RNAprotDB

All interfaces > All interologs > Interface groups > group120 > 7O7Y_Bp_B5

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 -

7O7Y_Bp
7O7Y_B5
Distance
Base Pair
Hbond nuc:res
Base Stacking
Residue conservation
Bp:2 [ALA] B5:1512 [C] 4.89 B5:1525 [G] 53.01
Bp:2 [ALA] B5:1524 [U] 3.46 B5:1513 [A] 53.01
Bp:2 [ALA] B5:1525 [G] 2.9 B5:1512 [C] base:BB, base:BB 53.01
Bp:2 [ALA] B5:1526 [G] 4.09 B5:1511 [C] 53.01
Bp:3 [LYS] B5:1522 [U] 2.8 B5:1515 [A] 42.71
Bp:3 [LYS] B5:1523 [C] 3.2 B5:1514 [G] 42.71
Bp:3 [LYS] B5:1524 [U] 4.54 B5:1513 [A] 42.71
Bp:4 [ARG] B5:1508 [A] 3.19 B5:1529 [G] 63.37
Bp:4 [ARG] B5:1509 [A] 2.5 B5:1528 [G] 63.37
Bp:4 [ARG] B5:1510 [G] 2.7 B5:1527 [U] base:SC, base:SC 63.37
Bp:4 [ARG] B5:1511 [C] 3.28 B5:1526 [G] 63.37
Bp:4 [ARG] B5:1526 [G] 3.97 B5:1511 [C] base:SC 63.37
Bp:4 [ARG] B5:1527 [U] 3.52 B5:1510 [G] base:SC 63.37
Bp:4 [ARG] B5:1528 [G] 3.3 B5:1509 [A] base/AA stacks 63.37
Bp:4 [ARG] B5:2719 [OMG] 4.66 B5:2716 [U] 63.37
Bp:5 [THR] B5:1508 [A] 3.49 B5:1529 [G] 77.31
Bp:5 [THR] B5:1509 [A] 2.32 B5:1528 [G] 77.31
Bp:5 [THR] B5:2719 [OMG] 3.56 B5:2716 [U] 77.31
Bp:6 [LYS] B5:2718 [C] 3.3 77.43
Bp:6 [LYS] B5:2719 [OMG] 2.66 B5:2716 [U] 77.43
Bp:7 [LYS] B5:2718 [C] 3.86 85.59
Bp:7 [LYS] B5:2719 [OMG] 2.6 B5:2716 [U] 85.59
Bp:8 [VAL] B5:2718 [C] 3.59 65.99
Bp:8 [VAL] B5:2719 [OMG] 2.99 B5:2716 [U] 65.99
Bp:9 [GLY] B5:1508 [A] 2.41 B5:1529 [G] sugar:BB 65.19
Bp:9 [GLY] B5:1509 [A] 3.42 B5:1528 [G] 65.19
Bp:10 [ILE] B5:1508 [A] 3.14 B5:1529 [G] 69.48
Bp:10 [ILE] B5:1509 [A] 3.67 B5:1528 [G] 69.48
Bp:11 [VAL] B5:1508 [A] 4.2 B5:1529 [G] 65.12
Bp:12 [GLY] B5:1508 [A] 3.24 B5:1529 [G] sugar:BB 63.7
Bp:12 [GLY] B5:1530 [A] 4.12 B5:1507 [G] 63.7
Bp:12 [GLY] B5:2719 [OMG] 4.13 B5:2716 [U] 63.7
Bp:13 [LYS] B5:1508 [A] 3.69 B5:1529 [G] 80.07
Bp:13 [LYS] B5:1530 [A] 3.27 B5:1507 [G] 80.07
Bp:13 [LYS] B5:1531 [G] 3.24 B5:1506 [C] sugar:BB 80.07
Bp:13 [LYS] B5:1532 [G] 4.55 B5:3368 [C] 80.07
Bp:13 [LYS] B5:2581 [C] 4.28 B5:2585 [G] 80.07
Bp:14 [TYR] B5:1531 [G] 4.92 B5:1506 [C] 54.83
Bp:14 [TYR] B5:1532 [G] 3.64 B5:3368 [C] 54.83
Bp:15 [GLY] B5:2719 [OMG] 3.08 B5:2716 [U] 87.32
Bp:16 [THR] B5:2717 [U] 4.6 B5:3424 [A] 73.75
Bp:16 [THR] B5:2719 [OMG] 3.47 B5:2716 [U] 73.75
Bp:16 [THR] B5:2720 [G] 3.29 B5:2715 [C] 73.75
Bp:16 [THR] B5:3367 [A] 4.31 B5:3556 [A] 73.75
Bp:16 [THR] B5:3556 [A] 3.19 B5:3367 [A] 73.75
Bp:16 [THR] B5:3557 [A2M] 3.33 sugar:SC 73.75
Bp:17 [ARG] B5:1531 [G] 3.27 B5:1506 [C] 90.92
Bp:17 [ARG] B5:1532 [G] 2.74 B5:3368 [C] 90.92
Bp:17 [ARG] B5:1533 [U] 3.48 B5:1505 [G] 90.92
