Interface analysis
Style
Protein
CartoonLicorice
Surface
RNA
CartoonLicorice
Surface
Color
ChainChain (with hetatm)
Chainbow
Hydrophobicity Electrostatics (surface only) Conservation*
View
Focus on
InterfaceRNA
Protein
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Show chains
Interface
show as licoriceshow Accessibility
Rim - Core
Contacts -
1VQ8_Q
|
1VQ8_0
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
---|---|---|---|---|---|---|
Q:1 [PRO] | 0:2298 [C] | 4.8 | 0:2310 [G] | 35.3 | ||
Q:1 [PRO] | 0:2299 [G] | 3.03 | 0:2308 [U] | 35.3 | ||
Q:1 [PRO] | 0:2300 [A] | 3.08 | 0:2307 [A] | base:BB | 35.3 | |
Q:1 [PRO] | 0:2306 [U] | 3.11 | 0:2301 [A] | 35.3 | ||
Q:1 [PRO] | 0:2307 [A] | 3.15 | 0:2300 [A] | 35.3 | ||
Q:2 [SER] | 0:2295 [G] | 4.9 | 0:2313 [C] | 51.5 | ||
Q:2 [SER] | 0:2296 [C] | 3.2 | 0:2312 [G] | 51.5 | ||
Q:2 [SER] | 0:2297 [U] | 2.61 | 0:2311 [A] | base:SC | 51.5 | |
Q:2 [SER] | 0:2298 [C] | 3.61 | 0:2310 [G] | 51.5 | ||
Q:2 [SER] | 0:2299 [G] | 3.98 | 0:2308 [U] | 51.5 | ||
Q:2 [SER] | 0:2310 [G] | 4.15 | 0:2298 [C] | 51.5 | ||
Q:2 [SER] | 0:2311 [A] | 4.33 | 0:2297 [U] | 51.5 | ||
Q:3 [SER] | 0:2295 [G] | 3.77 | 0:2313 [C] | 85.5 | ||
Q:3 [SER] | 0:2296 [C] | 2.6 | 0:2312 [G] | 85.5 | ||
Q:3 [SER] | 0:2297 [U] | 4.99 | 0:2311 [A] | 85.5 | ||
Q:4 [ASN] | 0:2295 [G] | 2.97 | 0:2313 [C] | 48.7 | ||
Q:4 [ASN] | 0:2296 [C] | 3.66 | 0:2312 [G] | 48.7 | ||
Q:4 [ASN] | 0:2306 [U] | 4.61 | 0:2301 [A] | 48.7 | ||
Q:4 [ASN] | 0:2390 [U] | 3.85 | 0:2398 [A] | 48.7 | ||
Q:4 [ASN] | 0:2391 [C] | 4.2 | 0:2397 [G] | 48.7 | ||
Q:5 [GLY] | 0:2295 [G] | 3.12 | 0:2313 [C] | 96.9 | ||
Q:5 [GLY] | 0:2296 [C] | 2.78 | 0:2312 [G] | 96.9 | ||
Q:5 [GLY] | 0:2424 [U] | 3.92 | 0:2362 [A] | 96.9 | ||
Q:6 [PRO] | 0:2296 [C] | 3.97 | 0:2312 [G] | 19.2 | ||
Q:6 [PRO] | 0:2389 [U] | 4.6 | 0:2399 [G] | 19.2 | ||
Q:6 [PRO] | 0:2424 [U] | 3.39 | 0:2362 [A] | 19.2 | ||
Q:6 [PRO] | 0:2425 [A] | 4.1 | 19.2 | |||
Q:7 [LEU] | 0:2296 [C] | 3.31 | 0:2312 [G] | 69.8 | ||
Q:7 [LEU] | 0:2297 [U] | 3.28 | 0:2311 [A] | 69.8 | ||
