8JIW: 40S ribosomal protein SA

Atomic structure of wheat ribosome reveals unique features of the plant ribosomes. Determined by electron microscopy at 2.88 Å resolution. Released 27 Mar 2024.

Method: Electron microscopy
Resolution: 2.88 Å
Organism: Triticum aestivum
Chains: 33
Atoms: 68,755
Mol. weight: 1178.9 kDa
Ligands: MG, ZN
Released: 27 Mar 2024

Explore 8JIW in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8JIW contains 166 α-helices and 211 β-strands across 32 chains. 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 Ba: 5 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	20-22	3	54
β-strand	29-31	3	54
β-strand	36-43	8	55
α-helix	47-56	10
β-strand	57	1	46
α-helix	63-65	3
β-strand	66-73	8	55
α-helix	75-80	6
α-helix	89-92	4
α-helix	96-98	3

Chain BA: 6 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	15-24	10
β-strand	45	1	3
β-strand	51	1	3
α-helix	55-69	15
α-helix	75-77	3
β-strand	78-82	5	4
α-helix	88-92	5
β-strand	101-104	4	4
β-strand	125-128	4	4
α-helix	135-141	7
β-strand	148-150	3	4
β-strand	163-164	2	4
α-helix	174-190	17

Chain Bb: 1 helix, 7 β-strands

Element	Residues	Length	Sheet
α-helix	16-18	3
β-strand	34-36	3	56
β-strand	38	1	57
β-strand	47-49	3	56
β-strand	66-67	2	58
β-strand	74-75	2	58
β-strand	80	1	57
β-strand	83-84	2	56

Chain BB: 6 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	30-33	4	7
β-strand	42-46	5	7
α-helix	57-60	4
β-strand	66-68	3	8
β-strand	82-88	7	8
β-strand	92	1	7
β-strand	95	1	7
β-strand	98-105	8	8
α-helix	107-113	7
β-strand	120-125	6	8
β-strand	128	1	8
β-strand	134-142	9	8
α-helix	158-175	18
α-helix	181-186	6
α-helix	193-200	8
β-strand	208-219	12	8
α-helix	229-231	3

Chain Bc: 0 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	8-17	10	14
β-strand	23-30	8	14
β-strand	37-42	6	14
β-strand	51-52	2	14

Chain BC: 9 helices, 11 β-strands

Element	Residues	Length	Sheet
α-helix	54-60	7
α-helix	68-72	5
α-helix	81-86	6
β-strand	92-103	12	10
β-strand	108-118	11	10
β-strand	124-125	2	11
β-strand	126-132	7	10
α-helix	135-148	14
β-strand	151-152	2	11
β-strand	156	1	12
β-strand	167	1	12
β-strand	172-176	5	13
β-strand	179-184	6	13
β-strand	192-193	2	13
α-helix	196-205	10
β-strand	210-215	6	13
α-helix	221-234	14
α-helix	246-247	2
α-helix	253-256	4
α-helix	258-261	4

Chain Bd: 3 helices, 3 β-strands

Element	Residues	Length	Sheet
β-strand	30-31	2	21
α-helix	33-35	3
β-strand	38-39	2	21
α-helix	40-45	6
α-helix	47-50	4
β-strand	54	1	9

Chain BD: 7 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	10-29	20
β-strand	37-45	9	59
β-strand	48-55	8	59
α-helix	59-62	4
α-helix	67-79	13
α-helix	82-83	2
β-strand	87-93	7	59
α-helix	101-114	14
α-helix	118-132	15
β-strand	136-143	8	60
β-strand	151-158	8	60
α-helix	165-168	4
β-strand	171-179	9	60
β-strand	184-192	9	60
β-strand	212-213	2	47

