Structure of PDB 8em7 Chain A Binding Site BS03

Receptor Information
>8em7 Chain A (length=4378) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
CGSGNFRCDNGYCIPASWRCDGTRDCLDDTDEIGCPPRSCGSGFFLCPAE
GTCIPSSWVCDQDKDCSDGADEQQNCPGTTCSSQQLTCSNGQCVPIEYRC
DHVSDCPDGSDERNCYYPTCDQLTCANGACYNTSQKCDHKVDCRDSSDEA
NCTTLCSQKEFQCGSGECILRAYVCDHDNDCEDNSDEHNCNYDTCGGHQF
TCSNGQCINQNWVCDGDDDCQDSGDEDGCCYPREWACPGSGRCISMDKVC
DGVPDCPEGEDENNATSGRYCGTGLCSILNCEYQCHQTPYGGECFCPPGH
IINSNDSRTCIDFDDCQIWGICDQKCESRQGRHQCLCEEGYILERGQHCK
SNDSFSAASIIFSNGRDLLVGDLHGRNFRILAESKNRGIVMGVDFHYQKH
RVFWTDPMQAKVFSTDINGLNTQEILNVSIDAPENLAVDWINNKLYLVET
RVNRIDVVNLEGNQRVTLITENLGHPRGIALDPTVGYLFFSDWGSLSGQP
KVERAFMDGSNRKDLVTTKLGWPAGITLDLVSKRVYWVDSRYDYIETVTY
DGIQRKTVARGGSLVPHPFGISLFEEHVFFTDWTKMAVMKANKFTDTNPQ
VYHQSSLTPFGVTVYHALRQPNATNPCGNNNGGCAQICVLSHRTDNGGLG
YRCKCEFGFELDADEHHCVAVKNFLLFSSQTAVRGIPFTLSTQEDVMVPV
TGSPSFFVGIDFDAQHSTIFYSDLSKNIIYQQKIDGTGKEVITANRLQNV
ECLSFDWISRNLYWTDGGSKSVTVMKLADKSRRQIISNLNNPRSIVVHPA
AGYMFLSDWFRPAKIMRAWSDGSHLMPIVNTSLGWPNGLAIDWSTSRLYW
VDAFFDKIEHSNLDGLDRKRLGHVDQMTHPFGLTVFKDNVFLTDWRLGAI
IRVRKSDGGDMTVVRRGISSIMHVKAYDADLQTGTNYCSQTTHPNGDCSH
FCFPVPNFQRVCGCPYGMKLQRDQMTCEGDPAREPPTQQCGSSSFPCNNG
KCVPSIFRCDGVDDCHDNSDEHQCGALNNTCSSSAFTCVHGGQCIPGQWR
CDKQNDCLDGSDEQNCPTRSPSSTCPPTSFTCDNHMCIPKEWVCDTDNDC
SDGSDEKNCQASGTCHPTQFRCPDHRCISPLYVCDGDKDCVDGSDEAGCV
LNCTSSQFKCADGSSCINSRYRCDGVYDCKDNSDEAGCPTRPPGMCHPDE
FQCQGDGTCIPNTWECDGHPDCIQGSDEHNGCVPKTCSPSHFLCDNGNCI
YNSWVCDGDNDCRDMSDEKDCPTQPFHCPSSQWQCPGYSICVNLSALCDG
VFDCPNGTDESPLCNQDSCLHFNGGCTHRCIQGPFGATCVCPIGYQLAND
TKTCEDVNECDIPGFCSQHCVNMRGSFRCACDPEYTLESDGRTCKVTASE
NLLLVVASRDKIIMDNITAHTHNIYSLVQDVSFVVALDFDSVTGRVFWSD
LLEGKTWSAFQNGTDKRVVHDSGLSLTEMIAVDWIGRNIYWTDYTLETIE
VSKIDGSHRTVLISKNVTKPRGLALDPRMGDNVMFWSDWGHHPRIERASM
DGTMRTVIVQEKIYWPCGLSIDYPNRLIYFMDAYLDYIEFCDYDGQNRRQ
VIASDLVLHHPHALTLFEDSVFWTDRGTHQVMQANKWHGRNQSVVMYSVP
QPLGIIAIHPSRQPSSPNPCASATCSHLCLLSAQEPRHYSCACPSGWNLS
DDSVNCVRGDQPFLISVRENVIFGISLDPEVKSNDAMVPISGIQHGYDVE
FDDSEQFIYWVENPGEIHRVKTDGSNRTAFAPLSLLGSSLGLALDWVSRN
IYYTTPASRSIEVLTLRGDTRYGKTLITNDGTPLGVGFPVGIAVDPARGK
LYWSDHGTDSGVPAKIASANMDGTSLKILFTGNMEHLEVVTLDIQEQKLY
WAVTSRGVIERGNVDGTERMILVHHLAHPWGLVVHGSFLYYSDEQYEVIE
RVDKSSGSNKVVFRDNIPYLRGLRVYHHRNAADSSNGCSNNPNACQQICL
PVPGGMFSCACASGFKLSPDGRSCSPYNSFIVVSMLPAVRGFSLELSDHS
EAMVPVAGQGRNVLHADVDVANGFIYWCDFSSSVRSSNGIRRIKPNGSNF
TNIVTYGIGANGIRGVAVDWVAGNLYFTNAFVYETLIEVIRINTTYRRVL
LKVSVDMPRHIVVDPKHRYLFWADYGQKPKIERSFLDCTNRTVLVSEGIV
TPRGLAVDHDTGYIYWVDDSLDIIARIHRDGGESQVVRYGSRYPTPYGIT
VFGESIIWVDRNLRKVFQASKQPGNTDPPTVIRDSINLLRDVTIFDEHVQ
PLSPAELNNNPCLQSNGGCSHFCFALPELPTPKCGCAFGTLEDDGKNCAT
SREDFLIYSLNNSLRSLHFDPQDHNLPFQAISVEGMAIALDYDRRNNRIF
FTQKLNPIRGQISYVNLYSGASSPTILLSNIGVTDGIAFDWINRRIYYSD
