Details of the Target

General Information of Target

Target ID LDTP04084
Target Name Probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase (NOP2)
Gene Name NOP2
Gene ID 4839
Synonyms
NOL1; NSUN1; Probable 28S rRNA; cytosine(4447)-C(5))-methyltransferase; EC 2.1.1.-; Nucleolar protein 1; Nucleolar protein 2 homolog; Proliferating-cell nucleolar antigen p120; Proliferation-associated nucleolar protein p120
3D Structure
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2D Sequence (FASTA)
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3D Structure (PDB)
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Sequence
MGRKLDPTKEKRGPGRKARKQKGAETELVRFLPAVSDENSKRLSSRARKRAAKRRLGSVE
APKTNKSPEAKPLPGKLPKGISAGAVQTAGKKGPQSLFNAPRGKKRPAPGSDEEEEEEDS
EEDGMVNHGDLWGSEDDADTVDDYGADSNSEDEEEGEALLPIERAARKQKAREAAAGIQW
SEEETEDEEEEKEVTPESGPPKVEEADGGLQINVDEEPFVLPPAGEMEQDAQAPDLQRVH
KRIQDIVGILRDFGAQREEGRSRSEYLNRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEF
LEANEVPRPVTLRTNTLKTRRRDLAQALINRGVNLDPLGKWSKTGLVVYDSSVPIGATPE
YLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAE
RLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISKDPAVKTNKD
EKDILRCAHLQKELLLSAIDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKRNVRLV
PTGLDFGQEGFTRFRERRFHPSLRSTRRFYPHTHNMDGFFIAKFKKFSNSIPQSQTGNSE
TATPTNVDLPQVIPKSENSSQPAKKAKGAAKTKQQLQKQQHPKKASFQKLNGISKGADSE
LSTVPSVTKTQASSSFQDSSQPAGKAEGIREPKVTGKLKQRSPKLQSSKKVAFLRQNAPP
KGTDTQTPAVLSPSKTQATLKPKDHHQPLGRAKGVEKQQLPEQPFEKAAFQKQNDTPKGP
QPPTVSPIRSSRPPPAKRKKSQSRGNSQLLLS
Target Type
Literature-reported
Target Bioclass
Enzyme
Family
Class I-like SAM-binding methyltransferase superfamily, RsmB/NOP family
Subcellular location
Nucleus, nucleolus
Function
Involved in ribosomal large subunit assembly. S-adenosyl-L-methionine-dependent methyltransferase that specifically methylates the C(5) position of cytosine 4447 in 28S rRNA (Probable). May play a role in the regulation of the cell cycle and the increased nucleolar activity that is associated with the cell proliferation (Probable).
TTD ID
T97044
Uniprot ID
P46087
DrugMap ID
TTBLG3H
Ensemble ID
ENST00000322166.10
HGNC ID
HGNC:7867

Target Site Mutations in Different Cell Lines

Cell line Mutation details Probe for labeling this protein in this cell
C32 Substitution: p.L131F .
HCT15 SNV: p.S497I DBIA    Probe Info 
HEC1B SNV: p.E296D .
Ishikawa (Heraklio) 02 ER SNV: p.E522K DBIA    Probe Info 
JURKAT SNV: p.L285F Compound 10    Probe Info 
KMCH1 SNV: p.P359L DBIA    Probe Info 
KNS81FD SNV: p.D775Y DBIA    Probe Info 
KYSE410 SNV: p.S732F DBIA    Probe Info 
NCIH1703 Deletion: p.N618QfsTer61 DBIA    Probe Info 
OVK18 SNV: p.E259D DBIA    Probe Info 
SKMEL28 SNV: p.G286C DBIA    Probe Info 

