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 -
| 1LNG_A
|
1LNG_B
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
|---|---|---|---|---|---|---|
| A:1 [MET] | B:164 [U] | 2.69 | base:BB | 10.14 | ||
| A:1 [MET] | B:165 [A] | 3.53 | B:212 [A] | 10.14 | ||
| A:2 [ILE] | B:164 [U] | 4.16 | 73.18 | |||
| A:2 [ILE] | B:165 [A] | 2.86 | B:212 [A] | 73.18 | ||
| A:4 [TRP] | B:165 [A] | 3.22 | B:212 [A] | sugar:SC | 82.1 | |
| A:4 [TRP] | B:166 [G] | 3.48 | B:163 [G] | 82.1 | ||
| A:4 [TRP] | B:208 [C] | 4.14 | B:213 [G] | 82.1 | ||
| A:7 [TYR] | B:163 [G] | 4.35 | B:166 [G] | 93.21 | ||
| A:7 [TYR] | B:165 [A] | 3.57 | B:212 [A] | 93.21 | ||
| A:7 [TYR] | B:166 [G] | 2.32 | B:163 [G] | 93.21 | ||
| A:12 [LYS] | B:158 [C] | 4.34 | B:171 [G] | 43.49 | ||
| A:13 [SER] | B:157 [U] | 3.26 | B:172 [A] | 81.79 | ||
| A:13 [SER] | B:158 [C] | 3.24 | B:171 [G] | 81.79 | ||
| A:14 [ARG] | B:158 [C] | 2.95 | B:171 [G] | 79.86 | ||
| A:14 [ARG] | B:159 [U] | 3.01 | B:170 [A] | base/AA stacks | 79.86 | |
| A:14 [ARG] | B:160 [C] | 2.79 | B:169 [G] | 79.86 | ||
| A:15 [ARG] | B:156 [A] | 3.64 | B:173 [U] | 42.45 | ||
| A:15 [ARG] | B:157 [U] | 3.22 | B:172 [A] | 42.45 | ||
| A:15 [ARG] | B:158 [C] | 4.59 | B:171 [G] | 42.45 | ||
| A:15 [ARG] | B:215 [G] | 4.03 | B:206 [C] | 42.45 | ||
| A:15 [ARG] | B:216 [A] | 2.66 | B:205 [G] | 42.45 | ||
| A:18 [ARG] | B:158 [C] | 3.61 | B:171 [G] | 99.0 | ||
| A:18 [ARG] | B:159 [U] | 2.7 | B:170 [A] | 99.0 | ||
| A:19 [LYS] | B:160 [C] | 4.57 | B:169 [G] | 82.29 | ||
| A:19 [LYS] | B:162 [U] | 3.42 | B:167 [G] | base:SC | 82.29 | |
| A:19 [LYS] | B:163 [G] | 3.28 | B:166 [G] | 82.29 | ||
| A:19 [LYS] | B:167 [G] | 3.14 | B:162 [U] | base:SC | 82.29 | |
| A:20 [VAL] | B:159 [U] | 4.6 | B:170 [A] | 79.54 | ||
| A:20 [VAL] | B:160 [C] | 4.7 | B:169 [G] | 79.54 | ||
| A:21 [PRO] | B:159 [U] | 3.35 | B:170 [A] | 61.0 | ||
| A:21 [PRO] | B:160 [C] | 3.19 | B:169 [G] | 61.0 | ||
| A:22 [GLU] | B:158 [C] | 4.15 | B:171 [G] | 55.3 | ||
| A:22 [GLU] | B:159 [U] | 2.56 | B:170 [A] | 55.3 | ||
| A:23 [GLU] | B:159 [U] | 3.95 | B:170 [A] | 53.81 | ||
| A:50 [ASP] | B:208 [C] | 4.23 | B:213 [G] | 47.64 | ||
| A:51 [LYS] | B:208 [C] | 3.55 | B:213 [G] | 80.06 | ||
| A:51 [LYS] | B:209 [G] | 2.65 | 80.06 | |||
| A:52 [ARG] | B:206 [C] | 3.96 | B:215 [G] | 56.87 | ||
| A:52 [ARG] | B:207 [C] | 2.75 | B:214 [G] | 56.87 | ||
| A:52 [ARG] | B:208 [C] | 2.93 | B:213 [G] | 56.87 | ||
| A:53 [TYR] | B:166 [G] | 3.72 | B:163 [G] | 80.13 | ||
| A:53 [TYR] | B:167 [G] | 4.44 | B:162 [U] | 80.13 | ||
