Table 2. The protein-protein docking (mNeph docked with 13 interested proteins) using the HDOCK free online server.
hMMP 2: human matrix metalloproteinase 2; hMMP 9: human matrix metalloproteinase 9; hRBP 3: human retinol-binding protein 3; hRBP 4: human retinol-binding protein 4; hKLK 1: human kallikrein 1; hUromodulin: human uromodulin; hIGFBP 7: human insulin-like growth factor binding protein 7; hCystatin C: human cystatin C; hPodocin: human podocin, hBeta arrestin 1: human beta arrestin 1; hVANGL2: human vang-like protein 2; hDynamin 1: human dynamin 1; hTENC1: human tensin-like C1 domain-containing phosphatase; ■bond distance (Aᵒ): less than 4.0 Aᵒ; mNeph: mouse nephrin
| S. no. | Protein name | HDOCK docking score (-kcal/mol) | Ligand-receptor interface residue pair(s) | Bond distance■ (Aᵒ) |
| 1 | hMMP 2 | 176.95 | Tyr155-Phe1249 | 2.60 |
| Tyr155-Arg1252 | 2.16 | |||
| Pro156-Phe1249 | 3.97 | |||
| Asp161-Val1256 | 3.98 | |||
| Gly162-Leu1255 | 3.73 | |||
| Gly162-Val1256 | 2.84 | |||
| Leu163-Val1256 | 3.69 | |||
| Leu164-His1254 | 3.06 | |||
| Leu164-Leu1255 | 3.91 | |||
| Leu164-Val1256 | 0.83 | |||
| Ala165-Gly1253 | 2.58 | |||
| Ala165-His1254 | 3.06 | |||
| His166-Gly1253 | 3.65 | |||
| Tyr193-Val1256 | 2.65 | |||
| His201-Gly1253 | 3.57 | |||
| His201-His1254 | 3.52 | |||
| Glu202-Gly1253 | 3.56 | |||
| Glu202-His1254 | 3.03 | |||
| His205-Leu1247 | 2.96 | |||
| Glu210-Leu1247 | 2.32 | |||
| His211-Leu1247 | 3.41 | |||
| His211-Leu1251 | 2.11 | |||
| His211-Gly1253 | 3.59 | |||
| Pro221-His1254 | 3.95 | |||
| Pro221-Leu1255 | 2.86 | |||
| Ile222-His1254 | 3.75 | |||
| Ile222-Leu1255 | 2.44 | |||
| Tyr223-His1254 | 2.22 | |||
| Tyr223-Leu1255 | 2.62 | |||
| Tyr223-Val1256 | 3.75 | |||
| 2 | hMMP 9 | 205.44 | Tyr149-Phe1249 | 2.29 |
| Tyr149-Arg1252 | 2.69 | |||
| Gly186-Val1256 | 2.88 | |||
| Leu188-His1254 | 3.56 | |||
| Leu188-Val1256 | 2.12 | |||
| Ala189-Arg1252 | 3.91 | |||
| Ala189-Gly1253 | 2.49 | |||
| Ala189-His1254 | 3.63 | |||
| His190-Arg1252 | 3.55 | |||
| His190-Gly1253 | 3.57 | |||
| Ala191-Arg1252 | 3.35 | |||
| Phe192-Arg1252 | 3.74 | |||
| Pro193-Leu1247 | 3.52 | |||
| Tyr218-Val1256 | 3.26 | |||
| His226-Gly1253 | 3.25 | |||
| His226-His1254 | 3.48 | |||
| Gln227-Gly1253 | 3.04 | |||
