9EAG: ApoB100 from Human Low-Density Lipoprotein

The Structure of ApoB100 from Human Low-Density Lipoprotein. Determined by electron microscopy at 9.0 Å resolution. Released 18 Dec 2024.

Method
Electron microscopy
Resolution
9.0 Å
Organism
Homo sapiens
Chains
1
Atoms
36,083
Mol. weight
516.17 kDa
Released
18 Dec 2024

Explore 9EAG in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9EAG contains 104 α-helices and 259 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 104 helices, 259 β-strands

ElementResiduesLengthSheet
α-helix41-433
β-strand50-63141
β-strand71-86161
β-strand89-101131
β-strand104-10522
β-strand111-11222
β-strand11511
α-helix119-1268
β-strand131-13441
α-helix136-1383
β-strand142-14431
α-helix151-16414
α-helix167-1693
β-strand177-18153
β-strand184-18853
β-strand191-19661
β-strand199-208101
α-helix209-2113
α-helix217-2182
α-helix232-2376
β-strand239-249111
β-strand256-267121
β-strand278-290131
β-strand29311
β-strand30611
α-helix320-33819
α-helix345-35612
α-helix361-37313
α-helix376-3838
α-helix388-40114
α-helix405-41612
α-helix423-43614
α-helix439-45517
α-helix461-47414
α-helix483-50220
α-helix504-51411
α-helix521-53010
α-helix531-5333
α-helix539-54911
α-helix555-56511
α-helix571-58010
α-helix581-5833
α-helix587-60216
α-helix607-61812
α-helix625-6273
β-strand635-64394
α-helix644-6452
β-strand651-660104
β-strand670-67894
β-strand685-695114
α-helix697-7048
α-helix710-72112
α-helix725-7273
α-helix728-73710
α-helix749-76517
α-helix769-7713
β-strand772-77984
β-strand782-78874
α-helix789-80719
α-helix809-81911
β-strand823-82535
β-strand829-839116
β-strand845-854106
β-strand858-86035
β-strand863-86537
β-strand870-87567
β-strand876-87725
β-strand878-891146
β-strand895-908146
β-strand911-91887
β-strand921-92777
α-helix928-9292
β-strand933-944126
β-strand951-95226
α-helix954-9563
β-strand960-96786
β-strand973-982106
β-strand999-100796
β-strand1011-101777
β-strand102018
β-strand1023-102539
β-strand1028-103039
β-strand103318
α-helix10381
β-strand1039-104137
β-strand1048-105039
β-strand105118
β-strand1053-105429
β-strand1059-106689
β-strand1071-1081119
β-strand1087110
β-strand1090-109899
β-strand1101-1112129
β-strand1113110
β-strand1118-112039
β-strand1123-112539
β-strand1131-113449
β-strand1136-114059
β-strand1147-115159
β-strand1154-115639
β-strand1159-116139
β-strand1164-116859
β-strand1173-1184129
α-helix1186-11927
α-helix1201-121212
α-helix1223-124018
α-helix1246-125813
β-strand1278-1288119
β-strand1294-1299611
α-helix1308-13103
β-strand1315-1317312
β-strand1321-1323313
β-strand1328-1330313
β-strand1334-1336312
α-helix1337-13393
β-strand1345-1350611
β-strand1356-136499
β-strand1367-137379
β-strand1374114
β-strand137719
β-strand1384-138639
β-strand1388114
β-strand1389-139579
β-strand1402-140659
β-strand1408-141369
β-strand1417-1427119
β-strand1431-1442129
β-strand1449-1459119
β-strand1464-1476139
β-strand1479-1491139
β-strand1496-1508139
β-strand1513-1524129
β-strand1528-1538119
β-strand1541-1550109
β-strand1555-1564109
β-strand1567-1578129
β-strand1581-158559
β-strand1588-159039
β-strand1598-160369
β-strand1606115
β-strand1609115
β-strand1610-1619109
β-strand1624-1633109
β-strand1638-1647109
β-strand1651-1662129
β-strand1665-1676129
β-strand1679-1690129
β-strand1694-1703109
β-strand1708-171699
α-helix1718-17203
β-strand1722-1731109
β-strand1736-1746119
β-strand1749-1759119
β-strand1764-1773109
β-strand1779-1789119
β-strand1792-1803129
β-strand1806-1815109
β-strand1820-1831129
β-strand1834-1845129
β-strand1848-1859129
β-strand1862-186879
β-strand1878-188699
β-strand1890-1899109
β-strand1905-1917139
β-strand1922-1936159
β-strand1939-1953159
β-strand1959-1973159
β-strand1976-1987129
β-strand1990-2000119
β-strand2005-2015119
α-helix2036-20405
α-helix20491