| A:53 [TYR] | B:207 [C] | 3.5 | B:214 [G] | 80.13 | ||
| A:54 [PRO] | B:166 [G] | 4.37 | B:163 [G] | 95.64 | ||
| A:54 [PRO] | B:207 [C] | 3.15 | B:214 [G] | 95.64 | ||
| A:54 [PRO] | B:208 [C] | 3.6 | B:213 [G] | 95.64 | ||
| A:54 [PRO] | B:214 [G] | 3.78 | B:207 [C] | 95.64 | ||
| A:54 [PRO] | B:215 [G] | 3.34 | B:206 [C] | base:BB | 95.64 | |
| A:54 [PRO] | B:216 [A] | 3.68 | B:205 [G] | 95.64 | ||
| A:55 [ARG] | B:166 [G] | 4.85 | B:163 [G] | 78.81 | ||
| A:55 [ARG] | B:167 [G] | 3.01 | B:162 [U] | 78.81 | ||
| A:55 [ARG] | B:215 [G] | 3.32 | B:206 [C] | 78.81 | ||
| A:55 [ARG] | B:216 [A] | 2.82 | B:205 [G] | sugar:BB | 78.81 | |
| A:56 [GLN] | B:216 [A] | 4.76 | B:205 [G] | 10.19 | ||
| A:57 [HIS] | B:205 [G] | 3.63 | B:216 [A] | 41.81 | ||
| A:57 [HIS] | B:206 [C] | 2.95 | B:215 [G] | base:SC, sugar:SC | 41.81 | |
| A:57 [HIS] | B:207 [C] | 3.19 | B:214 [G] | 41.81 | ||
| A:57 [HIS] | B:215 [G] | 3.67 | B:206 [C] | 41.81 | ||
| A:57 [HIS] | B:216 [A] | 3.45 | B:205 [G] | base:SC | 41.81 | |
| A:58 [TRP] | B:206 [C] | 4.9 | B:215 [G] | 22.1 | ||
| A:58 [TRP] | B:216 [A] | 3.91 | B:205 [G] | 22.1 | ||
| A:66 [VAL] | B:164 [U] | 3.47 | 81.43 | |||
| A:67 [ASP] | B:164 [U] | 2.3 | base:SC | 30.63 | ||
| A:68 [TYR] | B:164 [U] | 2.93 | base:BB | 44.42 | ||
| A:69 [LYS] | B:164 [U] | 3.14 | base:SC | 42.41 | ||
| A:71 [ASN] | B:162 [U] | 3.11 | B:167 [G] | 69.29 | ||
| A:71 [ASN] | B:163 [G] | 4.4 | B:166 [G] | 69.29 | ||
| A:72 [LYS] | B:163 [G] | 3.03 | B:166 [G] | 93.51 | ||
| A:72 [LYS] | B:164 [U] | 4.84 | 93.51 | |||
| A:72 [LYS] | B:165 [A] | 2.79 | B:212 [A] | 93.51 | ||
| A:72 [LYS] | B:166 [G] | 4.4 | B:163 [G] | 93.51 | ||
| A:73 [LEU] | B:161 [C] | 4.36 | B:168 [G] | 50.98 | ||
| A:73 [LEU] | B:162 [U] | 3.28 | B:167 [G] | 50.98 | ||
| A:74 [GLN] | B:161 [C] | 3.89 | B:168 [G] | 33.91 | ||
| A:74 [GLN] | B:162 [U] | 4.9 | B:167 [G] | 33.91 | ||
| A:77 [LYS] | B:160 [C] | 2.63 | B:169 [G] | 54.07 |
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 | 1LNG_A_B | A: Signal recognition particle 19 kda protein, Methanocaldococcus jannaschii (genetically engineered) B: 7s.s srp RNA, Methanocaldococcus jannaschii (genetically engineered) | Q58440 | Putative DNA-binding domain | Bacterial small signal recognition particle RNA | ✘ |
|
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 | 1LNG_A_B | 0.67 | 0.7 | 0.97 | 0.24 | Putative DNA-binding domain | compare | |
| 1LNG_A_B | 2V3C_A_M | 0.96 | 0.93 | 0.92 | 0.94 | Putative DNA-binding domain | Bacterial small signal recognition particle RNA | compare |