Interface analysis
Style
Protein
CartoonLicorice
Surface
RNA
CartoonLicorice
Surface
Color
ChainChain (with hetatm)
Chainbow
Hydrophobicity Electrostatics (surface only) Conservation*
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InterfaceRNA
Protein
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Interface
show as licoriceshow Accessibility
Rim - Core
Contacts -
3ZD7_A
|
3ZD7_C,D
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
---|---|---|---|---|---|---|
A:298 [ASN] | D:18 [C] | 3.59 | C:3 [G] | sugar:BB | 79.86 | |
A:298 [ASN] | D:19 [G] | 3.42 | C:2 [C] | 79.86 | ||
A:299 [GLN] | D:18 [C] | 4.01 | C:3 [G] | 79.33 | ||
A:299 [GLN] | D:19 [G] | 3.67 | C:2 [C] | 79.33 | ||
A:300 [ILE] | D:18 [C] | 4.72 | C:3 [G] | 80.6 | ||
A:300 [ILE] | D:19 [G] | 2.79 | C:2 [C] | 80.6 | ||
A:300 [ILE] | D:20 [C] | 3.44 | C:1 [G] | 80.6 | ||
A:301 [PRO] | D:19 [G] | 3.92 | C:2 [C] | 72.64 | ||
A:325 [SER] | D:20 [C] | 3.64 | C:1 [G] | 82.34 | ||
A:326 [GLY] | D:20 [C] | 2.7 | C:1 [G] | 88.95 | ||
A:327 [ALA] | D:20 [C] | 4.94 | C:1 [G] | 58.15 | ||
A:347 [THR] | D:19 [G] | 3.63 | C:2 [C] | 98.65 | ||
A:347 [THR] | D:20 [C] | 2.85 | C:1 [G] | 98.65 | ||
A:349 [GLN] | C:3 [G] | 4.81 | D:18 [C] | 90.7 | ||
A:349 [GLN] | D:19 [G] | 3.33 | C:2 [C] | 90.7 | ||
A:349 [GLN] | D:20 [C] | 3.61 | C:1 [G] | 90.7 | ||
A:350 [ILE] | D:20 [C] | 3.94 | C:1 [G] | 89.53 | ||
A:353 [ASN] | D:20 [C] | 3.2 | C:1 [G] | sugar:SC | 93.7 | |
A:376 [ASN] | C:5 [G] | 4.48 | D:16 [C] | 94.4 | ||
A:378 [SER] | C:5 [G] | 4.77 | D:16 [C] | 55.48 | ||
A:379 [LYS] | C:4 [C] | 3.64 | D:17 [G] | 75.6 | ||
A:379 [LYS] | C:5 [G] | 2.14 | D:16 [C] | 75.6 | ||
A:379 [LYS] | C:6 [C] | 3.11 | D:15 [G] | 75.6 | ||
A:380 [GLN] | C:4 [C] | 3.51 | D:17 [G] | 57.35 | ||
A:380 [GLN] | C:5 [G] | 3.39 | D:16 [C] | 57.35 | ||
A:381 [HIS] | C:4 [C] | 3.54 | D:17 [G] | 79.66 | ||
A:381 [HIS] | C:5 [G] | 4.3 | D:16 [C] | 79.66 | ||
A:382 [PRO] | C:4 [C] | 3.71 | D:17 [G] | 85.08 | ||
A:498 [GLN] | D:13 [G] | 4.81 | C:8 [C] | 13.81 | ||
A:499 [SER] | C:9 [G] | 4.75 | D:12 [C] | 43.37 | ||
A:508 [LYS] | C:9 [G] | 2.99 | D:12 [C] | 27.62 | ||
A:508 [LYS] | C:10 [C] | 3.0 | D:11 [G] | 27.62 | ||
A:511 [GLN] | D:14 [C] | 3.21 | C:7 [G] | 81.4 | ||
A:514 [VAL] | D:14 [C] | 4.18 | C:7 [G] | 77.43 | ||
A:514 [VAL] | D:15 [G] | 4.59 | C:6 [C] | 77.43 | ||
A:515 [THR] | D:13 [G] | 4.0 | C:8 [C] | 21.04 | ||
A:515 [THR] | D:14 [C] | 4.16 | C:7 [G] | 21.04 | ||
A:750 [LYS] | C:8 [C] | 4.24 | D:13 [G] | 81.53 | ||
A:829 [CYS] | C:1 [G] | 4.05 | D:20 [C] | 61.61 | ||
A:829 [CYS] | C:2 [C] | 3.12 | D:19 [G] | 61.61 | ||
A:830 [HIS] | C:1 [G] | 3.01 | D:20 [C] | sugar:SC | 86.88 | |
A:830 [HIS] | C:2 [C] | 3.67 | D:19 [G] | 86.88 | ||
