RNAprotDB

All interfaces > All interologs > Interface groups > group140 > 4W5O_A_B,D

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 -

4W5O_A
4W5O_B,D
Distance
Base Pair
Hbond nuc:res
Base Stacking
Residue conservation
A:65 [LYS] B:16 [U] 4.52 2.28
A:65 [LYS] B:17 [C] 3.52 2.28
A:66 [CYS] B:17 [C] 3.76 0.83
A:67 [PRO] B:16 [U] 3.79 53.23
A:67 [PRO] B:17 [C] 3.43 53.23
A:68 [ARG] B:13 [A] 4.8 41.08
A:68 [ARG] B:14 [A] 2.49 41.08
A:68 [ARG] B:15 [G] 2.91 41.08
A:68 [ARG] B:16 [U] 3.95 41.08
A:70 [VAL] B:17 [C] 3.61 31.82
A:97 [ARG] B:13 [A] 4.92 59.03
A:97 [ARG] B:14 [A] 2.94 59.03
A:97 [ARG] B:15 [G] 3.97 59.03
A:176 [PRO] B:14 [A] 4.08 39.53
A:176 [PRO] B:15 [G] 4.45 39.53
A:177 [VAL] B:14 [A] 3.62 73.23
A:178 [GLY] B:13 [A] 3.74 79.55
A:178 [GLY] B:14 [A] 2.89 sugar:BB 79.55
A:179 [ARG] B:12 [C] 2.96 base:SC, base:SC, base:SC 79.89
A:179 [ARG] B:13 [A] 3.24 79.89
A:179 [ARG] B:14 [A] 4.97 79.89
A:221 [ALA] B:8 [U] 4.76 D:23 [A] 64.29
A:266 [LYS] B:16 [U] 4.81 59.91
A:269 [ILE] B:21 [U] 4.33 47.95
A:278 [LYS] B:17 [C] 4.9 35.8
A:279 [TYR] B:20 [U] 3.86 46.79
A:279 [TYR] B:21 [U] 4.42 46.79
A:280 [ARG] B:16 [U] 4.54 57.66
A:280 [ARG] B:17 [C] 3.14 57.66
A:294 [PHE] B:21 [U] 3.69 base/AA stacks 87.59
A:295 [PRO] B:21 [U] 4.51 40.28
A:296 [LEU] B:21 [U] 4.3 7.53
A:308 [VAL] B:21 [U] 4.18 95.57
A:311 [TYR] B:20 [U] 4.04 93.05
A:311 [TYR] B:21 [U] 3.4 93.05
A:312 [PHE] B:21 [U] 3.47 90.61
A:316 [HIS] B:21 [U] 3.05 82.53
A:332 [GLN] B:18 [U] 4.7 66.78
A:335 [LYS] B:20 [U] 4.92 67.45
A:336 [HIS] B:21 [U] 2.48 base:SC, sugar:BB 31.27
A:337 [THR] B:20 [U] 3.78 47.57
A:337 [THR] B:21 [U] 3.67 47.57
A:338 [TYR] B:21 [U] 2.76 sugar:BB 60.74
A:339 [LEU] B:21 [U] 3.85 63.75
A:351 [ARG] B:9 [G] 4.53 D:22 [C] 69.93
A:357 [THR] D:24 [A] 4.34 B:7 [U] 65.96
A:358 [ASP] D:24 [A] 3.02 B:7 [U] sugar:SC 48.93
A:358 [ASP] D:25 [U] 3.57 B:6 [A] 48.93
A:361 [THR] D:24 [A] 3.53 B:7 [U] sugar:SC 75.42
A:361 [THR] D:25 [U] 3.34 B:6 [A] 75.42
A:362 [SER] D:25 [U] 3.42 B:6 [A] 70.07
A:362 [SER] D:26 [G] 3.46 B:5 [C] 70.07
A:365 [ILE] B:6 [A] 4.97 D:25 [U] 84.72
A:365 [ILE] B:7 [U] 3.64 D:24 [A] 84.72
A:365 [ILE] D:25 [U] 3.48 B:6 [A] 84.72
A:365 [ILE] D:26 [G] 4.06 B:5 [C] 84.72
A:368 [THR] B:7 [U] 4.58 D:24 [A] 77.33
A:375 [ARG] B:7 [U] 4.24 D:24 [A] 96.4
A:434 [VAL] D:30 [A] 3.82 56.74
A:435 [TRP] D:30 [A] 4.5 88.04
A:436 [ASP] D:30 [A] 4.07 86.03
A:437 [MET] D:30 [A] 4.59 68.68
A:438 [ARG] D:30 [A] 3.11 base/AA stacks 58.88
A:438 [ARG] D:31 [A] 4.68 58.88
A:477 [ILE] D:30 [A] 4.08 42.96
A:522 [LEU] B:1 [U] 3.43 72.7
A:524 [GLY] B:1 [U] 2.83 base:BB 13.02
A:525 [LYS] B:1 [U] 3.46 47.04
A:525 [LYS] D:23 [A] 3.24 B:8 [U] 47.04
A:525 [LYS] D:24 [A] 2.9 B:7 [U] 47.04
A:526 [THR] B:1 [U] 3.0 base:BB 47.72
A:529 [TYR] B:1 [U] 2.63 base/AA stacks 91.07
A:533 [LYS] B:1 [U] 2.79 98.97
A:544 [THR] B:1 [U] 3.77 94.1
A:545 [GLN] B:1 [U] 2.9 98.49
A:545 [GLN] B:2 [U] 4.64 D:29 [A] 98.49
A:546 [CYS] B:1 [U] 2.92 89.54
A:546 [CYS] B:2 [U] 4.03 D:29 [A] 89.54
A:547 [VAL] B:1 [U] 3.92 79.85
A:547 [VAL] B:2 [U] 3.64 D:29 [A] 79.85
A:548 [GLN] B:1 [U] 2.94 sugar:SC 43.35
A:548 [GLN] B:2 [U] 2.96 D:29 [A] 43.35
A:551 [ASN] B:2 [U] 2.86 D:29 [A] 78.55
A:557 [PRO] D:30 [A] 3.95 34.87
A:558 [GLN] B:2 [U] 4.43 D:29 [A] 74.26
A:558 [GLN] D:29 [A] 2.83 B:2 [U] sugar:SC base/AA stacks 74.26
