sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1ake | AP5 | Adenylate kinase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1ake | AP5 | Adenylate kinase | / | 1.231 | |
| 1e4v | AP5 | Adenylate kinase | / | 1.060 | |
| 4x8o | AP5 | Adenylate kinase | / | 1.049 | |
| 3hpq | AP5 | Adenylate kinase | / | 1.014 | |
| 4qbh | AP5 | Adenylate kinase | / | 1.005 | |
| 3hpr | AP5 | Adenylate kinase | / | 0.999 | |
| 2eck | ADP | Adenylate kinase | / | 0.971 | |
| 4jlo | ADP | Adenylate kinase | / | 0.889 | |
| 4cf7 | ADP | Adenylate kinase | / | 0.866 | |
| 4qbi | AP5 | Adenylate kinase | / | 0.866 | |
| 4ike | ADP | Adenylate kinase | / | 0.863 | |
| 1ank | ANP | Adenylate kinase | / | 0.862 | |
| 4jky | ADP | Adenylate kinase | / | 0.862 | |
| 4jl5 | ADP | Adenylate kinase | / | 0.850 | |
| 3cx6 | GDP | Guanine nucleotide-binding protein subunit alpha-13 | / | 0.845 | |
| 4qm6 | GTP | Metallophosphoesterase | / | 0.843 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.840 | |
| 1got | GDP | Guanine nucleotide-binding protein G(t) subunit alpha-1 | / | 0.831 | |
| 3aky | AP5 | Adenylate kinase | / | 0.831 | |
| 4o2l | GTP | GTP-binding protein Rheb | / | 0.828 | |
| 4jld | ADP | Adenylate kinase | / | 0.827 | |
| 4jl6 | ADP | Adenylate kinase | / | 0.825 | |
| 1s3g | AP5 | Adenylate kinase | / | 0.824 | |
| 2rgx | AP5 | Adenylate kinase | / | 0.824 | |
| 4mkf | AP5 | Adenylate kinase | / | 0.819 | |
| 4pan | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.819 | |
| 4o25 | GTP | GTP-binding protein Rheb | / | 0.813 | |
| 2fna | ADP | Uncharacterized protein | / | 0.807 | |
| 1zcb | GDP | Guanine nucleotide-binding protein subunit alpha-13 | / | 0.806 | |
| 4dxa | GSP | Ras-related protein Rap-1b | / | 0.806 | |
| 1l8q | ADP | Chromosomal replication initiator protein DnaA | / | 0.804 | |
| 3m0e | ATP | Transcriptional regulator (NtrC family) | / | 0.804 | |
| 1fnn | ADP | ORC1-type DNA replication protein | / | 0.802 | |
| 1n6l | GTP | Ras-related protein Rab-5A | / | 0.801 | |
| 4mkh | AP5 | Adenylate kinase | / | 0.800 | |
| 3onw | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.798 | |
| 2osb | AP5 | Adenylate kinase | / | 0.790 | |
| 4k81 | GTP | GTPase HRas | / | 0.790 | |
| 3tlx | ADP | Adenylate kinase 2 | / | 0.789 | |
| 4o2r | GDP | GTP-binding protein Rheb | / | 0.789 | |
| 3lbh | GNP | GTPase HRas | / | 0.786 | |
| 4w5j | AP5 | Adenylate kinase | / | 0.785 | |
| 4tl7 | ATP | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.783 | |
| 1cxz | GSP | Transforming protein RhoA | / | 0.782 | |
| 1f5n | GNP | Guanylate-binding protein 1 | / | 0.782 | |
| 2ce2 | GDP | GTPase HRas | / | 0.782 | |
| 3law | GNP | Ras-related protein Rab-7a | / | 0.782 | |
| 1a2b | GSP | Transforming protein RhoA | / | 0.781 | |
| 3ums | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.781 | |
| 4pao | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.781 | |
| 1w5t | ANP | ORC1-type DNA replication protein 2 | / | 0.778 | |
| 1p3j | AP5 | Adenylate kinase | / | 0.776 | |
