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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

7MQ8

Cryo-EM structure of the human SSU processome, state pre-A1

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(L0)		5'ETS rRNApolymer36171166881.91GenBank (1212788588)Homo sapiens (human)
2B
(L1)		18S rRNApolymer1869602777.91GenBank (151415227)Homo sapiens (human)
3C
(L2)		U3 snoRNApolymer21770017.21GenBank (37551)Homo sapiens (human)
4D
(L3)		40S ribosomal protein S18polymer11612672.01Pfam (PF00416)
UniProt (by SIFTS) (P62269)		Homo sapiens (Human)
5E
(L4)		40S ribosomal protein S4, X isoformpolymer26329654.91UniProt (P62701)
Pfam (PF08071)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)		Homo sapiens (human)SCR10,Single copy abundant mRNA protein,Small ribosomal subunit protein eS4
6F
(L5)		40S ribosomal protein S5polymer20422913.51UniProt (P46782)
Pfam (PF00177)		Homo sapiens (human)Small ribosomal subunit protein uS7
7G
(L6)		40S ribosomal protein S6polymer24928751.91UniProt (P62753)
Pfam (PF01092)		Homo sapiens (human)Phosphoprotein NP33,Small ribosomal subunit protein eS6
8H
(L7)		40S ribosomal protein S7polymer19422168.91UniProt (P62081)
Pfam (PF01251)		Homo sapiens (human)Small ribosomal subunit protein eS7
9I
(L8)		40S ribosomal protein S8polymer20824263.41UniProt (P62241)
Pfam (PF01201)		Homo sapiens (human)Small ribosomal subunit protein eS8
10J
(L9)		40S ribosomal protein S9polymer19422641.61UniProt (P46781)
Pfam (PF00163)
Pfam (PF01479)		Homo sapiens (human)Small ribosomal subunit protein uS4
11K
(LA)		40S ribosomal protein S12polymer13214539.01UniProt (P25398)
Pfam (PF01248)		Homo sapiens (human)Small ribosomal subunit protein eS12
12L
(LC)		40S ribosomal protein S16polymer14616477.41UniProt (P62249)
Pfam (PF00380)		Homo sapiens (human)Small ribosomal subunit protein uS9
13M
(LD)		40S ribosomal protein S11polymer15818468.81UniProt (P62280)
Pfam (PF16205)
Pfam (PF00366)		Homo sapiens (human)Small ribosomal subunit protein uS17
14N
(LF)		40S ribosomal protein S24polymer13315463.31UniProt (P62847)
Pfam (PF01282)		Homo sapiens (human)Small ribosomal subunit protein eS24
15O
(LG)		40S ribosomal protein S28polymer697855.11UniProt (P62857)
Pfam (PF01200)		Homo sapiens (human)Small ribosomal subunit protein eS28
16P
(LH)		WD repeat-containing protein 75polymer83094609.61UniProt (Q8IWA0)
Pfam (PF23869)
Pfam (PF23769)		Homo sapiens (human)U3 small nucleolar RNA-associated protein 17 homolog
17Q
(LI)		Nucleolar protein 11polymer67873444.71Pfam (PF08168)
Pfam (PF20998)
UniProt (by SIFTS) (Q9H8H0)		Homo sapiens (Human)
18R
(LJ)		U3 small nucleolar RNA-associated protein 15 homologpolymer51858503.21UniProt (Q8TED0)
Pfam (PF00400)
Pfam (PF09384)		Homo sapiens (human)
19S, T
(LK, LL)		WD repeat-containing protein 43polymer67774985.62UniProt (Q15061)
Pfam (PF00400)
Pfam (PF04003)		Homo sapiens (human)U3 small nucleolar RNA-associated protein 5 homolog
20U
(LM)		HEAT repeat-containing protein 1polymer2144242649.71UniProt (Q9H583)
Pfam (PF12397)
Pfam (PF23243)
Pfam (PF08146)		Homo sapiens (human)Protein BAP28,U3 small nucleolar RNA-associated protein 10 homolog
21V
(LN)		U3 small nucleolar RNA-associated protein 4 homologpolymer68676993.11UniProt (Q969X6)
Pfam (PF00400)		Homo sapiens (human)Cirhin,UTP4 small subunit processome component
22W
(LO)		Periodic tryptophan protein 2 homologpolymer919102575.01UniProt (Q15269)
