sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities are compared using Shaper.
For more information, please see the following publication:
Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1mue | CDD | Prothrombin | 3.4.21.5 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1mue | CDD | Prothrombin | 3.4.21.5 | 1.000 | |
| 1k21 | IGN | Prothrombin | 3.4.21.5 | 0.758 | |
| 1z71 | L17 | Prothrombin | 3.4.21.5 | 0.744 | |
| 1zgi | 382 | Prothrombin | 3.4.21.5 | 0.725 | |
| 1zgv | 501 | Prothrombin | 3.4.21.5 | 0.712 | |
| 3c1k | T15 | Prothrombin | 3.4.21.5 | 0.712 | |
| 1mu6 | CDA | Prothrombin | 3.4.21.5 | 0.706 | |
| 1afe | ALZ | Prothrombin | 3.4.21.5 | 0.676 | |
| 1ta6 | 177 | Prothrombin | 3.4.21.5 | 0.675 | |
| 2znk | 31U | Prothrombin | 3.4.21.5 | 0.667 | |
| 1t4v | 14A | Prothrombin | 3.4.21.5 | 0.665 | |
| 2zgx | 29U | Prothrombin | 3.4.21.5 | 0.663 | |
| 7kme | ACE_0BN_CHG_PRR | Prothrombin | 3.4.21.5 | 0.661 | |
| 1d6w | 00R | Prothrombin | 3.4.21.5 | 0.659 | |
| 2zfq | 45U | Prothrombin | 3.4.21.5 | 0.658 | |
| 1ae8 | AZL | Prothrombin | 3.4.21.5 | 0.655 | |
| 1t4u | 81A | Prothrombin | 3.4.21.5 | 0.647 | |
| 2zc9 | 22U | Prothrombin | 3.4.21.5 | 0.643 | |
| 3eq0 | 2TS | Prothrombin | 3.4.21.5 | 0.642 | |
| 2zhf | 49U | Prothrombin | 3.4.21.5 | 0.636 | |
| 3dux | 64U | Prothrombin | 3.4.21.5 | 0.636 | |
| 2zf0 | 51U | Prothrombin | 3.4.21.5 | 0.632 | |
| 2zhe | 13U | Prothrombin | 3.4.21.5 | 0.629 | |
| 3biu | 10U | Prothrombin | 3.4.21.5 | 0.629 | |
| 2zfr | 46U | Prothrombin | 3.4.21.5 | 0.626 | |
| 2zdv | 37U | Prothrombin | 3.4.21.5 | 0.625 | |
| 1d4p | BPP | Prothrombin | 3.4.21.5 | 0.624 | |
| 2jh6 | 894 | Prothrombin | 3.4.21.5 | 0.619 | |
| 1vzq | SHY | Prothrombin | 3.4.21.5 | 0.618 | |
| 2uuk | 897 | Prothrombin | 3.4.21.5 | 0.618 | |
| 1ypk | CCR | Prothrombin | 3.4.21.5 | 0.617 | |
| 2jh5 | 895 | Prothrombin | 3.4.21.5 | 0.615 | |
| 1c4u | IH1 | Prothrombin | 3.4.21.5 | 0.613 | |
| 2r2m | I50 | Prothrombin | 3.4.21.5 | 0.613 | |
| 4bak | M67 | Prothrombin | 3.4.21.5 | 0.613 | |
| 1bcu | PRL | Prothrombin | 3.4.21.5 | 0.612 | |
| 1ypl | RA8 | Prothrombin | 3.4.21.5 | 0.612 | |
| 1sb1 | 165 | Prothrombin | 3.4.21.5 | 0.610 | |
| 2cf8 | ESH | Prothrombin | 3.4.21.5 | 0.610 | |
| 2zg0 | 50U | Prothrombin | 3.4.21.5 | 0.610 | |
| 2zgb | 21U | Prothrombin | 3.4.21.5 | 0.609 | |
| 4bam | MM9 | Prothrombin | 3.4.21.5 | 0.609 | |
| 1nzq | 162 | Prothrombin | 3.4.21.5 | 0.608 | |
| 1zrb | 062 | Prothrombin | 3.4.21.5 | 0.606 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.605 | |
| 1a4w | QWE | Prothrombin | 3.4.21.5 | 0.601 | |
| 4e7r | 0NW | Prothrombin | 3.4.21.5 | 0.601 | |
| 1xm1 | GAH | Prothrombin | 3.4.21.5 | 0.599 | |
| 4ax9 | N5N | Prothrombin | 3.4.21.5 | 0.599 | |
| 2zfp | 19U | Prothrombin | 3.4.21.5 | 0.598 | |
| 1jwt | BLI | Prothrombin | 3.4.21.5 | 0.595 | |
| 4lxb | 7R9 | Prothrombin | 3.4.21.5 | 0.592 | |
| 1o5g | CR9 | Prothrombin | 3.4.21.5 | 0.591 | |
| 4n3l | 2FN | Prothrombin | 3.4.21.5 | 0.590 | |
| 1d9i | 00P | Prothrombin | 3.4.21.5 | 0.587 | |
| 3hat | GLY_VAL_ARG_RNG | Prothrombin | 3.4.21.5 | 0.587 | |
| 4ayy | 9MX | Prothrombin | 3.4.21.5 | 0.587 | |
| 2zhw | 12U | Prothrombin | 3.4.21.5 | 0.586 | |
| 1uma | IN2 | Prothrombin | 3.4.21.5 | 0.585 | |
| 2anm | CDO | Prothrombin | 3.4.21.5 | 0.585 | |
| 1ghv | 120 | Prothrombin | 3.4.21.5 | 0.583 | |
