RNAprotDB

All interfaces > All interologs > Interface groups > group15 > 4Y4O_1y_1a

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 -

4Y4O_1y
4Y4O_1a
Distance
Base Pair
Hbond nuc:res
Base Stacking
Residue conservation
1y:2 [THR] 1a:1229 [A] 3.19 1a:952 [U] sugar:SC 73.37
1y:2 [THR] 1a:1230 [C] 4.08 1a:951 [G] 73.37
1y:3 [MET] 1a:1229 [A] 4.95 1a:952 [U] 81.12
1y:4 [ASN] 1a:953 [G] 4.22 1a:1228 [C] 44.21
1y:4 [ASN] 1a:1229 [A] 2.93 1a:952 [U] base:SC, sugar:SC, sugar:SC 44.21
1y:4 [ASN] 1a:1230 [C] 3.51 1a:951 [G] 44.21
1y:5 [ILE] 1a:953 [G] 2.69 1a:1228 [C] sugar:BB 90.87
1y:5 [ILE] 1a:954 [G] 3.42 1a:1226 [C] 90.87
1y:6 [THR] 1a:953 [G] 3.57 1a:1228 [C] 89.65
1y:6 [THR] 1a:954 [G] 3.62 1a:1226 [C] 89.65
1y:6 [THR] 1a:965 [A] 3.46 89.65
1y:7 [SER] 1a:953 [G] 4.27 1a:1228 [C] 66.87
1y:7 [SER] 1a:954 [G] 2.77 1a:1226 [C] 66.87
1y:8 [LYS] 1a:964 [A] 3.16 74.27
1y:8 [LYS] 1a:965 [A] 2.78 74.27
1y:9 [GLN] 1a:963 [G] 3.75 1a:972 [C] 77.07
1y:9 [GLN] 1a:964 [A] 3.53 77.07
1y:11 [GLU] 1a:955 [U] 4.66 1a:1225 [A] 56.66
1y:14 [PRO] 1a:955 [U] 4.13 1a:1225 [A] 38.67
1y:17 [ARG] 1a:953 [G] 4.71 1a:1228 [C] 87.23
1y:17 [ARG] 1a:954 [G] 3.01 1a:1226 [C] 87.23
1y:17 [ARG] 1a:955 [U] 4.03 1a:1225 [A] 87.23
1y:23 [ARG] 1a:1494 [G] 3.57 1a:1407 [5MC] 68.71
1y:23 [ARG] 1a:1495 [U] 2.75 1a:1406 [U] 68.71
1y:26 [LYS] 1a:1495 [U] 3.95 1a:1406 [U] 82.13
1y:26 [LYS] 1a:1496 [C] 3.11 1a:1405 [G] 82.13
1y:29 [LYS] 1a:790 [A] 3.35 71.74
1y:29 [LYS] 1a:1497 [G] 3.33 1a:1404 [5MC] 71.74
1y:30 [TRP] 1a:790 [A] 3.22 base/AA stacks 40.06
1y:31 [GLN] 1a:790 [A] 3.32 sugar:SC 9.66
1y:33 [HIS] 1a:1338 [G] 3.93 44.09
1y:33 [HIS] 1a:1339 [A] 2.67 1a:944 [G] sugar:SC 44.09
1y:35 [ILE] 1a:1339 [A] 4.13 1a:944 [G] 63.66
1y:35 [ILE] 1a:1340 [A] 3.77 1a:943 [U] 63.66
1y:36 [ASN] 1a:1230 [C] 3.53 1a:951 [G] 59.0
1y:36 [ASN] 1a:1231 [G] 3.92 1a:950 [U] 59.0
1y:38 [HIS] 1a:965 [A] 3.94 71.66
1y:38 [HIS] 1a:969 [A] 3.64 71.66
1y:40 [ILE] 1a:965 [A] 3.51 52.95
1y:45 [PRO] 1a:530 [G] 3.8 43.17
1y:45 [PRO] 1a:531 [U] 4.54 43.17
1y:45 [PRO] 1a:1054 [C] 3.71 43.17
1y:46 [GLN] 1a:530 [G] 3.24 base:SC 15.27
1y:46 [GLN] 1a:1054 [C] 2.59 base:SC 15.27
1y:51 [ASP] 1a:965 [A] 4.77 88.04
1y:51 [ASP] 1a:966 [M2G] 4.05 88.04
1y:53 [THR] 1a:966 [M2G] 3.4 65.9
1y:55 [ASN] 1a:1340 [A] 3.09 1a:943 [U] 33.89
1y:55 [ASN] 1a:1341 [U] 3.59 1a:942 [G] 33.89
1y:56 [THR] 1a:1340 [A] 4.53 1a:943 [U] 29.39
1y:56 [THR] 1a:1341 [U] 4.64 1a:942 [G] 29.39
1y:57 [PRO] 1a:1339 [A] 4.09 1a:944 [G] 46.29
1y:57 [PRO] 1a:1340 [A] 3.28 1a:943 [U] 46.29
1y:60 [VAL] 1a:966 [M2G] 4.74 10.75
1y:62 [VAL] 1a:966 [M2G] 3.67 53.07
