Interface analysis
Style
Protein
CartoonLicorice
Surface
RNA
CartoonLicorice
Surface
Color
ChainChain (with hetatm)
Chainbow
Hydrophobicity Electrostatics (surface only) Conservation*
View
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InterfaceRNA
Protein
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Interface
show as licoriceshow Accessibility
Rim - Core
Contacts -
| 4YBB_AK
|
4YBB_AA
|
Distance
|
Base Pair
|
Hbond nuc:res
|
Base Stacking
|
Residue conservation
|
|---|---|---|---|---|---|---|
| AK:13 [ARG] | AA:685 [G] | 4.44 | AA:705 [G] | 39.1 | ||
| AK:13 [ARG] | AA:686 [U] | 4.69 | AA:704 [A] | 39.1 | ||
| AK:22 [HIS] | AA:706 [A] | 4.71 | AA:684 [U] | 72.5 | ||
| AK:22 [HIS] | AA:707 [U] | 3.17 | AA:683 [G] | 72.5 | ||
| AK:22 [HIS] | AA:708 [C] | 3.35 | AA:682 [G] | 72.5 | ||
| AK:24 [HIS] | AA:690 [G] | 4.4 | AA:697 [U] | 29.44 | ||
| AK:24 [HIS] | AA:706 [A] | 4.18 | AA:684 [U] | 29.44 | ||
| AK:24 [HIS] | AA:707 [U] | 4.5 | AA:683 [G] | 29.44 | ||
| AK:26 [SER] | AA:690 [G] | 3.93 | AA:697 [U] | 81.58 | ||
| AK:26 [SER] | AA:691 [G] | 4.79 | AA:696 [A] | 81.58 | ||
| AK:28 [ASN] | AA:691 [G] | 3.21 | AA:696 [A] | 98.74 | ||
| AK:28 [ASN] | AA:692 [U] | 2.85 | 98.74 | |||
| AK:29 [ASN] | AA:689 [C] | 2.84 | AA:698 [G] | 99.0 | ||
| AK:29 [ASN] | AA:690 [G] | 2.83 | AA:697 [U] | 99.0 | ||
| AK:31 [ILE] | AA:689 [C] | 3.57 | AA:698 [G] | 79.49 | ||
| AK:31 [ILE] | AA:690 [G] | 4.5 | AA:697 [U] | 79.49 | ||
| AK:31 [ILE] | AA:705 [G] | 3.74 | AA:685 [G] | 79.49 | ||
| AK:31 [ILE] | AA:706 [A] | 3.95 | AA:684 [U] | 79.49 | ||
| AK:33 [THR] | AA:706 [A] | 3.24 | AA:684 [U] | sugar:SC | 67.33 | |
| AK:33 [THR] | AA:707 [U] | 4.05 | AA:683 [G] | 67.33 | ||
| AK:35 [THR] | AA:707 [U] | 4.0 | AA:683 [G] | 85.72 | ||
| AK:38 [GLN] | AA:708 [C] | 3.04 | AA:682 [G] | sugar:BB | 51.85 | |
| AK:39 [GLY] | AA:683 [G] | 2.9 | AA:707 [U] | base:BB | 84.72 | |
| AK:39 [GLY] | AA:684 [U] | 4.56 | AA:706 [A] | 84.72 | ||
| AK:39 [GLY] | AA:707 [U] | 2.79 | AA:683 [G] | sugar:BB | 84.72 | |
| AK:39 [GLY] | AA:708 [C] | 3.43 | AA:682 [G] | 84.72 | ||
| AK:40 [ASN] | AA:683 [G] | 3.34 | AA:707 [U] | base:SC | 59.49 | |
| AK:40 [ASN] | AA:684 [U] | 3.22 | AA:706 [A] | 59.49 | ||