Pfam (PF00400)
Pfam (PF04003)		Homo sapiens (human)
23X
(LP)		U3 small nucleolar RNA-associated protein 6 homologpolymer59770297.91UniProt (Q9NYH9)
Pfam (PF08640)
Pfam (PF24892)		Homo sapiens (human)Hepatocellular carcinoma-associated antigen 66,Multiple hat domains protein
24Y
(LQ)		WD repeat-containing protein 3polymer943106248.01UniProt (Q9UNX4)
Pfam (PF25173)
Pfam (PF25172)
Pfam (PF04003)		Homo sapiens (human)
25Z
(LR)		Transducin beta-like protein 3polymer80889143.61UniProt (Q12788)
Pfam (PF00400)
Pfam (PF08625)		Homo sapiens (human)WD repeat-containing protein SAZD
26AA
(LS)		U3 small nucleolar RNA-associated protein 18 homologpolymer55662097.51UniProt (Q9Y5J1)
Pfam (PF00400)		Homo sapiens (human)WD repeat-containing protein 50
27BA
(LT)		WD repeat-containing protein 36polymer951105443.01UniProt (Q8NI36)
Pfam (PF25171)
Pfam (PF25168)
Pfam (PF04192)		Homo sapiens (human)T-cell activation WD repeat-containing protein,TA-WDRP
28CA
(LU)		DDB1- and CUL4-associated factor 13polymer44551489.31UniProt (Q9NV06)
Pfam (PF00400)
Pfam (PF04158)		Homo sapiens (human)WD repeat and SOF domain-containing protein 1
29DA
(LW)		WD repeat-containing protein 46polymer61068189.21UniProt (O15213)
Pfam (PF00400)
Pfam (PF08149)		Homo sapiens (human)WD repeat-containing protein BING4
30EA
(LZ)		U3 small nucleolar ribonucleoprotein protein IMP3polymer18421889.21UniProt (Q9NV31)
Pfam (PF00163)
Pfam (PF01479)		Homo sapiens (human)U3 snoRNP protein IMP3,BRMS2
31FA
(N0)		5'ETS rRNApolymer224269.11Homo sapiens (Human)
32GA
(NA)		U3 small nucleolar ribonucleoprotein protein MPP10polymer68178988.81UniProt (O00566)
Pfam (PF04006)		Homo sapiens (human)M phase phosphoprotein 10
33HA
(NB)		Something about silencing protein 10polymer47954652.01UniProt (Q9NQZ2)
Pfam (PF04000)
Pfam (PF09368)		Homo sapiens (human)Charged amino acid-rich leucine zipper 1,CRL1,Disrupter of silencing SAS10,UTP3 homolog
34IA
(NC)		Neuroguidinpolymer31535963.31UniProt (Q8NEJ9)
Pfam (PF04000)		Homo sapiens (human)Centromere accumulated nuclear protein 1,CANu1,EIF4E-binding protein
35JA
(ND)		Nucleolar protein 7polymer25729483.51UniProt (Q9UMY1)
Pfam (PF08157)		Homo sapiens (human)Nucleolar protein of 27 kDa
36KA
(NE)		Uncharacterized protein C1orf131polymer29332673.41UniProt (Q8NDD1)
Pfam (PF15375)		Homo sapiens (human)
37LA
(NF)		40S ribosomal protein S13polymer15117259.41UniProt (P62277)
Pfam (PF08069)
Pfam (PF00312)		Homo sapiens (human)Small ribosomal subunit protein uS15
38MA
(NG)		40S ribosomal protein S14polymer15116302.81UniProt (P62263)
Pfam (PF00411)		Homo sapiens (human)Small ribosomal subunit protein uS11
39NA
(NH)		Nucleolar protein 6polymer1146127748.61UniProt (Q9H6R4)
Pfam (PF03813)
Pfam (PF17403)
Pfam (PF17404)
Pfam (PF17405)
Pfam (PF17406)
Pfam (PF17407)		Homo sapiens (human)Nucleolar RNA-associated protein,Nrap
40OA
(NI)		Ribosomal RNA-processing protein 7 homolog Apolymer28032393.21UniProt (Q9Y3A4)
Pfam (PF17799)
Pfam (PF12923)		Homo sapiens (human)Gastric cancer antigen Zg14
41PA, QA
(NJ, NK)		RNA cytidine acetyltransferasepolymer1025115882.82UniProt (Q9H0A0)
Pfam (PF08351)
Pfam (PF05127)
Pfam (PF13718)
Pfam (PF13725)		Homo sapiens (human)18S rRNA cytosine acetyltransferase,N-acetyltransferase 10,N-acetyltransferase-like protein,hALP
42RA
(NM)		40S ribosomal protein S3apolymer26430002.11UniProt (P61247)
