8FO8 Chain C
Leucine-rich repeat serine/threonine-protein kinase 2 (LRRK2)
Active — 88.7%DFG-outαC-out
Resolution
3.88 Å
R-value
999.0
Predicted activity confidence88.7%
Structure info
Alternate conformation—
Missing atoms42
Missing residues2
Salt bridge (KinCore)Saltbr-out
Sequence info
PDB sequence
DEETLKKLIVRLNNVQEGKQIETLVQILEDLLVFTYSEHASKLFQGKNIHVPLLIVLDSYMRVASVQQVGWSLLCKLIEVCPGTMQSLMGGVHQLILKMLTVHNASVNLSVIGLKTLDLLLTSGKITLLILDEESDIFMLIFDAMANDEQLGCALHVLFERVSEEQLTEFVENKDYMILSALTNFKDEEEIVLHVLHCLHSLAIPCNNVEVLMSGNVRCYNIVVEAMKAFPMSERIQEVSCCLLHRLTLGNFFNILVLNEVHEFVVKAVQQYPENAALQISALSCLALLTETIFLEDKLFWLEACYKALTWHRKNKHVQEAACWALNNLLMYQNSLHEKIGDEDGHFPAHREVMLSMLMHSSSKEVFQASANALSTLLEQNVNFRKILLSKGIHLNVLELMQKHIHSPEVAESGCKMLNHLFEGSNTSLDIMAAVVPKILTVMKRHETSLPVQLEALRAILHFIVEFHHKLNMVKKQCFKNDIHKLVLAALNRFIGNPGIQKCGLKVISSIVHFPDALEMLSLEGAMDSVLHTLQMYPDDQEIQCLGLSLIGYLITKKNVFIGTGHLLAKILVSSLYRFKDVAEIQTKGFQTILAILKLSASFSKLLVHHSFDLVIFHQMSSNIMEQKDQQFLNLCCKCFAKVAMDDYLKNVMLERACDQNNSIMVECLLLLGADANQAKEGSSLICQVCEKESSPKLVELLLNSGSREQDVRKALTISIGKGDSQIISLLLRRLALDANNSICLGGFCIGKVEPSWLGPLFPDKTSNLRKQTNIASTLARMVIRYQMKSAEYITSLDLSANELRDIDALSQKCCISVHLEHLEKLELHQNALTSFPQQLCETLKSLTHLDLHSNKFTSFPSYLLKMSCIANLDVSRNDIGPSVVLDPTVKCPTLKQFNLSYNQLSFVPENLTDVVEKLEQLILEGNKISGICSPLRLKELKILNLSKNHISSLSENFLEACPKVESFSARMNFLAAMPFLPPSMTILKLSQNKFSCIPEAILNLPHLRSLDMSSNDIQYLPGPAHWKSLNLRELLFSHNQISILDLSEKAYLWSRVEKLHLSHNKLKEIPPEIGCLENLTSLDVSYNLELRSFPNEMGKLSKIWDLPLDELHLNFDFKHIGCKAKDIIRFLQQRLKKAVPYNRMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKIRDQLVVGQLIPDCYVELEKIILSERKNVPIEFPVIDRKRLLQLVRENQLQLDENELPHAVHFLNESGVLLHFQDPALQLSDLYFVEPKWLCKIMAQILTVKPKGIISRRDPKNYMTQYFKLLEKFQIALVPSSLSDHRPVIELPHCENSEIIIRLYEMPYFPMGFWSRLINRLLEISPYMLALRPNRMYWRQGIYLNWSPEAYCLVGSEVLDNHPESFLKITVPSCRKGCILLGQVVDHIDSLMEEWFPGLLEIDICGEGETLLKKWALYSFNDGEEHQKILLDDLMKKAEEGDLLVNPDQPRLTIPISQIAPDLILADLPRNIMLNNDELEFEQAPEFLLGDGSFGSVYRAAYEGEEVAVKIFNKHTSLRLLRQELVVLCHLHHPSLISLLAAGIRPRMLVMELASKGSLDRLLQQDKASLTRTLQHRIALHVADGLRYLHSAMIIYRDLKPHNVLLFTLYPNAAIIAKIADYGIAQYCCRMTSEGTPGFRAPEVARGNVIYNQQADVYSFGLLLYDILTTGGRIVEGLKFPNEFDELEIQGKLPDPVKEYGCAPWPMVEKLIKQCLKENPQERPTSAVFDILNSAELVCLTRRILLPKNVIVECMVATHNSRNASIWLGCGHTDRGQLSFLDLNTEGYTSEEVADSRILCLALVHLPVEKESWIVSGTQSGTLLVINTEDGKKRHTLEKMTDSVTCLYCNSFKNFLLVGTADGKLAIFEDKTVKLKGAAPLKILNIGNVSTPLMCLSESTNSTERNVMWGGCGTKIFSFSNDFTIQKLIETRTSQLFSYAAFSDSNIITVVVDTALYIAKQNSPVVEVWDKKTEKLCGLIDCVHFLREVSYSGRVKTLCLQKNTALWIGTGGGHILLLDLSTRRLIRVIYNFCNSVRVMMTAQLGSLKNVMLVLGYNRKKEIQSCLTVWDINLPHEVQNLEKHIEVRKELAEKMRRTSVE
UniProt reference sequence