24 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
18S rRNA	Ad	RNA	1811	Triticum aestivum
40S ribosomal protein SA	BA	protein	304	Triticum aestivum	A0A3B6AV88 (AlphaFold model)
40S ribosomal protein S3a	BB	protein	263	Triticum aestivum	A0A3B6IU74 (AlphaFold model)
S5 DRBM domain-containing protein	BC	protein	279	Triticum aestivum	A0A3B6N0N5 (AlphaFold model)
40S ribosomal protein S4	BE	protein	265	Triticum aestivum	A0A1D5SLI4 (AlphaFold model)
40S ribosomal protein S6	BG	protein	250	Triticum aestivum	W5C8N6
40S ribosomal protein S7	BH	protein	192	Triticum aestivum	Q5I7K2
40S ribosomal protein S8	BI	protein	224	Triticum aestivum	A0A3B6C6G0
30S ribosomal protein S4, chloroplastic	BJ	protein	195	Triticum aestivum	W5FPA7
40S ribosomal protein S11 N-terminal domain-containing protein	BL	protein	161	Triticum aestivum	A0A3B6QHW3
Ribosomal protein S13/S15 N-terminal domain-containing protein	BN	protein	151	Triticum aestivum	W5I035
40S ribosomal protein S14	BO	protein	151	Triticum aestivum	A0A3B6SS17

21 more molecules are not listed.

Sequence of entity 1 (Ad), FASTA

>8JIW_1 18S rRNA (chains Ad)
UACCUGGUUGAUCCUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUGC
AAGUAUGAACCAAUUUGAACUGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUAGUUUG
UUUGAUGGUACGUGCUACUCGGAUAACCGUAGUAAUUCUAGAGCUAAUACGUGCAACAAA
CCCCGACUUCUGGGAGGGGCGCAUUUAUUAGAUAAAAGGCUGACGCGGGCUCUGCUCGCU
GAUCCGAUGAUUCAUGAUAACUCGACGGAUCGCACGGCCUUCGUGCCGGCGACGCAUCAU
UCAAAUUUCUGCCCUAUCAACUUUCGAUGGUAGGAUAGGGGCCUACCAUGGUGGUGACGG
GUGACGGAGAAUUAGGGUUCGAUUCCGGAGAGGGAGCCUGAGAAACGGCUACCACAUCCA
AGGAAGGCAGCAGGCGCGCAAAUUACCCAAUCCUGACACGGGGAGGUAGUGACAAUAAAU
AACAAUACCGGGCGCAUUAGUGUCUGGUAAUUGGAAUGAGUACAAUCUAAAUCCCUUAAC
GAGGAUCCAUUGGAGGGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUAGC
GUAUAUUUAAGUUGUUGCAGUUAAAAAGCUCGUAGUUGGACCUUGGGCCGGGUCGGCCGG
UCCGCCUCACGGCGAGCACCGACCUACUCGACCCUUCGGCCGGCAUCGCGCUCCUAGCCU
UAAUUGGCCGGGUCGUGUUUCCGGCAUCGUUACUUUGAAGAAAUUAGAGUGCUCAAAGCA
AGCCAUCGCUCUGGAUACAUUAGCAUGGGAUAACAUCAUAGGAUUCCGGUCCUAUUGUGU
UGGCCUUCGGGAUCGGAGUAAUGAUUAAUAGGGACAGUCGGGGGCAUUCGUAUUUCAUAG
UCAGAGGUGAAAUUCUUGGAUUUAUGAAAGACGAACAACUGCGAAAGCAUUUGCCAAGGA
UGUUUUCAUUAAUCAAGAACGAAAGUUGGGGGCUCGAAGACGAUCAGAUACCGUCCUAGU
CUCAACCAUAAACGAUGCCGACCAGGGAUCGGCGGAUGUUGCUUAUAGGACUCCGCCGGC
ACCUUAUGAGAAAUCAAAGUCUUUGGGUUCCGGGGGGAGUAUGGUCGCAAGGCUGAAACU
UAAAGGAAUUGACGGAAGGGCACCACCAGGCGUGGAGCCUGCGGCUUAAUUUGACUCAAC
ACGGGGAAACUUACCAGGUCCAGACAUAGCAAGGAUUGACAGACUGAGAGCUCUUUCUUG
AUUCUAUGGGUGGUGGUGCAUGGCCGUUCUUAGUUGGUGGAGCGAUUUGUCUGGUUAAUU
CCGUUAACGAACGAGACCUCAGCCUGCUAACUAGCUAUGCGGAGCCAUCCCUCCGCAGCU
AGCUUCUUAGAGGGACUAUCGCCGUUUAGGCGACGGAAGUUUGAGGCAAUAACAGGUCUG
UGAUGCCCUUAGAUGUUCUGGGCCGCACGCGCGCUACACUGAUGUAUUCAACGAGUAUAU
AGCCUUGGCCGACAGGCCCGGGUAAUCUUGGGAAAUUUCAUCGUGAUGGGGAUAGAUCAU
UGCAAUUGUUGGUCUUCAACGAGGAAUGCCUAGUAAGCGCGAGUCAUCAGCUCGCGUUGA
CUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUCCUACCGAUUGAAUGGUCCGGUGA
AGUGUUCGGAUCGCGGCGACGGGGGCGGUUCGCCGCCCCCGACGUCGCGAGAAGUCCAUU
GAACCUUAUCAUUUAGAGGAAGGAGAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGG
AAGGAUCAUUG