β-strand2050-2069209
α-helix2072-210130
α-helix2104-212825
α-helix2131-214313
α-helix2144-21485
α-helix2153-218634
α-helix2190-221627
α-helix2218-223518
α-helix2244-225411
α-helix2258-227417
α-helix2278-229114
α-helix2294-230411
α-helix2308-232720
α-helix2331-234818
α-helix2350-236819
α-helix2370-238112
α-helix2386-240621
α-helix2409-242820
α-helix2432-245625
α-helix2459-248426
α-helix2489-24979
α-helix2506-252318
α-helix2528-256841
α-helix2571-25788
α-helix2579-25835
β-strand2585-2587316
β-strand2590-2591217
β-strand2595118
β-strand2596-2597217
α-helix2598-25992
β-strand2600-2602316
α-helix2605-26095
β-strand2612-2613219
β-strand2617118
β-strand2626118
β-strand2630-2631219
β-strand2644-2647420
α-helix2648-26492
β-strand2650-2652321
β-strand2656-2658321
β-strand2661-2664420
α-helix2665-268117
α-helix2686-26883
α-helix2698-27003
α-helix2722-27243
α-helix2739-27413
β-strand2750-2765169
β-strand277119
β-strand2774-277969
β-strand2789-279689
β-strand2807-281379
β-strand2825-283179
β-strand2835-2846129
β-strand2849-2861139
β-strand2865-2877139
β-strand2881-2895159
β-strand2900-2915169
β-strand2918-292479
β-strand2927-293269
β-strand2939-294359
β-strand2946-295169
β-strand2954-2965129
β-strand2968-2979129
β-strand2983-2994129
β-strand2998-3009129
β-strand3014-3025129
β-strand3029-3030222
β-strand3031-3042129
β-strand3045-3054109
β-strand3057-3060422
β-strand3064-3067422
β-strand3068-3078119
β-strand3083-308979
β-strand3092-309329
β-strand3096-3106119
β-strand3111-3121119
α-helix3124-31274
β-strand3130-3132323
β-strand3136124
β-strand3143124
α-helix3144-31463
β-strand3147-3150423
α-helix3152-31554
α-helix3158-31614
β-strand3167-317489
β-strand317719
β-strand3183-3187525
α-helix3191-322434
α-helix3227-32315
β-strand3244-3248526
β-strand3251-3253327
β-strand3258-3260327
β-strand3263-3267526
β-strand3275126
β-strand3278-3280328
β-strand3284127
β-strand3295-3297328
α-helix3317-33204
β-strand3328-3332525
β-strand3336-333729
β-strand3339-334469
β-strand3348-3357109
β-strand3362-3372119
β-strand3379-338799
β-strand3395-340289
β-strand3406-3416119
β-strand3421-3431119
β-strand343319
β-strand343619
β-strand3439-344579
β-strand344819
β-strand3452-3466159
β-strand3471-3485159
β-strand3490-3504159
β-strand3508-350929
β-strand3514-352189
β-strand3525-353399
β-strand353819
β-strand3545-3546229
β-strand3550-355569
β-strand3559-356249
β-strand3567-3568229
β-strand3570-3571230
β-strand3579-3580230
β-strand3583131
β-strand3587-359269
β-strand3595-360289
β-strand3604131
β-strand361519
β-strand3618-362589
β-strand3628-3639129
β-strand3642-3652119
β-strand3656-3667129
β-strand3676-3677232
β-strand3682-3683232
α-helix3684-36885
β-strand3700-3712139
β-strand3717-3720433
β-strand3724-3725234
β-strand3729-3732434
β-strand3743-3746435
β-strand3749-3750236
α-helix37511
β-strand3757-3758236
α-helix3759-37602
β-strand3761-3764435
β-strand3768-3771434
β-strand3773-3776437
β-strand3779138
β-strand3789-3790239
β-strand3791138
β-strand3794-3801837
β-strand3810-3815637
β-strand3818-3822539
β-strand3825-3827340
β-strand3831-3832241
β-strand3837-3838241
α-helix3840-38489
α-helix3851-38544
β-strand3855-3857340
β-strand3860-3864539
β-strand3867-3872637
β-strand3874-3877433
α-helix3878-38792
β-strand3880-3891129
β-strand3894-3905129
β-strand3908-3919129
β-strand3926-3937129
β-strand3940-3950119
β-strand3955-3965119
β-strand3969-3978109
β-strand3986-399389
β-strand3996-400389
β-strand4007-401599
β-strand4019-4028109
β-strand4036-4045109
β-strand4052-405879
α-helix4060-409233
α-helix4098-415962
α-helix4165-419834
β-strand4202142
β-strand4211142
α-helix4213-425240
α-helix4258-428730
α-helix4292-431928
α-helix4323-438866
α-helix4395-445460
α-helix4461-450545
α-helix4509-454335
β-strand4551-455559
β-strand4558-456259

