Structure of PDB 8jut Chain A
Receptor sequence
>8jutA (length=4308) Species:
10116
(Rattus norvegicus) [
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ECGSGNFRCDNGYCIPASWRCDGTRDCLDDTDEIGCPPRSCESGLFLCPA
EGTCIPSSWVCDEDKDCSDGADEQQNCAKEFECGSGECILRAYVCDHDND
CEDNSDERNCNYDTCGGHQFTCSNGQCINQNWVCDGDDDCQDSGDEDGCE
SNQSHHRCYPREWACPGSGRCISIDKVCDGVPDCPEGDDENNVTSGRTCG
MGVCSVLNCEYQCHQTPFGGECFCPPGHIINSNDSRTCIDFDDCQIWGIC
DQKCENRQGRHQCLCEEGYILERGQHCKSSDSFSAASVIFSNGRDLLVGD
LHGRNFRILAESKNRGMVMGVDFHYQKHRVFWTDPMQEKVFSTDINGLNT
QEILNVSVDTPENLAVDWINNKLYLVETKVNRIDVVNLEGNQRVTLITEN
LGHPRGIALDPTVGYLFFSDWGSLSGQPKVERAFMDGSNRKDLVTTKVGW
PAGITLDLVSKRVYWVDSRYDYIETVTYDGIQRKTVARGGSLVPHPFGIS
LFEEHVFFTDWTKMAVMKASKFTETNPQVYHQSSLRPHGVTVYHALRQPN
ATNPCGSNNGGCAQVCVLSHRTDNGGLGYRCKCEFGFELDDDEHRCVAVK
NFLLFSSKTAVRGIPFTLSTQEDVMVPVTGSPSFFVGIDFDAQHSTVFYS
DLSKDIIYKQKIDGTGKEVITANRLESVECLTFDWISRNLYWTDGGLKSV
TVLRLADKSRRQIISNLNNPRSIVVHPTAGYMFLSDWFRPAKIMRAWSDG
SHLMPIVNTSLGWPNGLAIDWSASRLYWVDAFFDKIEHSTLDGLDRKRLG
HVDQMTHPFGLTVFKDNVFITDWRLGAIIRVRKSDGGDMTVIRRGISSVM
HVKAYDADLQTGSNYCSQTTHANGDCSHFCFPVPNFQRVCGCPYGMKLQR
DQMTCEGDPAREPPTQQCGSLSFPCNNGKCVPSFFRCDGVDDCHDNSDEH
QCGVFNNTCSPSAFACVRGGQCIPGQWHCDRQNDCLDGSDEQNCPTHATS
STCPSTSFTCDNHVCIPKDWVCDTDNDCSDGSDEKNCQASGTCQPTQFRC
PDHRCISPLYVCDGDKDCADGSDEAGCVLNCTSAQFKCADGSSCINSRYR
CDGVYDCRDNSDEAGCPTRPPGMCHLDEFQCQGDGTCIPNTWECDGHPDC
IHGSDEHTGCVPKTCSPTHFLCDNGNCIYKAWICDGDNDCRDMSDEKDCP
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
CLNGHCINQDWKCDNDNDCGDGSDELPTVCAFHTCRSTAFTCGNGRCVPY
HYRCDYYNDCGDNSDEAGCLFRNCNSTTEFTCSNGRCIPLSYVCNGINNC
HDNDTSDEKNCPPHTCPPDFTKCQTTNICVPRAFLCDGDNDCGDGSDENP
IYCASHTCRSNEFQCLSPQRCIPSYWFCDGEADCADGSDEPDTCGHSVNT
CRASQFQCDNGRCISGNWVCDGDNDCGDMSDEDQRHHCELQNCSSTQFTC
VNSRPPNRRCIPQYWVCDGDADCSDALDELQNCTMRTCSAGEFSCANGRC
VRQSFRCDRRNDCGDYSDERGCSYPPCHANQFTCQNGRCIPRFFVCDEDN
DCGDGSDEQEHLCHTPEPTCPLHQFRCDNGHCIEMGRVCNHVDDCSDNSD
EKGCGINECLDSSISRCDHNCTDTITSFYCSCLPGYKLMSDKRSCVDIDE
CKESPQLCSQKCENVVGSYICKCAPGYIREPDGKSCRQNSNIEPYLIFSN
RYYIRNLTTDGSSYSLILQGLGNVVALDFDRVEKRLYWIDAEKQIIERMF
LNKTNRETIINHRLRRAESLAVDWVSRKLYWLDAILDCLFVSDLEGRHRK
MIAQHCVDANNTFCFEHPRGIVLHPQRGHVYWADWGVHAYIGRIGMDGTN
KSVIISTKIEWPNAITIDYTNDLLYWADAHLGYIEFSDLEGHHRHTVYDG
SLPHPFALTIFEDTVFWTDWNTRTVEKGNKYDGSGRVVLVNTTHKPFDIH
VYHPYRQPIMSNPCGTNNGGCSHLCLIKAGGRGFTCACPDDFQTVQLRDR
TLCMPMCSSTQFLCGNNEKCIPIWWKCDGQKDCSDGSDEPDLCPHRFCRL
GQFQCRDGNCTSPQALCNARQDCADGSDEDRVLCEHHRCESNEWQCANKR
CIPQSWQCDSVNDCLDNSDEDTSHCASRTCRPGQFKCNNGRCIPQSWKCD
VDNDCGDYSDEPIDECTTAAYNCDNHTEFSCKTNYRCIPQWAVCNGFDDC