Q:7 [LEU] | 0:2363 [G] | 3.72 | 0:2423 [C] | 69.8 | ||
Q:7 [LEU] | 0:2423 [C] | 3.46 | 0:2363 [G] | 69.8 | ||
Q:7 [LEU] | 0:2424 [U] | 3.31 | 0:2362 [A] | sugar:BB | 69.8 | |
Q:8 [GLU] | 0:2296 [C] | 3.24 | 0:2312 [G] | 65.0 | ||
Q:8 [GLU] | 0:2297 [U] | 3.51 | 0:2311 [A] | 65.0 | ||
Q:8 [GLU] | 0:2305 [A] | 4.32 | 65.0 | |||
Q:8 [GLU] | 0:2306 [U] | 4.59 | 0:2301 [A] | 65.0 | ||
Q:9 [GLY] | 0:2296 [C] | 4.85 | 0:2312 [G] | 58.1 | ||
Q:9 [GLY] | 0:2297 [U] | 3.0 | 0:2311 [A] | 58.1 | ||
Q:9 [GLY] | 0:2298 [C] | 4.35 | 0:2310 [G] | 58.1 | ||
Q:10 [THR] | 0:2297 [U] | 3.53 | 0:2311 [A] | 78.2 | ||
Q:11 [ARG] | 0:1007 [A] | 3.39 | 90.0 | |||
Q:11 [ARG] | 0:1008 [C] | 3.78 | 0:958 [G] | 90.0 | ||
Q:11 [ARG] | 0:1009 [U] | 4.55 | 0:957 [A] | 90.0 | ||
Q:11 [ARG] | 0:2297 [U] | 3.27 | 0:2311 [A] | sugar:SC | 90.0 | |
Q:11 [ARG] | 0:2298 [C] | 3.38 | 0:2310 [G] | 90.0 | ||
Q:11 [ARG] | 0:2363 [G] | 2.54 | 0:2423 [C] | 90.0 | ||
Q:11 [ARG] | 0:2364 [A] | 3.07 | 0:2422 [U] | 90.0 | ||
Q:12 [GLY] | 0:953 [G] | 3.83 | 38.6 | |||
Q:13 [LYS] | 0:952 [G] | 4.38 | 0:1015 [C] | 42.4 | ||
Q:13 [LYS] | 0:953 [G] | 3.67 | 42.4 | |||
Q:13 [LYS] | 0:2303 [A] | 4.17 | 42.4 | |||
Q:13 [LYS] | 0:2304 [G] | 2.91 | 42.4 | |||
Q:14 [LEU] | 0:2364 [A] | 2.83 | 0:2422 [U] | sugar:BB | 50.6 | |
Q:14 [LEU] | 0:2365 [G] | 3.95 | 0:2358 [U] | 50.6 | ||
Q:15 [LYS] | 0:1009 [U] | 3.54 | 0:957 [A] | 62.9 | ||
Q:15 [LYS] | 0:2364 [A] | 3.44 | 0:2422 [U] | 62.9 | ||
Q:15 [LYS] | 0:2365 [G] | 3.51 | 0:2358 [U] | 62.9 | ||
Q:16 [ASN] | 0:2364 [A] | 4.38 | 0:2422 [U] | 76.5 | ||
Q:16 [ASN] | 0:2365 [G] | 2.84 | 0:2358 [U] | 76.5 | ||
Q:16 [ASN] | 0:2366 [C] | 3.7 | 0:2357 [G] | 76.5 | ||
Q:17 [LYS] | 0:953 [G] | 3.96 | 13.6 | |||
Q:18 [PRO] | 0:1010 [C] | 3.78 | 0.8 | |||
Q:20 [ASP] | 0:2366 [C] | 4.73 | 0:2357 [G] | 40.6 | ||
Q:21 [ARG] | 0:2353 [A] | 3.22 | base:SC | 56.5 | ||
Q:21 [ARG] | 0:2354 [A] | 3.09 | 56.5 | |||
Q:21 [ARG] | 0:2366 [C] | 3.7 | 0:2357 [G] | 56.5 | ||
Q:22 [GLY] | 0:2366 [C] | 2.62 | 0:2357 [G] | 73.7 | ||
Q:22 [GLY] | 0:2367 [A] | 3.64 | 73.7 | |||
