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
4kgn SAH tRNA (cytidine(34)-2'-O)-methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4kgn SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.972
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.842
4x3l MTARNA 2'-O ribose methyltransferase / 0.834
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.801
4cng SAHSpoU rRNA methylase / 0.799
2ha8 SAHProbable methyltransferase TARBP1 / 0.792
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.784
4cnf MTASpoU rRNA methylase / 0.765
1mxi SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.758
4jal SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.748
3gyq SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.730
3nk7 SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.715
3tw6 ADPPyruvate carboxylase / 0.709
2yy8 SAMtRNA (cytidine(56)-2'-O)-methyltransferase / 0.702
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.699
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.696
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.694
4x3m ADNRNA 2'-O ribose methyltransferase / 0.691
2yy8 MTAtRNA (cytidine(56)-2'-O)-methyltransferase / 0.688
4xbo SAHtRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ 2.1.1.200 0.688
2z08 ATPUniversal stress protein family / 0.687
4jwj SAHtRNA (guanine(9)-N1)-methyltransferase / 0.685
3bbd SAHRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.680
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.678
1mjh ATPUniversal stress protein MJ0577 / 0.676
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.675
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.675
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.673
3ab8 ATPUncharacterized protein / 0.667
2qbu SAHPrecorrin-2 methyltransferase / 0.666
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.665
1kor ANPArgininosuccinate synthase / 0.660
2ejz SAHDiphthine synthase / 0.660
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.660
5c77 SAHProtein arginine N-methyltransferase SFM1 / 0.660
2qmm SAMtRNA (pseudouridine(54)-N(1))-methyltransferase / 0.659
4jwf SAHtRNA (guanine(9)-N1)-methyltransferase / 0.659
2pb5 SAHDiphthine synthase / 0.658
4s1h ADPPyridoxal kinase, putative / 0.658
4xfj ANPArgininosuccinate synthase / 0.658
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.657
1kh2 ATPArgininosuccinate synthase / 0.656
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.656
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.654
4fu0 ADPD-alanine--D-alanine ligase / 0.653
1j21 ATPArgininosuccinate synthase / 0.652
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.652
1nhk CMPNucleoside diphosphate kinase 2.7.4.6 0.651
2vqd AP2Biotin carboxylase 6.3.4.14 0.651
1uam SAHtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.650
4ozn ATPAmmonium transporter / 0.650