Probe(s) Labeling This Target

ABPP Probe
Click To Hide/Show 21 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
AZ-9
 Probe Info  		3.97  LDD0393  [1]
DBIA
 Probe Info  		C520(3.34); C496(5.64)  LDD3311  [2]
BTD
 Probe Info  		C487(1.16)  LDD1700  [3]
ATP probe
 Probe Info  		K471(0.00); K63(0.00); K66(0.00)  LDD0199  [4]
1d-yne
 Probe Info  		N.A.  LDD0358  [5]
4-Iodoacetamidophenylacetylene
 Probe Info  		N.A.  LDD0038  [6]
IA-alkyne
 Probe Info  		N.A.  LDD0032  [7]
Lodoacetamide azide
 Probe Info  		C463(0.00); C392(0.00); C393(0.00)  LDD0037  [6]
TFBX
 Probe Info  		N.A.  LDD0027  [8]
Compound 10
 Probe Info  		N.A.  LDD2216  [9]
Compound 11
 Probe Info  		N.A.  LDD2213  [9]
IPM
 Probe Info  		N.A.  LDD0005  [10]
NHS
 Probe Info  		K91(0.00); K767(0.00); K757(0.00); K669(0.00)  LDD0010  [10]
STPyne
 Probe Info  		N.A.  LDD0009  [10]
VSF
 Probe Info  		N.A.  LDD0007  [10]
1c-yne
 Probe Info  		K757(0.00); K669(0.00); K471(0.00)  LDD0228  [5]
Acrolein
 Probe Info  		C463(0.00); C392(0.00); C393(0.00)  LDD0217  [11]
Crotonaldehyde
 Probe Info  		H745(0.00); C463(0.00)  LDD0219  [11]
Methacrolein
 Probe Info  		C463(0.00); C393(0.00)  LDD0218  [11]
W1
 Probe Info  		N.A.  LDD0236  [12]
NAIA_5
 Probe Info  		N.A.  LDD2223  [13]
PAL-AfBPP Probe
Click To Hide/Show 4 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
STS-1
 Probe Info  		N.A.  LDD0136  [14]
STS-2
 Probe Info  		N.A.  LDD0138  [14]
VE-P
 Probe Info  		N.A.  LDD0396  [15]
HM-2
 Probe Info  		3.38  LDD0436  [16]

Competitor(s) Related to This Target

Competitor ID Name Cell line Binding Site(Ratio) Interaction ID Ref
 LDCM0548  1-(4-(Benzo[d][1,3]dioxol-5-ylmethyl)piperazin-1-yl)-2-nitroethan-1-one MDA-MB-231 C487(0.57)  LDD2142  [3]
 LDCM0519  1-(6-methoxy-3,4-dihydroquinolin-1(2H)-yl)-2-nitroethan-1-one MDA-MB-231 C393(1.05)  LDD2112  [3]
 LDCM0524  2-Cyano-N-(2-morpholin-4-yl-ethyl)-acetamide MDA-MB-231 C463(0.77)  LDD2117  [3]
 LDCM0539  3-(4-Isopropylpiperazin-1-yl)-3-oxopropanenitrile MDA-MB-231 C487(0.56)  LDD2132  [3]
 LDCM0545  Acetamide MDA-MB-231 C487(0.68)  LDD2138  [3]
 LDCM0108  Chloroacetamide HeLa C463(0.00); C392(0.00); H441(0.00); H745(0.00)  LDD0222  [11]
 LDCM0632  CL-Sc Hep-G2 C463(2.00)  LDD2227  [13]
 LDCM0625  F8 Ramos C463(1.62)  LDD2187  [17]
 LDCM0573  Fragment11 Ramos C463(0.48)  LDD2190  [17]
 LDCM0576  Fragment14 Ramos C463(0.90)  LDD2193  [17]
 LDCM0566  Fragment4 Ramos C463(1.24)  LDD2184  [17]
