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8FKV

Human nucleolar pre-60S ribosomal subunit (State D1)

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(BA)
60S ribosomal protein L12polymer16517847.61UniProt (P30050)
Pfam (PF03946)
Pfam (PF00298)
Homo sapiens (human)Large ribosomal subunit protein uL11
2B
(BB)
60S ribosomal protein L10apolymer21724879.41UniProt (P62906)
Pfam (PF00687)
Homo sapiens (human)CSA-19,Large ribosomal subunit protein uL1,Neural precursor cell expressed developmentally down-regulated protein 6,NEDD-6
3C
(L1)
5.8S rRNApolymer15750449.81GenBank (555853)Homo sapiens (human)
4D
(L2)
ITS2 rRNApolymer1167376425.31GenBank (86475748)Homo sapiens (human)
5E
(L3)
28S rRNApolymer50701640222.11GenBank (86475748)Homo sapiens (human)
6F
(L6)
60S ribosomal protein L13polymer21124321.71UniProt (P26373)
Pfam (PF01294)
Homo sapiens (human)Breast basic conserved protein 1,Large ribosomal subunit protein eL13
7G
(L7)
60S ribosomal protein L13apolymer20323633.41UniProt (P40429)
Pfam (PF00572)
Homo sapiens (human)23 kDa highly basic protein,Large ribosomal subunit protein uL13
8H
(L8)
60S ribosomal protein L14polymer21523485.01UniProt (P50914)
Pfam (PF01929)
Homo sapiens (human)CAG-ISL 7,Large ribosomal subunit protein eL14
9I
(L9)
60S ribosomal protein L15polymer20424207.31UniProt (P61313)
Pfam (PF00827)
Homo sapiens (human)Large ribosomal subunit protein eL15
10J
(LA)
60S ribosomal protein L17polymer18421443.21UniProt (P18621)
Pfam (PF00237)
Homo sapiens (human)60S ribosomal protein L23,Large ribosomal subunit protein uL22,PD-1
11K
(LB)
60S ribosomal protein L18polymer18821687.71UniProt (Q07020)
Pfam (PF17135)
Homo sapiens (human)Large ribosomal subunit protein eL18
12L
(LC)
60S ribosomal protein L18apolymer17620808.51UniProt (Q02543)
Pfam (PF01775)
Homo sapiens (human)Large ribosomal subunit protein eL20
13M
(LE)
60S ribosomal protein L21polymer16018610.01UniProt (P46778)
Pfam (PF01157)
Homo sapiens (human)Large ribosomal subunit protein eL21
14N
(LG)
60S ribosomal protein L23polymer14014892.51UniProt (P62829)
Pfam (PF00238)
Homo sapiens (human)60S ribosomal protein L17,Large ribosomal subunit protein uL14
15O
(LH)
60S ribosomal protein L23apolymer15617740.21UniProt (P62750)
Pfam (PF03939)
Pfam (PF00276)
Homo sapiens (human)Large ribosomal subunit protein uL23
16P
(LI)
60S ribosomal protein L26polymer14517303.41UniProt (P61254)
Pfam (PF16906)
Pfam (PF00467)
Homo sapiens (human)Large ribosomal subunit protein uL24
17Q
(LK)
60S ribosomal protein L27apolymer14816604.51UniProt (P46776)
Pfam (PF00828)
Homo sapiens (human)Large ribosomal subunit protein uL15
18R
(LN)
60S ribosomal protein L3polymer40346224.11UniProt (P39023)
Pfam (PF00297)
Homo sapiens (human)HIV-1 TAR RNA-binding protein B,TARBP-B,Large ribosomal subunit protein uL3
19S
(LP)
60S ribosomal protein L31polymer12514494.91UniProt (P62899)
Pfam (PF01198)
Homo sapiens (human)Large ribosomal subunit protein eL31
20T
(LQ)
60S ribosomal protein L32polymer13515898.91UniProt (P62910)
Pfam (PF01655)
Homo sapiens (human)Large ribosomal subunit protein eL32
21U
(LS)
60S ribosomal protein L35polymer12314593.61UniProt (P42766)
Pfam (PF00831)
Homo sapiens (human)Large ribosomal subunit protein uL29
22V
(LT)
60S ribosomal protein L35apolymer11012564.71UniProt (P18077)
Pfam (PF01247)
Homo sapiens (human)Cell growth-inhibiting gene 33 protein,Large ribosomal subunit protein eL33
23W
(LU)