| Gln227-His1254 | 2.91 | |||
| His230-Leu1247 | 2.44 | |||
| His230-Leu1251 | 3.81 | |||
| His230-Gly1253 | 3.79 | |||
| Asp235-Leu1247 | 3.67 | |||
| His236-Leu1251 | 2.33 | |||
| His236-Gly1253 | 3.57 | |||
| Pro246-Leu1255 | 1.97 | |||
| Met247-His1254 | 3.14 | |||
| Met247-Leu1255 | 2.64 | |||
| Tyr248-His1254 | 2.14 | |||
| Tyr248-Leu1255 | 2.13 | |||
| Tyr248-Val1256 | 2.81 | |||
| 3 | hRBP 3 | 166.45 | Tyr19-His1254 | 3.46 |
| Leu20-His1254 | 3.02 | |||
| Leu23-His1254 | 3.59 | |||
| Ile25-Gly1253 | 2.66 | |||
| Ile25-His1254 | 2.87 | |||
| Ser26-Arg1252 | 3.92 | |||
| Val29-Arg1252 | 3.65 | |||
| Val29-Gly1253 | 2.83 | |||
| Val29-His1254 | 3.60 | |||
| Leu36-Val1256 | 2.10 | |||
| Pro38-Val1256 | 3.71 | |||
| Thr53-Val1256 | 2.69 | |||
| Leu54-Val1256 | 3.64 | |||
| Ser55-Val1256 | 2.84 | |||
| Arg58-Phe1249 | 3.25 | |||
| Arg58-Glu1250 | 2.63 | |||
| Arg58-Leu1251 | 3.75 | |||
| Arg58-Arg1252 | 2.64 | |||
| Arg58-Leu1255 | 2.39 | |||
| Arg58-Val1256 | 2.02 | |||
| Asn59-Leu1255 | 2.36 | |||
| Asn59-Val1256 | 3.49 | |||
| Tyr60-Leu1255 | 2.97 | |||
| Arg75-Leu1251 | 2.68 | |||
| Ser76-Leu1255 | 2.94 | |||
| Val77-Leu1251 | 3.97 | |||
| Val77-Gly1253 | 1.65 | |||
| Val77-His1254 | 2.75 | |||
| Val77-Leu1255 | 3.51 | |||
| Asp78-Leu1247 | 3.51 | |||
| Asp78-Gly1253 | 3.85 | |||
| 4 | hKLK 1 | 206.39 | Phe40-His1254 | 2.20 |
| Gln41-Arg1252 | 3.99 | |||
| Gln41-Gly1253 | 2.16 | |||
| Gln41-His1254 | 3.25 | |||
| His57-Leu1247 | 3.35 | |||
| His57-Arg1252 | 3.10 | |||
| Leu95-Phe1249 | 2.84 and 3.33 | |||
| Leu95-Glu1250 | 3.95 | |||
| Leu95-Arg1252 | 2.78 and 2.95 | |||
| Tyr99-Leu1247 | 3.18 | |||
| Tyr99-Pro1248 | 3.51 | |||
| Tyr99-Arg1252 | 3.07 | |||
| Phe149-Leu1251 | 3.75 | |||
| Phe151-His1254 | 2.78 | |||
| Phe151-Leu1255 | 3.26 | |||
| Val192-Leu1251 | 2.53 | |||
| Val192-Gly1253 | 3.51 | |||
| Ser195-Leu1247 | 2.53 | |||
| Ser214-Leu1247 | 2.94 | |||
| Trp215-Leu1247 | 3.50 | |||
| Val218-Leu1251 | 3.04 | |||
| 5 | hUromodulin | 169.37 | Asp38-Leu1255 | 2.75 |
| Asp38-Val1256 | 3.66 | |||
| Lys39-Val1256 | 3.56 | |||
| His63-Phe1249 | 3.61 | |||
| Pro64-Phe1249 | 3.89 | |||
| Asp65-Phe1249 | 3.51 | |||
| Asp65-Arg1252 | 1.75 | |||
| Lys66-Arg1252 | 3.69 | |||
| Lys66-Gly1253 | 3.93 | |||
| Glu68-Gly1253 | 3.82 | |||
