UniProt B2RID1
Asp/Glu-specific dipeptidyl-peptidase (B2RID1)
Asp/Glu-specific dipeptidyl-peptidase (UniProt B2RID1), EC 3.4.14.-: 35 experimental structures and 1 predicted model on GenesisL1, 19 ligands bound, 175 pockets. Binding sites, druggability and experiment against prediction…
- UniProt
- B2RID1
- Protein
- Asp/Glu-specific dipeptidyl-peptidase
- EC
- 3.4.14.-
- Experimental structures
- 35
- Predicted models
- 1
- Ligands
- 19
- Pockets
- 175 · 14 records with a druggable one
Structures
36 records of B2RID1 in the MolNFT archive: 35 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 5JWF | Crystal structure of Porphyromonas gingivalis DPP11 | x-ray diffraction | A, B | — | 14 (best 0.72) |
| 5JWF | Crystal structure of porphyromonas gingivalis DPP11 | x-ray diffraction | A, B | — | — |
| 5SDC | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | LDV, CL | 14 (best 0.71) |
| 5SDC | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | LDV, CL | — |
| 5SDD | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | 2L1, CL | — |
| 5SDE | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | U0M, CL | 13 (best 0.70) |
| 5SDE | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | U0M, CL | — |
| 5SDF | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | NT7, CL | 12 (best 0.71) |
| 5SDF | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | NT7, CL | — |
| 5SDG | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | NU4, CL | 13 (best 0.70) |
| 5SDG | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | NU4, CL | — |
| 5SDH | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I81, CL | 10 (best 0.70) |
| 5SDH | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I81, CL | — |
| 5SDI | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | K0G, CL | 13 (best 0.71) |
| 5SDI | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | K0G, CL | — |
| 5SDJ | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | JMM, CL | 13 (best 0.70) |
| 5SDJ | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | JMM, CL | — |
| 5SDK | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I87, CL | 13 (best 0.70) |
| 5SDK | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I87, CL | — |
| 5SDL | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | JHJ, CL | 12 (best 0.71) |
| 5SDL | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | JHJ, CL | — |
| 5SDM | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8A, CL | 13 (best 0.71) |
| 5SDM | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8A, CL | — |
| 5SDN | PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8D, CL | 11 (best 0.72) |
| 5SDN | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8D, CL | — |
| 5SDO | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8G, CL | — |
| 5SDP | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8J, CL | — |
| 5SDQ | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | I8M, CL | — |
| 5SDR | Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with… | x-ray diffraction | A, B | O2A, CL | — |
| 5SDS | PanDDA analysis group deposition of ground-state model of Porphyromonas gingivalis DPP11 | x-ray diffraction | A, B | CL | 11 (best 0.70) |
| 5SDS | Pandda analysis group deposition of ground-state model of porphyromonas gingivalis DPP11 | x-ray diffraction | A, B | CL | — |
| 6JTB | Crystal structure of dipeptidyl peptidase 11 (DPP11) with citrate from porphyromonas gingivalis… | x-ray diffraction | A | K | — |
| 6JTC | Crystal structure of dipeptidyl peptidase 11 (DPP11) with SH-5 from Porphyromonas gingivalis (Space) | x-ray diffraction | A, B | C8O | 13 (best 0.73) |
| 6JTC | Crystal structure of dipeptidyl peptidase 11 (DPP11) with sh-5 from porphyromonas gingivalis (space) | x-ray diffraction | A, B | C8O | — |
| 7R51 | Structure of P. gingivalis DPP11 in complex with the dipeptide arg-asp | x-ray diffraction | A, B | — | — |
| B2RID1 | AlphaFold monomer V2.0 prediction for ASP/GLU-specific dipeptidyl- peptidase (B2RID1) | predicted | A | — | — |
Ligands
- CL · Chloride ion · in 29 records
- C8O · 2-(2-azanylethylamino)-5-nitro-benzoic acid · in 2 records
- I81 · 1-[(3-methoxyphenyl)methyl]piperidine-4-carboxamide · in 2 records
- I87 · (2S)-N,2-dimethyl-N-(propan-2-yl)morpholine-4-sulfonamide · in 2 records
- I8A · N-(cyclopropylmethyl)-2,2,3,3-tetramethylazetidine-1-carboxamide · in 2 records
- I8D · (4-chlorophenyl)(thiomorpholin-4-yl)methanone · in 2 records
- JHJ · N-(4-methoxyphenyl)-N'-pyridin-4-ylurea · in 2 records
- JMM · [4-(cyclopropanecarbonyl)piperazin-1-yl](furan-2-yl) methanone · in 2 records
- K0G · N-phenyl-N'-pyridin-3-ylurea · in 2 records
- LDV · 3-[(4-methylpiperidin-1-yl)methyl]-1H-indole · in 2 records
- NT7 · N-(2,3-dimethylphenyl)-2-(morpholin-4-yl)acetamide · in 2 records
- NU4 · 2-methyl-N-(pyridin-4-yl)furan-3-carboxamide · in 2 records
- U0M · 5-fluoro-1-[(5-methyl-1,3,4-thiadiazol-2-yl)methyl]-1,2,3,6-tetrahydropyridine · in 2 records
- 2L1 · 2-[(4-methyl-1H-imidazol-5-yl)methyl]-1,2,3,4-tetrahydroisoquinoline · in 1 record
- I8G · 2-(4-fluorophenoxy)-1-(pyrrolidin-1-yl)ethan-1-one · in 1 record
- I8J · 5-fluoro-1-(1-methylcyclopropane-1-sulfonyl)-1,2,3,6-tetrahydropyridine · in 1 record
- I8M · 2-[(morpholin-4-yl)methyl]phenol · in 1 record
- K · Potassium ion · in 1 record
- O2A · N-methyl-1H-indole-7-carboxamide · in 1 record
Experiment against prediction
- 7R51 chain B against the predicted model B2RID1: TM-score 0.99, RMSD 0.84 Å
- 7R51 chain A against the predicted model B2RID1: TM-score 0.99, RMSD 0.69 Å
- 5SDN chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.93 Å
- 5SDN chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.93 Å
- 5SDF chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.97 Å
- 5SDF chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.97 Å
- 5SDM chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.97 Å
- 5SDM chain B against the predicted model B2RID1: TM-score 0.92, RMSD 2.97 Å
- 5SDR chain B against the predicted model B2RID1: TM-score 0.91, RMSD 2.98 Å
- 5JWF chain B against the predicted model B2RID1: TM-score 0.91, RMSD 3.01 Å
Elsewhere
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