FSNQTINSMAEDGSNRAVIARVSKPRAIVLDPCRGYMYWTDWGTNAKIER
ATLGGNFRVPIVNTSLVWPNGLTLDLETDLLYWADASLQKIERSTLTGSN
REVVISTAFHSFGLTVYGQYIYWTDFYTKKIYRANKYDGSDLIAMTTRLP
TQPSGISTVVKTQQQQCSNPCDQFNGGCSHICAPGPNGAECQCPHEGSWY
LANDNKYCVVDTGARCNQFQFTCLNGRCISQDWKCDNDNDCGDGSDELPT
VCAFHTCRSTAFTCANGRCVPYHYRCDFYNDCGDNSDEAGCLFRSCNSTT
EFTCSNGRCIPLSYVCNGINNCHDNDTSDEKNCPPITCQPDFAKCQTTNI
CVPRAFLCDGDNDCGDGSDENPIYCASHTCRSNEFQCVSPHRCIPSYWFC
DGEADCVDSSDEPDTCGHSLNSCSANQFHCDNGRCISSSWVCDGDNDCGD
MSDEDQRHHCELQNCSSTEFTCINSRPPNRRCIPQHWVCDGDADCADALD
ELQNCTMRACSTGEFSCANGRCIRQSFRCDRRNDCGDYSDERGCSYPPCR
DDQFTCQNGQCITKLYVCDEDNDCGDGSDEQEHLCHTPEPTCPPHQFRCD
NGHCIEMGTVCNHVDDCSDNSDEKGCGINECQDSSISHCDHNCTDTITSF
YCSCLPGYKLMSDKRTCVDIDECKETPQLCSQKCENVIGSYICKCAPGYI
REPDGKSCRQNSNIEPYLVFSNRYYIRNLTIDGTSYSLILQGLGNVVALD
FDRVEERLYWIDAEKQIIERMFLNKTNQETIISHRLRRAESLAVDWVSRK
LYWLDAILDCLFVSDLEGRQRKMLAQHCVDANNTFCFENPRGIVLHPQRG
YVYWADWGDHAYIARIGMDGTNKTVIISTKIEWPNAITIDYTNDLLYWAD
AHLGYIEFSDLEGHHRHTVYDGTLPHPFALTIFEDTVFWTDWNTRTVEKG
NKYDGSGRVVLVNTTHKPFDIHVLHPYRQPIMSNPCATNNGGCSHLCLIK
AGGRGFTCECPDDFQTVQLRDRTLCMPMCSSTQFLCGNNEKCIPIWWKCD
GQKDCSDGSDESDLCPHRFCRLGQFQCRDGNCTSPQALCNARQDCADGSD
EDRVLCEHHRCEANEWQCANKRCIPEYWQCDSVDDCLDNSDEDPSHCASR
TCRPGQFKCNNGRCIPQSWKCDVDNDCGDYSDEPIHECMTAAYNCDNHTE
FSCKTNYRCIPQWAVCNGFDDCRDNSDEQGCESVPCHPSGDFRCGNHHCI
PLRWKCDGIDDCGDNSDEESCVPRECTESEFRCADQQCIPSRWVCDQEND
CGDNSDERDCEMKTCHPEHFQCTSGHCVPKALACDGRADCLDASDESACP
TRFPNGTYCPAAMFECKNHVCIQSFWICDGENDCVDGSDEEIHLCFNVPC
ESPQRFRCDNSRCIYGHQLCNGVDDCGDGSDEKEEHCRKPTHKPCTDTEY
KCSNGNCVSQHYVCDNVDDCGDLSDETGCNLGENRTCAEKICEQNCTQLS
NGGFICSCRPGFKPSTLDKNSCQDINECEEFGICPQSCRNSKGSYECFCV
DGFKSMSTHYGERCAADGSPPLLLLPENVRIRKYNISSEKFSEYLEEEEH
IQAIDYDWDPEGIGLSVVYYTVLSQGSQFGAIKRAYLPDFESGSNNPVRE
VDLGLKYLMQPDGLAVDWVGRHIYWSDAKSQRIEVATLDGRYRKWLITTQ
LDQPAAIAVNPKLGLMFWTDQGKQPKIESAWMNGEHRSVLASANLGWPNG
LSIDYLNGDRIYWSDSKEDVIESIKYDGTDRRLIINDAMKPFSLDIFEDQ
LYWVAKEKGEVWRQNKFGKGNKEKLLVVNPWLTQVRIFHQLRYNQSVSNP
CKQVCSHLCLLRPGGYSCACPQGSDFVTGSTVECDAASELPITMPSPCRC
MHGGSCYFDENDLPKCKCSSGYSGEYCE
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 chain8em7 Chain A Residue 4757 [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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PDB8em7 Structures of LRP2 reveal a molecular machine for endocytosis.
Resolution2.97 Å
Binding residue
(original residue number in PDB)		Y125 D128 V130 D132 D138 E139
Binding residue
(residue number reindexed from 1)		Y98 D101 V103 D105 D111 E112
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:8em7, PDBe:8em7, PDBj:8em7
PDBsum8em7
PubMed36750096
UniProtA2ARV4|LRP2_MOUSE Low-density lipoprotein receptor-related protein 2 (Gene Name=Lrp2)

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