| 4jsy | GTP | Metallophosphoesterase | / | 0.776 | |
| 5c46 | GSP | Ras-related protein Rab-11A | / | 0.776 | |
| 1ytm | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.775 | |
| 1z0d | GDP | Ras-related protein Rab-5C | / | 0.775 | |
| 3r9i | ADP | Septum site-determining protein MinD | / | 0.775 | |
| 1in5 | ADP | Holliday junction ATP-dependent DNA helicase RuvB | / | 0.774 | |
| 2c9c | ATP | Psp operon transcriptional activator | / | 0.773 | |
| 4xoi | GTP | Transforming protein RhoA | / | 0.773 | |
| 1cs4 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.772 | |
| 1e4y | AP5 | Adenylate kinase | / | 0.772 | |
| 2g0n | GDP | Ras-related C3 botulinum toxin substrate 3 | / | 0.772 | |
| 2gks | ADP | Probable bifunctional SAT/APS kinase | 2.7.1.25 | 0.769 | |
| 3tkl | GTP | Ras-related protein Rab-1A | / | 0.768 | |
| 1wdt | GTP | Elongation factor G (EF-G-2) | / | 0.766 | |
| 4qnr | ATP | Psp operon transcriptional activator | / | 0.766 | |
| 4dso | GSP | GTPase KRas | / | 0.765 | |
| 2pg2 | ADP | Kinesin-like protein KIF11 | / | 0.764 | |
| 2x7e | ADP | Kinesin-like protein KIF11 | / | 0.764 | |
| 3kz1 | GSP | Transforming protein RhoA | / | 0.764 | |
| 4asu | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.764 | |
| 4cym | GCP | Ras-related protein Rab-32 | / | 0.763 | |
| 1fmw | ATP | Myosin-2 heavy chain | / | 0.761 | |
| 1h65 | GDP | Translocase of chloroplast 34 | 3.6.5 | 0.761 | |
| 3b1x | GNP | Ferrous iron transport protein B | / | 0.760 | |
| 3l9h | ADP | Kinesin-like protein KIF11 | / | 0.760 | |
| 5k5z | ANP | Uncharacterized protein | / | 0.760 | |
| 1w0k | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.759 | |
| 1w0k | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.759 | |
| 2fah | GDP | Phosphoenolpyruvate carboxykinase [GTP], mitochondrial | 4.1.1.32 | 0.759 | |
| 1e96 | GTP | Ras-related C3 botulinum toxin substrate 1 | / | 0.758 | |
| 2zpa | ADP | tRNA(Met) cytidine acetyltransferase TmcA | / | 0.758 | |
| 1gia | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.757 | |
| 1xmv | ADP | Protein RecA | / | 0.757 | |
| 2ic5 | GDP | Ras-related C3 botulinum toxin substrate 3 | / | 0.757 | |
| 2olq | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.757 | |
| 4g0n | GNP | GTPase HRas | / | 0.757 | |
| 2x2r | ADP | Kinesin-like protein KIF11 | / | 0.756 | |
| 1t91 | GTP | Ras-related protein Rab-7a | / | 0.755 | |
| 2dwp | ACP | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 | 2.7.1.105 | 0.755 | |
| 4tl8 | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.755 | |
| 4tlc | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.755 | |
| 1q3h | ANP | Cystic fibrosis transmembrane conductance regulator | / | 0.753 | |
| 3tqc | ADP | Pantothenate kinase | / | 0.753 | |
| 4lhw | GNP | Ras-related protein Rab-8A | / | 0.753 | |
| 4tl9 | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.753 | |
| 4tld | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.753 | |
| 1z6t | ADP | Apoptotic protease-activating factor 1 | / | 0.752 | |