Pfam (PF01015)		Homo sapiens (human)Small ribosomal subunit protein eS1,v-fos transformation effector protein,Fte-1
43SA
(NN)		Protein AATFpolymer56063224.91UniProt (Q9NY61)
Pfam (PF13339)
Pfam (PF08164)		Homo sapiens (human)Apoptosis-antagonizing transcription factor,Rb-binding protein Che-1
44TA
(NO)		40S ribosomal protein S15apolymer13014865.61UniProt (P62244)
Pfam (PF00410)		Homo sapiens (human)Small ribosomal subunit protein uS8
45UA
(NQ)		40S ribosomal protein S27polymer849480.21UniProt (P42677)
Pfam (PF01667)		Homo sapiens (human)Metallopan-stimulin 1,MPS-1,Small ribosomal subunit protein eS27
46VA
(NR)		RRP12-like proteinpolymer86173292.81Homo sapiens (Human)
47WA
(NT)		Ubiquitin-40S ribosomal protein S27apolymer15618004.01Pfam (PF00240)
Pfam (PF01599)
UniProt (by SIFTS) (P62979)		Homo sapiens (Human)
48XA
(NU)		40S ribosomal protein S17polymer13515578.21UniProt (P08708)
Pfam (PF00833)		Homo sapiens (human)Small ribosomal subunit protein eS17
49YA
(NW)		Nucleolar protein 10polymer68880431.61UniProt (Q9BSC4)
Pfam (PF23098)
Pfam (PF23097)
Pfam (PF08159)		Homo sapiens (human)
50ZA
(NY)		KRR1 small subunit processome component homologpolymer38143751.11UniProt (Q13601)
Pfam (PF17903)
Pfam (PF21800)		Homo sapiens (human)HIV-1 Rev-binding protein 2,KRR-R motif-containing protein 1,Rev-interacting protein 1,Rip-1
51AB
(SA)		Nucleolar protein 56polymer59466160.11UniProt (O00567)
Pfam (PF08156)
Pfam (PF01798)		Homo sapiens (human)Nucleolar protein 5A
52BB
(SB)		Nucleolar protein 58polymer52959686.31UniProt (Q9Y2X3)
Pfam (PF08156)
Pfam (PF01798)		Homo sapiens (human)Nucleolar protein 5
53CB, DB
(SC, SD)		rRNA 2'-O-methyltransferase fibrillarinpolymer32133843.32UniProt (P22087)
Pfam (PF01269)		Homo sapiens (human)34 kDa nucleolar scleroderma antigen,Histone-glutamine methyltransferase,U6 snRNA 2'-O-methyltransferase fibrillarin
54EB, FB
(SE, SF)		NHP2-like protein 1polymer12814191.52UniProt (P55769)
Pfam (PF01248)		Homo sapiens (human)High mobility group-like nuclear protein 2 homolog 1,OTK27,SNU13 homolog,hSNU13,U4/U6.U5 small nuclear ribonucleoprotein SNU13,U4/U6.U5 tri-snRNP 15.5 kDa protein
55GB
(SG)		U3 small nucleolar RNA-interacting protein 2polymer47551920.71UniProt (O43818)
Pfam (PF00400)		Homo sapiens (human)RRP9 homolog,U3 small nucleolar ribonucleoprotein-associated 55 kDa protein,U3 snoRNP-associated 55 kDa protein,U3-55K
56HB
(SH)		RNA 3'-terminal phosphate cyclase-like proteinpolymer37340893.61UniProt (Q9Y2P8)
Pfam (PF01137)
Pfam (PF05189)		Homo sapiens (human)
57IB
(SI)		Ribosome biogenesis protein BMS1 homologpolymer1282145971.91Pfam (PF08142)
Pfam (PF04950)
UniProt (by SIFTS) (Q14692)		Homo sapiens (Human)
58JB, KB
(SJ, SK)		Ribosomal RNA small subunit methyltransferase NEP1polymer24426757.12UniProt (Q92979)
Pfam (PF03587)		Homo sapiens (human)18S rRNA (pseudouridine(1248)-N1)-methyltransferase,18S rRNA Psi1248 methyltransferase,Nucleolar protein EMG1 homolog,Protein C2f,Ribosome biogenesis protein NEP1
59LB
(SL)		rRNA-processing protein FCF1 homologpolymer19823416.71UniProt (Q9Y324)
Pfam (PF04900)		Homo sapiens (human)
60MB
(SM)		U3 small nucleolar ribonucleoprotein protein IMP4polymer29133818.71UniProt (Q96G21)
Pfam (PF04427)		Homo sapiens (human)U3 snoRNP protein IMP4,Brix domain-containing protein 4
61NB
(SP)		Small subunit processome component 20 homologpolymer2785318813.31UniProt (O75691)