Bp:17 [ARG] B5:3367 [A] 3.56 B5:3556 [A] 90.92
Bp:17 [ARG] B5:3368 [C] 3.76 B5:1532 [G] 90.92
Bp:18 [TYR] B5:1532 [G] 2.58 B5:3368 [C] 90.58
Bp:18 [TYR] B5:3367 [A] 3.03 B5:3556 [A] base:BB 90.58
Bp:18 [TYR] B5:3368 [C] 4.13 B5:1532 [G] 90.58
Bp:18 [TYR] B5:3424 [A] 3.35 B5:2717 [U] 90.58
Bp:18 [TYR] B5:3425 [U] 4.16 B5:3554 [PSU] 90.58
Bp:19 [GLY] B5:2717 [U] 3.42 B5:3424 [A] 99.0
Bp:19 [GLY] B5:3367 [A] 4.64 B5:3556 [A] 99.0
Bp:19 [GLY] B5:3424 [A] 3.53 B5:2717 [U] 99.0
Bp:19 [GLY] B5:3425 [U] 3.55 B5:3554 [PSU] 99.0
Bp:20 [ALA] B5:2717 [U] 3.4 B5:3424 [A] 66.7
Bp:20 [ALA] B5:2718 [C] 4.14 66.7
Bp:20 [ALA] B5:3425 [U] 3.16 B5:3554 [PSU] sugar:BB 66.7
Bp:21 [SER] B5:3425 [U] 2.97 B5:3554 [PSU] sugar:BB 52.33
Bp:21 [SER] B5:3426 [U] 2.66 B5:3553 [A] 52.33
Bp:22 [LEU] B5:3385 [A] 4.01 B5:3423 [G] 53.4
Bp:22 [LEU] B5:3386 [G] 3.95 B5:3422 [U] 53.4
Bp:22 [LEU] B5:3424 [A] 3.43 B5:2717 [U] 53.4
Bp:22 [LEU] B5:3425 [U] 4.15 B5:3554 [PSU] 53.4
Bp:23 [ARG] B5:2717 [U] 3.07 B5:3424 [A] 93.36
Bp:23 [ARG] B5:2718 [C] 2.67 93.36
Bp:23 [ARG] B5:2719 [OMG] 4.0 B5:2716 [U] 93.36
Bp:30 [GLU] B5:2581 [C] 4.16 B5:2585 [G] 52.84
Bp:33 [GLN] B5:2581 [C] 4.25 B5:2585 [G] 47.51
Bp:33 [GLN] B5:2582 [C] 3.15 47.51
Bp:34 [HIS] B5:2580 [C] 3.1 B5:2445 [G] 60.09
Bp:34 [HIS] B5:2581 [C] 2.57 B5:2585 [G] 60.09
Bp:36 [LYS] B5:2513 [C] 4.3 B5:2507 [G] 32.29
Bp:36 [LYS] B5:2579 [G] 4.14 B5:2446 [C] 32.29
Bp:41 [PHE] B5:2517 [A] 2.85 base:BB 7.31
Bp:42 [CYS] B5:2517 [A] 3.46 93.78
Bp:43 [GLY] B5:2517 [A] 4.93 41.26
Bp:44 [LYS] B5:2515 [C] 2.61 B5:2505 [G] 53.92
Bp:44 [LYS] B5:2516 [G] 3.61 53.92
Bp:44 [LYS] B5:2517 [A] 3.52 sugar:SC 53.92
Bp:46 [LYS] B5:2513 [C] 3.98 B5:2507 [G] 58.78
Bp:46 [LYS] B5:2514 [C] 2.89 B5:2506 [G] 58.78
Bp:48 [LYS] B5:2579 [G] 3.85 B5:2446 [C] 59.83
Bp:48 [LYS] B5:2580 [C] 4.79 B5:2445 [G] 59.83
Bp:49 [ARG] B5:2581 [C] 4.61 B5:2585 [G] 97.47
Bp:49 [ARG] B5:2582 [C] 2.8 97.47
Bp:49 [ARG] B5:2584 [U] 3.99 base:SC 97.47
Bp:50 [ARG] B5:2581 [C] 4.73 B5:2585 [G] 7.63
Bp:50 [ARG] B5:2584 [U] 3.24 base:BB 7.63
Bp:51 [ALA] B5:2584 [U] 3.68 81.15
Bp:52 [VAL] B5:2582 [C] 3.96 63.99
Bp:52 [VAL] B5:2583 [U] 4.35 63.99
Bp:52 [VAL] B5:2584 [U] 4.59 63.99
Bp:58 [GLY] B5:2495 [G] 2.47 base:BB 42.94
Bp:59 [SER] B5:2495 [G] 2.68 base:BB 74.62
Bp:59 [SER] B5:2515 [C] 4.67 B5:2505 [G] 74.62
Bp:60 [CYS] B5:2495 [G] 4.8 98.8
Bp:60 [CYS] B5:2517 [A] 4.78 98.8
Bp:60 [CYS] B5:3849 [G] 4.4 98.8
Bp:61 [MET] B5:2495 [G] 3.53 40.04
Bp:61 [MET] B5:3849 [G] 3.17 base:BB 40.04
Bp:62 [LYS] B5:3849 [G] 3.35 17.01
Bp:63 [THR] B5:3849 [G] 4.99 57.68
Bp:69 [TRP] B5:2582 [C] 3.38 76.1