A:558 [GLN] D:30 [A] 3.42 74.26
A:559 [THR] B:2 [U] 3.35 D:29 [A] 75.06
A:559 [THR] D:29 [A] 4.38 B:2 [U] 75.06
A:561 [SER] D:30 [A] 2.92 base:SC 69.69
A:562 [ASN] B:2 [U] 2.9 D:29 [A] base:SC 98.89
A:562 [ASN] B:3 [C] 3.85 D:28 [G] 98.89
A:562 [ASN] D:29 [A] 3.71 B:2 [U] 98.89
A:563 [LEU] B:2 [U] 3.55 D:29 [A] 80.67
A:566 [LYS] B:1 [U] 2.76 98.84
A:566 [LYS] B:2 [U] 3.29 D:29 [A] 98.84
A:566 [LYS] B:3 [C] 2.73 D:28 [G] 98.84
A:570 [LYS] B:1 [U] 3.14 98.97
A:598 [VAL] B:10 [C] 3.88 95.06
A:599 [THR] B:10 [C] 3.49 81.06
A:600 [HIS] B:10 [C] 2.87 base:BB 98.71
A:600 [HIS] B:11 [C] 3.08 98.71
A:601 [PRO] B:10 [C] 3.21 84.64
A:601 [PRO] B:11 [C] 4.71 84.64
A:602 [PRO] B:9 [G] 3.44 D:22 [C] 67.28
A:602 [PRO] B:10 [C] 4.11 67.28
A:603 [ALA] B:9 [G] 3.12 D:22 [C] sugar:BB 67.56
A:603 [ALA] B:10 [C] 3.32 67.56
A:635 [ARG] B:10 [C] 3.71 77.72
A:635 [ARG] B:11 [C] 2.71 77.72
A:637 [GLU] B:11 [C] 3.09 sugar:SC 96.05
A:670 [GLY] B:11 [C] 4.12 98.14
A:671 [VAL] B:11 [C] 4.27 96.51
A:672 [SER] B:11 [C] 2.71 base:BB, base:SC 95.68
A:672 [SER] B:12 [C] 3.29 95.68
A:674 [GLY] B:12 [C] 3.86 89.14
A:675 [GLN] B:11 [C] 2.72 sugar:SC 91.28
A:675 [GLN] B:12 [C] 3.37 91.28
A:709 [LYS] B:5 [C] 4.81 D:26 [G] 98.97
A:709 [LYS] B:6 [A] 2.66 D:25 [U] 98.97
A:710 [ARG] B:8 [U] 3.51 D:23 [A] 95.33
A:710 [ARG] B:9 [G] 2.92 D:22 [C] base:SC, base:SC 95.33
A:710 [ARG] B:10 [C] 3.73 95.33
A:710 [ARG] D:22 [C] 4.62 B:9 [G] 95.33
A:714 [ARG] B:7 [U] 4.17 D:24 [A] 96.78
A:726 [LYS] D:27 [U] 3.25 B:4 [A] 77.44
A:726 [LYS] D:28 [G] 3.21 B:3 [C] 77.44
A:753 [HIS] B:5 [C] 3.21 D:26 [G] 93.61
A:753 [HIS] B:6 [A] 2.91 D:25 [U] 93.61
A:754 [ALA] B:5 [C] 3.96 D:26 [G] 65.74
A:755 [GLY] B:5 [C] 4.01 D:26 [G] 85.55
A:756 [ILE] B:4 [A] 4.55 D:27 [U] 83.41
A:756 [ILE] B:5 [C] 3.1 D:26 [G] sugar:BB 83.41
A:756 [ILE] D:27 [U] 3.42 B:4 [A] 83.41
A:756 [ILE] D:28 [G] 3.96 B:3 [C] 83.41
A:757 [GLN] B:5 [C] 3.64 D:26 [G] 84.26
A:757 [GLN] B:6 [A] 3.1 D:25 [U] sugar:SC 84.26
A:757 [GLN] D:26 [G] 3.36 B:5 [C] base:SC 84.26
A:757 [GLN] D:27 [U] 3.8 B:4 [A] 84.26
A:758 [GLY] B:6 [A] 4.19 D:25 [U] 98.57
A:759 [THR] B:6 [A] 3.48 D:25 [U] 99.0
A:759 [THR] B:7 [U] 4.36 D:24 [A] 99.0
A:760 [SER] B:5 [C] 4.88 D:26 [G] 93.86
A:760 [SER] B:6 [A] 3.42 D:25 [U] 93.86
A:761 [ARG] B:6 [A] 2.78 D:25 [U] 90.83
A:761 [ARG] B:7 [U] 2.78 D:24 [A] 90.83
A:761 [ARG] B:8 [U] 2.83 D:23 [A] 90.83
A:790 [TYR] B:3 [C] 4.44 D:28 [G] 80.45
A:790 [TYR] B:4 [A] 2.62 D:27 [U] 80.45
A:792 [ARG] B:3 [C] 3.42 D:28 [G] 95.78
A:792 [ARG] B:4 [A] 2.97 D:27 [U] 95.78
A:793 [CYS] B:3 [C] 3.2 D:28 [G] 85.68
A:793 [CYS] B:4 [A] 3.75 D:27 [U] 85.68
A:795 [ARG] B:4 [A] 3.11 D:27 [U] sugar:SC 91.55
A:797 [VAL] B:4 [A] 3.84 D:27 [U] 95.36
A:797 [VAL] B:5 [C] 3.81 D:26 [G] 95.36
A:798 [SER] B:4 [A] 4.75 D:27 [U] 98.81
A:798 [SER] B:5 [C] 2.7 D:26 [G] 98.81
A:798 [SER] B:6 [A] 4.55 D:25 [U] 98.81
A:799 [ILE] B:5 [C] 4.9 D:26 [G] 80.28
A:804 [TYR] B:4 [A] 3.53 D:27 [U] 81.36
A:804 [TYR] B:5 [C] 2.64 D:26 [G] 81.36
A:811 [PHE] B:10 [C] 4.17 31.43
A:811 [PHE] D:22 [C] 3.21 B:9 [G] base/AA stacks 31.43
A:812 [ARG] B:1 [U] 3.46 95.52
A:815 [TYR] B:1 [U] 3.98 0.91
A:815 [TYR] D:22 [C] 3.39 B:9 [G] 0.91
A:815 [TYR] D:23 [A] 2.77 B:8 [U] 0.91
A:859 [ALA] B:1 [U] 4.03 69.55
A:859 [ALA] B:3 [C] 4.46 D:28 [G] 69.55

