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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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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
2zzn SAM tRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zzn SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 1.045
2uyh SAHModification methylase HhaI 2.1.1.37 0.717
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.712
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.709
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.701
2z6u SAHModification methylase HhaI 2.1.1.37 0.696
1g60 SAMModification methylase MboII 2.1.1.72 0.693
3dh0 SAMUncharacterized protein / 0.690
2zzm SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.688
2hmv ADPKtr system potassium uptake protein A / 0.685
4rtn SAHDNA adenine methylase 2.1.1.72 0.685
10mh SAHModification methylase HhaI 2.1.1.37 0.684
3axs SFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.682
2cww SAHUncharacterized protein / 0.681
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.681
1boo SAHModification methylase PvuII 2.1.1.113 0.677
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.675
3tos SAHCalS11 / 0.675
4yv2 S4MSpermidine synthase, putative / 0.675
3c3y SAHO-methyltransferase / 0.674
2g1p SAHDNA adenine methylase 2.1.1.72 0.671
1g1a NADdTDP-glucose 4,6-dehydratase / 0.670
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.668
4rtk SAHDNA adenine methylase 2.1.1.72 0.667
9mht SAHModification methylase HhaI 2.1.1.37 0.666
1qzz SAMAclacinomycin 10-hydroxylase RdmB 4.1.1 0.664
3a27 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.663
4yuz S4MSpermidine synthase, putative / 0.663
3fpf MTAUncharacterized protein / 0.662
1nw5 SAMModification methylase RsrI 2.1.1.72 0.661
4rtr SAMDNA adenine methylase 2.1.1.72 0.658
1yf3 SAHDNA adenine methylase / 0.657
5mht SAHModification methylase HhaI 2.1.1.37 0.657
1sg9 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.656
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.656
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.654
3u81 SAHCatechol O-methyltransferase 2.1.1.6 0.654
4gf5 SAHCalS11 / 0.654
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.654
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.653
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.652
4yv0 S4MSpermidine synthase, putative / 0.652
4ft4 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.651
4rto SFGDNA adenine methylase 2.1.1.72 0.651
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.651