GREMLIN Database
RTA1 - RTA1 like protein
PFAM: PF04479 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 206 (202)
Sequences: 2492 (1981)
Seq/√Len: 139.4
META: 0.116

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
178_W182_V4.4141.00
13_I17_L3.7551.00
5_G192_M3.6841.00
131_H148_Y3.1501.00
65_R129_D3.1061.00
172_Y176_H2.9471.00
129_D133_R2.8301.00
26_S29_P2.7181.00
121_G155_L2.4251.00
114_A118_V2.3771.00
82_S115_L2.3481.00
114_A166_A2.2841.00
17_L29_P2.2191.00
159_I163_V2.1111.00
114_A162_V2.1011.00
176_H179_Y2.0501.00
28_G32_I2.0491.00
7_L40_A2.0271.00
78_G115_L2.0231.00
78_G119_F2.0091.00
167_Q171_G1.9941.00
178_W183_L1.9891.00
21_N25_W1.9861.00
14_G32_I1.9801.00
84_L88_A1.9791.00
189_L193_V1.9301.00
128_A132_R1.9161.00
14_G17_L1.9061.00
107_N111_A1.8981.00
27_L31_I1.8341.00
31_I35_V1.8201.00
87_A91_G1.8161.00
149_I194_L1.7751.00
91_G95_S1.7541.00
48_I150_A1.7081.00
145_Y149_I1.7021.00
146_A198_F1.6921.00
103_K107_N1.6901.00
110_L166_A1.6191.00
152_L156_I1.6131.00
10_I32_I1.5861.00
56_I64_S1.5821.00
104_T107_N1.5531.00
28_G31_I1.5261.00
3_I7_L1.5251.00
8_E44_F1.4681.00
173_L179_Y1.4581.00
52_L56_I1.4321.00
103_K106_E1.4261.00
21_N26_S1.4201.00
69_R73_K1.4101.00
127_A144_L1.4051.00
38_L109_M1.3861.00
124_V151_S1.3841.00
10_I36_L1.3811.00
85_L115_L1.3701.00
146_A194_L1.3531.00
82_S119_F1.3521.00
149_I153_L1.3381.00
93_A109_M1.3161.00
92_L104_T1.2891.00
79_D86_Q1.2851.00
67_R70_W1.2591.00
70_W73_K1.2401.00
50_M76_V1.2201.00
60_G63_Y1.2071.00
154_I158_S1.2021.00
10_I14_G1.1991.00
90_G94_A1.1791.00
156_I187_P1.1731.00
45_A120_F1.1700.99
52_L127_A1.1640.99
31_I94_A1.1560.99
181_Y186_L1.1510.99
111_A118_V1.1410.99
88_A92_L1.1360.99
172_Y179_Y1.1340.99
78_G82_S1.1300.99
160_Y173_L1.1240.99
44_F192_M1.1240.99
61_P68_P1.1220.99
9_V13_I1.1090.99
111_A115_L1.1080.99
117_V155_L1.0930.99
35_V39_L1.0860.99
104_T108_I1.0850.99
7_L39_L1.0810.99
154_I188_M1.0660.99
117_V162_V1.0630.99
173_L183_L1.0620.99
186_L190_L1.0540.99
169_W174_I1.0260.99
14_G29_P1.0220.99
153_L187_P1.0170.99
87_A90_G1.0160.99
130_F144_L1.0090.98
182_V186_L1.0070.98
4_G44_F1.0040.98
42_A83_L0.9980.98
38_L165_L0.9920.98
46_A79_D0.9840.98
81_I115_L0.9790.98
44_F188_M0.9790.98
64_S68_P0.9770.98
12_Y185_A0.9770.98
6_L10_I0.9770.98
100_S104_T0.9740.98
131_H135_R0.9570.98
101_S104_T0.9570.98
39_L83_L0.9550.98
124_V128_A0.9540.98
196_N199_H0.9510.98
81_I85_L0.9480.98
150_A195_L0.9470.98
146_A150_A0.9390.98
71_Y126_L0.9340.98
7_L36_L0.9330.97
93_A169_W0.9290.97
120_F151_S0.9230.97
72_T76_V0.9170.97
49_Y79_D0.9140.97
149_I190_L0.9100.97
181_Y185_A0.9100.97
38_L113_L0.9000.97
76_V80_V0.8990.97
33_Q37_L0.8940.97
70_W74_I0.8870.97
17_L20_K0.8830.96
75_F79_D0.8770.96
99_S103_K0.8770.96
59_L134_V0.8700.96
14_G33_Q0.8650.96
153_L194_L0.8610.96
121_G125_V0.8600.96
157_R161_R0.8550.96
40_A47_A0.8530.96
40_A109_M0.8530.96
98_S101_S0.8490.96
50_M54_R0.8470.96
96_A100_S0.8470.96
14_G28_G0.8460.96
21_N24_P0.8430.95
50_M72_T0.8420.95
27_L98_S0.8400.95
60_G64_S0.8200.95
7_L10_I0.8180.95
35_V83_L0.8170.95
11_G37_L0.8090.94
179_Y183_L0.8080.94
132_R135_R0.8050.94
38_L90_G0.8020.94
52_L130_F0.8010.94
127_A148_Y0.8010.94
46_A76_V0.7980.94
90_G164_E0.7940.94
28_G36_L0.7910.94
79_D164_E0.7790.93
167_Q172_Y0.7750.93
8_E40_A0.7690.93