| 2c96 | ATP | Psp operon transcriptional activator | / | 0.752 | |
| 4q02 | GDP | GTPase KRas | / | 0.752 | |
| 1gwn | GTP | Rho-related GTP-binding protein RhoE | / | 0.751 | |
| 1p3d | ANP | UDP-N-acetylmuramate--L-alanine ligase | 6.3.2.8 | 0.751 | |
| 3hu3 | AGS | Transitional endoplasmic reticulum ATPase | 3.6.4.6 | 0.751 | |
| 4ko8 | AGS | Transitional endoplasmic reticulum ATPase | 3.6.4.6 | 0.751 | |
| 4tla | ADP | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.751 | |
| 3bbp | GTP | Ras-related protein Rab-6A | / | 0.750 | |
| 1xef | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.748 | |
| 3wyg | GTP | GTP-binding nuclear protein GSP1/CNR1 | / | 0.748 | |
| 4mkg | AP5 | Adenylate kinase | / | 0.748 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.748 | |
| 4dvg | GSP | Rho family GTPase | / | 0.747 | |
| 2fg5 | GNP | Ras-related protein Rab-31 | / | 0.746 | |
| 2y65 | ADP | Kinesin heavy chain | / | 0.744 | |
| 3bos | CDP | Regulatory inactivation of DnaA Hda protein | / | 0.744 | |
| 1u0h | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.743 | |
| 4tl6 | ANP | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.742 | |
| 1oix | GDP | Ras-related protein Rab-11A | / | 0.741 | |
| 1wbb | ADP | DNA mismatch repair protein MutS | / | 0.741 | |
| 2hf8 | GSP | Probable hydrogenase nickel incorporation protein HypB | / | 0.741 | |
| 2rgg | GNP | GTPase HRas | / | 0.741 | |
| 2zts | ADP | Uncharacterized protein | / | 0.741 | |
| 3c41 | ANP | Amino acid ABC transporter | / | 0.740 | |
| 1w5t | ADP | ORC1-type DNA replication protein 2 | / | 0.739 | |
| 2j0v | GDP | Rac-like GTP-binding protein ARAC7 | / | 0.739 | |
| 3kuc | GDP | Ras-related protein Rap-1A | / | 0.739 | |
| 4mit | GTP | Rho-related protein racC | / | 0.739 | |
| 4yer | ADP | Antibiotic ABC transporter, ATP-binding protein, putative | / | 0.739 | |
| 1gil | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.738 | |
| 4ihq | ADP | Conserved Archaeal protein | / | 0.738 | |
| 4lrw | GDP | GTPase KRas | / | 0.738 | |
| 4nh0 | ATP | ESX secretion system protein EccC | / | 0.738 | |
| 1p9w | ANP | Type II secretion system protein E | / | 0.736 | |
| 3rab | GNP | Ras-related protein Rab-3A | / | 0.735 | |
| 3tso | GNP | Ras-related protein Rab-25 | / | 0.735 | |
| 4tle | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.735 | |
| 4xvr | GNP | GTPase HRas | / | 0.735 | |
| 1k6m | AGS | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 1 | 2.7.1.105 | 0.734 | |
| 1ii6 | ADP | Kinesin-like protein KIF11 | / | 0.733 | |
| 2bbw | GP5 | Adenylate kinase 4, mitochondrial | / | 0.733 | |
| 2xae | ADP | Kinesin-like protein KIF11 | / | 0.733 | |
| 4xsg | GSP | Transforming protein RhoA | / | 0.733 | |
| 4z54 | GDP | Neuronal-specific septin-3 | / | 0.733 | |
| 1bof | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.732 | |
| 3c15 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.732 | |
| 2cl6 | CAG | GTPase HRas | / | 0.731 | |
| 3zvm | ADP | Bifunctional polynucleotide phosphatase/kinase | 2.7.1.78 | 0.731 | |
