Structure of PDB 8jxf Chain B
Receptor sequence
>8jxfB (length=1089) Species:
10116
(Rattus norvegicus) [
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PTRPPGMCHLDEFQCQGDGTCIPNASHTCRSNEFQCLSPQRCIPSYWFCD
GEADCADGSDEPDTCGHSVNTCRASQFQCDNGRCISGNWVCDGDNDCGDM
SDEDQRHHCELQNCSSTQFTCVNSRPPNRRCIPQYWVCDGDADCSDALDE
LQNCTMRTCSAGEFSCANGRCVRQSFRCDRRNDCGDYSDERGCSYPPCHA
NQFTCQNGRCIPRFFVCDEDNDCGDGSDEQEHLCHTPEPTCPLHQFRCDN
GHCIEMGRVCNHVDDCSDNSDEKGCGINECLDSSISRCDHNCTDTITSFY
CSCLPGYKLMSDKRSCVDIDECKESPQLCSQKCENVVGSYICKCAPGYIR
EPDGKSCRQNSNIEPYLIFSNRYYIRNLTTDGSSYSLILQGLGNVVALDF
DRVEKRLYWIDAEKQIIERMFLNKTNRETIINHRLRRAESLAVDWVSRKL
YWLDAILDCLFVSDLEGRHRKMIAQHCVDANNTFCFEHPRGIVLHPQRGH
VYWADWGVHAYIGRIGMDGTNKSVIISTKIEWPNAITIDYTNDLLYWADA
HLGYIEFSDLEGHHRHTVYDGSLPHPFALTIFEDTVFWTDWNTRTVEKGN
KYDGSGRVVLVNTTHKPFDIHVYHPYRQPIMSNPCGTNNGGCSHLCLIKA
GGRGFTCACPDDFQTVQLRDRTLCMPMCSSTQFLCGNNEKCIPIWWKCDG
QKDCSDGSDEPDLCPHRFCRLGQFQCRDGNCTSPQALCNARQDCADGSDE
DRVLCEHHRCESNEWQCANKRCIPQSWQCDSVNDCLDNSDEDTSHCASRT
CRPGQFKCNNGRCIPQSWKCDVDNDCGDYSDEPIDECTTAAYNCDNHTEF
SCKTNYRCIPQWAVCNGFDDCRDNSDEQGCESVPCHPSGDFRCANHHCIP
LRWKCDGTDDCGDNSDEENCVPRECSESEFRCADQQCIPSRWVCDQENDC
GDNSDERDCEMKTCHPEHFQCTSGHCVPKALACDGRADCLDASDESACPT
RFPNGTYCPAAMFECKNHVCIQSFWICDGENDCVDGSDEEIHLCFNIPCE
SPQRFRCDNSRCVYGHQLCNGVDDCGDGSDEKEEHCRKP
3D structure
PDB
8jxf
Cryo-EM structures elucidate the multiligand receptor nature of megalin.
Chain
B
Resolution
3.6 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
B
R3326 W3342 W3368 N3370 H3411 R3738 W3739
R490 W506 W532 N534 H575 R902 W903
BS02
CA
B
W2883 D2886 E2888 D2896 E2897
W47 D50 E52 D60 E61
BS03
CA
B
W2925 D2928 D2930 D2932 D2938 E2939
W89 D92 D94 D96 D102 E103
BS04
CA
B
W2972 D2975 D2977 D2985 E2986
W136 D139 D141 D149 E150
BS05
CA
B
F3012 D3015 R3017 D3019 D3025 E3026
F176 D179 R181 D183 D189 E190
BS06
CA
B
F3051 D3054 D3056 D3058 D3064 E3065
F215 D218 D220 D222 D228 E229
BS07
CA
B
R3094 N3097 V3099 D3101 D3107 E3108
R258 N261 V263 D265 D271 E272
BS08
CA
B
D3154 I3155 E3157 N3171 V3172 G3174 S3175
D318 I319 E321 N335 V336 G338 S339
BS09
CA
B
A3291 D3294 E3323
A455 D458 E487
BS10
CA
B
V3344 E3367
V508 E531
BS11
CA
B
A3386 H3387 P3410
A550 H551 P574
BS12
CA
B
W3532 D3535 Q3537 D3539 D3545 E3546
W696 D699 Q701 D703 D709 E710
BS13
CA
B
A3572 N3575 R3577 D3579 D3585 E3586
A736 N739 R741 D743 D749 E750
BS14
CA
B
W3613 D3616 V3618 D3620 D3626 E3627
W777 D780 V782 D784 D790 E791
BS15
CA
B
W3654 D3657 D3659 D3661 D3667 E3668
W818 D821 D823 D825 D831 E832
BS16
CA
B
A3699 N3702 F3704 D3706 D3712 E3713
A863 N866 F868 D870 D876 E877
BS17
CA
B
W3739 D3742 T3744 D3746 D3752 E3753
W903 D906 T908 D910 D916 E917
BS18
CA
B
W3778 D3781 E3783 D3785 D3791 E3792
W942 D945 E947 D949 D955 E956
BS19
CA
B
L3817 D3820 R3822 D3824 D3830 E3831
L981 D984 R986 D988 D994 E995
BS20
CA
B
W3861 D3864 E3866 D3868 D3874 E3875
W1025 D1028 E1030 D1032 D1038 E1039
BS21
CA
B
Q3903 N3906 V3908 D3910 D3916 E3917
Q1067 N1070 V1072 D1074 D1080 E1081
External links
PDB
RCSB:8jxf
,
PDBe:8jxf
,
PDBj:8jxf
PDBsum
8jxf
PubMed
38771880
UniProt
P98158
|LRP2_RAT Low-density lipoprotein receptor-related protein 2 (Gene Name=Lrp2)
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