atoms4
Missing residues4
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
CVKIEEVIGAGEVCRGRLKQPGRREVFVAIKTLKVGYTERQRRDFLSEASIMGQFDHPNIIRLEGVVTKSRPVMILTEFMENCALDSFLRLNDGQFTVIQLVGMLRGIAAGMKYLSEMNYVHRDLAARNILVNSNLVCKVSDFGLEDDPSDPTYTSSLGGKIPIRWTAPEAIAYRKFTSASDVWSYGIVMWEVMSYGERPYWDMSNQDVINAVEQDYRLPPPMDCPTALHQLMLDCWVRDRNLRPKFSQIVNTLDKLIRNPASLKVI
UniProt reference sequence
VKIEEVIGAGEFGEVCRGRLKQPGRREVFVAIKTLKVGYTERQRRDFLSEASIMGQFDHPNIIRLEGVVTKSRPVMILTEFMENCALDSFLRLNDGQFTVIQLVGMLRGIAAGMKYLSEMNYVHRDLAARNILVNSNLVCKVSDFGLSRFLEDDPSDPTYTSSLGGKIPIRWTAPEAIAYRKFTSASDVWSYGIVMWEVMSYGERPYWDMSNQDVINAVEQDYRLPPPMDCPTALHQLMLDCWVRDRNLRPKFSQIVNTLDK
Aligned reference sequence
VKIE----------------EVIGAGE----------------FGEVCRGRL--KQPGR---------------------------------REVFVAIKTLK--VGYTERQ---------------------------RRDFLSEASIMGQF--------------------------DHPNIIRLEGVVTKSR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PVMILTEFMEN--------------CALDSFLRL--NDG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------QFTVIQLVGMLRGIAAGMKYLSEM---------------------------------------------NYVHRDL-----AARNILVNS--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NLVCKVSDFGLSRFLEDDPSD--PTYTSS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LGGKIPIRWTAPEAIAY--------------------------------RKFT-SASDVWSYGIVMWEVMSY--G--------------ERPYWD--------------------------------------------------MSNQDVINAVEQD--YRLPPPMDCP-----------------------------------------------------------------------------------------------------TALHQLMLDCWVRDRNLRPK--------------FSQIVNTLDK
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
VKIE----------------EVIGA-------------------GEVCRGRL--KQPGR---------------------------------REVFVAIKTLK--VGYTERQ---------------------------RRDFLSEASIMGQF--------------------------DHPNIIRLEGVVTKSR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PVMILTEFMEN--------------CALDSFLRL--NDG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------QFTVIQLVGMLRGIAAGMKYLSEM---------------------------------------------NYVHRDL-----AARNILVNS--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NLVCKVSDFG----LEDDPSD--PTYTSS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LGGKIPIRWTAPEAIAY--------------------------------RKFT-SASDVWSYGIVMWEVMSY--G--------------ERPYWD--------------------------------------------------MSNQDVINAVEQD--YRLPPPMDCP-----------------------------------------------------------------------------------------------------TALHQLMLDCWVRDRNLRPK--------------FSQIVNTLDK
Activation segment
DFG----LEDDPSD--PTYTSS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LGGKIPIRWTAPE
Binding pocket
EVIGAGE___VCRVAIKTLDFLSEASIMGQFDPNIIRLEGVMILTEFMENCALDSFLRLYLSEMNYVHRDLAARNILVVSDFGL_
Ligand info
Orthosteric ligand
6P6
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 5L6O, Chain A