60S ribosomal protein L36polymer10512290.91UniProt (Q9Y3U8)
Pfam (PF01158)
Homo sapiens (human)Large ribosomal subunit protein eL36
24X
(LW)
60S ribosomal protein L37polymer9711111.01UniProt (P61927)
Pfam (PF01907)
Homo sapiens (human)G1.16
25Y
(NA)
Nucleolar complex protein 2 homologpolymer74985028.41UniProt (Q9Y3T9)
Pfam (PF03715)
Homo sapiens (human)Protein NOC2 homolog,NOC2-like protein,Novel INHAT repressor
26Z
(NB)
Guanine nucleotide-binding protein-like 3polymer54962098.21UniProt (Q9BVP2)
Pfam (PF08701)
Pfam (PF01926)
Homo sapiens (human)E2-induced gene 3 protein,Novel nucleolar protein 47,NNP47,Nucleolar GTP-binding protein 3,Nucleostemin
27AA
(NF)
Ribosome biogenesis protein NSA2 homologpolymer26030136.71UniProt (O95478)
Pfam (PF01201)
Homo sapiens (human)Hairy cell leukemia protein 1,TGF-beta-inducible nuclear protein 1
28BA
(NH)
60S ribosome subunit biogenesis protein NIP7 homologpolymer18020491.61UniProt (Q9Y221)
Pfam (PF17833)
Pfam (PF03657)
Homo sapiens (human)KD93,Nucleolar pre-rRNA processing protein NIP7
29CA
(NI)
ATP-dependent RNA helicase DDX54polymer88198769.21UniProt (Q8TDD1)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF08147)
Homo sapiens (human)ATP-dependent RNA helicase DP97,DEAD box RNA helicase 97 kDa,DEAD box protein 54
30DA
(NK)
Protein LLP homologpolymer12915268.41UniProt (Q9BRT6)
Pfam (PF10169)
Homo sapiens (human)Protein LAPS18-like
31EA
(NM)
Protein MAK16 homologpolymer30035469.71UniProt (Q9BXY0)
Pfam (PF01778)
Pfam (PF04874)
Homo sapiens (human)NNP78,Protein RBM13
32FA
(NO)
Ribosomal RNA processing protein 1 homolog Apolymer46152927.31UniProt (P56182)
Pfam (PF05997)
Homo sapiens (human)Novel nuclear protein 1,NNP-1,Nucleolar protein Nop52,RRP1-like protein
33GA
(NQ)
WD repeat-containing protein 74polymer38542501.21UniProt (Q6RFH5)
Pfam (PF00400)
Homo sapiens (human)NOP seven-associated protein 1
34HA
(NS)
Ribosome production factor 1polymer34940189.01UniProt (Q9H9Y2)
Pfam (PF04427)
Homo sapiens (human)Brix domain-containing protein 5,Ribosome biogenesis protein RPF1
35IA
(SA)
60S ribosomal protein L4polymer42747804.61UniProt (P36578)
Pfam (PF00573)
Pfam (PF14374)
Homo sapiens (human)60S ribosomal protein L1,Large ribosomal subunit protein uL4
36JA
(SC)
60S ribosomal protein L6polymer28832810.21UniProt (Q02878)
Pfam (PF03868)
Pfam (PF01159)
Homo sapiens (human)Large ribosomal subunit protein eL6,Neoplasm-related protein C140,Tax-responsive enhancer element-binding protein 107,TaxREB107
37KA
(SD)
60S ribosomal protein L7polymer24829291.01UniProt (P18124)
Pfam (PF08079)
Pfam (PF00327)
Homo sapiens (human)Large ribosomal subunit protein uL30
38LA
(SE)
60S ribosomal protein L7apolymer26630061.81UniProt (P62424)
Pfam (PF01248)
Homo sapiens (human)Large ribosomal subunit protein eL8,PLA-X polypeptide,Surfeit locus protein 3
39MA
(SG)
60S ribosomal protein L9polymer19221899.51UniProt (P32969)
Pfam (PF00347)
Homo sapiens (human)Large ribosomal subunit protein uL6
40NA
(SH)
MKI67 FHA domain-interacting nucleolar phosphoproteinpolymer29334285.31UniProt (Q9BYG3)
Pfam (PF00076)
Pfam (PF12196)
Homo sapiens (human)Nucleolar phosphoprotein Nopp34,Nucleolar protein interacting with the FHA domain of pKI-67,hNIFK
41OA
(SI)
60S ribosomal protein L7-like 1polymer25529730.41UniProt (Q6DKI1)
Pfam (PF08079)
Pfam (PF00327)
Homo sapiens (human)Large ribosomal subunit protein uL30-like 1
42PA
(SJ)
pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3polymer84796726.91UniProt (Q8IY81)