| 4tlb | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.731 | |
| 4uj5 | GNP | Ras-related protein Rab-11A | / | 0.731 | |
| 2q2z | ADP | Kinesin-like protein KIF11 | / | 0.730 | |
| 2jiz | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.729 | |
| 2jj2 | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.729 | |
| 2jj2 | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.729 | |
| 4ww4 | ADP | RuvB-like helicase | / | 0.727 | |
| 1bif | AGS | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 4 | 2.7.1.105 | 0.725 | |
| 2olr | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.725 | |
| 3fmo | ADP | ATP-dependent RNA helicase DDX19B | 3.6.4.13 | 0.725 | |
| 3k3b | ADP | Kinesin-like protein KIF11 | / | 0.724 | |
| 1lfd | GNP | GTPase HRas | / | 0.723 | |
| 4x8l | AP5 | Adenylate kinase | / | 0.723 | |
| 1uad | GNP | Ras-related protein Ral-A | / | 0.722 | |
| 1zbd | GTP | Ras-related protein Rab-3A | / | 0.722 | |
| 2aky | AP5 | Adenylate kinase | / | 0.722 | |
| 3myk | ANP | Myosin-2 heavy chain | / | 0.722 | |
| 4pjk | ADP | Myosin-2 heavy chain | / | 0.722 | |
| 1bmf | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.721 | |
| 1bmf | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.721 | |
| 3adc | ANP | L-seryl-tRNA(Sec) kinase | 2.7.1.164 | 0.721 | |
| 5aun | ADP | Iron-sulfur cluster carrier protein | / | 0.721 | |
| 1x1r | GDP | Ras-related protein M-Ras | / | 0.720 | |
| 2eu8 | AP5 | Adenylate kinase | / | 0.720 | |
| 2gvd | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.720 | |
| 4q03 | GDP | GTPase KRas | / | 0.720 | |
| 4v02 | ATP | Site-determining protein | / | 0.720 | |
| 4pfp | ADP | Unconventional myosin-VI | / | 0.719 | |
| 4xvu | ATP | ATPase GET3 | / | 0.719 | |
| 3k9l | GNP | GTPase HRas | / | 0.718 | |
| 3kko | GNP | Ras-related protein M-Ras | / | 0.718 | |
| 3l1c | ADP | Protein claret segregational | / | 0.718 | |
| 4m0l | GDP | Translation initiation factor 2 subunit gamma | / | 0.718 | |
| 1m7b | GTP | Rho-related GTP-binding protein RhoE | / | 0.717 | |
| 2fgj | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.717 | |
| 4idp | GNP | Atlastin-1 | 3.6.5 | 0.717 | |
| 1zc4 | GNP | Ras-related protein Ral-A | / | 0.716 | |
| 3ddc | GNP | GTPase HRas | / | 0.716 | |
| 3dt4 | GTP | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] | 4.1.1.32 | 0.716 | |
| 1e79 | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.715 | |
| 1e79 | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.715 | |
| 4qos | ADP | Psp operon transcriptional activator | / | 0.715 | |
| 2zet | GTP | Ras-related protein Rab-27B | / | 0.714 | |
| 3bb3 | GDP | Translocase of chloroplast 33, chloroplastic | 3.6.5 | 0.713 | |
| 4hdq | GNP | Ras-related protein Rap-1b | / | 0.713 | |
| 1mmg | AGS | Myosin-2 heavy chain | / | 0.712 | |
| 1ow3 | GDP | Transforming protein RhoA | / | 0.712 | |
| 1sdm | ADP | Kinesin heavy chain-like protein | / | 0.712 | |
| 3tnf | GNP | Ras-related protein Rab-8A | / | 0.712 | |
| 1mma | ADP | Myosin-2 heavy chain | / | 0.711 | |