Q:23 [THR] | 0:2366 [C] | 3.62 | 0:2357 [G] | 62.1 | ||
Q:23 [THR] | 0:2367 [A] | 2.74 | 62.1 | |||
Q:38 [LYS] | 0:1019 [C] | 3.38 | 0:948 [G] | 58.7 | ||
Q:38 [LYS] | 0:1020 [A] | 3.86 | 0:947 [U] | 58.7 | ||
Q:40 [HIS] | 0:949 [U] | 2.85 | 0:1018 [A] | base:SC | 40.4 | |
Q:40 [HIS] | 0:950 [G] | 3.23 | 0:1017 [U] | 40.4 | ||
Q:40 [HIS] | 0:1018 [A] | 4.32 | 0:949 [U] | 40.4 | ||
Q:41 [LEU] | 0:951 [A] | 4.89 | 0:1016 [U] | 88.1 | ||
Q:42 [LYS] | 0:951 [A] | 3.33 | 0:1016 [U] | 27.6 | ||
Q:42 [LYS] | 0:952 [G] | 3.09 | 0:1015 [C] | 27.6 | ||
Q:45 [PRO] | 0:2365 [G] | 3.25 | 0:2358 [U] | sugar:BB | 68.1 | |
Q:46 [SER] | 0:2365 [G] | 3.54 | 0:2358 [U] | 76.5 | ||
Q:46 [SER] | 0:2366 [C] | 2.57 | 0:2357 [G] | 76.5 | ||
Q:46 [SER] | 0:2370 [A] | 2.77 | base:BB | 76.5 | ||
Q:47 [VAL] | 0:2370 [A] | 4.89 | 21.1 | |||
Q:48 [PRO] | 0:2365 [G] | 4.84 | 0:2358 [U] | 56.7 | ||
Q:48 [PRO] | 0:2370 [A] | 3.46 | 56.7 | |||
Q:48 [PRO] | 0:2422 [U] | 4.32 | 0:2364 [A] | 56.7 | ||
Q:49 [ASN] | 0:2402 [A] | 4.12 | 0:2386 [U] | 42.6 | ||
Q:49 [ASN] | 0:2403 [C] | 3.24 | 0:2385 [G] | 42.6 | ||
Q:49 [ASN] | 0:2418 [G] | 4.64 | 0:2409 [C] | 42.6 | ||
Q:50 [GLY] | 0:2402 [A] | 3.37 | 0:2386 [U] | 82.9 | ||
Q:50 [GLY] | 0:2403 [C] | 3.46 | 0:2385 [G] | 82.9 | ||
Q:51 [ARG] | 0:2402 [A] | 3.65 | 0:2386 [U] | sugar:BB | 58.6 | |
Q:53 [HIS] | 0:2388 [C] | 3.91 | 0:2400 [G] | 83.2 | ||
Q:53 [HIS] | 0:2389 [U] | 3.56 | 0:2399 [G] | 83.2 | ||
Q:55 [ARG] | 0:2304 [G] | 3.43 | 90.5 | |||
Q:55 [ARG] | 0:2305 [A] | 2.88 | 90.5 | |||
Q:55 [ARG] | 0:2389 [U] | 3.95 | 0:2399 [G] | 90.5 | ||
Q:55 [ARG] | 0:2390 [U] | 3.09 | 0:2398 [A] | 90.5 | ||
Q:55 [ARG] | 0:2392 [C] | 3.46 | 90.5 | |||
Q:56 [PHE] | 0:2388 [C] | 3.76 | 0:2400 [G] | 78.7 | ||
Q:56 [PHE] | 0:2389 [U] | 3.6 | 0:2399 [G] | 78.7 | ||
Q:57 [ASP] | 0:951 [A] | 3.87 | 0:1016 [U] | 75.3 | ||
Q:57 [ASP] | 0:952 [G] | 4.99 | 0:1015 [C] | 75.3 | ||
Q:57 [ASP] | 0:2303 [A] | 3.91 | sugar:BB | 75.3 | ||
Q:58 [GLY] | 0:950 [G] | 2.79 | 0:1017 [U] | base:BB | 91.7 | |
Q:58 [GLY] | 0:951 [A] | 3.42 | 0:1016 [U] | 91.7 | ||