A:831 [TYR] | C:1 [G] | 4.59 | D:20 [C] | 87.4 | ||
A:853 [PHE] | C:1 [G] | 3.23 | D:20 [C] | base/AA stacks | 2.39 | |
A:853 [PHE] | D:20 [C] | 3.28 | C:1 [G] | base/AA stacks | 2.39 | |
A:854 [SER] | D:20 [C] | 3.13 | C:1 [G] | sugar:SC | 46.46 | |
A:856 [PHE] | C:1 [G] | 4.49 | D:20 [C] | 24.97 | ||
A:858 [LYS] | C:1 [G] | 4.95 | D:20 [C] | 46.64 | ||
A:874 [GLY] | C:1 [G] | 3.74 | D:20 [C] | 96.29 | ||
A:875 [ILE] | C:1 [G] | 3.36 | D:20 [C] | 66.81 | ||
A:886 [VAL] | C:1 [G] | 3.45 | D:20 [C] | 67.53 | ||
A:887 [ILE] | C:1 [G] | 3.8 | D:20 [C] | 69.73 | ||
A:887 [ILE] | C:2 [C] | 4.58 | D:19 [G] | 69.73 | ||
A:888 [LYS] | C:1 [G] | 3.3 | D:20 [C] | 78.4 | ||
A:888 [LYS] | C:2 [C] | 3.47 | D:19 [G] | 78.4 | ||
A:889 [ILE] | C:2 [C] | 4.19 | D:19 [G] | 89.15 | ||
A:890 [GLU] | C:1 [G] | 4.66 | D:20 [C] | 34.81 | ||
A:890 [GLU] | C:2 [C] | 3.92 | D:19 [G] | 34.81 | ||
A:904 [LEU] | D:13 [G] | 4.91 | C:8 [C] | 28.03 | ||
A:906 [SER] | C:2 [C] | 4.84 | D:19 [G] | 74.93 | ||
A:906 [SER] | D:13 [G] | 4.56 | C:8 [C] | 74.93 | ||
A:907 [LYS] | C:3 [G] | 4.87 | D:18 [C] | 82.37 | ||
A:908 [TRP] | C:1 [G] | 4.65 | D:20 [C] | 96.12 | ||
A:908 [TRP] | C:2 [C] | 3.52 | D:19 [G] | 96.12 | ||
A:909 [LYS] | C:3 [G] | 4.48 | D:18 [C] | 73.93 | ||
A:910 [ASP] | D:12 [C] | 4.66 | C:9 [G] | 61.69 |
*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 |
---|---|---|---|---|---|---|---|
group135 | 3ZD7_A_C,D | A: Probable atp-dependent RNA helicase ddx58, Homo sapiens (natural) C: RNA duplex, Synthetic construct (synthetic) D: RNA duplex, Synthetic construct (synthetic) | O95786 | P-loop containing nucleoside triphosphate hydrolases & Helical bundle in Hef helicase & Mss4-like | ✘ |
Interologs
Total number of interologs for this interface: 5
Interface 1 | Interface 2 |
Percentage conservation |
Interface TM-score |
Interface RMSD |
Percentage identity |
Common ECOD label(s) |
Common RFAM label(s) |
Explore both interfaces |
---|---|---|---|---|---|---|---|---|
3OG8_A_C,D | 3ZD7_A_C,D | 0.81 | 0.8 | 0.61 | 0.3 | Mss4-like | compare | |
2YKG_A_C,D | 3ZD7_A_C,D | 0.82 | 0.91 | 2.9 | 0.73 | P-loop containing nucleoside triphosphate hydrolases & Helical bundle in Hef helicase & Mss4-like | compare | |
3ZD7_A_C,D | 5JB2_A_X,Y | 0.39 | 0.73 | 3.99 | 0.31 | P-loop containing nucleoside triphosphate hydrolases & Helical bundle in Hef helicase & Mss4-like | compare | |
3ZD7_A_C,D | 5JAJ_A_X,Y | 0.39 | 0.71 | 4.22 | 0.31 | P-loop containing nucleoside triphosphate hydrolases & Helical bundle in Hef helicase & Mss4-like | compare | |
3ZD7_A_C,D | 5JBG_A_X | 0.37 | 0.71 | 4.53 | 0.34 | P-loop containing nucleoside triphosphate hydrolases & Helical bundle in Hef helicase & Mss4-like | compare |