| 1xts | GTP | GTP-binding protein Rheb | / | 0.711 | |
| 2bc9 | GNP | Guanylate-binding protein 1 | / | 0.711 | |
| 2c9o | ADP | RuvB-like 1 | 3.6.4.12 | 0.711 | |
| 4pk4 | ADP | Unconventional myosin-VI | / | 0.711 | |
| 1g16 | GDP | Ras-related protein SEC4 | / | 0.710 | |
| 1sq5 | ADP | Pantothenate kinase | 2.7.1.33 | 0.710 | |
| 4kvg | GTP | Ras-related protein Rap-1A | / | 0.710 | |
| 1b7t | ADP | Myosin heavy chain, striated muscle | / | 0.709 | |
| 1jx2 | ADP | Myosin-2 heavy chain | / | 0.709 | |
| 4r43 | GDP | Phosphoenolpyruvate carboxykinase [GTP] | / | 0.709 | |
| 4yqf | GDP | Septin-9 | / | 0.709 | |
| 3qe0 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.708 | |
| 4ncl | GDP | Eukaryotic translation initiation factor 5B | / | 0.708 | |
| 4pjj | ADP | Unconventional myosin-VI | / | 0.708 | |
| 3thy | ADP | DNA mismatch repair protein Msh2 | / | 0.707 | |
| 2qaj | AP5 | Adenylate kinase | / | 0.706 | |
| 1fp6 | ADP | Nitrogenase iron protein 1 | 1.18.6.1 | 0.704 | |
| 2bku | GTP | GTP-binding nuclear protein Ran | / | 0.704 | |
| 2fju | GSP | Ras-related C3 botulinum toxin substrate 1 | / | 0.704 | |
| 2rge | GNP | GTPase HRas | / | 0.704 | |
| 3oeh | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.704 | |
| 1njf | ADP | DNA polymerase III subunit tau | 2.7.7.7 | 0.703 | |
| 2gil | GTP | Ras-related protein Rab-6A | / | 0.703 | |
| 2qtv | GNP | Small COPII coat GTPase SAR1 | 3.6.5 | 0.703 | |
| 3l8y | GNP | GTPase HRas | / | 0.703 | |
| 1zc3 | GNP | Ras-related protein Ral-A | / | 0.701 | |
| 2oo7 | AP5 | Adenylate kinase | / | 0.701 | |
| 3zl8 | ADP | UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase | / | 0.701 | |
| 4cvl | ACP | UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase | / | 0.701 | |
| 5l3s | GNP | Signal recognition particle receptor FtsY | / | 0.701 | |
| 2ck3 | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.699 | |
| 2ck3 | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.699 | |
| 3pcr | GTP | ADP-ribosylation factor 6 | / | 0.699 | |
| 3sbe | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.698 | |
| 2fl2 | ADP | Kinesin-like protein KIF11 | / | 0.697 | |
| 4c0b | ATP | mRNA cleavage and polyadenylation factor CLP1 | / | 0.697 | |
| 4d0l | GSP | Ras-related protein Rab-11A | / | 0.697 | |
| 4js0 | GNP | Cell division control protein 42 homolog | / | 0.697 | |
| 5i67 | GDP | Phosphoenolpyruvate carboxykinase [GTP] | / | 0.697 | |
| 2hld | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.695 | |
| 2hld | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.695 | |
| 4gzl | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.694 | |
| 2v7q | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.693 | |
| 4c30 | ANP | DNA helicase | / | 0.693 | |
| 4wou | GDP | Phosphoenolpyruvate carboxykinase [GTP] | / | 0.693 | |
| 2db3 | ANP | ATP-dependent RNA helicase vasa, isoform A | 3.6.4.13 | 0.692 | |
| 1aq2 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.691 | |
| 1ayl | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.691 | |