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Apolipoprotein B 100Aprotein4563Homo sapiensP04114
Sequence of entity 1 (A), FASTA
>9EAG_1 Apolipoprotein B 100 (chains A)
MDPPRPALLALLALPALLLLLLAGARAEEEMLENVSLVCPKDATRFKHLRKYTYNYEAES
SSGVPGTADSRSATRINCKVELEVPQLCSFILKTSQCTLKEVYGFNPEGKALLKKTKNSE
EFAAAMSRYELKLAIPEGKQVFLYPEKDEPTYILNIKRGIISALLVPPETEEAKQVLFLD
TVYGNCSTHFTVKTRKGNVATEISTERDLGQCDRFKPIRTGISPLALIKGMTRPLSTLIS
SSQSCQYTLDAKRKHVAEAICKEQHLFLPFSYKNKYGMVAQVTQTLKLEDTPKINSRFFG
EGTKKMGLAFESTKSTSPPKQAEAVLKTLQELKKLTISEQNIQRANLFNKLVTELRGLSD
EAVTSLLPQLIEVSSPITLQALVQCGQPQCSTHILQWLKRVHANPLLIDVVTYLVALIPE
PSAQQLREIFNMARDQRSRATLYALSHAVNNYHKTNPTGTQELLDIANYLMEQIQDDCTG
DEDYTYLILRVIGNMGQTMEQLTPELKSSILKCVQSTKPSLMIQKAAIQALRKMEPKDKD
QEVLLQTFLDDASPGDKRLAAYLMLMRSPSQADINKIVQILPWEQNEQVKNFVASHIANI
LNSEELDIQDLKKLVKEALKESQLPTVMDFRKFSRNYQLYKSVSLPSLDPASAKIEGNLI
FDPNNYLPKESMLKTTLTAFGFASADLIEIGLEGKGFEPTLEALFGKQGFFPDSVNKALY
WVNGQVPDGVSKVLVDHFGYTKDDKHEQDMVNGIMLSVEKLIKDLKSKEVPEARAYLRIL
GEELGFASLHDLQLLGKLLLMGARTLQGIPQMIGEVIRKGSKNDFFLHYIFMENAFELPT
GAGLQLQISSSGVIAPGAKAGVKLEVANMQAELVAKPSVSVEFVTNMGIIIPDFARSGVQ
MNTNFFHESGLEAHVALKAGKLKFIIPSPKRPVKLLSGGNTLHLVSTTKTEVIPPLIENR
QSWSVCKQVFPGLNYCTSGAYSNASSTDSASYYPLTGDTRLELELRPTGEIEQYSVSATY
ELQREDRALVDTLKFVTQAEGAKQTEATMTFKYNRQSMTLSSEVQIPDFDVDLGTILRVN
DESTEGKTSYRLTLDIQNKKITEVALMGHLSCDTKEERKIKGVISIPRLQAEARSEILAH
WSPAKLLLQMDSSATAYGSTVSKRVAWHYDEEKIEFEWNTGTNVDTKKMTSNFPVDLSDY
PKSLHMYANRLLDHRVPQTDMTFRHVGSKLIVAMSSWLQKASGSLPYTQTLQDHLNSLKE
FNLQNMGLPDFHIPENLFLKSDGRVKYTLNKNSLKIEIPLPFGGKSSRDLKMLETVRTPA
LHFKSVGFHLPSREFQVPTFTIPKLYQLQVPLLGVLDLSTNVYSNLYNWSASYSGGNTST
DHFSLRARYHMKADSVVDLLSYNVQGSGETTYDHKNTFTLSCDGSLRHKFLDSNIKFSHV
EKLGNNPVSKGLLIFDASSSWGPQMSASVHLDSKKKQHLFVKEVKIDGQFRVSSFYAKGT
YGLSCQRDPNTGRLNGESNLRFNSSYLQGTNQITGRYEDGTLSLTSTSDLQSGIIKNTAS
