RNAprotDB

All interfaces > All interologs > Interface groups > group105 > 1YHQ_2_0

Interface analysis

mouse controls

Style

Protein

Cartoon
Licorice
Surface

RNA

Cartoon
Licorice
Surface

Color

Chain
Chain (with hetatm)
Chainbow
Hydrophobicity
Electrostatics (surface only)
Conservation*

View

Focus on

Interface
RNA
Protein
All

Show chains

Interface

show as licorice
show Accessibility
Rim - Core

Contacts -

1YHQ_2
1YHQ_0
Distance
Base Pair
Hbond nuc:res
Base Stacking
Residue conservation
2:1 [GLY] 0:1414 [A] 2.77 0:1681 [G] 67.67
2:1 [GLY] 0:1415 [G] 2.87 0:1680 [C] base:BB 67.67
2:1 [GLY] 0:1417 [G] 4.91 67.67
2:1 [GLY] 0:1681 [G] 4.97 0:1414 [A] 67.67
2:2 [LYS] 0:1413 [A] 3.58 60.44
2:2 [LYS] 0:1414 [A] 3.02 0:1681 [G] 60.44
2:2 [LYS] 0:1415 [G] 4.4 0:1680 [C] 60.44
2:2 [LYS] 0:1452 [G] 4.88 0:1675 [C] 60.44
2:2 [LYS] 0:1486 [A] 3.39 sugar:SC 60.44
2:2 [LYS] 0:1676 [G] 4.26 0:1451 [C] 60.44
2:3 [LYS] 0:1417 [G] 3.79 86.15
2:3 [LYS] 0:1418 [U] 4.15 0:1446 [U] 86.15
2:3 [LYS] 0:1486 [A] 4.97 86.15
2:3 [LYS] 0:1675 [C] 4.59 0:1452 [G] 86.15
2:3 [LYS] 0:1676 [G] 3.28 0:1451 [C] 86.15
2:3 [LYS] 0:1677 [U] 3.12 0:1448 [A] 86.15
2:4 [SER] 0:121 [U] 4.42 59.07
2:4 [SER] 0:1675 [C] 4.58 0:1452 [G] 59.07
2:4 [SER] 0:1676 [G] 4.47 0:1451 [C] 59.07
2:5 [LYS] 0:122 [C] 3.55 0:118 [G] 0.4
2:5 [LYS] 0:123 [U] 2.87 0:117 [A] 0.4
2:5 [LYS] 0:1674 [C] 4.59 0:1453 [G] 0.4
2:5 [LYS] 0:1675 [C] 3.18 0:1452 [G] 0.4
2:5 [LYS] 0:1676 [G] 3.88 0:1451 [C] 0.4
2:6 [ALA] 0:121 [U] 3.4 12.84
2:6 [ALA] 0:122 [C] 3.51 0:118 [G] 12.84
2:7 [THR] 0:120 [A] 3.51 36.0
2:7 [THR] 0:121 [U] 4.56 36.0
2:8 [LYS] 0:1676 [G] 3.21 0:1451 [C] 98.82
2:8 [LYS] 0:1677 [U] 2.4 0:1448 [A] 98.82
2:9 [LYS] 0:53 [C] 4.34 0:66 [G] 7.63
2:9 [LYS] 0:54 [G] 4.78 0:65 [C] 7.63
2:9 [LYS] 0:122 [C] 3.11 0:118 [G] 7.63
2:10 [ARG] 0:52 [A] 4.59 0:109 [U] 85.29
2:10 [ARG] 0:53 [C] 3.73 0:66 [G] 85.29
2:10 [ARG] 0:120 [A] 3.73 85.29
2:10 [ARG] 0:121 [U] 2.31 85.29
2:11 [LEU] 0:1417 [G] 3.51 82.38
2:11 [LEU] 0:1418 [U] 4.86 0:1446 [U] 82.38
2:13 [LYS] 0:53 [C] 3.52 0:66 [G] 62.33
2:13 [LYS] 0:54 [G] 2.72 0:65 [C] 62.33
2:15 [ASP] 0:1418 [U] 3.96 0:1446 [U] 0.0
2:16 [ASN] 0:60 [A] 3.43 0:86 [A] 59.53
2:17 [GLN] 0:60 [A] 3.47 0:86 [A] sugar:BB 55.22
2:17 [GLN] 0:61 [G] 2.9 0:85 [C] 55.22
2:19 [SER] 0:60 [A] 2.91 0:86 [A] sugar:SC 59.58
2:19 [SER] 0:1442 [A] 4.11 0:1422 [U] 59.58
2:20 [ARG] 0:60 [A] 3.83 0:86 [A] 66.22
2:20 [ARG] 0:1441 [G] 4.32 0:1423 [C] 66.22
2:20 [ARG] 0:1442 [A] 3.8 0:1422 [U] 66.22
2:21 [VAL] 0:60 [A] 4.03 0:86 [A] 80.55
2:22 [PRO] 0:59 [A] 4.19 99.0
2:22 [PRO] 0:60 [A] 3.54 0:86 [A] 99.0
2:24 [TRP] 0:58 [C] 3.45 0:88 [G] base/AA stacks 87.42
2:24 [TRP] 0:59 [A] 3.69 87.42
2:24 [TRP] 0:60 [A] 4.91 0:86 [A] 87.42
2:24 [TRP] 0:86 [A] 4.29 0:60 [A] 87.42
2:24 [TRP] 0:88 [G] 3.19 0:58 [C] base/AA stacks 87.42
2:25 [VAL] 0:60 [A] 3.46 0:86 [A] 82.12
2:25 [VAL] 0:86 [A] 3.34 0:60 [A] 82.12
2:27 [LEU] 0:87 [C] 3.6 sugar:BB 45.51
2:27 [LEU] 0:88 [G] 3.42 0:58 [C] 45.51
2:28 [LYS] 0:59 [A] 4.91 75.79
2:28 [LYS] 0:84 [G] 4.87 0:62 [C] 75.79
2:28 [LYS] 0:85 [C] 4.94 0:61 [G] 75.79
2:28 [LYS] 0:86 [A] 3.46 0:60 [A] 75.79
2:28 [LYS] 0:87 [C] 3.09 sugar:BB 75.79
2:28 [LYS] 0:88 [G] 3.38 0:58 [C] 75.79
2:29 [THR] 0:86 [A] 3.37 0:60 [A] 95.17
2:29 [THR] 0:87 [C] 4.88 95.17
2:30 [ASP] 0:87 [C] 2.9 sugar:SC 38.14
2:31 [ARG] 0:513 [A] 2.92 sugar:SC base/AA stacks 75.44
2:35 [ARG] 0:462 [A] 4.43 37.05
2:35 [ARG] 0:514 [G] 3.11 37.05
2:36 [ASN] 0:60 [A] 2.85 0:86 [A] sugar:SC 83.89
2:37 [HIS] 0:462 [A] 3.14 base/AA stacks 53.79
2:37 [HIS] 0:465 [U] 4.99 0:476 [A] 53.79
2:37 [HIS] 0:466 [A] 3.36 0:475 [G] 53.79
2:38 [LYS] 0:61 [G] 4.0 0:85 [C] 55.25
2:38 [LYS] 0:62 [C] 3.76 0:84 [G] 55.25
2:38 [LYS] 0:465 [U] 3.8 0:476 [A] 55.25
2:38 [LYS] 0:466 [A] 3.24 0:475 [G] 55.25
2:39 [ARG] 0:467 [G] 4.92 0:474 [C] 67.91
2:39 [ARG] 0:1441 [G] 4.69 0:1423 [C] 67.91
2:40 [ARG] 0:1417 [G] 4.23 97.44
2:40 [ARG] 0:1418 [U] 2.91 0:1446 [U] 97.44
2:41 [HIS] 0:1418 [U] 4.66 0:1446 [U] 64.37
2:41 [HIS] 0:1438 [G] 4.7 64.37
2:41 [HIS] 0:1439 [C] 2.94 0:1425 [G] 64.37
2:41 [HIS] 0:1440 [U] 4.3 0:1424 [A] 64.37
2:42 [TRP] 0:1416 [G] 3.95 0:1679 [C] 94.39
2:42 [TRP] 0:1417 [G] 3.62 94.39
2:42 [TRP] 0:1418 [U] 3.07 0:1446 [U] 94.39
2:42 [TRP] 0:1419 [U] 3.43 0:1678 [A] 94.39
2:42 [TRP] 0:1438 [G] 4.02 94.39
2:42 [TRP] 0:1439 [C] 2.87 0:1425 [G] 94.39
2:42 [TRP] 0:1685 [A] 3.19 94.39
2:42 [TRP] 0:1686 [C] 3.89 0:1695 [G] 94.39
2:43 [ARG] 0:1438 [G] 3.54 95.43
2:43 [ARG] 0:1684 [A] 2.83 base:SC, sugar:SC 95.43
2:43 [ARG] 0:1685 [A] 3.69 95.43
2:43 [ARG] 0:1686 [C] 4.25 0:1695 [G] 95.43
2:43 [ARG] 0:1691 [A] 3.11 95.43
2:44 [ARG] 0:1690 [C] 3.92 73.23
2:44 [ARG] 0:1691 [A] 3.28 73.23
2:45 [ASN] 0:467 [G] 3.22 0:474 [C] 54.87
2:45 [ASN] 0:1416 [G] 4.93 0:1679 [C] 54.87
2:45 [ASN] 0:1417 [G] 3.47 54.87
2:46 [ASP] 0:1417 [G] 3.32 72.58
2:46 [ASP] 0:1687 [C] 4.36 0:1694 [G] 72.58
2:47 [THR] 0:1417 [G] 2.79 81.14
2:48 [ASP] 0:1417 [G] 4.89 71.28
2:49 [GLU] 0:120 [A] 3.47 80.15
2:49 [GLU] 0:1416 [G] 3.79 0:1679 [C] 80.15