| 4hse | ADP | Chaperone protein ClpB | / | 0.691 | |
| 4lhv | GDP | Ras-related protein Rab-8A | / | 0.691 | |
| 4lpk | GDP | GTPase KRas | / | 0.690 | |
| 4ohx | ADP | Protein clpf-1 | / | 0.690 | |
| 2ffq | GSP | Ras-related protein Rab-6B | / | 0.689 | |
| 1w7k | ADP | Dihydrofolate synthase/folylpolyglutamate synthase | 6.3.2.12 | 0.688 | |
| 3w3z | GTP | GTP-binding nuclear protein Ran | / | 0.688 | |
| 1h8h | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.687 | |
| 1h8h | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.687 | |
| 3oes | GNP | GTPase RhebL1 | / | 0.687 | |
| 4xjx | ATP | Type I restriction enzyme EcoR124II R protein | 3.1.21.3 | 0.687 | |
| 1um8 | ADP | ATP-dependent Clp protease ATP-binding subunit ClpX | / | 0.686 | |
| 4hdo | GNP | Ras-related protein Rap-1b | / | 0.686 | |
| 4ohv | ANP | Protein clpf-1 | / | 0.686 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.686 | |
| 5dif | GNP | GTP-binding nuclear protein Ran | / | 0.686 | |
| 3rsl | GNP | GTPase HRas | / | 0.685 | |
| 1sxj | ADP | Replication factor C subunit 5 | / | 0.684 | |
| 3rs0 | GNP | GTPase HRas | / | 0.684 | |
| 1xtr | GNP | GTP-binding protein Rheb | / | 0.683 | |
| 3x1w | GDP | Ras-related protein Rap-1b | / | 0.683 | |
| 5ftc | ADP | TPR domain protein | / | 0.683 | |
| 5hpy | GDP | Transforming protein RhoA | / | 0.683 | |
| 1nly | AGS | Cag alpha | / | 0.682 | |
| 2cls | GTP | Rho-related GTP-binding protein Rho6 | / | 0.681 | |
| 2j0s | ANP | Eukaryotic initiation factor 4A-III | 3.6.4.13 | 0.681 | |
| 2fe4 | GDP | Ras-related protein Rab-6B | / | 0.680 | |
| 1xkv | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.679 | |
| 3qcz | ANP | Dihydrofolate synthase/folylpolyglutamate synthase | / | 0.679 | |
| 1z2c | GNP | Rho-related GTP-binding protein RhoC | / | 0.678 | |
| 4zca | ADP | Kinesin-like protein KIF11 | / | 0.678 | |
| 1xd9 | ADP | Nitrogenase iron protein 1 | 1.18.6.1 | 0.677 | |
| 3akd | CDP | Cytidylate kinase | / | 0.677 | |
| 3r9x | GNP | GTPase Era | / | 0.677 | |
| 4typ | AP5 | Adenylate kinase | / | 0.676 | |
| 1w5s | ADP | ORC1-type DNA replication protein 2 | / | 0.675 | |
| 2ov2 | GCP | Ras-related C3 botulinum toxin substrate 3 | / | 0.675 | |
| 3oiv | GNP | GTPase HRas | / | 0.675 | |
| 3i3s | GNP | GTPase HRas | / | 0.674 | |
| 3k8y | GNP | GTPase HRas | / | 0.674 | |
| 2py7 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.673 | |
| 1xms | ANP | Protein RecA | / | 0.672 | |
| 2ic5 | GNP | Ras-related C3 botulinum toxin substrate 3 | / | 0.672 | |
| 2qf2 | GDP | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] | 4.1.1.32 | 0.672 | |
| 3hqd | ANP | Kinesin-like protein KIF11 | / | 0.672 | |
| 5fl3 | ADP | Pili retraction protein PilT | / | 0.672 | |
| 3th5 | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.670 | |
| 1e0j | ANP | DNA primase/helicase | 2.7.7 | 0.669 | |
| 1mh1 | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.669 | |
| 2jj1 | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.669 | |