LKYENYELTLKSDTNGKYKNFATSNKMDMTFSKQNALLRSEYQADYESLRFFSLLSGSLN
SHGLELNADILGTDKINSGAHKATLRIGQDGISTSATTNLKCSLLVLENELNAELGLSGA
SMKLTTNGRFREHNAKFSLDGKAALTELSLGSAYQAMILGVDSKNIFNFKVSQEGLKLSN
DMMGSYAEMKFDHTNSLNIAGLSLDFSSKLDNIYSSDKFYKQTVNLQLQPYSLVTTLNSD
LKYNALDLTNNGKLRLEPLKLHVAGNLKGAYQNNEIKHIYAISSAALSASYKADTVAKVQ
GVEFSHRLNTDIAGLASAIDMSTNYNSDSLHFSNVFRSVMAPFTMTIDAHTNGNGKLALW
GEHTGQLYSKFLLKAEPLAFTFSHDYKGSTSHHLVSRKSISAALEHKVSALLTPAEQTGT
WKLKTQFNNNEYSQDLDAYNTKDKIGVELTGRTLADLTLLDSPIKVPLLLSEPINIIDAL
EMRDAVEKPQEFTIVAFVKYDKNQDVHSINLPFFETLQEYFERNRQTIIVVLENVQRNLK
HINIDQFVRKYRAALGKLPQQANDYLNSFNWERQVSHAKEKLTALTKKYRITENDIQIAL
DDAKINFNEKLSQLQTYMIQFDQYIKDSYDLHDLKIAIANIIDEIIEKLKSLDEHYHIRV
NLVKTIHDLHLFIENIDFNKSGSSTASWIQNVDTKYQIRIQIQEKLQQLKRHIQNIDIQH
LAGKLKQHIEAIDVRVLLDQLGTTISFERINDILEHVKHFVINLIGDFEVAEKINAFRAK
VHELIERYEVDQQIQVLMDKLVELAHQYKLKETIQKLSNVLQQVKIKDYFEKLVGFIDDA
VKKLNELSFKTFIEDVNKFLDMLIKKLKSFDYHQFVDETNDKIREVTQRLNGEIQALELP
QKAEALKLFLEETKATVAVYLESLQDTKITLIINWLQEALSSASLAHMKAKFRETLEDTR
DRMYQMDIQQELQRYLSLVGQVYSTLVTYISDWWTLAAKNLTDFAEQYSIQDWAKRMKAL
VEQGFTVPEIKTILGTMPAFEVSLQALQKATFQTPDFIVPLTDLRIPSVQINFKDLKNIK
IPSRFSTPEFTILNTFHIPSFTIDFVEMKVKIIRTIDQMLNSELQWPVPDIYLRDLKVED
IPLARITLPDFRLPEIAIPEFIIPTLNLNDFQVPDLHIPEFQLPHISHTIEVPTFGKLYS
ILKIQSPLFTLDANADIGNGTTSANEAGIAASITAKGESKLEVLNFDFQANAQLSNPKIN
PLALKESVKFSSKYLRTEHGSEMLFFGNAIEGKSNTVASLHTEKNTLELSNGVIVKINNQ
LTLDSNTKYFHKLNIPKLDFSSQADLRNEIKTLLKAGHIAWTSSGKGSWKWACPRFSDEG
THESQISFTIEGPLTSFGLSNKINSKHLRVNQNLVYESGSLNFSKLEIQSQVDSQHVGHS
VLTAKGMALFGEGKAEFTGRHDAHLNGKVIGTLKNSLFFSAQPFEITASTNNEGNLKVRF
PLRLTGKIDFLNNYALFLSPSAQQASWQVSARFNQYKYNQNFSAGNNENIMEAHVGINGE
ANLDFLNIPLTIPEMRLPYTIITTPPLKDFSLWEKTGLKEFLKTTKQSFDLSVKAQYKKN
KHRHSITNPLAVLCEFISQSIKSFDRHFEKNRNNALDFVTKSYNETKIKFDKYKAEKSHD