| Glu68-His1254 | 3.27 | |||
| Trp86-His1254 | 3.03 | |||
| Trp86-Val1256 | 3.64 | |||
| Ala87-Val1256 | 3.70 | |||
| Glu135-Val1256 | 2.08 | |||
| Glu177-Gly1253 | 2.32 | |||
| Glu177-His1254 | 2.65 | |||
| Glu177-Leu1255 | 3.78 | |||
| Tyr179-His1254 | 3.73 | |||
| Tyr179-Leu1255 | 3.60 | |||
| Tyr179-Val1256 | 3.91 | |||
| Phe180-Leu1255 | 2.55 | |||
| Asp233-Leu1251 | 2.71 | |||
| Tyr234-Leu1251 | 3.70 | |||
| Tyr234-Leu1255 | 2.98 | |||
| Ser235-Glu1250 | 3.68 | |||
| Ser235-Leu1251 | 3.71 | |||
| Trp254-Leu1255 | 3.91 | |||
| Trp254-Val1256 | 3.03 | |||
| Trp364-His1254 | 3.61 | |||
| Ile402-Leu1247 | 3.21 | |||
| 6 | hRBP 4 | 180.22 | Phe36-His1254 | 3.07 |
| Phe36-Leu1255 | 3.97 | |||
| Leu37-His1254 | 2.92 | |||
| Ile41-His1254 | 3.99 | |||
| Phe45-Val1256 | 3.41 | |||
| Ala57-Val1256 | 1.88 | |||
| Met73-His1254 | 2.75 | |||
| Phe77-Val1256 | 3.48 | |||
| Met88-Leu1255 | 1.47 | |||
| Met88-Val1256 | 1.65 | |||
| Tyr90-Leu1251 | 3.76 | |||
| Tyr90-Arg1252 | 2.15 | |||
| Tyr90-Gly1253 | 3.04 | |||
| Tyr90-His1254 | 3.33 | |||
| Tyr90-Leu1255 | 3.66 | |||
| Gln98-Gly1253 | 3.66 | |||
| Lys99-Phe1249 | 2.73 | |||
| Lys99-Arg1252 | 2.55 | |||
| Gly100-Phe1249 | 2.84 | |||
| Gly100-Arg1252 | 3.65 | |||
| Asn101-Phe1249 | 3.88 | |||
| Asn101-Glu1250 | 2.35 | |||
| Asp102-Glu1250 | 2.77 | |||
| Asp102-Leu1251 | 3.91 | |||
| Asp102-Leu1255 | 2.83 | |||
| Asp103-Leu1255 | 2.95 | |||
| His104-Leu1255 | 3.95 | |||
| His104-Val1256 | 3.20 | |||
| Gln117-Leu1255 | 3.78 | |||
| Ser119-Leu1255 | 3.33 | |||
| Arg121-Leu1251 | 2.33 | |||
| Arg121-Gly1253 | 2.96 | |||
| Asp131-Leu1251 | 3.92 | |||
| Tyr133-Leu1255 | 1.19 | |||
| Phe135-His1254 | 2.56 | |||
| Phe135-Leu1255 | 3.56 | |||
| 7 | hIGFBP 7 | 167.09 | Leu191-Leu1247 | 2.73 |
| Ala192-Gly1253 | 3.54 | |||
| Leu193-Leu1247 | 3.21 | |||
| Leu193-Arg1252 | 3.04 | |||
| Leu193-Gly1253 | 3.84 | |||
| Gly195-Arg1252 | 3.43 | |||
| Pro196-Arg1252 | 3.83 | |||
| Gly197-Leu1247 | 2.92 | |||
| Gly197-Arg1252 | 3.00 | |||
| Gln198-Leu1247 | 3.18 | |||
| Gln198-Pro1248 | 3.54 | |||
| Val199-Leu1247 | 2.69 | |||
| Tyr201-Leu1247 | 3.15 | |||
| Ser210-Leu1247 | 3.34 | |||
| Ser210-Pro1248 | 3.52 | |||
| Ser210-Leu1251 | 3.90 | |||
| Ser211-Leu1251 | 2.87 | |||
| Phe266-Phe1249 | 2.93 | |||
| Phe266-Arg1252 | 2.34 | |||
