Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1qaq SFG rRNA adenine N-6-methyltransferase 2.1.1.184

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 1.112
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.875
1qao SAMrRNA adenine N-6-methyltransferase 2.1.1.184 0.839
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.823
3ou2 SAHSAM-dependent methyltransferase / 0.805
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.803
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.764
4c03 SFGProtein arginine N-methyltransferase 6 / 0.750
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.745
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.742
2y1w SFGHistone-arginine methyltransferase CARM1 / 0.741
2g1p SAHDNA adenine methylase 2.1.1.72 0.736
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.736
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.735
2i9k SAHModification methylase HhaI 2.1.1.37 0.733
3ldg SAHUncharacterized protein / 0.732
5dx8 SFGHistone-arginine methyltransferase CARM1 / 0.730
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.730
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.728
3e8s SAHUncharacterized protein / 0.727
4kwc SAHMethyltransferase domain family / 0.726
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.725
5je2 SAHMethyl transferase / 0.725
3axs SFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.721
4gqb 0XUProtein arginine N-methyltransferase 5 / 0.721
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.720
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.719
2o06 MTASpermidine synthase 2.5.1.16 0.718
2yqz SAMUncharacterized protein / 0.715
1f3l SAHProtein arginine N-methyltransferase 3 / 0.714
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.713
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.712
2zul SAMProbable ribosomal RNA small subunit methyltransferase / 0.710
3bwc SAMSpermidine synthase, putative / 0.706
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.703
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.703
3dmh SAMProbable ribosomal RNA small subunit methyltransferase / 0.703
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.703
1skm SAHModification methylase HhaI 2.1.1.37 0.702
1wy7 SAHUncharacterized protein / 0.702
2uyh SAHModification methylase HhaI 2.1.1.37 0.702
3t7s SAMUncharacterized protein / 0.699
2c7q SAHModification methylase HhaI 2.1.1.37 0.698
4c04 SFGProtein arginine N-methyltransferase 6 / 0.697
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.696
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.696
2zcj SAHModification methylase HhaI 2.1.1.37 0.696
3q87 SAMN6 ADENINE SPECIFIC DNA METHYLASE (METHYLTRANSFERASE SUPERFAMILY) / 0.696
4ckc SAHmRNA-capping enzyme catalytic subunit 2.1.1.56 0.696
4yuz S4MSpermidine synthase, putative / 0.696
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.695
2z6u SAHModification methylase HhaI 2.1.1.37 0.695
4r6x SAHPhosphoethanolamine N-methyltransferase / 0.694
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.693
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.693
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.693
3kpj SAHPhenylethanolamine N-methyltransferase 2.1.1.28 0.692
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.691
3g07 SAM7SK snRNA methylphosphate capping enzyme 2.1.1 0.691
3rw9 DSHSpermidine synthase 2.5.1.16 0.691
2ore SAHDNA adenine methylase 2.1.1.72 0.690
4rtk SAHDNA adenine methylase 2.1.1.72 0.690
2hmv ADPKtr system potassium uptake protein A / 0.689
2o07 MTASpermidine synthase 2.5.1.16 0.689
3uj8 SFGPhosphoethanolamine N-methyltransferase / 0.689
4lwp SAHArginine N-methyltransferase, putative / 0.689
5icf SAH(S)-norcoclaurine 6-O-methyltransferase / 0.689
3cjt SAHRibosomal protein L11 methyltransferase 2.1.1 0.688
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.688
7mht SAHModification methylase HhaI 2.1.1.37 0.687
2pt6 S4MSpermidine synthase / 0.686
3bgv SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.686
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.686
4hh4 SAHCcbJ / 0.686
4rtq SAHDNA adenine methylase 2.1.1.72 0.686
3iv6 SAMUncharacterized protein / 0.685
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.685
1x1b SAHC-20 methyltransferase / 0.683
2gs9 SAHUncharacterized protein / 0.683
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.683
3lcc SAHThiocyanate methyltransferase 1 / 0.682
3lcu SAH16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.681