Sequence of entity 2 (BA), FASTA

>8JIW_2 40S ribosomal protein SA (chains BA)
MAAEGGGVRALSQREQDIQMMLAADVHLGTKNCDFQMERYVYKRRTDGIYIINLGKTWEK
LQMAARVIVAIENPQDIIVQSARPYGQRAVLKFAQYTGANAIAGRHTPGTFTNQMQTSFS
EPRLLILTDPRTDHQPIKESALGNIPTIAFCDTDSPMRYVDIGIPANNKGKQSIGCLFWL
LARMVLQMRGTILPGHKWEIMVDLFFYRDPEEAKELEEDEALGAPEYAAVAEYTAPAGDT
WGAEWPGAAAPAAAVEAPAGAEWTGAPAPAADGWDAVAAPAPTGWEQGSAPAPAAAPAAT
PNWE

Sequence of entity 3 (BB), FASTA

>8JIW_3 40S ribosomal protein S3a (chains BB)
MAVGKNKRISKGRKGSKKKAVDPFTKKQWYDIKAPLLFTSRNVGKTLVSRTQGTKIASEG
LKHRVFEVSLADLQNDEDQAYRKIRLRAEDVQGMNVLTNFWGMDFTTDKLRSLVRKWQTL
IEAHVDVKTTDNYMLRMFAIGFTKRRPNQVKRTCYAQASQIRQIRRKMVEIMVNQAASCD
LKELVNKFIPEVIGKEIEKATSSIFPLQNVYVRKVKILKAPKFDLGKLMEVHGDYKEDVG
VKLDRPADGDEVIPGAEEVAAAE

Sequence of entity 4 (BC), FASTA

>8JIW_4 S5 DRBM domain-containing protein (chains BC)
MADRGGERGVGERGGDRGGFGRGFGRGGRGDRGGRRGGRRGPRQEEEKWVPVTKLGRLVK
EGRFTKMEEIYLHSLPVKEHQIVETLCPGLKDEVMKITPVQKQTRAGQRTRFKAFVVVGD
SNGHVGLGVKCAKEVATAIRGAIILAKLSIVPVRRGYWGNKIGQPHTVPCKVTGKCGSVT
VRMVPAPRGSGIVAARVPKKVLQFAGIDDVFTSSRGSTKTLGNFVKATFDCLMKTYGFLT
PDFWRETTFTKAPYQEFTDILAKPTKALMLDAPAEKIEA

Sequence of entity 5 (BE), FASTA

>8JIW_5 40S ribosomal protein S4 (chains BE)
MARGLKKHLKRLNAPSHWMLDKLGGAFAPKPSSGPHKARECLPLILILRNRLKYALTYRE
VQSILMQRHIMVDGKVRTDKTYPAGFMDIISIPKTGENYRLLYDTKGRFRLHSVRDEDAK
FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPLIKANDTIKLDLETNKIVDFIKFDVGNV
VMVTGGRNTGRVGVIKNREKHKGTFETIHVEDAQGHQFATRLGNVFTIGKGTKPWVSLPK
GKGIKLTIIEEQRKRDAAAQAAAKA

