Structure of PDB 8jx8 Chain B

Receptor sequence

>8jx8B (length=1434) Species: 10116 (Rattus norvegicus)

TQPFHCPSTQWQCPGYSTCINLSALCDGVFDCPNGTDESPLCNQDSCSHF
NGGCTHQCMQGPFGATCLCPLGYQLANDTKTCEDINECDIPGFCSQHCVN
MRGSFRCACDPEYTLESDGRTCKVTGSENPLLVVASRDKIIVDNITAHTH
NLYSLVQDVSFVVALDFDSVTGRVFWSDLLQGKTWSVFQNGTDKRVVHDS
GLSVTEMIAVDWIGRNLYWTDYALETIEVSKIDGSHRTVLISKNVTKPRG
LALDPRMGDNVMFWSDWGHHPRIERASMDGTMRTVIVQEKIYWPCGLSID
YPNRLIYFMDAYLDYIEFCDYDGHNRRQVIASDLVLHHPHALTLFEDFVY
WTDRGTRQVMQANKWHGGNQSVVMYSVHQPLGITAIHPSRQPPSRNPCAS
ASCSHLCLLSAQAPRHYSCACPSGWNLSDDSVNCVRGDQPFLMSVRDNII
FGISLDPEVKSNDAMVPISGIQHGYDVEFDDSEQFIYWVENPGEIHRVKT
DGSNRTVFAPLSLLGSSLGLALDWVSRNIYYTTPASRSIEVLTLKGDTRY
GKTLIANDGTPLGVGFPVGIAVDPARGKLYWSDHGTDSGVPAKIASANMD
GTSLKILFTGNLQHLEVVTLDIQEQKLYWAVTSRGVIERGNVDGTERMIL
VHHLAHPWGLVVYGSFLYYSDEQYEVIERVDKSSGNNKVVLRDNVPYLRG
LRVYHRRNAADSSNGCSNNPNACQQICLPVPGGMFSCACASGFKLSPDGR
SCSPYNSFMVVSMLPAVRGFSLELSDHSEAMVPVAGQGRNVLHADVDVAN
GFIYWCDFSSSVRSSNGIRRIKPDGSNFTNVVTYGIGANGIRGVALDWAA
GNLYFTNAFVYETLIEVLRINTTYRRVLLKVSVDMPRHIIVDPKHRYLFW
ADYGQKPKIERSFLDCTNRTVLVSEGIVTPRGLAMDHDTGYIYWVDDSLD
LIARIHLDGGESQVVRYGSRYPTPYGITVFGESIIWVDRNLKKVFQASKQ
PGNTDPPVVIRDKINLLRDVTIFDEHAQPLSPAELNNNPCLQSNGGCSHF
CFALPELPTPRCGCAFGTLGNDGKSCATSQEDFLIYSLNNSLRSLHFDPR
DHSLPFQVISVAGTAIALDYDRRNNRIFFTQKLNSLRGQISYVSLYSGSS
SPTVLLSNIGVTDGIAFDWINRRIYYSDFSNQTINSMAEDGSNRAVIARV
SKPRAIVLDPCRGYMYWTDWGTNAKIERATLGGNFRVPIVNTSLVWPNGL
ALDLETDLLYWADASLQKIERSTLTGTNREVVVSTAFHSFGLTVYGQYIY
WTDLYTRKIYRANKYDGSDLVAMTTRLPTQPSGISTVVKTQRQQCSNPCD
QFNGGCSHICAPGPNGAECQCPHEGNWYLANDNKYCVVDTGTRCNQLQFT
CLNGHCINQDWKCDNDNDCGDGSDELPTVCAFHT

3D structure

• PDB: 8jx8 Cryo-EM structures elucidate the multiligand receptor nature of megalin.
• Chain: B
• Resolution: 3.3 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	peptide	B	R1556 W1574 W1600 H1645 R1661	R249 W267 W293 H338 R354
BS02	peptide	B	E1923 W1965	E616 W658
BS03	peptide	B	N2097 F2115 R2149 R2194 Y2210 R2296 R2325	N790 F808 R842 R887 Y903 R989 R1018
BS04	peptide	B	W2527 W2553 N2555	W1220 W1246 N1248
BS05	CA	B	D1334 G1335 V1336 D1338 D1344 E1345	D27 G28 V29 D31 D37 E38
BS06	CA	B	D1391 I1392 E1394 N1407 M1408 G1410 S1411	D84 I85 E87 N100 M101 G103 S104
BS07	CA	B	D2254 D2257 P2279	D947 D950 P972
BS08	CA	B	W2718 D2721 D2723 D2725 D2731 E2732	W1411 D1414 D1416 D1418 D1424 E1425
BS09	CA	B	A1618 D1621 H1644	A311 D314 H337

External links

• PDB: RCSB:8jx8, PDBe:8jx8, PDBj:8jx8
• PDBsum: 8jx8
• PubMed: 38771880
• UniProt: P98158|LRP2_RAT Low-density lipoprotein receptor-related protein 2 (Gene Name=Lrp2)