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 -
| 1JID_A
|
1JID_B
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
|---|---|---|---|---|---|---|
| A:13 [ASP] | B:148 [G] | 3.54 | 57.35 | |||
| A:14 [ARG] | B:147 [G] | 3.98 | 65.69 | |||
| A:14 [ARG] | B:148 [G] | 3.03 | base/AA stacks | 65.69 | ||
| A:15 [PHE] | B:148 [G] | 3.07 | sugar:BB | 39.43 | ||
| A:15 [PHE] | B:149 [A] | 4.98 | 39.43 | |||
| A:16 [ILE] | B:148 [G] | 3.45 | 54.6 | |||
| A:16 [ILE] | B:149 [A] | 3.53 | 54.6 | |||
| A:17 [CYS] | B:148 [G] | 3.59 | 68.99 | |||
| A:17 [CYS] | B:149 [A] | 2.92 | 68.99 | |||
| A:19 [TYR] | B:149 [A] | 2.69 | sugar:SC | 90.17 | ||
| A:19 [TYR] | B:150 [G] | 3.7 | 90.17 | |||
| A:22 [TYR] | B:149 [A] | 3.62 | 95.08 | |||
| A:22 [TYR] | B:150 [G] | 2.56 | 95.08 | |||
| A:27 [LYS] | B:141 [C] | 4.15 | B:156 [G] | 66.13 | ||
| A:28 [THR] | B:140 [C] | 4.0 | B:157 [A] | 81.74 | ||
| A:28 [THR] | B:141 [C] | 3.23 | B:156 [G] | 81.74 | ||
| A:29 [ILE] | B:141 [C] | 3.05 | B:156 [G] | 55.96 | ||
| A:29 [ILE] | B:142 [5BU] | 2.57 | B:155 [G] | 55.96 | ||
| A:30 [ALA] | B:140 [C] | 3.76 | B:157 [A] | 49.29 | ||
| A:30 [ALA] | B:141 [C] | 4.58 | B:156 [G] | 49.29 | ||
| A:33 [ARG] | B:141 [C] | 2.94 | B:156 [G] | 99.0 | ||
| A:33 [ARG] | B:142 [5BU] | 2.8 | B:155 [G] | 99.0 | ||
| A:34 [ARG] | B:150 [G] | 3.52 | 83.73 | |||
| A:34 [ARG] | B:151 [C] | 3.55 | B:146 [G] | 83.73 | ||
| A:35 [ILE] | B:142 [5BU] | 4.86 | B:155 [G] | 78.89 | ||
| A:35 [ILE] | B:143 [C] | 4.96 | B:154 [G] | 78.89 | ||
| A:36 [PRO] | B:142 [5BU] | 3.34 | B:155 [G] | 49.9 | ||
| A:36 [PRO] | B:143 [C] | 3.32 | B:154 [G] | 49.9 | ||
| A:37 [ILE] | B:141 [C] | 4.07 | B:156 [G] | 54.56 | ||
| A:37 [ILE] | B:142 [5BU] | 2.82 | B:155 [G] | 54.56 | ||
| A:38 [SER] | B:142 [5BU] | 4.63 | B:155 [G] | 33.47 | ||
| A:39 [LYS] | B:143 [C] | 4.4 | B:154 [G] | 3.34 | ||
| A:68 [TYR] | B:150 [G] | 3.37 | 84.86 | |||
| A:68 [TYR] | B:151 [C] | 4.65 | B:146 [G] | 84.86 | ||
| A:69 [SER] | B:150 [G] | 3.66 | 86.36 | |||
| A:70 [ARG] | B:150 [G] | 4.6 | 83.49 | |||
| A:70 [ARG] | B:151 [C] | 2.82 | B:146 [G] | 83.49 | ||
| A:81 [ARG] | B:149 [A] | 3.59 | 98.42 | |||
| A:83 [ARG] | B:148 [G] | 3.25 | 80.57 | |||
| A:101 [ARG] | B:147 [G] | 3.18 | base/AA stacks | 79.92 | ||
| A:101 [ARG] | B:148 [G] | 3.04 | 79.92 | |||
| A:101 [ARG] | B:149 [A] | 2.84 | 79.92 | |||
| A:102 [LYS] | B:144 [C] | 4.05 | B:153 [G] | 49.76 |
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 |
|---|---|---|---|---|---|---|---|
| group35 | 1JID_A_B | A: Signal recognition particle 19 kda protein, Homo sapiens (genetically engineered) B: Helix 6 of human srp RNA | P09132 | Putative DNA-binding domain | ✘ |
|
Interologs
Total number of interologs for this interface: 2
| Interface 1 | Interface 2 |
Percentage conservation |
Interface TM-score |
Interface RMSD |
Percentage identity |
Common ECOD label(s) |
Common RFAM label(s) |
Explore both interfaces |
|---|---|---|---|---|---|---|---|---|
| 1JID_A_B | 2V3C_A_M | 0.64 | 0.7 | 0.97 | 0.24 | Putative DNA-binding domain | compare | |
| 1JID_A_B | 1LNG_A_B | 0.67 | 0.7 | 0.97 | 0.24 | Putative DNA-binding domain | compare |