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.681
3sgl SAMtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.681
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.681
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.680
1jr4 CL4Catechol O-methyltransferase 2.1.1.6 0.679
5bp9 SAHPutative methyltransferase protein / 0.679
1nbi SAMGlycine N-methyltransferase 2.1.1.20 0.678
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.678
5jdz SAHMethyl transferase / 0.678
3fpf MTAUncharacterized protein / 0.676
10mh SAHModification methylase HhaI 2.1.1.37 0.674
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.674
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.674
4yac NAIC alpha-dehydrogenase / 0.674
4nec SAHPutative SAM-dependent methyltransferase / 0.673
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.671
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.671
5bxy SAHPutative RNA methylase family UPF0020 / 0.670
5i39 FADL-amino acid deaminase / 0.670
2xvm SAHTellurite methyltransferase 2.1.1.265 0.669
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.669
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.669
4yv0 S4MSpermidine synthase, putative / 0.669
5epe SAHUncharacterized protein / 0.669
2yxl SFG450aa long hypothetical fmu protein / 0.668
4m37 SAHProtein arginine N-methyltransferase 7 2.1.1 0.668
4uy6 SAHHistidine N-alpha-methyltransferase / 0.668
1z3c SA8mRNA cap guanine-N7 methyltransferase 2.1.1.56 0.667
2ih5 NEAModification methylase TaqI 2.1.1.72 0.667
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.667
4rts SAMDNA adenine methylase 2.1.1.72 0.667
1g38 NEAModification methylase TaqI 2.1.1.72 0.666
1x1a SAMC-20 methyltransferase / 0.666
3ua3 SAHProtein arginine N-methyltransferase 5 / 0.666
2np7 NEAModification methylase TaqI 2.1.1.72 0.665
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.665
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.665
1b4v FADCholesterol oxidase 1.1.3.6 0.664
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.664
2ibt NEAModification methylase TaqI 2.1.1.72 0.664
2zif SAMMethyltransferase / 0.664
3p9k SAHCaffeic acid O-methyltransferase / 0.664
3pt6 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.664
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.664
5f8f SFGPossible transcriptional regulatory protein / 0.664
1ori SAHProtein arginine N-methyltransferase 1 / 0.663
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.663
1rjg SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.662
3wdm ADN4-phosphopantoate--beta-alanine ligase 6.3.2.36 0.662
4kvz SAHPtnL protein / 0.661
1g60 SAMModification methylase MboII 2.1.1.72 0.660
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.660
2hv9 SFGmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.660
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.660
3t0i SAHPutative methyltransferase / 0.660
4iwn GEKCarboxy-S-adenosyl-L-methionine synthase / 0.660
4yv2 S4MSpermidine synthase, putative / 0.660
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.660
1boo SAHModification methylase PvuII 2.1.1.113 0.659
1s7g NADNAD-dependent protein deacylase 2 / 0.659
2qe6 SAMUncharacterized protein / 0.659
5mht SAHModification methylase HhaI 2.1.1.37 0.659
3fri SAH16S rRNA methylase / 0.658
4wxx SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.658
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.657
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.657
2zzm SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.656
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.656
2yg4 FADPutrescine oxidase / 0.655
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.655
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.655
5dst SAHProtein arginine N-methyltransferase 8 2.1.1 0.655
1nv8 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.654
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.654
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.654
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.654
3wst SAHProtein arginine N-methyltransferase 7 2.1.1 0.654
4dmg SAMUncharacterized protein / 0.654
1jqd SAHHistamine N-methyltransferase 2.1.1.8 0.652
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.652
3e23 SAMUncharacterized protein / 0.652
3p9c SAHCaffeic acid O-methyltransferase / 0.651
4pgh SAMCaffeic acid O-methyltransferase / 0.651
4y9d NAIC alpha-dehydrogenase / 0.651
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.651