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
group140 4W5O_A_B,D A: Protein argonaute-2, Homo sapiens (genetically engineered) B: Synthetic construct (synthetic) D: Synthetic construct (synthetic) Q9UKV8 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs ✘

Interologs

Total number of interologs for this interface: 18

Interface 1 Interface 2 Percentage conservation
 		Interface TM-score
 		Interface RMSD
 		Percentage identity
 		Common ECOD label(s)
 		Common RFAM label(s)
 		Explore both interfaces
4W5O_A_B,D 6OZS_A_C,D 0.44 0.61 2.76 0.15 Ribonuclease H-like compare
4W5O_A_B,D 6OZP_A_C,D 0.57 0.61 2.77 0.15 Ribonuclease H-like compare
4W5O_A_B,D 6OZP_B_C,D 0.48 0.63 2.71 0.1 Ribonuclease H-like compare
4W5O_A_B,D 6OZS_B_C,D 0.49 0.63 2.78 0.14 Ribonuclease H-like compare
4W5O_A_B,D 5AWH_A_C 0.59 0.71 3.99 0.16 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 6D92_A_C 0.59 0.71 4.07 0.11 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 5I4A_A_B 0.39 0.78 2.71 0.03 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4KXT_A_B 4W5O_A_B,D 0.87 0.91 3.12 0.17 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 compare
4OLA_A_B 4W5O_A_B,D 0.92 0.92 3.08 0.2 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 5JS1_A_B 0.88 0.92 3.24 0.4 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 6MFN_A_C,E 0.85 0.92 1.55 0.76 Ribonuclease H-like & Argonaute, N-terminal domain & Middle domain in Argonaute homologs compare
4KRF_A_R 4W5O_A_B,D 0.86 0.92 2.36 0.25 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4F3T_A_R 4W5O_A_B,D 0.68 0.92 3.24 0.14 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4KRE_A_R 4W5O_A_B,D 0.84 0.94 2.22 0.09 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 6OON_A_B 0.90 0.96 1.89 0.33 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 4W5T_A_B,D 0.94 0.99 0.26 0.92 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 4Z4D_A_B,D 0.96 1.0 0.12 0.96 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare
4W5O_A_B,D 6CBD_A_B,C 0.99 1.0 0.36 0.97 Ribonuclease H-like & Argonaute, N-terminal domain & SH3 & Middle domain in Argonaute homologs compare