Pfam (PF01728)
Pfam (PF11861)
Pfam (PF07780)
Homo sapiens (human)Protein ftsJ homolog 3,Putative rRNA methyltransferase 3
43QA
(SK)
Eukaryotic translation initiation factor 6polymer24526620.01UniProt (P56537)
Pfam (PF01912)
Homo sapiens (human)eIF-6,B(2)GCN homolog,B4 integrin interactor,CAB,p27(BBP)
44RA
(SL)
Ribosomal L1 domain-containing protein 1polymer49055089.81UniProt (O76021)
Pfam (PF00687)
Homo sapiens (human)CATX-11,Cellular senescence-inhibited gene protein,Protein PBK1
45SA
(SM)
Pescadillo homologpolymer58868114.71UniProt (O00541)
Pfam (PF06732)
Pfam (PF16589)
Homo sapiens (human)
46TA
(SN)
Probable rRNA-processing protein EBP2polymer30634925.11UniProt (Q99848)
Pfam (PF05890)
Homo sapiens (human)EBNA1-binding protein 2,Nucleolar protein p40
47UA
(SO)
Ribosome biogenesis protein BRX1 homologpolymer35341483.51UniProt (Q8TDN6)
Pfam (PF04427)
Homo sapiens (human)Brix domain-containing protein 2
48VA
(SQ)
mRNA turnover protein 4 homologpolymer23927602.51UniProt (Q9UKD2)
Pfam (PF00466)
Pfam (PF17777)
Homo sapiens (human)Ribosome assembly factor MRTO4
49WA
(SR)
GTP-binding protein 4polymer63474107.81UniProt (Q9BZE4)
Pfam (PF17835)
Pfam (PF06858)
Pfam (PF08155)
Homo sapiens (human)Chronic renal failure gene protein,GTP-binding protein NGB,Nucleolar GTP-binding protein 1
50XA
(SS)
Ribosome biogenesis protein BOP1polymer74683901.51UniProt (Q14137)
Pfam (PF08145)
Pfam (PF00400)
Homo sapiens (human)Block of proliferation 1 protein
51YA
(ST)
Ribosome biogenesis regulatory protein homologpolymer36541278.51UniProt (Q15050)
Pfam (PF04939)
Homo sapiens (human)
52ZA
(SU)
Nucleolar complex protein 3 homologpolymer80092709.91UniProt (Q8WTT2)
Pfam (PF07540)
Pfam (PF03914)
Homo sapiens (human)NOC3 protein homolog,Factor for adipocyte differentiation 24,NOC3-like protein,Nucleolar complex-associated protein 3-like protein
53AB
(SV)
Probable ribosome biogenesis protein RLP24polymer16319666.31UniProt (Q9UHA3)
Pfam (PF01246)
Homo sapiens (human)Ribosomal L24 domain-containing protein 1,Ribosomal protein L24-like
54BB
(SW)
ATP-dependent RNA helicase DDX18polymer67075526.81UniProt (Q9NVP1)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF13959)
Homo sapiens (human)DEAD box protein 18,Myc-regulated DEAD box protein,MrDb
55CB
(SY)
Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferasepolymer81289441.81UniProt (P46087)
Pfam (PF22458)
Pfam (PF01189)
Pfam (PF08062)
Homo sapiens (human)Nucleolar protein 1,Nucleolar protein 2 homolog,Proliferating-cell nucleolar antigen p120,Proliferation-associated nucleolar protein p120
56DB
(SZ)
Nucleolar protein 16polymer17821234.51UniProt (Q9Y3C1)
Pfam (PF09420)
Homo sapiens (human)HBV pre-S2 trans-regulated protein 3
57AC, AD, BC, BD, CC...
(L3, L1, L2, L9, LN...)
MAGNESIUM IONnon-polymer24.365Chemie (MG)
58MD, WD
(LW, SV)
ZINC IONnon-polymer65.42Chemie (ZN)
59ND
(NI)
ADENOSINE-5'-DIPHOSPHATEnon-polymer427.21Chemie (ADP)
60PD
(NM)
IRON/SULFUR CLUSTERnon-polymer351.61Chemie (SF4)
61SD
(SR)
GUANOSINE-5'-DIPHOSPHATEnon-polymer443.21Chemie (GDP)
62TD
(SR)
POTASSIUM IONnon-polymer39.11Chemie (K)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains56
Total formula weight4038932.0
Non-Polymers*Number of molecules71
Total formula weight2971.8
All*Total formula weight4041903.8
*Water molecules are not included.

226707

PDB entries from 2024-10-30

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