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
group120 7O7Y_Bp_B5 Bp: El43, Oryctolagus cuniculus (natural) B5: 28s rRNA, Oryctolagus cuniculus (natural) G1SY53 Rubredoxin-related Eukaryotic large subunit ribosomal RNA ✔

Interologs

Total number of interologs for this interface: 8

Interface 1 Interface 2 Percentage conservation
 		Interface TM-score
 		Interface RMSD
 		Percentage identity
 		Common ECOD label(s)
 		Common RFAM label(s)
 		Explore both interfaces
6AZ3_o_3 7O7Y_Bp_B5 0.68 0.92 1.02 0.23 Rubredoxin-related compare
4V9F_Z_0 7O7Y_Bp_B5 0.76 0.94 1.93 0.39 Rubredoxin-related compare
1S72_Z_0 7O7Y_Bp_B5 0.76 0.94 1.95 0.36 Rubredoxin-related compare
1JJ2_Y_0 7O7Y_Bp_B5 0.78 0.94 2.04 0.47 Rubredoxin-related compare
1YHQ_Z_0 7O7Y_Bp_B5 0.76 0.94 1.97 0.36 Rubredoxin-related compare
1VQ8_Z_0 7O7Y_Bp_B5 0.75 0.94 1.95 0.37 Rubredoxin-related compare
3CC2_Z_0 7O7Y_Bp_B5 0.76 0.94 1.95 0.36 Rubredoxin-related compare
6AZ3_o_1,2 7O7Y_Bp_B5 0.95 0.92 0.76 0.57 Rubredoxin-related Eukaryotic large subunit ribosomal RNA compare