Sequence of entity 6 (BG), FASTA

>8JIW_6 40S ribosomal protein S6 (chains BG)
MKLNIANPTTGCQKKVEIDDDQKLRNLYDKRISQEVVGDLLGEEFKGYIFKIMGGCDKQG
FPMKQGVLTSGRVRLLLHRGTPCFRGFGRRNGERRRKSVRGCIVSQDLSVINLVIVKKGE
NDLPGLTDTEKPRMRGPKRASKIKKLFNLGKDDDVRSYVNTYRRTFLNKKGKKVSKAPKI
QRLVTPLTLQRKRARIADKKKRIAKKKSEAAEYQKLLAQRLKEQRDRRSESMAKRRSKLS
AATKAPAASA

Sequence of entity 7 (BH), FASTA

>8JIW_7 40S ribosomal protein S7 (chains BH)
MYTARKKIQKDKGVEPSEFEDTVAQAFFDLENGNQELKSDLKDLYINTAIQMDVVGNRKA
VVIHVPYRLRKPFRKIHVRLVRELEKKFSGKDVVFVATRRIVRPPKKGSAVQRPRTRTLT
AVHDGILEDVVYPAEIVGKRVRYRLDGAKVIKIYLDPKERNNTEYKLETFSAVYRRLCGK
DVVFEYPVTETA

Sequence of entity 8 (BI), FASTA

>8JIW_8 40S ribosomal protein S8 (chains BI)
GISRDSMHKRRATGGKQKAWRKKRKYELGRQPANTKLSSNKTVRRVRVRGGNVKWRALRL
DTGNFSWGSEAVTRKTRLLDVVYNSSNNELVRTQTLVKNAIVQVDAAPFKQWYLTHYGVE
IGRKKKAAAAAKKDAAEGQESEVAAAATEEAKKSNNVQRKLEKRQQGRTLDSHIEEQFSG
GRLLACISSRPGQCGRADGYILEGKELEFYMRKLQKKKGKGATA

Sequence of entity 9 (BJ), FASTA

>8JIW_9 30S ribosomal protein S4, chloroplastic (chains BJ)
MVHVNFYRNYGKTFKKPRRPYEKERLDAELKLVGEYGLRCKRELWRVQYALSRIRNAARH
LLTLDEKNPRRIFEGAALLRRMNRYGLLAEGQDKLDYVLALTAENFLARRLQTLVFKAGM
AKSIHHARVLIRQRHIRVGRQIVNVPSFMVRVESEKHIDFSLTSPFGGGPAGRVKRKNQK
KASGGGDAGGDEEEE

Sequence of entity 10 (BL), FASTA

>8JIW_10 40S ribosomal protein S11 N-terminal domain-containing protein (chains BL)
MAEQTEKAFLKQPKVFLCSKKTTKGNNKPGKEGNRFWKSVGLGFKTPKEAIEGTYIDKKC
PFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHYVKKYQRYEKRHSNIPAHISPCFRVR
EGDHVIIGQCRPLSKTVRFNVLKVVPAGSKSGAVKKAFTGA

Sequence of entity 11 (BN), FASTA

>8JIW_11 Ribosomal protein S13/S15 N-terminal domain-containing protein (chains BN)
MGRMHSRGKGISSSALPYKRTPPSWVKTAVADVDELITKAAKKGQMPSQIGVLLRDQHGI
PLVKSVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVES
RIHRLARYYKRTKKLPPTWKYESTTASTLVA

Sequence of entity 12 (BO), FASTA

>8JIW_12 40S ribosomal protein S14 (chains BO)
MSSKRKTREPKEENVTLGPAVREGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM
KVKADRDESSPYAAMLASQDVATRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALA
RSGMKIGRIEDVTPVPTDSTRRKGGRRGRRL

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	70
ZN	Zinc ion	Zn	1

Water and common crystallization additives (K) are not listed.

Primary citation

Cryo-EM structure of wheat ribosome reveals unique features of the plant ribosomes. Mishra, R.K., Sharma, P., Khaja, F.T. et al. Structure (2024) 32:562. DOI 10.1016/j.str.2024.02.006 · PubMed

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