| AK:40 [ASN] | AA:707 [U] | 4.64 | AA:683 [G] | 59.49 | ||
| AK:41 [ALA] | AA:683 [G] | 4.3 | AA:707 [U] | 61.95 | ||
| AK:41 [ALA] | AA:684 [U] | 2.67 | AA:706 [A] | base:BB, sugar:BB | 61.95 | |
| AK:41 [ALA] | AA:685 [G] | 2.92 | AA:705 [G] | 61.95 | ||
| AK:41 [ALA] | AA:706 [A] | 3.8 | AA:684 [U] | 61.95 | ||
| AK:41 [ALA] | AA:707 [U] | 4.87 | AA:683 [G] | 61.95 | ||
| AK:42 [LEU] | AA:684 [U] | 4.54 | AA:706 [A] | 44.84 | ||
| AK:42 [LEU] | AA:685 [G] | 4.36 | AA:705 [G] | 44.84 | ||
| AK:43 [GLY] | AA:685 [G] | 4.96 | AA:705 [G] | 1.78 | ||
| AK:44 [TRP] | AA:685 [G] | 3.25 | AA:705 [G] | 0.0 | ||
| AK:44 [TRP] | AA:686 [U] | 2.85 | AA:704 [A] | sugar:SC | 0.0 | |
| AK:44 [TRP] | AA:687 [A] | 3.27 | AA:703 [G] | 0.0 | ||
| AK:44 [TRP] | AA:688 [G] | 3.98 | AA:699 [C] | 0.0 | ||
| AK:44 [TRP] | AA:704 [A] | 3.55 | AA:686 [U] | 0.0 | ||
| AK:44 [TRP] | AA:705 [G] | 3.46 | AA:685 [G] | 0.0 | ||
| AK:46 [THR] | AA:688 [G] | 3.13 | AA:699 [C] | 97.01 | ||
| AK:46 [THR] | AA:689 [C] | 2.57 | AA:698 [G] | 97.01 | ||
| AK:46 [THR] | AA:705 [G] | 3.51 | AA:685 [G] | 97.01 | ||
| AK:47 [ALA] | AA:689 [C] | 4.57 | AA:698 [G] | 63.75 | ||
| AK:48 [GLY] | AA:688 [G] | 4.67 | AA:699 [C] | 85.67 | ||
| AK:48 [GLY] | AA:689 [C] | 3.42 | AA:698 [G] | 85.67 | ||
| AK:49 [GLY] | AA:688 [G] | 3.84 | AA:699 [C] | 42.49 | ||
| AK:49 [GLY] | AA:689 [C] | 3.68 | AA:698 [G] | 42.49 | ||
| AK:53 [ARG] | AA:689 [C] | 3.56 | AA:698 [G] | 76.87 | ||
| AK:53 [ARG] | AA:690 [G] | 2.97 | AA:697 [U] | base:SC | 76.87 | |
| AK:53 [ARG] | AA:691 [G] | 3.2 | AA:696 [A] | base:SC | 76.87 | |
| AK:53 [ARG] | AA:695 [A] | 3.93 | 76.87 | |||
| AK:54 [GLY] | AA:691 [G] | 4.82 | AA:696 [A] | 67.86 | ||
| AK:54 [GLY] | AA:692 [U] | 3.41 | 67.86 | |||
| AK:54 [GLY] | AA:694 [A] | 3.63 | 67.86 | |||
| AK:54 [GLY] | AA:695 [A] | 3.42 | 67.86 | |||
| AK:55 [SER] | AA:694 [A] | 3.32 | 59.63 | |||
| AK:55 [SER] | AA:695 [A] | 4.72 | 59.63 | |||
| AK:57 [LYS] | AA:689 [C] | 4.89 | AA:698 [G] | 84.1 | ||
| AK:57 [LYS] | AA:690 [G] | 4.13 | AA:697 [U] | 84.1 | ||
| AK:57 [LYS] | AA:691 [G] | 2.33 | AA:696 [A] | base:SC | 84.1 | |
| AK:57 [LYS] | AA:692 [U] | 4.46 | 84.1 | |||
| AK:77 [TYR] | AA:685 [G] | 4.83 | AA:705 [G] | 7.85 | ||