 LDCM0569  Fragment7 Ramos C463(0.64)  LDD2186  [17]
 LDCM0173  HM30181 Hep-G2 3.38  LDD0436  [16]
 LDCM0107  IAA HeLa C392(0.00); C463(0.00); H745(0.00)  LDD0221  [11]
 LDCM0022  KB02 HEK-293T C463(0.94)  LDD1492  [18]
 LDCM0023  KB03 HEK-293T C463(1.01)  LDD1497  [18]
 LDCM0024  KB05 G361 C520(3.34); C496(5.64)  LDD3311  [2]
 LDCM0109  NEM HeLa H441(0.00); H745(0.00); H746(0.00)  LDD0223  [11]
 LDCM0496  Nucleophilic fragment 11a MDA-MB-231 C463(0.79)  LDD2089  [3]
 LDCM0506  Nucleophilic fragment 16a MDA-MB-231 C487(0.82); C463(0.85)  LDD2099  [3]
 LDCM0507  Nucleophilic fragment 16b MDA-MB-231 C487(0.77)  LDD2100  [3]
 LDCM0511  Nucleophilic fragment 18b MDA-MB-231 C487(0.56); C393(0.70)  LDD2104  [3]
 LDCM0513  Nucleophilic fragment 19b MDA-MB-231 C487(0.35); C392(0.55); C393(0.69)  LDD2106  [3]
 LDCM0514  Nucleophilic fragment 20a MDA-MB-231 C487(1.04); C463(1.07)  LDD2107  [3]
 LDCM0515  Nucleophilic fragment 20b MDA-MB-231 C487(0.69)  LDD2108  [3]
 LDCM0516  Nucleophilic fragment 21a MDA-MB-231 C487(0.44); C463(0.54); C393(0.95)  LDD2109  [3]
 LDCM0521  Nucleophilic fragment 23b MDA-MB-231 C487(0.50)  LDD2114  [3]
 LDCM0527  Nucleophilic fragment 26b MDA-MB-231 C487(0.72); C463(0.76)  LDD2120  [3]
 LDCM0529  Nucleophilic fragment 27b MDA-MB-231 C487(0.71)  LDD2122  [3]
 LDCM0530  Nucleophilic fragment 28a MDA-MB-231 C487(0.46); C463(0.91)  LDD2123  [3]
 LDCM0532  Nucleophilic fragment 29a MDA-MB-231 C463(0.70); C393(1.06)  LDD2125  [3]
 LDCM0534  Nucleophilic fragment 30a MDA-MB-231 C393(1.06)  LDD2127  [3]
 LDCM0536  Nucleophilic fragment 31 MDA-MB-231 C487(0.83)  LDD2129  [3]
 LDCM0542  Nucleophilic fragment 37 MDA-MB-231 C463(1.56)  LDD2135  [3]
 LDCM0543  Nucleophilic fragment 38 MDA-MB-231 C463(1.07)  LDD2136  [3]
 LDCM0544  Nucleophilic fragment 39 MDA-MB-231 C487(0.54); C463(1.10)  LDD2137  [3]
 LDCM0211  Nucleophilic fragment 3b MDA-MB-231 C487(1.16)  LDD1700  [3]
 LDCM0546  Nucleophilic fragment 40 MDA-MB-231 C487(0.62); C463(0.77)  LDD2140  [3]
 LDCM0549  Nucleophilic fragment 43 MDA-MB-231 C487(0.96)  LDD2143  [3]
 LDCM0550  Nucleophilic fragment 5a MDA-MB-231 C463(3.11)  LDD2144  [3]
 LDCM0552  Nucleophilic fragment 6a MDA-MB-231 C487(0.96); C463(0.97)  LDD2146  [3]
 LDCM0554  Nucleophilic fragment 7a MDA-MB-231 C392(0.98)  LDD2148  [3]
 LDCM0557  Nucleophilic fragment 8b MDA-MB-231 C487(1.36)  LDD2151  [3]
 LDCM0113  W17 Hep-G2 C463(0.60)  LDD0240  [12]

