Interface analysis
Style
Protein
CartoonLicorice
Surface
RNA
CartoonLicorice
Surface
Color
ChainChain (with hetatm)
Chainbow
Hydrophobicity Electrostatics (surface only) Conservation*
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InterfaceRNA
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Interface
show as licoriceshow Accessibility
Rim - Core
Contacts -
| 5DO4_H
|
5DO4_A
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
|---|---|---|---|---|---|---|
| H:87 [HIS] | A:7 [A] | 2.83 | 93.5 | |||
| H:89 [ARG] | A:8 [A] | 3.69 | A:21 [UMS] | 36.68 | ||
| H:97 [ASP] | A:9 [A] | 4.98 | A:20 [UFT] | 53.81 | ||
| H:98 [ARG] | A:8 [A] | 2.74 | A:21 [UMS] | 79.61 | ||
| H:98 [ARG] | A:9 [A] | 3.61 | A:20 [UFT] | 79.61 | ||
| H:127 [ALA] | A:16 [G] | 4.98 | A:11 [CFZ] | 25.0 | ||
| H:130 [LEU] | A:16 [G] | 4.95 | A:11 [CFZ] | 12.33 | ||
| H:131 [GLN] | A:14 [A] | 3.92 | sugar:SC | 21.01 | ||
| H:131 [GLN] | A:16 [G] | 3.07 | A:11 [CFZ] | 21.01 | ||
| H:132 [ALA] | A:14 [A] | 3.62 | 63.04 | |||
| H:132 [ALA] | A:15 [A] | 4.84 | A:12 [UMS] | 63.04 | ||
| H:133 [GLY] | A:14 [A] | 4.93 | 65.98 | |||
| H:168 [VAL] | A:15 [A] | 4.74 | A:12 [UMS] | 50.58 | ||
| H:169 [GLU] | A:14 [A] | 3.7 | 49.77 | |||
| H:169 [GLU] | A:15 [A] | 3.35 | A:12 [UMS] | 49.77 | ||
| H:170 [ARG] | A:13 [G] | 3.72 | 18.28 | |||
| H:170 [ARG] | A:14 [A] | 4.95 | 18.28 | |||
| H:170 [ARG] | A:15 [A] | 2.85 | A:12 [UMS] | base/AA stacks | 18.28 | |
| H:171 [PRO] | A:13 [G] | 3.42 | 40.3 | |||
| H:171 [PRO] | A:15 [A] | 3.3 | A:12 [UMS] | 40.3 | ||
| H:174 [LYS] | A:13 [G] | 3.01 | base:SC | 32.67 | ||
| H:180 [ARG] | A:10 [G] | 4.95 | A:19 [CFZ] | 4.44 | ||
| H:183 [ASP] | A:7 [A] | 4.73 | 64.0 | |||
| H:183 [ASP] | A:10 [G] | 3.98 | A:19 [CFZ] | 64.0 | ||
| H:183 [ASP] | A:15 [A] | 2.91 | A:12 [UMS] | base:BB | 64.0 | |
| H:183 [ASP] | A:16 [G] | 4.64 | A:11 [CFZ] | 64.0 | ||
| H:184 [ASN] | A:7 [A] | 2.64 | sugar:SC | 65.04 | ||
| H:184 [ASN] | A:8 [A] | 3.27 | A:21 [UMS] | 65.04 | ||
| H:185 [MET] | A:15 [A] | 4.77 | A:12 [UMS] | 65.84 | ||
| H:242 [HIS] | A:15 [A] | 3.8 | A:12 [UMS] | 68.28 | ||
| H:245 [ARG] | A:7 [A] | 3.33 | base/AA stacks | 40.79 | ||
| H:245 [ARG] | A:15 [A] | 3.17 | A:12 [UMS] | base/AA stacks | 40.79 | |
| H:245 [ARG] | A:16 [G] | 3.0 | A:11 [CFZ] | base:SC | 40.79 | |
| H:246 [LEU] | A:7 [A] | 3.25 | 76.0 | |||
| H:246 [LEU] | A:8 [A] | 4.31 | A:21 [UMS] | 76.0 | ||
| H:247 [LYS] | A:7 [A] | 4.06 | 39.63 | |||
| H:248 [LYS] | A:5 [A] | 2.72 | A:22 [A] | 61.88 | ||
| H:248 [LYS] | A:7 [A] | 3.71 | 61.88 | |||
| H:249 [TRP] | A:7 [A] | 3.13 | 87.02 | |||
| H:252 [LYS] | A:5 [A] | 4.97 | A:22 [A] | 61.05 |
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 |
|---|---|---|---|---|---|---|---|
| group6 | 5DO4_H_A | H: Thrombin heavy chain, Homo sapiens (natural) A: RNA (25-mer), Unidentified (synthetic) | P00734 | FMN-binding split barrel 2 | ✘ |
|
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 |
|---|---|---|---|---|---|---|---|---|
| 3DD2_H_B | 5DO4_H_A | 0.99 | 0.99 | 0.16 | 0.95 | compare |