RDNSDEQGCESVPCHPSGDFRCANHHCIPLRWKCDGTDDCGDNSDEENCV
PRECSESEFRCADQQCIPSRWVCDQENDCGDNSDERDCEMKTCHPEHFQC
TSGHCVPKALACDGRADCLDASDESACPTRFPNGTYCPAAMFECKNHVCI
QSFWICDGENDCVDGSDEEIHLCFNIPCESPQRFRCDNSRCVYGHQLCNG
VDDCGDGSDEKEEHCRKPTHKPCTDTEYKCSNGNCISQHYVCDNVNDCGD
LSDETGCNLGDNRTCAENICEQNCTQLSSGGFICSCRPGFKPSTLDKNSC
QDINECEEFGICPQSCRNSKGSYECFCVDGFKSMSTHYGERCAADGSPPL
LLLPENVRIRKYNTSSEKFSEYLEEEEHIQTIDYDWDPEHIGLSVVYYTV
LAQGSQFGAIKRAYIPNFESGSNNPIREVDLGLKYLMQPDGLAVDWVGRH
IYWSDAKSQRIEVATLDGRYRKWLITTQLDQPAAIAVNPKLGLMFWTDQG
KQPKIESAWMNGEHRSVLVSENLGWPNGLSIDYLNDDRVYWSDSKEDVIE
AIKYDGTDRRLIINEAMKPFSLDIFEDKLYWVAKEKGEVWRQNKFGKENK
EKVLVVNPWLTQVRIFHQLRYNQSVSNPCKQVCSHLCLLRPGGYSCACPQ
GSDFVTGSTVQCDAASELPVTMPPPCRCMHGGNCYFDENELPKCKCSSGY
SGEYCEVG
3D structure
PDB
8jut
Cryo-EM structures elucidate the multiligand receptor nature of megalin.
Chain
A
Resolution
4.2 Å
3D
structure
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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
A
R512 W618
R405 W511
BS02
peptide
A
R828 W844 W870 N872 H914 W930
R721 W737 W763 N765 H807 W823
BS03
peptide
A
R1556 W1574 W1600 H1645 R1661
R1449 W1467 W1493 H1538 R1554
BS04
peptide
A
N2097 F2115 R2149 R2194 Y2210
N1990 F2008 R2042 R2087 Y2103
BS05
peptide
A
R2511 W2527 W2553 N2555
R2404 W2420 W2446 N2448
BS06
peptide
A
R3326 W3342 W3368 N3370 H3411 W3427 R3738
R3219 W3235 W3261 N3263 H3304 W3320 R3631
BS07
CA
A
W45 D48 T50 D52 D58 E59
W19 D22 T24 D26 D32 E33
BS08
CA
A
W85 D88 D90 D92 E99
W59 D62 D64 D66 E73
BS09
CA
A
Y200 D203 D205 D207 D213 E214
Y93 D96 D98 D100 D106 E107
BS10
CA
A
W239 D242 D244 D246 D252 E253
W132 D135 D137 D139 D145 E146
BS11
CA
A
K283 V284 C285 D286 V288 D290 D296 E297
K176 V177 C178 D179 V181 D183 D189 E190
BS12
CA
A
S575 D578 P601 T1131
S468 D471 P494 T1024
BS13
CA
A
A888 D891 T913
A781 D784 T806
BS14
CA
A
F1042 D1045 V1047 D1049 D1055 E1056
F935 D938 V940 D942 D948 E949
BS15
CA
A
W1084 D1087 Q1089 D1091 D1097 E1098
W977 D980 Q982 D984 D990 E991
BS16
CA
A
W1127 D1130 D1132 D1134 D1140 E1141
W1020 D1023 D1025 D1027 D1033 E1034
BS17
CA
A
Y1167 D1170 D1172 D1174 D1180 E1181
Y1060 D1063 D1065 D1067 D1073 E1074
BS18
CA
A
Y1206 D1209 V1211 D1213 D1219 E1220
Y1099 D1102 V1104 D1106 D1112 E1113
BS19
CA
A
W1249 D1252 H1254 D1256 D1262 E1263
W1142 D1145 H1147 D1149 D1155 E1156
BS20
CA
A
W1289 D1292 D1294 D1296 D1302 E1303
W1182 D1185 D1187 D1189 D1195 E1196
BS21
CA
A
A1331 L1332 D1334 V1336 D1338 D1344 E1345
A1224 L1225 D1227 V1229 D1231 D1237 E1238
BS22
CA
A