The Interaction Atlas With This Target

The Protein(s) Related To This Target

Transporter and channel
Click To Hide/Show 1 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
Importin subunit alpha-7 (KPNA6) Importin alpha family O60684
Other
Click To Hide/Show 4 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
Metallothionein-1F (MT1F) Type 1 family P04733
Vacuolar protein sorting-associated protein 52 homolog (VPS52) VPS52 family Q8N1B4
Cell division cycle-associated 7-like protein (CDCA7L) . Q96GN5
Centrosomal protein of 70 kDa (CEP70) . Q8NHQ1

The Drug(s) Related To This Target

Investigative
Click To Hide/Show 4 Drug(s) Interacting with This Target
Drug Name Drug Type External ID
Isis 6739 Antisense drug D09LXU
Isis 6748 Antisense drug D08NLU
Isis 6755 Antisense drug D04NBZ
Isis 6756 Antisense drug D04AJS

References

1 2H-Azirine-Based Reagents for Chemoselective Bioconjugation at Carboxyl Residues Inside Live Cells. J Am Chem Soc. 2020 Apr 1;142(13):6051-6059. doi: 10.1021/jacs.9b12116. Epub 2020 Mar 23.
2 DrugMap: A quantitative pan-cancer analysis of cysteine ligandability. Cell. 2024 May 9;187(10):2536-2556.e30. doi: 10.1016/j.cell.2024.03.027. Epub 2024 Apr 22.
Mass spectrometry data entry: PXD047840
3 Nucleophilic covalent ligand discovery for the cysteine redoxome. Nat Chem Biol. 2023 Nov;19(11):1309-1319. doi: 10.1038/s41589-023-01330-5. Epub 2023 May 29.
Mass spectrometry data entry: PXD039908 , PXD029761
4 Targeted Proteomic Approaches for Proteome-Wide Characterizations of the AMP-Binding Capacities of Kinases. J Proteome Res. 2022 Aug 5;21(8):2063-2070. doi: 10.1021/acs.jproteome.2c00225. Epub 2022 Jul 12.
5 Tunable Amine-Reactive Electrophiles for Selective Profiling of Lysine. Angew Chem Int Ed Engl. 2022 Jan 26;61(5):e202112107. doi: 10.1002/anie.202112107. Epub 2021 Dec 16.
6 Enhancing Cysteine Chemoproteomic Coverage through Systematic Assessment of Click Chemistry Product Fragmentation. Anal Chem. 2022 Mar 8;94(9):3800-3810. doi: 10.1021/acs.analchem.1c04402. Epub 2022 Feb 23.
Mass spectrometry data entry: PXD028853
7 SP3-FAIMS Chemoproteomics for High-Coverage Profiling of the Human Cysteinome*. Chembiochem. 2021 May 14;22(10):1841-1851. doi: 10.1002/cbic.202000870. Epub 2021 Feb 18.
Mass spectrometry data entry: PXD023056 , PXD023059 , PXD023058 , PXD023057 , PXD023060
8 Chemoproteomic Profiling by Cysteine Fluoroalkylation Reveals Myrocin G as an Inhibitor of the Nonhomologous End Joining DNA Repair Pathway. J Am Chem Soc. 2021 Dec 8;143(48):20332-20342. doi: 10.1021/jacs.1c09724. Epub 2021 Nov 24.
Mass spectrometry data entry: PXD029255
9 Multiplexed CuAAC Suzuki-Miyaura Labeling for Tandem Activity-Based Chemoproteomic Profiling. Anal Chem. 2021 Feb 2;93(4):2610-2618. doi: 10.1021/acs.analchem.0c04726. Epub 2021 Jan 20.
Mass spectrometry data entry: PXD022279
10 A modification-centric assessment tool for the performance of chemoproteomic probes. Nat Chem Biol. 2022 Aug;18(8):904-912. doi: 10.1038/s41589-022-01074-8. Epub 2022 Jul 21.
Mass spectrometry data entry: PXD027758 , PXD027755 , PXD027760 , PXD027762 , PXD027756 , PXD027591 , PXD007149 , PXD030064 , PXD032392 , PXD027789 , PXD027767 , PXD027764
11 ACR-Based Probe for the Quantitative Profiling of Histidine Reactivity in the Human Proteome. J Am Chem Soc. 2023 Mar 8;145(9):5252-5260. doi: 10.1021/jacs.2c12653. Epub 2023 Feb 27.
12 Oxidant-Induced Bioconjugation for Protein Labeling in Live Cells. ACS Chem Biol. 2023 Jan 20;18(1):112-122. doi: 10.1021/acschembio.2c00740. Epub 2022 Dec 21.
13 N-Acryloylindole-alkyne (NAIA) enables imaging and profiling new ligandable cysteines and oxidized thiols by chemoproteomics. Nat Commun. 2023 Jun 15;14(1):3564. doi: 10.1038/s41467-023-39268-w.
Mass spectrometry data entry: PXD041264
14 Design and synthesis of minimalist terminal alkyne-containing diazirine photo-crosslinkers and their incorporation into kinase inhibitors for cell- and tissue-based proteome profiling. Angew Chem Int Ed Engl. 2013 Aug 12;52(33):8551-6. doi: 10.1002/anie.201300683. Epub 2013 Jun 10.
15 Pharmacological Targeting of Vacuolar H(+)-ATPase via Subunit V1G Combats Multidrug-Resistant Cancer. Cell Chem Biol. 2020 Nov 19;27(11):1359-1370.e8. doi: 10.1016/j.chembiol.2020.06.011. Epub 2020 Jul 9.
16 Affinity-Based Protein Profiling Reveals Cellular Targets of Photoreactive Anticancer Inhibitors. ACS Chem Biol. 2019 Dec 20;14(12):2546-2552. doi: 10.1021/acschembio.9b00784. Epub 2019 Nov 26.
17 Site-specific quantitative cysteine profiling with data-independent acquisition-based mass spectrometry. Methods Enzymol. 2023;679:295-322. doi: 10.1016/bs.mie.2022.07.037. Epub 2022 Sep 7.
Mass spectrometry data entry: PXD027578
18 Accelerating multiplexed profiling of protein-ligand interactions: High-throughput plate-based reactive cysteine profiling with minimal input. Cell Chem Biol. 2024 Mar 21;31(3):565-576.e4. doi: 10.1016/j.chembiol.2023.11.015. Epub 2023 Dec 19.
Mass spectrometry data entry: PXD044402