167_Q173_L0.7690.93
142_L198_F0.7690.93
168_G171_G0.7660.93
113_L162_V0.7650.92
135_R141_R0.7650.92
171_G176_H0.7600.92
142_L202_R0.7540.92
18_S33_Q0.7530.92
4_G7_L0.7510.92
122_L126_L0.7490.92
45_A151_S0.7440.91
57_R68_P0.7440.91
86_Q112_G0.7430.91
77_T81_I0.7390.91
55_I143_F0.7390.91
185_A189_L0.7360.91
42_A49_Y0.7350.91
21_N29_P0.7320.91
113_L120_F0.7280.90
98_S104_T0.7260.90
8_E12_Y0.7260.90
17_L21_N0.7250.90
109_M158_S0.7250.90
137_S141_R0.7240.90
51_I147_L0.7120.90
92_L98_S0.7070.89
73_K77_T0.7070.89
5_G9_V0.7060.89
37_L110_L0.7030.89
181_Y184_D0.6960.88
86_Q157_R0.6960.88
150_A191_A0.6940.88
16_I20_K0.6920.88
30_F39_L0.6880.88
39_L42_A0.6870.88
88_A104_T0.6820.87
43_F83_L0.6800.87
46_A86_Q0.6790.87
18_S24_P0.6740.87
110_L114_A0.6710.87
172_Y178_W0.6700.86
91_G94_A0.6700.86
160_Y180_F0.6600.86
128_A145_Y0.6550.85
153_L190_L0.6490.85
6_L13_I0.6490.85
135_R145_Y0.6480.85
105_G184_D0.6480.85
32_I36_L0.6470.85
198_F203_L0.6460.84
42_A158_S0.6450.84
39_L87_A0.6430.84
106_E117_V0.6400.84
53_G72_T0.6350.83
159_I166_A0.6310.83
7_L35_V0.6260.83
102_A106_E0.6260.83
82_S86_Q0.6260.83
115_L119_F0.6220.82
131_H141_R0.6200.82
195_L200_P0.6200.82
81_I132_R0.6190.82
194_L197_V0.6180.82
52_L113_L0.6180.82
54_R57_R0.6160.82
145_Y197_V0.6150.81
35_V38_L0.6150.81
180_F184_D0.6130.81
84_L87_A0.6090.81
90_G165_L0.6080.81
5_G44_F0.6070.81
79_D82_S0.6060.81
186_L189_L0.6050.80
49_Y157_R0.5980.80
61_P64_S0.5970.80
37_L120_F0.5960.79
136_P139_R0.5930.79
40_A195_L0.5910.79
37_L169_W0.5880.79
44_F85_L0.5860.78
136_P141_R0.5810.78
106_E169_W0.5800.78
12_Y37_L0.5800.78
64_S129_D0.5780.77
13_I16_I0.5770.77
140_W204_L0.5770.77
180_F185_A0.5760.77
144_L148_Y0.5760.77
95_S100_S0.5760.77
164_E173_L0.5730.77
17_L32_I0.5690.76
7_L43_F0.5680.76
162_V166_A0.5670.76
183_L187_P0.5650.76
134_V184_D0.5650.76
171_G175_T0.5640.76
20_K149_I0.5620.75
165_L171_G0.5610.75
63_Y134_V0.5580.75
79_D157_R0.5580.75
13_I145_Y0.5570.75
39_L160_Y0.5570.75
102_A152_L0.5550.74
129_D132_R0.5520.74
63_Y184_D0.5520.74
99_S104_T0.5470.73
189_L199_H0.5470.73
34_I93_A0.5420.73
45_A48_I0.5410.73
2_V62_E0.5400.72
2_V5_G0.5380.72
127_A131_H0.5370.72
187_P190_L0.5350.72
167_Q174_I0.5340.72
6_L9_V0.5320.71
167_Q179_Y0.5300.71
76_V79_D0.5290.71
88_A108_I0.5280.71
116_Q164_E0.5270.71
178_W181_Y0.5270.71
104_T111_A0.5250.70
98_S163_V0.5240.70
55_I196_N0.5210.70
68_P126_L0.5180.69
160_Y179_Y0.5180.69
143_F198_F0.5180.69
124_V148_Y0.5160.69
3_I35_V0.5160.69
4_G8_E0.5150.69
139_R190_L0.5140.69
56_I91_G0.5130.69
31_I34_I0.5130.69
170_D175_T0.5120.68
3_I43_F0.5120.68
98_S107_N0.5120.68
48_I195_L0.5110.68
128_A131_H0.5100.68
124_V155_L0.5090.68
115_L118_V0.5070.68
31_I36_L0.5070.68
12_Y110_L0.5060.68
165_L174_I0.5030.67
138_R142_L0.5020.67
81_I88_A0.5000.67
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  
2jwaA 2 0.2136 3 0.961 Contact Map
3wxwA 1 0.8738 2.4 0.963 Contact Map
2ks1B 1 0.2136 2 0.964 Contact Map
2l2tA 2 0.2136 2 0.964 Contact Map
4p79A 1 0.4612 2 0.964 Contact Map
4pd6A 3 0.4272 2 0.964 Contact Map
3x29A 1 0.4466 1.6 0.966 Contact Map
2ys2A 1 0.1117 1.5 0.966 Contact Map
3rqwA 4 0.4078 1.3 0.968 Contact Map
4o6yA 2 0.8981 1.3 0.968 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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