Q:58 [GLY] | 0:1018 [A] | 3.58 | 0:949 [U] | 91.7 | ||
Q:59 [GLN] | 0:950 [G] | 4.96 | 0:1017 [U] | 61.2 | ||
Q:59 [GLN] | 0:1018 [A] | 3.04 | 0:949 [U] | 61.2 | ||
Q:60 [THR] | 0:950 [G] | 4.89 | 0:1017 [U] | 59.9 | ||
Q:60 [THR] | 0:1018 [A] | 2.73 | 0:949 [U] | base:SC, sugar:BB | 59.9 | |
Q:60 [THR] | 0:1019 [C] | 3.4 | 0:948 [G] | 59.9 | ||
Q:67 [GLN] | 0:2385 [G] | 3.34 | 0:2403 [C] | 78.6 | ||
Q:67 [GLN] | 0:2386 [U] | 2.86 | 0:2402 [A] | base:SC, sugar:SC | 78.6 | |
Q:67 [GLN] | 0:2402 [A] | 4.98 | 0:2386 [U] | 78.6 | ||
Q:67 [GLN] | 0:2403 [C] | 2.77 | 0:2385 [G] | base:SC, sugar:BB | 78.6 | |
Q:67 [GLN] | 0:2404 [G] | 3.36 | 0:2384 [U] | 78.6 | ||
Q:68 [GLY] | 0:2403 [C] | 4.6 | 0:2385 [G] | 98.7 | ||
Q:68 [GLY] | 0:2404 [G] | 3.44 | 0:2384 [U] | 98.7 | ||
Q:68 [GLY] | 0:2405 [C] | 4.65 | 0:2383 [G] | 98.7 | ||
Q:69 [ASP] | 0:2403 [C] | 4.46 | 0:2385 [G] | 55.4 | ||
Q:69 [ASP] | 0:2404 [G] | 2.64 | 0:2384 [U] | 55.4 | ||
Q:70 [ALA] | 0:2403 [C] | 3.59 | 0:2385 [G] | 82.7 | ||
Q:70 [ALA] | 0:2404 [G] | 3.71 | 0:2384 [U] | 82.7 | ||
Q:72 [LYS] | 0:2386 [U] | 4.46 | 0:2402 [A] | 52.0 | ||
Q:76 [VAL] | 0:1018 [A] | 4.73 | 0:949 [U] | 42.7 | ||
Q:76 [VAL] | 0:1019 [C] | 4.23 | 0:948 [G] | 42.7 | ||
Q:77 [ASP] | 0:2389 [U] | 4.48 | 0:2399 [G] | 63.8 | ||
Q:77 [ASP] | 0:2392 [C] | 2.79 | sugar:SC | 63.8 | ||
Q:77 [ASP] | 0:2393 [C] | 3.45 | 63.8 | |||
Q:78 [GLY] | 0:2393 [C] | 3.74 | 50.3 | |||
Q:78 [GLY] | 0:2394 [A] | 4.93 | 50.3 | |||
Q:79 [GLY] | 0:2393 [C] | 3.25 | 57.3 | |||
Q:79 [GLY] | 0:2394 [A] | 3.09 | 57.3 | |||
Q:80 [LYS] | 0:2393 [C] | 3.66 | 68.2 | |||
Q:80 [LYS] | 0:2394 [A] | 3.28 | 68.2 | |||
Q:80 [LYS] | 0:2395 [A] | 2.92 | 68.2 | |||
Q:81 [GLU] | 0:2388 [C] | 4.36 | 0:2400 [G] | 3.0 | ||
Q:82 [LYS] | 0:2387 [U] | 4.89 | 0:2401 [A] | 92.6 | ||
Q:82 [LYS] | 0:2388 [C] | 3.3 | 0:2400 [G] | 92.6 | ||
Q:82 [LYS] | 0:2389 [U] | 2.64 | 0:2399 [G] | 92.6 | ||
Q:82 [LYS] | 0:2392 [C] | 3.35 | 92.6 | |||
Q:82 [LYS] | 0:2393 [C] | 2.78 | 92.6 | |||
Q:83 [THR] | 0:2387 [U] | 2.53 | 0:2401 [A] | sugar:BB | 29.4 | |