| 2jj1 | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.669 | |
| 3sbd | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.669 | |
| 4cei | ANP | ATP-dependent helicase/deoxyribonuclease subunit B | 3.1 | 0.669 | |
| 1e79 | ATP | ATP synthase subunit alpha, mitochondrial | / | 0.668 | |
| 1e79 | ATP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.668 | |
| 1g17 | GNP | Ras-related protein SEC4 | / | 0.668 | |
| 1tu3 | GNP | Ras-related protein Rab-5A | / | 0.668 | |
| 2r9v | ATP | ATP synthase subunit alpha | / | 0.668 | |
| 4dsu | GDP | GTPase KRas | / | 0.668 | |
| 3af0 | GDP | Pantothenate kinase | 2.7.1.33 | 0.667 | |
| 4iok | ADP | Formate--tetrahydrofolate ligase | / | 0.667 | |
| 3vx4 | ATP | Putative ABC transporter, ATP-binding protein ComA | / | 0.666 | |
| 3fvq | ATP | Fe(3+) ions import ATP-binding protein FbpC | / | 0.665 | |
| 1e1q | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.663 | |
| 1gqy | ACP | UDP-N-acetylmuramate--L-alanine ligase | 6.3.2.8 | 0.663 | |
| 2rgb | GNP | GTPase HRas | / | 0.663 | |
| 1os1 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.662 | |
| 3fkq | ATP | NtrC-like two-domain protein | / | 0.662 | |
| 1okk | GCP | Signal recognition particle protein | / | 0.661 | |
| 1okk | GCP | Signal recognition particle receptor FtsY | / | 0.661 | |
| 2rgc | GNP | GTPase HRas | / | 0.661 | |
| 3oiu | GNP | GTPase HRas | / | 0.661 | |
| 5irn | ADP | Nucleotide binding oligomerization domain containing 2 | / | 0.661 | |
| 2c5l | GTP | GTPase HRas | / | 0.660 | |
| 3sop | GDP | Neuronal-specific septin-3 | / | 0.660 | |
| 3v4f | GNP | GTPase HRas | / | 0.660 | |
| 3zia | ATP | ATP synthase subunit alpha, mitochondrial | / | 0.660 | |
| 1im2 | ADP | ATP-dependent protease ATPase subunit HslU | / | 0.659 | |
| 1khb | GCP | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] | 4.1.1.32 | 0.659 | |
| 1ny5 | ADP | Transcriptional regulator (NtrC family) | / | 0.659 | |
| 4nyj | GNP | GTPase HRas | / | 0.659 | |
| 2dft | ADP | Shikimate kinase | 2.7.1.71 | 0.658 | |
| 4oi4 | ATP | mRNA cleavage and polyadenylation factor CLP1 | / | 0.658 | |
| 1dvr | ATF | Adenylate kinase | / | 0.657 | |
| 4kln | AGS | Transitional endoplasmic reticulum ATPase | 3.6.4.6 | 0.657 | |
| 3lbi | GNP | GTPase HRas | / | 0.656 | |
| 1zio | AP5 | Adenylate kinase | / | 0.655 | |
| 2x3j | ATP | AcsD | / | 0.655 | |
| 3kkq | GDP | Ras-related protein M-Ras | / | 0.655 | |
| 3sqw | ANP | ATP-dependent RNA helicase MSS116, mitochondrial | 3.6.4.13 | 0.655 | |
| 2jj1 | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.654 | |
| 3q9l | ATP | Septum site-determining protein MinD | / | 0.654 | |
| 4gp6 | ADP | Metallophosphoesterase | / | 0.654 | |
| 4idn | GNP | Atlastin-1 | 3.6.5 | 0.654 | |
| 4xvq | GNP | GTPase HRas | / | 0.653 | |
| 4db1 | ANP | Myosin-7 | / | 0.652 | |
| 4pki | ATP | Actin, alpha skeletal muscle | / | 0.652 | |
| 3a6p | GTP | GTP-binding nuclear protein Ran | / | 0.651 | |
| 1z0f | GDP | Ras-related protein Rab-14 | / | 0.650 | |
| 4rz3 | ADP | Site-determining protein | / | 0.650 |