ELPRTFQIPGYTVPVVNVEVSPFTIEMSAFGYVFPKAVSMPSFSILGSDVRVPSYTLILP
SLELPVLHVPRNLKLSLPDFKELCTISHIFIPAMGNITYDFSFKSSVITLNTNAELFNQS
DIVAHLLSSSSSVIDALQYKLEGTTRLTRKRGLKLATALSLSNKFVEGSHNSTVSLTTKN
MEVSVATTTKAQIPILRMNFKQELNGNTKSKPTVSSSMEFKYDFNSSMLYSTAKGAVDHK
LSLESLTSYFSIESSTKGDVKGSVLSREYSGTIASEANTYLNSKSTRSSVKLQGTSKIDD
IWNLEVKENFAGEATLQRIYSLWEHSTKNHLQLEGLFFTNGEHTSKATLELSPWQMSALV
QVHASQPSSFHDFPDLGQEVALNANTKNQKIRWKNEVRIHSGSFQSQVELSNDQEKAHLD
IAGSLEGHLRFLKNIILPVYDKSLWDFLKLDVTTSIGRRQHLRVSTAFVYTKNPNGYSFS
IPVKVLADKFIIPGLKLNDLNSVLVMPTFHVPFTDLQVPSCKLDFREIQIYKKLRTSSFA
LNLPTLPEVKFPEVDVLTKYSQPEDSLIPFFEITVPESQLTVSQFTLPKSVSDGIAALDL
NAVANKIADFELPTIIVPEQTIEIPSIKFSVPAGIVIPSFQALTARFEVDSPVYNATWSA
SLKNKADYVETVLDSTCSSTVQFLEYELNVLGTHKIEDGTLASKTKGTFAHRDFSAEYEE
DGKYEGLQEWEGKAHLNIKSPAFTDLHLRYQKDKKGISTSAASPAVGTVGMDMDEDDDFS
KWNFYYSPQSSPDKKLTIFKTELRVRESDEETQIKVNWEEEAASGLLTSLKDNVPKATGV
LYDYVNKYHWEHTGLTLREVSSKLRRNLQNNAEWVYQGAIRQIDDIDVRFQKAASGTTGT
YQEWKDKAQNLYQELLTQEGQASFQGLKDNVFDGLVRVTQEFHMKVKHLIDSLIDFLNFP
RFQFPGKPGIYTREELCTMFIREVGTVLSQVYSKVHNGSEILFSYFQDLVITLPFELRKH
KLIDVISMYRELLKDLSKEAQEVFKAIQSLKTTEVLRNLQDLLQFIFQLIEDNIKQLKEM
KFTYLINYIQDEINTIFSDYIPYVFKLLKENLCLNLHKFNEFIQNELQEASQELQQIHQY
IMALREEYFDPSIVGWTVKYYELEEKIVSLIKNLLVALKDFHSEYIVSASNFTSQLSSQV
EQFLHRNIQEYLSILTDPDGKGKEKIAELSATAQEIIKSQAIATKKIISDYHQQFRYKLQ
DFSDQLSDYYEKFIAESKRLIDLSIQNYHTFLIYITELLKKLQSTTVMNPYMKLAPGELT
IIL

Primary citation

The structure of apolipoprotein B100 from human low-density lipoprotein. Berndsen, Z.T., Cassidy, C.K. Nature (2025) 638:836-843. DOI 10.1038/s41586-024-08467-w · PubMed

Other PDB entries of the same protein (UniProt P04114), best resolution first:

Browse structure collections

About this viewer

MolViewer shows 9EAG directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.