| AK:85 [MET] | AA:708 [C] | 3.94 | AA:682 [G] | 31.12 | ||
| AK:87 [LYS] | AA:707 [U] | 2.64 | AA:683 [G] | 67.04 | ||
| AK:87 [LYS] | AA:708 [C] | 4.5 | AA:682 [G] | 67.04 | ||
| AK:115 [PRO] | AA:676 [A] | 3.73 | AA:714 [G] | 45.58 | ||
| AK:115 [PRO] | AA:677 [U] | 4.6 | AA:713 [G] | 45.58 | ||
| AK:116 [ILE] | AA:675 [A] | 2.69 | AA:715 [A] | sugar:BB | 56.03 | |
| AK:116 [ILE] | AA:676 [A] | 4.49 | AA:714 [G] | 56.03 | ||
| AK:116 [ILE] | AA:718 [A] | 4.78 | 56.03 | |||
| AK:117 [PRO] | AA:675 [A] | 3.68 | AA:715 [A] | 77.3 | ||
| AK:117 [PRO] | AA:676 [A] | 3.64 | AA:714 [G] | 77.3 | ||
| AK:117 [PRO] | AA:718 [A] | 4.09 | 77.3 | |||
| AK:118 [HIS] | AA:674 [G] | 3.95 | AA:716 [A] | 75.66 | ||
| AK:118 [HIS] | AA:675 [A] | 2.91 | AA:715 [A] | base:BB | base/AA stacks | 75.66 |
| AK:118 [HIS] | AA:716 [A] | 4.46 | AA:674 [G] | 75.66 | ||
| AK:118 [HIS] | AA:717 [U] | 3.81 | AA:673 [A] | 75.66 | ||
| AK:118 [HIS] | AA:718 [A] | 3.47 | base/AA stacks | 75.66 | ||
| AK:119 [ASN] | AA:675 [A] | 4.39 | AA:715 [A] | 91.15 | ||
| AK:119 [ASN] | AA:716 [A] | 2.98 | AA:674 [G] | base:BB | 91.15 | |
| AK:119 [ASN] | AA:717 [U] | 3.67 | AA:673 [A] | 91.15 | ||
| AK:119 [ASN] | AA:718 [A] | 3.72 | 91.15 | |||
| AK:120 [GLY] | AA:675 [A] | 3.73 | AA:715 [A] | 89.21 | ||
| AK:120 [GLY] | AA:676 [A] | 4.87 | AA:714 [G] | 89.21 | ||
| AK:120 [GLY] | AA:715 [A] | 4.34 | AA:675 [A] | 89.21 | ||
| AK:120 [GLY] | AA:716 [A] | 3.53 | AA:674 [G] | 89.21 | ||
| AK:121 [CYS] | AA:676 [A] | 4.09 | AA:714 [G] | 75.13 | ||
| AK:121 [CYS] | AA:677 [U] | 3.24 | AA:713 [G] | 75.13 | ||
| AK:121 [CYS] | AA:714 [G] | 3.76 | AA:676 [A] | 75.13 | ||
| AK:121 [CYS] | AA:777 [A] | 3.86 | 75.13 | |||
| AK:121 [CYS] | AA:778 [G] | 3.77 | AA:804 [U] | 75.13 | ||
| AK:122 [ARG] | AA:778 [G] | 2.56 | AA:804 [U] | sugar:BB | 90.68 | |
| AK:122 [ARG] | AA:779 [C] | 3.33 | AA:803 [G] | sugar:SC | 90.68 | |
| AK:122 [ARG] | AA:1524 [C] | 3.35 | AA:1511 [G] | 90.68 | ||
| AK:122 [ARG] | AA:1525 [G] | 3.09 | AA:1510 [C] | 90.68 | ||
| AK:123 [PRO] | AA:778 [G] | 4.58 | AA:804 [U] | 45.16 | ||
| AK:123 [PRO] | AA:779 [C] | 3.8 | AA:803 [G] | 45.16 | ||
| AK:124 [PRO] | AA:779 [C] | 3.51 | AA:803 [G] | 52.52 | ||
