RNAprotDB

All interfaces > All interologs > Interface groups > group116 > 1VQ8_D_9

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 -

1VQ8_D
1VQ8_9
Distance
Base Pair
Hbond nuc:res
Base Stacking
Residue conservation
D:10 [PHE] 9:3054 [A] 4.69 9:3028 [U] 29.21
D:10 [PHE] 9:3055 [U] 4.71 9:3027 [C] 29.21
D:10 [PHE] 9:3056 [A] 3.47 29.21
D:12 [GLU] 9:3053 [G] 2.81 9:3029 [C] sugar:SC 13.34
D:12 [GLU] 9:3054 [A] 3.55 9:3028 [U] 13.34
D:13 [MET] 9:3029 [C] 3.18 9:3053 [G] 81.06
D:13 [MET] 9:3030 [C] 4.11 9:3050 [G] 81.06
D:13 [MET] 9:3053 [G] 3.18 9:3029 [C] 81.06
D:13 [MET] 9:3054 [A] 3.9 9:3028 [U] 81.06
D:13 [MET] 9:3056 [A] 3.12 81.06
D:14 [ARG] 9:3056 [A] 3.13 53.71
D:17 [ARG] 9:3030 [C] 3.22 9:3050 [G] 43.48
D:17 [ARG] 9:3031 [C] 4.68 9:3049 [G] 43.48
D:19 [GLU] 9:3044 [A] 4.98 9:3039 [U] 60.01
D:47 [GLN] 9:3041 [C] 3.29 67.01
D:47 [GLN] 9:3042 [C] 3.32 67.01
D:48 [MET] 9:3041 [C] 2.97 sugar:BB 63.65
D:49 [PRO] 9:3041 [C] 3.88 78.88
D:50 [VAL] 9:3040 [C] 4.64 68.73
D:50 [VAL] 9:3041 [C] 2.91 68.73
D:51 [ARG] 9:3040 [C] 3.23 6.85
D:52 [THR] 9:3040 [C] 4.51 84.96
D:53 [LYS] 9:3040 [C] 3.11 0.03
D:72 [LYS] 9:3041 [C] 3.81 62.65
D:73 [VAL] 9:3041 [C] 3.67 85.97
D:74 [THR] 9:3041 [C] 2.87 base:BB, base:SC, base:SC 99.0
D:74 [THR] 9:3042 [C] 3.22 99.0
D:75 [LEU] 9:3042 [C] 4.68 84.5
D:76 [ARG] 9:3042 [C] 2.43 base:SC 98.97
D:76 [ARG] 9:3044 [A] 2.55 9:3039 [U] base/AA stacks 98.97
D:77 [ASP] 9:3044 [A] 3.27 9:3039 [U] 57.82
D:137 [PRO] 9:3029 [C] 3.57 9:3053 [G] 64.27
D:137 [PRO] 9:3030 [C] 2.55 9:3050 [G] 64.27
D:137 [PRO] 9:3056 [A] 4.77 64.27
D:138 [GLY] 9:3029 [C] 3.01 9:3053 [G] 98.58
D:138 [GLY] 9:3030 [C] 3.97 9:3050 [G] 98.58
D:138 [GLY] 9:3056 [A] 4.28 98.58
D:138 [GLY] 9:3057 [A] 4.15 98.58
D:139 [TYR] 9:3029 [C] 4.56 9:3053 [G] 27.15
D:139 [TYR] 9:3030 [C] 4.54 9:3050 [G] 27.15
D:140 [ARG] 9:3029 [C] 2.85 9:3053 [G] 98.06
D:140 [ARG] 9:3030 [C] 3.57 9:3050 [G] 98.06
D:140 [ARG] 9:3044 [A] 4.75 9:3039 [U] 98.06
D:140 [ARG] 9:3045 [A] 2.62 9:3038 [A] 98.06
D:140 [ARG] 9:3046 [C] 2.79 98.06
D:141 [VAL] 9:3029 [C] 4.09 9:3053 [G] 80.72
D:141 [VAL] 9:3057 [A] 3.28 80.72
D:141 [VAL] 9:3058 [G] 3.6 80.72
D:143 [LYS] 9:3044 [A] 4.09 9:3039 [U] 42.7
D:143 [LYS] 9:3045 [A] 3.26 9:3038 [A] 42.7
D:143 [LYS] 9:3046 [C] 5.0 42.7
D:144 [ARG] 9:3028 [U] 3.06 9:3054 [A] 98.01
D:144 [ARG] 9:3029 [C] 3.03 9:3053 [G] 98.01
D:144 [ARG] 9:3045 [A] 3.8 9:3038 [A] 98.01
D:144 [ARG] 9:3046 [C] 3.63 98.01
D:144 [ARG] 9:3058 [G] 3.16 sugar:SC 98.01
D:145 [ASP] 9:3045 [A] 3.99 9:3038 [A] 57.42
D:145 [ASP] 9:3046 [C] 2.88 57.42
D:146 [LYS] 9:3046 [C] 4.64 35.38
D:146 [LYS] 9:3047 [A] 4.97 9:3033 [U] 35.38
D:147 [ALA] 9:3058 [G] 4.37 25.25
D:149 [ARG] 9:3058 [G] 3.7 42.16
D:149 [ARG] 9:3059 [C] 3.45 9:3021 [G] 42.16
D:151 [ILE] 9:3057 [A] 4.16 69.29
D:152 [PRO] 9:3057 [A] 3.03 61.62
D:152 [PRO] 9:3058 [G] 3.36 61.62
D:153 [THR] 9:3017 [G] 3.59 9:3063 [C] 7.48
D:154 [LYS] 9:3016 [G] 4.68 9:3064 [C] 29.79
D:154 [LYS] 9:3017 [G] 2.81 9:3063 [C] 29.79
D:154 [LYS] 9:3018 [U] 3.62 9:3062 [A] 29.79
D:155 [HIS] 9:3056 [A] 2.89 sugar:SC 79.95
D:155 [HIS] 9:3057 [A] 3.51 79.95

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
group116 1VQ8_D_9 D: 50s ribosomal protein l5p, Haloarcula marismortui (natural) 9: 5s ribosomal RNA, Haloarcula marismortui (natural) P14124 Ribosomal protein L5 5S 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
1VQ8_D_9 7O7Y_BJ_B7 0.75 0.92 0.93 0.39 Ribosomal protein L5 5S ribosomal RNA compare
1VQ8_D_9 4Y4O_1G_1B 0.78 0.81 1.52 0.33 Ribosomal protein L5 5S ribosomal RNA compare
1VQ8_D_9 6AZ3_D_8 0.78 0.91 1.24 0.4 Ribosomal protein L5 5S ribosomal RNA compare
1VQ8_D_9 7ASM_F_B 0.52 0.78 1.79 0.45 Ribosomal protein L5 5S ribosomal RNA compare
1VQ8_D_9 6S0Z_F_B 0.87 0.79 1.51 0.47 Ribosomal protein L5 5S ribosomal RNA compare
1VQ8_D_9 7RYG_F_B 0.81 0.76 1.39 0.59 Ribosomal protein L5 5S ribosomal RNA compare