logo_download Export the table of contacts

*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
group105 1YHQ_2_0 2: 50s ribosomal protein l39e, Haloarcula marismortui (natural) 0: 23s ribosomal RNA, Haloarcula marismortui (natural) P22452 Ribosomal protein L39e Archaeal large subunit ribosomal RNA ✔

Interologs

Total number of interologs for this interface: 6

Interface 1 Interface 2 Percentage conservation
 		Interface TM-score
 		Interface RMSD
 		Percentage identity
 		Common ECOD label(s)
 		Common RFAM label(s)
 		Explore both interfaces
1YHQ_2_0 6AZ3_l_7 0.79 0.72 1.34 0.42 Ribosomal protein L39e compare
1YHQ_2_0 6AZ3_l_1,2 0.73 0.79 1.93 0.38 Ribosomal protein L39e compare
1YHQ_2_0 7O7Y_Bl_B5 0.76 0.94 2.21 0.38 Ribosomal protein L39e compare
1YHQ_2_0 7O7Y_Bl_B8 0.72 0.75 1.32 0.36 Ribosomal protein L39e compare
1JJ2_1_0 1YHQ_2_0 0.99 1.0 0.29 0.95 Ribosomal protein L39e Archaeal large subunit ribosomal RNA compare
1VQ8_2_0 1YHQ_2_0 0.99 1.0 0.33 0.98 Ribosomal protein L39e Archaeal large subunit ribosomal RNA compare