| AK:124 [PRO] | AA:780 [A] | 3.8 | AA:802 [A] | 52.52 | ||
| AK:125 [LYS] | AA:779 [C] | 3.85 | AA:803 [G] | 86.76 | ||
| AK:125 [LYS] | AA:780 [A] | 3.07 | AA:802 [A] | 86.76 | ||
| AK:125 [LYS] | AA:1523 [G] | 3.21 | AA:1512 [U] | 86.76 | ||
| AK:125 [LYS] | AA:1524 [C] | 2.76 | AA:1511 [G] | 86.76 | ||
| AK:126 [LYS] | AA:796 [C] | 4.0 | AA:786 [G] | 34.2 | ||
| AK:127 [ARG] | AA:692 [U] | 3.06 | 91.64 | |||
| AK:127 [ARG] | AA:693 [G] | 2.99 | 91.64 | |||
| AK:127 [ARG] | AA:796 [C] | 2.89 | AA:786 [G] | sugar:SC | 91.64 | |
| AK:127 [ARG] | AA:797 [C] | 3.25 | AA:785 [G] | 91.64 | ||
| AK:128 [ARG] | AA:795 [C] | 2.5 | AA:787 [A] | sugar:BB | 93.37 | |
| AK:128 [ARG] | AA:796 [C] | 2.91 | AA:786 [G] | 93.37 | ||
| AK:128 [ARG] | AA:1506 [U] | 2.82 | base:SC | 93.37 | ||
| AK:128 [ARG] | AA:1522 [U] | 2.95 | AA:1513 [A] | 93.37 | ||
| AK:128 [ARG] | AA:1523 [G] | 3.21 | AA:1512 [U] | 93.37 | ||
| AK:129 [VAL] | AA:693 [G] | 4.07 | 54.69 | |||
| AK:129 [VAL] | AA:795 [C] | 4.71 | AA:787 [A] | 54.69 | ||
| AK:129 [VAL] | AA:796 [C] | 4.06 | AA:786 [G] | 54.69 | ||
| AK:129 [VAL] | AA:1506 [U] | 3.79 | 54.69 | |||
| AK:129 [VAL] | AA:1507 [A] | 4.35 | AA:1528 [U] | 54.69 |
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 |
|---|---|---|---|---|---|---|---|
| group102 | 4YBB_AK_AA | AK: 30s ribosomal protein s11, Escherichia coli (strain k12) (natural) AA: 16s rRNA, Escherichia coli k-12 (natural) | P0A7R9 | Ribonuclease H-like | Bacterial small subunit ribosomal RNA | ✔ |
|
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 |
|---|---|---|---|---|---|---|---|---|
| 4YBB_AK_AA | 7K00_K_A | 0.74 | 0.98 | 2.98 | 0.79 | Ribonuclease H-like | Bacterial small subunit ribosomal RNA | compare |
| 4YBB_AK_AA | 7O7Y_An_A2 | 0.59 | 0.9 | 4.01 | 0.21 | Ribonuclease H-like | compare | |
| 4YBB_AK_AA | 7RYG_k_a | 0.92 | 0.97 | 1.43 | 0.97 | Ribonuclease H-like | Bacterial small subunit ribosomal RNA | compare |
| 4YBB_AK_AA | 6S0X_k_a | 0.38 | 0.96 | 4.28 | 0.32 | Ribonuclease H-like | Bacterial small subunit ribosomal RNA | compare |
| 4Y4O_1k_1a | 4YBB_AK_AA | 0.62 | 0.96 | 3.51 | 0.4 | Ribonuclease H-like | Bacterial small subunit ribosomal RNA | compare |