GREMLIN Database
RL13 - 50S ribosomal protein L13
UniProt: P70974 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 145 (140)
Sequences: 2716 (1397)
Seq/√Len: 118.1

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_K139_E3.0921.00
71_T91_L2.7961.00
97_Y100_K2.6891.00
33_V57_I2.5451.00
65_L90_A2.5441.00
26_L65_L2.5321.00
76_Y87_S2.4081.00
54_H124_N2.1881.00
22_A62_K2.1841.00
8_N11_T2.1641.00
74_I87_S2.1451.00
76_Y85_L2.0401.00
70_L90_A1.9661.00
70_L94_R1.9171.00
30_S105_A1.8121.00
100_K103_E1.8111.00
42_K53_D1.7561.00
126_Y132_P1.6821.00
23_G64_E1.6511.00
19_V33_V1.6451.00
32_E35_A1.6081.00
92_E96_N1.6031.00
12_I49_V1.5921.00
36_I141_Y1.5861.00
68_K72_D1.5821.00
31_S35_A1.5721.00
88_R93_M1.5681.00
126_Y133_H1.5661.00
118_Q121_K1.5311.00
36_I55_V1.5301.00
89_T92_E1.5191.00
36_I41_H1.4721.00
38_R45_Y1.4721.00
88_R96_N1.4551.00
74_I89_T1.4541.00
61_E127_R1.4521.00
90_A101_M1.4391.00
102_L106_I1.4191.00
14_R122_K1.4051.00
33_V106_I1.4011.00
90_A94_R1.4001.00
60_A125_V1.3931.00
107_K120_F1.3831.00
58_I129_S1.3771.00
103_E120_F1.3691.00
94_R101_M1.3681.00
70_L101_M1.3521.00
77_R88_R1.3511.00
75_Y90_A1.3501.00
61_E128_G1.3431.00
24_K32_E1.3291.00
24_K142_E1.3281.00
68_K71_T1.3041.00
88_R92_E1.2961.00
50_D122_K1.2891.00
18_V58_I1.2811.00
21_A29_L1.2630.99
6_M48_H1.2390.99
7_A46_T1.2050.99
110_L119_M1.1980.99
22_A25_T1.1870.99
22_A129_S1.1720.99
26_L63_I1.1460.99
44_T51_T1.1420.99
18_V56_I1.1200.99
100_K104_L1.1170.99
17_L141_Y1.1140.99
98_P127_R1.0960.98
104_L107_K1.0850.98
110_L116_G1.0750.98
70_L91_L1.0610.98
110_L120_F1.0440.98
60_A98_P1.0360.98
120_F125_V1.0330.98
79_T86_K1.0290.98
32_E141_Y1.0140.97
104_L108_G1.0120.97
25_T64_E0.9970.97
99_E127_R0.9970.97
51_T122_K0.9870.97
77_R104_L0.9700.97
8_N49_V0.9520.96
102_L125_V0.9490.96
29_L33_V0.9430.96
41_H53_D0.9420.96
5_P44_T0.9410.96
14_R50_D0.9250.96
63_I102_L0.9230.96
106_I123_L0.9210.96
124_N132_P0.9100.95
37_L123_L0.9090.95
74_I85_L0.9040.95
103_E125_V0.8970.95
79_T84_G0.8880.95
35_A41_H0.8850.94
19_V29_L0.8840.94
29_L102_L0.8790.94
93_M97_Y0.8680.94
92_E95_T0.8680.94
118_Q122_K0.8650.94
7_A51_T0.8610.94
99_E103_E0.8530.93
77_R86_K0.8510.93
26_L90_A0.8400.93
116_G119_M0.8380.93
103_E121_K0.8290.92
38_R108_G0.8140.92
17_L55_V0.8120.91
93_M104_L0.8100.91
54_H122_K0.8010.91
33_V102_L0.7970.91
33_V55_V0.7970.91
133_H136_Q0.7860.90
29_L63_I0.7750.89
60_A102_L0.7720.89
8_N12_I0.7670.89
28_R31_S0.7640.89
114_S117_R0.7560.88
21_A57_I0.7560.88
112_K119_M0.7530.88
14_R54_H0.7500.88
4_T7_A0.7430.87
91_L95_T0.7410.87
112_K116_G0.7350.87
61_E98_P0.7110.85
108_G112_K0.7090.85
73_K105_A0.7060.85
5_P11_T0.7050.85
20_D59_N0.7020.84
9_A12_I0.7010.84
119_M122_K0.7000.84
60_A99_E0.6970.84
7_A49_V0.6940.84
113_G117_R0.6910.83
66_T69_K0.6870.83
62_K128_G0.6860.83
65_L70_L0.6730.82
6_M9_A0.6650.81
17_L41_H0.6600.80
7_A12_I0.6530.80
60_A127_R0.6530.80
5_P49_V0.6530.80
55_V141_Y0.6500.79
19_V57_I0.6500.79
26_L102_L0.6390.78
116_G120_F0.6370.78
14_R42_K0.6340.78
17_L36_I0.6320.78
78_H85_L0.6290.77
27_G109_M0.6270.77
41_H141_Y0.6260.77
34_A38_R0.6230.77
81_H84_G0.6220.76
90_A93_M0.6200.76
93_M100_K0.6180.76
45_Y48_H0.6080.75
35_A110_L0.6060.75
67_G73_K0.6050.74
25_T66_T0.6030.74
99_E124_N0.6010.74
73_K101_M0.6010.74
26_L101_M0.5990.74
113_G116_G0.5990.74
97_Y104_L0.5940.73
120_F124_N0.5940.73
19_V141_Y0.5940.73
10_S44_T0.5900.73
52_G55_V0.5870.72
65_L101_M0.5860.72
42_K52_G0.5860.72
57_I106_I0.5790.71
130_E134_E0.5760.71
33_V36_I0.5760.71
88_R95_T0.5760.71
137_K140_V0.5750.71
58_I61_E0.5750.71
38_R119_M0.5740.71
61_E129_S0.5730.70
24_K29_L0.5730.70
72_D90_A0.5650.69
72_D89_T0.5630.69
56_I132_P0.5580.68
32_E36_I0.5570.68
17_L24_K0.5500.67
97_Y103_E0.5480.67
18_V129_S0.5470.67
81_H97_Y0.5440.66
82_P114_S0.5420.66
17_L139_E0.5420.66
113_G119_M0.5410.66
42_K54_H0.5390.66
110_L113_G0.5370.65
103_E107_K0.5320.65
78_H83_G0.5310.65
88_R97_Y0.5300.64
54_H132_P0.5280.64
107_K112_K0.5260.64
65_L73_K0.5250.64
18_V22_A0.5210.63
135_A138_P0.5210.63
30_S102_L0.5170.63
3_T90_A0.5130.62
75_Y110_L0.5120.62
57_I123_L0.5100.62
68_K91_L0.5100.62
78_H84_G0.5060.61
14_R37_L0.5050.61
8_N25_T0.5010.60
3_T79_T0.5010.60
94_R99_E0.5000.60
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3j3wJ 1 0.9862 100 0.083 Contact Map
3bboL 1 0.8621 100 0.094 Contact Map
4tp9J 1 0.0138 100 0.099 Contact Map
2zjrG 1 0.9724 100 0.103 Contact Map
4rb6N 1 0.9655 100 0.105 Contact Map
3f1fN 1 0.9448 100 0.106 Contact Map
1vw4H 1 0.9517 100 0.124 Contact Map
3j7yK 1 0.9931 100 0.13 Contact Map
3zf7O 1 0.8276 100 0.326 Contact Map
1j3aA 1 0.7241 100 0.353 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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