D1391 E1394 N1407 M1408 R1409 G1410 S1411
D1284 E1287 N1300 M1301 R1302 G1303 S1304
BS23
CA
A
A1618 D1621 H1644
A1511 D1514 H1537
BS24
CA
A
D2254 D2257 P2279
D2147 D2150 P2172
BS25
CA
A
W2718 D2721 D2723 D2725 D2731 E2732
W2611 D2614 D2616 D2618 D2624 E2625
BS26
CA
A
Y2759 D2762 Y2764 D2766 D2772 E2773
Y2652 D2655 Y2657 D2659 D2665 E2666
BS27
CA
A
Y2799 N2802 I2804 N2806 D2814 E2815
Y2692 N2695 I2697 N2699 D2707 E2708
BS28
CA
A
F2841 D2844 D2846 D2848 D2854
F2734 D2737 D2739 D2741 D2747
BS29
CA
A
W2883 F2884 D2886 E2888 A2889 D2890 D2896 E2897
W2776 F2777 D2779 E2781 A2782 D2783 D2789 E2790
BS30
CA
A
W2925 D2928 D2930 D2932 D2938 E2939
W2818 D2821 D2823 D2825 D2831 E2832
BS31
CA
A
W2972 D2975 D2977 D2979 D2985 E2986
W2865 D2868 D2870 D2872 D2878 E2879
BS32
CA
A
F3012 D3015 R3017 D3019 D3025 E3026
F2905 D2908 R2910 D2912 D2918 E2919
BS33
CA
A
F3051 V3052 D3054 D3056 D3058 D3064 E3065
F2944 V2945 D2947 D2949 D2951 D2957 E2958
BS34
CA
A
R3094 N3097 V3099 D3101 D3107 E3108
R2987 N2990 V2992 D2994 D3000 E3001
BS35
CA
A
D3154 E3157 N3171 V3172 G3174 S3175
D3047 E3050 N3064 V3065 G3067 S3068
BS36
CA
A
A3291 D3294 E3323
A3184 D3187 E3216
BS37
CA
A
V3344 E3367
V3237 E3260
BS38
CA
A
A3386 H3387
A3279 H3280
BS39
CA
A
W3532 D3535 Q3537 D3539 D3545 E3546
W3425 D3428 Q3430 D3432 D3438 E3439
BS40
CA
A
A3572 N3575 R3577 Q3578 D3579 D3585 E3586
A3465 N3468 R3470 Q3471 D3472 D3478 E3479
BS41
CA
A
W3613 D3616 V3618 D3620 D3626 E3627
W3506 D3509 V3511 D3513 D3519 E3520
BS42
CA
A
W3654 D3657 D3659 D3661 D3667 E3668
W3547 D3550 D3552 D3554 D3560 E3561
BS43
CA
A
A3699 N3702 F3704 D3706 D3712 E3713
A3592 N3595 F3597 D3599 D3605 E3606
BS44
CA
A
W3739 D3742 T3744 D3746 D3752 E3753
W3632 D3635 T3637 D3639 D3645 E3646
BS45
CA
A
W3778 D3781 E3783 N3784 D3785 D3791 E3792
W3671 D3674 E3676 N3677 D3678 D3684 E3685
BS46
CA
A
L3817 D3820 R3822 D3824 D3830 E3831
L3710 D3713 R3715 D3717 D3723 E3724
BS47
CA
A
C3863 D3864 G3865 E3866 D3868 D3874 E3875
C3756 D3757 G3758 E3759 D3761 D3767 E3768
BS48
CA
A
Q3903 N3906 V3908 D3916 E3917
Q3796 N3799 V3801 D3809 E3810
BS49
CA
A
Y3947 D3950 V3952 D3954 D3960 E3961
Y3840 D3843 V3845 D3847 D3853 E3854
BS50
CA
A
D4009 I4010 E4012 N4025 S4026 G4028 S4029
D3902 I3903 E3905 N3918 S3919 G3921 S3922
External links
PDB
RCSB:8jut
,
PDBe:8jut
,
PDBj:8jut
PDBsum
8jut
PubMed
38771880
UniProt
P98158
|LRP2_RAT Low-density lipoprotein receptor-related protein 2 (Gene Name=Lrp2)
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