| Asn267-Phe1249 | 3.22 | |||
| Asn267-Arg1252 | 3.55 | |||
| Gly270-Gly1253 | 3.97 | |||
| His272-His1254 | 2.51 | |||
| His272-Val1256 | 3.06 | |||
| 8 | hCystatin C | 164.90 | Val10-Glu1250 | 2.35 |
| Val10-Leu1251 | 2.37 | |||
| Val10-Arg1252 | 3.76 | |||
| Val10-Leu1255 | 3.40 | |||
| Gly11-Leu1251 | 3.19 | |||
| Gly11-Gly1253 | 3.20 | |||
| Gly11-Leu1255 | 3.65 | |||
| Gly12-Leu1255 | 2.97 | |||
| Met14-Leu1251 | 3.86 | |||
| Gln55-His1254 | 2.77 | |||
| Gln55-Leu1255 | 3.64 | |||
| Ile56-Leu1247 | 2.86 | |||
| Ile56-Leu1251 | 3.70 | |||
| Ile56-Gly1253 | 2.46 | |||
| Ile56-His1254 | 3.01 | |||
| Val57-His1254 | 3.33 | |||
| Ala58-Gly1253 | 3.31 | |||
| Ala58-His1254 | 3.47 | |||
| Tyr102-His1254 | 3.92 | |||
| Trp106-Phe1249 | 3.55 | |||
| Trp106-Arg1252 | 2.74 | |||
| Trp106-Gly1253 | 2.98 | |||
| Gln107-His1254 | 2.74 | |||
| Gln107-Leu1255 | 3.58 | |||
| Gln107-Val1256 | 3.14 | |||
| Gln107-Val1256 | 3.46 | |||
| 9 | hPodocin | 164.41 | Pro89-Pro1248 | 3.87 |
| Pro89-Arg1252 | 3.11 | |||
| Glu90-Leu1247 | 3.92 | |||
| Glu90-Arg1252 | 2.78 | |||
| Glu91-Arg1252 | 3.68 | |||
| Gly92-Phe1249 | 3.08 | |||
| Thr93-Phe1249 | 2.93 | |||
| Leu142-Leu1251 | 3.80 | |||
| Leu143-Glu1250 | 3.04 | |||
| Leu143-Leu1255 | 3.08 | |||
| Pro144-Glu1250 | 3.32 | |||
| Pro144-Leu1253 | 3.31 | |||
| Gly145-Glu1250 | 3.10 | |||
| Gly145-Leu1251 | 3.42 | |||
| Gly145-Arg1252 | 3.55 | |||
| Gly145-Gly1253 | 3.39 | |||
| Gly145-Leu1255 | 3.81 | |||
| Arg146-Leu1247 | 3.66 | |||
| Arg146-Leu1251 | 3.28 | |||
| Arg146-Gly1253 | 2.49 | |||
| Arg146-Leu1255 | 3.11 | |||
| Lys148-Leu1255 | 3.23 | |||
| Lys148-Val1256 | 3.13 | |||
| Ser201-Leu1251 | 2.38 | |||
| Leu202-Leu1251 | 3.71 | |||
| 10 | hBeta arrestin | 166.14 | Thr56-Phe1249 | 2.82 |
| Ala60-Leu1255 | 3.27 | |||
| Glu66-His1254 | 3.21 | |||
| Arg76-Glu1250 | 2.66 | |||
| Arg76-Leu1255 | 2.44 | |||
| Asp78-Glu1250 | 2.75 | |||
| Val81-Glu1250 | 3.49 | |||
| Asn83-Phe1249 | 3.51 | |||
| Asp143-Val1256 | 3.25 | |||
| Glu145-His1254 | 3.97 | |||
| Glu145-Val1256 | 3.94 | |||
| Lys147-Phe1249 | 3.24 | |||
| Phe149-Phe1249 | 2.72 | |||
| Leu154-Arg1252 | 3.31 | |||
| Glu155-Arg1252 | 3.85 | |||
| Glu156-Arg1252 | 3.13 | |||
| Lys157-Leu1247 | 3.57 | |||
| Lys157-Arg1252 | 3.39 | |||
