Structure of PDB 8em4 Chain B Binding Site BS03

Receptor Information
>8em4 Chain B (length=3818) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
CGSGNFRCDNGYCIPASWRCDGTRDCLDDTDEIGCPPRSCGSGFFLCPAE
GTCIPSSWVCDQDKDCSDGADEQQNCDTCGGHQFTCSNGQCINQNWVCDG
DDDCQDSGDEDGCESNQRHHTCYPREWACPGSGRCISMDKVCDGVPDCPE
GEDEYCGTGLCSILNCEYQCHQTPYGGECFCPPGHIINSNDSRTCIDFDD
CQIWGICDQKCESRQGRHQCLCEEGYILERGQHCKSNDSFSAASIIFSNG
RDLLVGDLHGRNFRILAESKNRGIVMGVDFHYQKHRVFWTDPMQAKVFST
DINGLNTQEILNVSIDAPENLAVDWINNKLYLVETRVNRIDVVNLEGNQR
VTLITENLGHPRGIALDPTVGYLFFSDWGSLSGQPKVERAFMDGSNRKDL
VTTKLGWPAGITLDLVSKRVYWVDSRYDYIETVTYDGIQRKTVARGGSLV
PHPFGISLFEEHVFFTDWTKMAVMKANKFTDTNPQVYHQSSLTPFGVTVY
HALRQPNATNPCGNNNGGCAQICVLSHRTDNGGLGYRCKCEFGFELDADE
HHCVAVKNFLLFSSQTAVRGIPFTLSTQEDVMVPVTGSPSFFVGIDFDAQ
HSTIFYSDLSKNIIYQQKIDGTGKEVITANRLQNVECLSFDWISRNLYWT
DGGSKSVTVMKLADKSRRQIISNLNNPRSIVVHPAAGYMFLSDWFRPAKI
MRAWSDGSHLMPIVNTSLGWPNGLAIDWSTSRLYWVDAFFDKIEHSNLDG
LDRKRLGHVDQMTHPFGLTVFKDNVFLTDWRLGAIIRVRKSDGGDMTVVR
RGISSIMHVKAYDADLQTGTNYCSQTTHPNGDCSHFCFPVPNFQRVCGCP
YGMKLQRDQMTCEGDPAREPPTQQCGSSSFPCNNGKCVPSIFRCDGVDDC
HDNSDEHQCGALNNTCSSSAFTCVHGGQCIPGQWRCDKQNDCLDGSDEQN
CPTRSPSSTCPPTSFTCDNHMCIPKEWVCDTDNDCSDGSDEKNCQASGTC
HPTQFRCPDHRCISPLYVCDGDKDCVDGSDEAGCVLNCTSSQFKCADGSS
CINSRYRCDGVYDCKDNSDEAGCPTRPPGMCHPDEFQCQGDGTCIPNTWE
CDGHPDCIQGSDEHNGCVPKTNQDSCLHFNGGCTHRCIQGPFGATCVCPI
GYQLANDTKTCEDVNECDIPGFCSQHCVNMRGSFRCACDPEYTLESDGRT
CKVTASENLLLVVASRDKIIMDNITAHTHNIYSLVQDVSFVVALDFDSVT
GRVFWSDLLEGKTWSAFQNGTDKRVVHDSGLSLTEMIAVDWIGRNIYWTD
YTLETIEVSKIDGSHRTVLISKNVTKPRGLALDPRMGDNVMFWSDWGHHP
RIERASMDGTMRTVIVQEKIYWPCGLSIDYPNRLIYFMDAYLDYIEFCDY
DGQNRRQVIASDLVLHHPHALTLFEDSVFWTDRGTHQVMQANKWHGRNQS
VVMYSVPQPLGIIAIHPSRQPSSPNPCASATCSHLCLLSAQEPRHYSCAC
PSGWNLSDDSVNCVRGDQPFLISVRENVIFGISLDPEVKSNDAMVPISGI
QHGYDVEFDDSEQFIYWVENPGEIHRVKTDGSNRTAFAPLSLLGSSLGLA
LDWVSRNIYYTTPASRSIEVLTLRGDTRYGKTLITNDGTPLGVGFPVGIA
VDPARGKLYWSDHGTDSGVPAKIASANMDGTSLKILFTGNMEHLEVVTLD
IQEQKLYWAVTSRGVIERGNVDGTERMILVHHLAHPWGLVVHGSFLYYSD
EQYEVIERVDKSSGSNKVVFRDNIPYLRGLRVYHHRNAADSSNGCSNNPN
ACQQICLPVPGGMFSCACASGFKLSPDGRSCSPYNSFIVVSMLPAVRGFS
LELSDHSEAMVPVAGQGRNVLHADVDVANGFIYWCDFSSSVRSSNGIRRI
KPNGSNFTNIVTYGIGANGIRGVAVDWVAGNLYFTNAFVYETLIEVIRIN
TTYRRVLLKVSVDMPRHIVVDPKHRYLFWADYGQKPKIERSFLDCTNRTV
LVSEGIVTPRGLAVDHDTGYIYWVDDSLDIIARIHRDGGESQVVRYGSRY
PTPYGITVFGESIIWVDRNLRKVFQASKQPGNTDPPTVIRDSINLLRDVT
IFDEHVQPLSPAELNNNPCLQSNGGCSHFCFALPELPTPKCGCAFGTLED