Pfam (PF07539)
Pfam (PF20416)
Pfam (PF23099)		Homo sapiens (human)Down-regulated in metastasis protein,Novel nucleolar protein 73,NNP73,Protein Key-1A6
62OB
(SQ)		Deoxynucleotidyltransferase terminal-interacting protein 2polymer75684598.11UniProt (Q5QJE6)
Pfam (PF08698)		Homo sapiens (human)Estrogen receptor-binding protein,LPTS-interacting protein 2,LPTS-RP2,Terminal deoxynucleotidyltransferase-interacting factor 2,TdIF2,TdT-interacting factor 2
63PB
(SR)		40S ribosomal protein S23polymer14315844.71UniProt (P62266)
Pfam (PF00164)		Homo sapiens (human)Small ribosomal subunit protein uS12
64QB
(SS)		U3 small nucleolar RNA-associated protein 14 homolog Apolymer77188129.11UniProt (Q9BVJ6)
Pfam (PF04615)		Homo sapiens (human)Antigen NY-CO-16,Serologically defined colon cancer antigen 16
65RB
(ST)		Nucleolar protein 14polymer63268259.51Pfam (PF04147)
UniProt (by SIFTS) (P78316)		Homo sapiens (Human)
66SB
(SU)		Nucleolar complex protein 4 homologpolymer47250184.11Pfam (PF03914)
UniProt (by SIFTS) (Q9BVI4)		Homo sapiens (Human)
67TB
(SW)		RNA-binding protein PNO1polymer25227970.41UniProt (Q9NRX1)
Pfam (PF22891)		Homo sapiens (human)Partner of NOB1
68UB
(Sx)		Unassigned peptidepolymer383252.01Homo sapiens (Human)
69VB
(SX)		Unassigned peptidespolymer27323251.51Homo sapiens (Human)
70WB
(SY)		Probable U3 small nucleolar RNA-associated protein 11polymer25330520.81UniProt (Q9Y3A2)
Pfam (PF03998)		Homo sapiens (human)U3 snoRNA-associated protein 11,UTP11-like protein
71XB
(SZ)		Bystinpolymer30433712.91Pfam (PF05291)
UniProt (by SIFTS) (Q13895)		Homo sapiens (Human)
72AC, BC, BD, CC, DC...
(L1, SL, NH, SI)		MAGNESIUM IONnon-polymer24.322Chemie (MG)
PubChem (888)
73RC, TC
(NH, NK)		ADENOSINE-5'-TRIPHOSPHATEnon-polymer507.22Chemie (ATP)
74AD, UC, VC
(SL, NQ, NT)		ZINC IONnon-polymer65.43Chemie (ZN)
75WC
(SI)		GUANOSINE-5'-TRIPHOSPHATEnon-polymer523.21Chemie (GTP)
PubChem (177679032)
PubChem (135400627)
PubChem (135487750)
PubChem (136088935)
PubChem (136803486)
PubChem (135398633)
PubChem (135544356)
PubChem (135547949)
PubChem (135600366)
PubChem (135749822)
PubChem (136005188)
PubChem (136073923)
PubChem (136240914)
PubChem (136664747)
PubChem (136772743)
PubChem (136772744)
PubChem (136803487)
PubChem (137286749)
PubChem (164715984)
PubChem (171699466)
76YC, ZC
(SJ, SK)		S-ADENOSYL-L-HOMOCYSTEINEnon-polymer384.42Chemie (SAH)
PubChem (193)
PubChem (13792)
PubChem (189149)
PubChem (439155)
PubChem (5284331)
PubChem (71170554)
PubChem (13231890)
PubChem (16760024)
PubChem (25210495)
PubChem (44361184)
PubChem (177678424)
PubChem (46936206)
PubChem (21125603)
PubChem (25203782)
PubChem (52224400)
PubChem (50989525)
PubChem (51380914)
PubChem (52224398)
PubChem (6419189)
PubChem (57544532)
PubChem (59046843)
PubChem (59170628)
PubChem (164157219)
PubChem (59576228)
PubChem (66805708)
PubChem (70689219)
PubChem (70702054)
PubChem (70832431)
PubChem (118374891)
PubChem (118560068)
PubChem (126969526)
PubChem (129105892)
PubChem (143518505)
PubChem (154578335)
PubChem (163054214)
PubChem (163335525)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains76
Total formula weight5775209.0
Non-Polymers*Number of molecules30
Total formula weight3037.3
All*Total formula weight5778246.3
*Water molecules are not included.

251801

PDB entries from 2026-04-08

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