| Ile158-Phe1249 | 2.79 | |||
| Arg165-Arg1252 | 3.67 | |||
| Arg165-Gly1253 | 3.22 | |||
| Arg165-His1254 | 3.37 | |||
| Val167-Val1256 | 2.91 | |||
| 11 | hVANGL2 | 177.26 | Phe120-Leu1247 | 2.70 |
| Phe120-Arg1252 | 3.51 | |||
| Leu124-Leu1247 | 3.12 | |||
| Leu124-Arg1252 | 3.86 | |||
| Leu124-Gly1253 | 2.95 | |||
| Leu127-His1254 | 3.42 | |||
| Leu128-His1254 | 3.87 | |||
| Pro131-His1254 | 3.21 | |||
| Glu146-Val1256 | 3.81 | |||
| Phe149-His1254 | 3.29 | |||
| Phe149-Val1256 | 2.84 | |||
| Ala153-Phe1249 | 3.12 | |||
| Ala153-Arg1252 | 3.44 | |||
| Phe154-Phe1249 | 3.47 | |||
| Leu156-Arg1252 | 3.36 | |||
| Leu157-Phe1249 | 3.72 | |||
| Leu157-Arg1252 | 2.44 | |||
| Leu160-Arg1252 | 3.41 | |||
| Tyr212-His1254 | 2.72 | |||
| 12 | hDynamin 1 | 186.17 | Gln198-Phe1249 | 2.85 |
| Gln198-Glu1250 | 2.59 | |||
| Leu220-Val1256 | 3.82 | |||
| Asn222-Val1256 | 3.38 | |||
| Arg228-Glu1250 | 3.05 | |||
| Arg228-Leu1255 | 2.07 | |||
| Arg229-Phe1249 | 2.41 | |||
| Arg229-Glu1250 | 3.28 | |||
| Arg229-Leu1255 | 3.55 | |||
| Arg229-Val1256 | 3.30 | |||
| Gly230-Leu1255 | 3.76 | |||
| Gly230-Val1256 | 2.08 | |||
| Tyr231-Val1256 | 3.06 | |||
| Ile232-Val1256 | 3.45 | |||
| Arg271-His1254 | 2.49 | |||
| Arg271-Leu1255 | 3.37 | |||
| Tyr276-His1254 | 3.04 | |||
| Tyr276-Val1256 | 2.71 | |||
| Gln284-Phe1249 | 3.97 | |||
| Gln284-Arg1252 | 3.89 | |||
| Asn287-Phe1249 | 3.70 | |||
| Asn287-Arg1252 | 2.81 | |||
| Asn287-Gly1253 | 3.96 | |||
| His288-Phe1249 | 3.51 | |||
| Asp291-Phe1249 | 2.82 | |||
| Asp291-Arg1252 | 2.44 | |||
| 13 | hTENC1 | 186.64 | Tyr1280-Gly1253 | 3.35 |
| Tyr1280-His1254 | 3.66 | |||
| Ser1283-His1254 | 3.41 | |||
| Thr1310-Leu1247 | 2.28 | |||
| Ala1312-Arg1252 | 2.90 | |||
| Asp1327-Arg1252 | 2.86 | |||
| Leu1332-Phe1249 | 3.40 | |||
| Phe1333-Phe1249 | 3.05 | |||
| Phe1334-Phe1249 | 3.71 | |||
| Phe1334-Arg1252 | 3.53 | |||
| Phe1334-Gly1253 | 2.87 | |||
| Phe1334-His1254 | 3.53 | |||
| Arg1336-His1254 | 2.50 | |||
| Arg1336-Leu1255 | 3.26 | |||
| Arg1336-Val1256 | 3.15 | |||
| Tyr1338-His1254 | 3.23 | |||
| Lys1372-His1254 | 3.29 | |||
| Lys1372-Leu1255 | 2.38 | |||
| Lys1372-Val1256 | 2.98 | |||
| Pro1373-Val1256 | 3.22 | |||
| Gly1374-Val1256 | 3.33 | |||
| Val1380-His1254 | 3.00 | |||
| His1382-His1254 | 2.81 |