LEFEQAPEFLLGDGSFGSVYRAAYEGEEVAVKIFNKHTSLRLLRQELVVLCHLHHPSLISLLAAGIRPRMLVMELASKGSLDRLLQQDKASLTRTLQHRIALHVADGLRYLHSAMIIYRDLKPHNVLLFTLYPNAAIIAKIADYGIAQYCCRMGIKTSEGTPGFRAPEVARGNVIYNQQADVYSFGLLLYDILTTGGRIVEGLKFPNEFDELEIQGKLPDPVKEYGCAPWPMVEKLIKQCLKENPQERPTSAQVFDILNS
Aligned reference sequence
LEFE--QAPE----------FLLGDGS----------------FGSVYRAAY----------------------------------------EGEEVAVKIFN--KHTS------------------------------LRLLRQELVVLCHL--------------------------HHPSLISLLAAGIR----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PRMLVMELASK--------------GSLDRLLQQ--DKA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SLTRTLQHRIALHVADGLRYLHSA---------------------------------------------MIIYRDL-----KPHNVLLFT--LYPNA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AIIAKIADYGIAQYCCRMGI-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KTSEGTPGFRAPEVARG--N-----------------------------VIYN-QQADVYSFGLLLYDILTT-----------------GGRIVE--GLKF--------------------------------------------PNEFDELEIQGKL--PDPVKEYGCAPW---------------------------------------------------------------------------------------------------PMVEKLIKQCLKENPQERPT--------------SAQVFDILNS
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
LEFE--QAPE----------FLLGDGS----------------FGSVYRAAY----------------------------------------EGEEVAVKIFN--KHTS------------------------------LRLLRQELVVLCHL--------------------------HHPSLISLLAAGIR----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PRMLVMELASK--------------GSLDRLLQQ--DKA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SLTRTLQHRIALHVADGLRYLHSA---------------------------------------------MIIYRDL-----KPHNVLLFT--LYPNA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AIIAKIADYGIAQYCCRM----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TSEGTPGFRAPEVARG--N-----------------------------VIYN-QQADVYSFGLLLYDILTT-----------------GGRIVE--GLKF--------------------------------------------PNEFDELEIQGKL--PDPVKEYGCAPW---------------------------------------------------------------------------------------------------PMVEKLIKQCLKENPQERPT--------------SA-VFDILNS
Activation segment
DYGIAQYCCRM----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TSEGTPGFRAPE
Binding pocket
__LGKNKYGMLSMQASLKVISSILYRALVFDYLKGSSLIKALTSSKSLLHKILCI
Ligand info
Orthosteric ligand
None
Allosteric ligand
ATP
Ligand typeATPlike
Consensus conformation
DFG conformationout
αC-helix conformationout
Predicted activityactive
KinaDB — structure detail · data from Browse_each_pdb_structure.csv · PDB 8FO8, Chain C