1y:62 [VAL] 1a:1400 [5MC] 3.0 53.07
1y:63 [ALA] 1a:1400 [5MC] 3.44 90.3
1y:64 [SER] 1a:1400 [5MC] 3.02 base:BB 37.51
1y:67 [HIS] 1a:1493 [A] 3.8 55.12
1y:68 [GLU] 1a:530 [G] 4.39 42.09
1y:69 [ASP] 1a:1493 [A] 4.83 90.75
1y:72 [THR] 1a:1493 [A] 3.55 36.0
1y:72 [THR] 1a:1494 [G] 4.08 1a:1407 [5MC] 36.0
1y:75 [ASN] 1a:1493 [A] 4.77 86.9
1y:75 [ASN] 1a:1494 [G] 3.74 1a:1407 [5MC] 86.9
1y:79 [ASN] 1a:1498 [UR3] 4.58 70.14
1y:80 [LYS] 1a:1400 [5MC] 3.31 89.04
1y:80 [LYS] 1a:1401 [G] 2.7 1a:1501 [C] 89.04
1y:83 [ARG] 1a:1399 [C] 4.12 1a:1504 [G] 85.21
1y:83 [ARG] 1a:1400 [5MC] 3.98 85.21
1y:83 [ARG] 1a:1401 [G] 2.31 1a:1501 [C] base:SC, base:SC 85.21
1y:83 [ARG] 1a:1402 [4OC] 3.32 1a:1500 [A] 85.21
1y:83 [ARG] 1a:1501 [C] 4.67 1a:1401 [G] 85.21
1y:83 [ARG] 1a:1504 [G] 4.05 1a:1399 [C] 85.21
1y:84 [GLN] 1a:1400 [5MC] 3.09 sugar:SC 99.0
1y:86 [ASN] 1a:790 [A] 3.06 base:SC 56.45
1y:86 [ASN] 1a:791 [G] 4.72 56.45
1y:86 [ASN] 1a:1498 [UR3] 4.4 56.45
1y:87 [LYS] 1a:926 [G] 3.23 83.3
1y:87 [LYS] 1a:1399 [C] 4.59 1a:1504 [G] 83.3
1y:87 [LYS] 1a:1400 [5MC] 3.68 83.3
1y:89 [GLN] 1a:789 [U] 4.96 75.12
1y:89 [GLN] 1a:790 [A] 3.69 75.12
1y:90 [HIS] 1a:789 [U] 3.21 66.37
1y:90 [HIS] 1a:790 [A] 3.05 base:SC 66.37
1y:90 [HIS] 1a:791 [G] 3.82 66.37
1y:90 [HIS] 1a:926 [G] 3.62 66.37
1y:91 [LYS] 1a:926 [G] 3.46 93.03
1y:91 [LYS] 1a:1383 [C] 4.19 93.03
1y:93 [GLU] 1a:788 [U] 4.46 1a:795 [C] 24.95
1y:93 [GLU] 1a:789 [U] 3.36 24.95
1y:94 [ALA] 1a:926 [G] 3.03 36.99
1y:94 [ALA] 1a:1505 [G] 3.18 1a:1502 [A] 36.99
1y:95 [ARG] 1a:926 [G] 3.63 69.63
1y:95 [ARG] 1a:927 [G] 3.47 1a:1390 [U] 69.63
1y:95 [ARG] 1a:928 [G] 3.87 1a:1389 [C] 69.63
1y:95 [ARG] 1a:1503 [A] 3.87 69.63
1y:96 [ARG] 1a:693 [G] 2.77 base/AA stacks 77.99
1y:96 [ARG] 1a:788 [U] 3.16 1a:795 [C] sugar:SC 77.99
1y:96 [ARG] 1a:789 [U] 2.71 77.99
1y:97 [ALA] 1a:693 [G] 4.29 65.21
1y:98 [ALA] 1a:693 [G] 4.39 54.93

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
group15 4Y4O_1y_1a 1y: Ribosome-associated inhibitor a, Escherichia coli (strain k12) (genetically engineered) 1a: 16s ribosomal RNA, Thermus thermophilus hb8 (natural) P0AD49 Ribosome binding protein Y (YfiA homologue) Bacterial small subunit ribosomal RNA ✘

Interologs

Total number of interologs for this interface: 1

Interface 1 Interface 2 Percentage conservation
 		Interface TM-score
 		Interface RMSD
 		Percentage identity
 		Common ECOD label(s)
 		Common RFAM label(s)
 		Explore both interfaces
4Y4O_1y_1a 6S0X_v_a 0.32 0.95 3.3 0.16 Ribosome binding protein Y (YfiA homologue) Bacterial small subunit ribosomal RNA compare