DGKNCATSREDFLIYSLNNSLRSLHFDPQDHNLPFQAISVEGMAIALDYD
RRNNRIFFTQKLNPIRGQISYVNLYSGASSPTILLSNIGVTDGIAFDWIN
RRIYYSDFSNQTINSMAEDGSNRAVIARVSKPRAIVLDPCRGYMYWTDWG
TNAKIERATLGGNFRVPIVNTSLVWPNGLTLDLETDLLYWADASLQKIER
STLTGSNREVVISTAFHSFGLTVYGQYIYWTDFYTKKIYRANKYDGSDLI
AMTTRLPTQPSGISTVVKTQQQQCSNPCDQFNGGCSHICAPGPNGAECQC
PHEGSWYLANDNKYCVVDTGARCNQFQFTCLNGRCISQDWKCDNDNDCGD
GSDELPTVCAFHTCRSTAFTCANGRCVPYHYRCDFYNDCGDNSDEAGCLF
CRDDQFTCQNGQCITKLYVCDEDNDCGDGSDEQEHLCHTPEPTCPPHQFR
CDNGHCIEMGTVCNHVDDCSDNSDEKGCGINECQDSSISHCDHNCTDTIT
SFYCSCLPGYKLMSDKRTCVDIDECKETPQLCSQKCENVIGSYICKCAPG
YIREPDGKSCRQNSNIEPYLVFSNRYYIRNLTIDGTSYSLILQGLGNVVA
LDFDRVEERLYWIDAEKQIIERMFLNKTNQETIISHRLRRAESLAVDWVS
RKLYWLDAILDCLFVSDLEGRQRKMLAQHCVDANNTFCFENPRGIVLHPQ
RGYVYWADWGDHAYIARIGMDGTNKTVIISTKIEWPNAITIDYTNDLLYW
ADAHLGYIEFSDLEGHHRHTVYDGTLPHPFALTIFEDTVFWTDWNTRTVE
KGNKYDGSGRVVLVNTTHKPFDIHVLHPYRQPIMSNPCATNNGGCSHLCL
IKAGGRGFTCECPDDFQTVQLRDRTLCMPMCSSTQFLCGNNEKCIPIWWK
CDGQKDCSDGSDESDLCPHRFCRLGQFQCRDGNCTSPQALCNARQDCADG
SDEDRVLCEHHRCEANEWQCANKRCIPEYWQCDSVDDCLDNSDEDPSHCA
SRTCRPGQFKCNNGRCIPQSWKCDVDNDCGDYSDEPIHECMTAAYNCDNH
TEFSCKTNYRCIPQWAVCNGFDDCRDNSDEQGCESVPCHPSGDFRCGNHH
CIPLRWKCDGIDDCGDNSDEESCVPRECTESEFRCADQQCIPSRWVCDQE
NDCGDNSDERDCEMKTCHPEHFQCTSGHCVPKALACDGRADCLDASDESA
CPTRFPNGTYCPAAMFECKNHVCIQSFWICDGENDCVDGSDEEIHLCCRP
GFKPSTLDKNSCQDINECEEFGICPQSCRNSKGSYECFCVDGFKSMSTHY
GERCAADGSPPLLLLPENVRIRKYNISSEKFSEYLEEEEHIQAIDYDWDP
EGIGLSVVYYTVLSQGSQFGAIKRAYLPDFESGSNNPVREVDLGLKYLMQ
PDGLAVDWVGRHIYWSDAKSQRIEVATLDGRYRKWLITTQLDQPAAIAVN
PKLGLMFWTDQGKQPKIESAWMNGEHRSVLASANLGWPNGLSIDYLNGDR
IYWSDSKEDVIESIKYDGTDRRLIINDAMKPFSLDIFEDQLYWVAKEKGE
VWRQNKFGKGNKEKLLVVNPWLTQVRIFHQLRYNQSVSNPCKQVCSHLCL
LRPGGYSCACPQGSDFVTGSTVECDAASELPITMPSPCRCMHGGSCYFDE
NDLPKCKCSSGYSGEYCE
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain8em4 Chain B Residue 4707 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8em4 Structures of LRP2 reveal a molecular machine for endocytosis.
Resolution2.83 Å
Binding residue
(original residue number in PDB)		E3783 D3785
Binding residue
(residue number reindexed from 1)		E3300 D3302
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005509 calcium ion binding

View graph for
Molecular Function
External links
PDB RCSB:8em4, PDBe:8em4, PDBj:8em4
PDBsum8em4
PubMed36750096
UniProtA2ARV4|LRP2_MOUSE Low-density lipoprotein receptor-related protein 2 (Gene Name=Lrp2)

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