Q:83 [THR] | 0:2388 [C] | 3.09 | 0:2400 [G] | 29.4 | ||
Q:84 [ILE] | 0:2387 [U] | 4.24 | 0:2401 [A] | 63.0 | ||
Q:85 [ILE] | 0:2386 [U] | 4.62 | 0:2402 [A] | 70.3 | ||
Q:85 [ILE] | 0:2387 [U] | 3.94 | 0:2401 [A] | 70.3 | ||
Q:85 [ILE] | 0:2402 [A] | 4.4 | 0:2386 [U] | 70.3 | ||
Q:85 [ILE] | 0:2403 [C] | 3.37 | 0:2385 [G] | 70.3 | ||
Q:87 [THR] | 0:2403 [C] | 4.6 | 0:2385 [G] | 48.9 | ||
Q:92 [ARG] | 0:950 [G] | 4.95 | 0:1017 [U] | 57.7 | ||
Q:93 [ARG] | 0:949 [U] | 4.18 | 0:1018 [A] | 39.7 | ||
Q:94 [GLN] | 0:948 [G] | 3.41 | 0:1019 [C] | 14.5 | ||
Q:94 [GLN] | 0:949 [U] | 3.09 | 0:1018 [A] | base:SC | 14.5 | |
Q:94 [GLN] | 0:1018 [A] | 4.57 | 0:949 [U] | 14.5 | ||
Q:94 [GLN] | 0:1019 [C] | 2.55 | 0:948 [G] | base:SC, sugar:SC | 14.5 | |
Q:94 [GLN] | 0:1020 [A] | 4.92 | 0:947 [U] | 14.5 | ||
Q:95 [GLU] | 0:948 [G] | 2.58 | 0:1019 [C] | base:SC, sugar:SC | 7.3 | |
Q:95 [GLU] | 0:949 [U] | 2.57 | 0:1018 [A] | sugar:BB | 7.3 |
*Conservation was calculated using Rate4Site
NB: conservation is missing (completly white) for a very small minority of cases in which no homologous sequences were found (e.g. synthetic proteins 7D3J_A & 7EU9_A)
Properties of this interface
Interolog group ID | Structure ID |
Structure description |
UniProt ID |
ECOD label(s) |
RFAM label(s) |
Is ribosome? | RCSB PDB link |
---|---|---|---|---|---|---|---|
group72 | 1VQ8_Q_0 | Q: 50s ribosomal protein l21e, Haloarcula marismortui (natural) 0: 23s ribosomal RNA, Haloarcula marismortui (natural) | P12734 | SH3 | Archaeal large subunit ribosomal RNA | ✔ |
Interologs
Total number of interologs for this interface: 3
Interface 1 | Interface 2 |
Percentage conservation |
Interface TM-score |
Interface RMSD |
Percentage identity |
Common ECOD label(s) |
Common RFAM label(s) |
Explore both interfaces |
---|---|---|---|---|---|---|---|---|
1VQ8_Q_0 | 7O7Y_BT_B5 | 0.67 | 0.94 | 1.91 | 0.22 | SH3 | compare | |
1VQ8_Q_0 | 1YHQ_Q_0 | 0.99 | 1.0 | 0.21 | 1.0 | SH3 | Archaeal large subunit ribosomal RNA | compare |
1VQ8_Q_0 | 6AZ3_S_2 | 0.70 | 0.78 | 1.53 | 0.23 | SH3 | compare |