| 2zff | 53U | Prothrombin | 3.4.21.5 | 0.582 | |
| 4baq | M4Z | Prothrombin | 3.4.21.5 | 0.582 | |
| 2pks | G44 | Prothrombin | 3.4.21.5 | 0.581 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.579 | |
| 1gj5 | 130 | Prothrombin | 3.4.21.5 | 0.578 | |
| 2uuj | 896 | Prothrombin | 3.4.21.5 | 0.578 | |
| 4az2 | 9MU | Prothrombin | 3.4.21.5 | 0.575 | |
| 2zhq | 27U | Prothrombin | 3.4.21.5 | 0.574 | |
| 1k22 | MEL | Prothrombin | 3.4.21.5 | 0.572 | |
| 1ypm | RA4 | Prothrombin | 3.4.21.5 | 0.570 | |
| 4ban | M6S | Prothrombin | 3.4.21.5 | 0.570 | |
| 2bvs | 2CE | Prothrombin | 3.4.21.5 | 0.567 | |
| 3qwc | 98P | Prothrombin | 3.4.21.5 | 0.566 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.565 | |
| 1o2g | 696 | Prothrombin | 3.4.21.5 | 0.560 | |
| 2bdy | UNB | Prothrombin | 3.4.21.5 | 0.559 | |
| 2v3h | I25 | Prothrombin | 3.4.21.5 | 0.559 | |
| 3c27 | DKK | Prothrombin | 3.4.21.5 | 0.555 | |
| 1ypj | UIB | Prothrombin | 3.4.21.5 | 0.554 | |
| 4bao | MVF | Prothrombin | 3.4.21.5 | 0.553 | |
| 1riw | OSC | Prothrombin | 3.4.21.5 | 0.548 | |
| 3biv | 11U | Prothrombin | 3.4.21.5 | 0.547 | |
| 2bxt | C2D | Prothrombin | 3.4.21.5 | 0.545 | |
| 5cmx | 0G6 | Prothrombin | 3.4.21.5 | 0.536 | |
| 4ayv | 9MQ | Prothrombin | 3.4.21.5 | 0.534 | |
| 1mu8 | CDB | Prothrombin | 3.4.21.5 | 0.531 | |
| 1ta2 | 176 | Prothrombin | 3.4.21.5 | 0.529 | |
| 1w7g | MIU | Prothrombin | 3.4.21.5 | 0.522 | |
| 2ziq | 26U | Prothrombin | 3.4.21.5 | 0.519 | |
| 3utu | 1TS | Prothrombin | 3.4.21.5 | 0.519 | |
| 3qto | 10P | Prothrombin | 3.4.21.5 | 0.517 | |
| 3p17 | 99P | Prothrombin | 3.4.21.5 | 0.507 | |
| 4bah | MEL | Prothrombin | 3.4.21.5 | 0.501 | |
| 1c1u | BAI | Prothrombin | 3.4.21.5 | 0.498 | |
| 4loy | 6XS | Prothrombin | 3.4.21.5 | 0.491 | |
| 3qdz | PRO_ALA_PRO_ARG | Prothrombin | 3.4.21.5 | 0.490 | |
| 1o0d | 163 | Prothrombin | 3.4.21.5 | 0.489 | |
| 1uvs | I11 | Prothrombin | 3.4.21.5 | 0.481 | |
| 3qtv | 06P | Prothrombin | 3.4.21.5 | 0.480 | |
| 3f68 | 91U | Prothrombin | 3.4.21.5 | 0.479 | |
| 1ny2 | ARG_PRO_PRO_GLY | Prothrombin | 3.4.21.5 | 0.471 | |
| 1c4v | IH2 | Prothrombin | 3.4.21.5 | 0.466 | |
| 1c5n | ESI | Prothrombin | 3.4.21.5 | 0.465 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.458 | |
| 1gj4 | 132 | Prothrombin | 3.4.21.5 | 0.457 | |
| 4tvj | 09L | Poly [ADP-ribose] polymerase 2 | 2.4.2.30 | 0.455 | |
| 1qoq | IGP | Tryptophan synthase alpha chain | / | 0.453 | |
| 1sa5 | BMV | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.450 | |
| 4c73 | TLH | 3-oxoacyl-ACP synthase | / | 0.449 | |
| 2vat | COA | Acetyl-CoA--deacetylcephalosporin C acetyltransferase | 2.3.1.175 | 0.446 | |
| 3zpq | XF5 | Beta-1 adrenergic receptor | / | 0.446 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 4gtv | 7TR | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.445 | |
| 3mau | PLR | Putative sphingosine-1-phosphate lyase | / | 0.444 | |
| 4bby | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.444 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.443 | |
| 3fkt | SII | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 2i65 | NAD | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 0.441 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.441 | |
| 3ou2 | SAH | SAM-dependent methyltransferase | / | 0.441 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 3dop | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.440 |