GREMLIN Database
YFML - Probable ATP-dependent RNA helicase YfmL
UniProt: O34750 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 376 (323)
Sequences: 71480 (44449)
Seq/√Len: 2473.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
62_V75_A3.5941.00
59_A92_I3.1651.00
269_G292_F3.0171.00
286_T291_E2.8571.00
89_F93_Q2.7581.00
258_A262_A2.7481.00
267_E293_P2.6341.00
269_G286_T2.5741.00
38_I181_L2.5261.00
258_A270_V2.5001.00
251_I274_E2.5001.00
155_T182_C2.4971.00
102_R124_H2.4801.00
285_A289_D2.4061.00
282_K286_T2.3461.00
258_A268_L2.3381.00
248_V257_Y2.2781.00
255_S270_V2.2771.00
58_Y183_F2.2611.00
244_A312_Y2.2421.00
242_M311_P2.2391.00
232_L237_S2.2351.00
104_A123_P2.2151.00
39_M64_E2.1791.00
164_R167_M2.1291.00
248_V254_L2.1201.00
73_P148_K2.0301.00
281_A285_A2.0231.00
89_F105_S2.0041.00
248_V296_L2.0001.00
79_A88_I1.9891.00
32_E36_Q1.9691.00
165_E168_K1.9321.00
269_G283_I1.9311.00
232_L235_K1.8411.00
243_Q309_N1.8241.00
74_Q148_K1.8171.00
276_K279_E1.8031.00
254_L270_V1.7951.00
48_S52_T1.7681.00
261_L296_L1.7341.00
315_H328_S1.7151.00
234_Q238_R1.6931.00
128_G133_V1.6771.00
166_T169_Q1.6761.00
250_D253_N1.6721.00
86_M281_A1.6641.00
91_V306_D1.6641.00
167_M170_I1.6641.00
164_R168_K1.6531.00
313_V331_T1.6461.00
55_T88_I1.6421.00
163_H167_M1.6241.00
75_A149_T1.6121.00
231_K234_Q1.6111.00
91_V94_D1.6001.00
38_I61_P1.5921.00
156_D303_R1.5871.00
219_H328_S1.5771.00
328_S340_V1.5761.00
258_A296_L1.5751.00
192_E196_R1.5741.00
86_M90_Q1.5741.00
235_K239_L1.5611.00
34_A57_A1.5271.00
89_F103_A1.5241.00
254_L272_H1.5231.00
165_E169_Q1.5021.00
191_T195_L1.4981.00
65_R149_T1.4921.00
191_T194_V1.4921.00
301_A305_L1.4851.00
312_Y341_L1.4741.00
58_Y151_V1.4601.00
297_A301_A1.4571.00
279_E282_K1.4561.00
30_V46_A1.4511.00
234_Q237_S1.4501.00
208_Q211_K1.4341.00
234_Q264_H1.4321.00
56_L91_V1.4301.00
220_Q339_N1.4001.00
84_L304_G1.3921.00
157_Q303_R1.3911.00
232_L236_L1.3831.00
254_L258_A1.3741.00
111_N114_K1.3701.00
36_Q40_D1.3661.00
272_H275_A1.3661.00
104_A118_K1.3611.00
87_Q306_D1.3601.00
230_V237_S1.3531.00
76_V147_V1.3521.00
275_A283_I1.3421.00
37_L44_V1.3311.00
235_K238_R1.3301.00
163_H166_T1.3141.00
113_K117_E1.3141.00
262_A268_L1.3091.00
220_Q223_I1.3071.00
66_I75_A1.3001.00
117_E121_K1.2981.00
194_V199_A1.2931.00
257_Y316_A1.2921.00
38_I44_V1.2871.00
283_I295_L1.2721.00
253_N317_D1.2701.00
92_I125_I1.2671.00
279_E283_I1.2611.00
136_L141_K1.2531.00
209_R212_A1.2411.00
253_N256_V1.2371.00
254_L296_L1.2341.00
315_H327_R1.2261.00
244_A314_I1.2241.00
226_Q229_K1.2221.00
163_H168_K1.2201.00
286_T292_F1.1991.00
42_K203_E1.1971.00
150_I180_L1.1961.00
46_A183_F1.1941.00
231_K235_K1.1911.00
90_Q94_D1.1891.00
195_L199_A1.1841.00
218_K339_N1.1831.00
244_A294_L1.1801.00
275_A279_E1.1761.00
290_G293_P1.1731.00
243_Q290_G1.1501.00
63_L67_K1.1461.00
282_K285_A1.1311.00
194_V198_L1.1251.00
92_I127_V1.1241.00
230_V260_K1.1241.00
35_A39_M1.1221.00
260_K264_H1.1201.00
29_P33_Q1.1151.00
195_L198_L1.1121.00
199_A202_P1.1061.00
194_V197_E1.1031.00
89_F127_V1.1021.00
283_I286_T1.0961.00
206_K210_S1.0931.00
74_Q124_H1.0931.00
65_R148_K1.0921.00
163_H170_I1.0891.00
166_T170_I1.0851.00
287_F295_L1.0841.00
277_K281_A1.0841.00
34_A46_A1.0821.00
271_L300_I1.0741.00
112_V116_V1.0691.00
92_I103_A1.0641.00
219_H223_I1.0631.00
230_V234_Q1.0621.00
79_A85_V1.0611.00
149_T181_L1.0611.00
311_P336_K1.0521.00
285_A288_E1.0501.00
65_R179_Q1.0441.00
167_M171_I1.0391.00
260_K263_Y1.0381.00
302_A323_G1.0371.00
283_I292_F1.0341.00
288_E309_N1.0331.00
33_Q37_L1.0311.00
309_N336_K1.0311.00
44_V181_L1.0271.00
168_K172_K1.0241.00
266_V293_P1.0101.00
73_P146_E1.0071.00
232_L239_L1.0051.00
257_Y296_L1.0031.00
90_Q93_Q1.0031.00
62_V149_T1.0031.00
208_Q212_A1.0001.00
85_V105_S0.9981.00
24_F56_L0.9981.00
118_K121_K0.9961.00
219_H324_Y0.9941.00
63_L96_K0.9941.00
47_E206_K0.9791.00
252_G256_V0.9781.00
62_V151_V0.9731.00
212_A215_G0.9721.00
48_S57_A0.9691.00
37_L40_D0.9691.00
35_A60_L0.9651.00
123_P126_I0.9621.00
78_L128_G0.9621.00
49_P52_T0.9591.00
57_A61_P0.9521.00
233_L236_L0.9451.00
207_V210_S0.9441.00
115_Q118_K0.9441.00
319_P324_Y0.9401.00
74_Q146_E0.9391.00
193_D197_E0.9361.00
76_V150_I0.9361.00
237_S264_H0.9341.00
246_V314_I0.9331.00
290_G309_N0.9331.00
266_V294_L0.9271.00
191_T198_L0.9251.00
259_E262_A0.9241.00
207_V211_K0.9221.00
169_Q172_K0.9211.00
117_E120_K0.9181.00
315_H342_S0.9181.00
209_R213_E0.9181.00
66_I124_H0.9151.00
204_V208_Q0.9081.00
116_V120_K0.9071.00
256_V260_K0.9061.00
210_S213_E0.9061.00
203_E208_Q0.9041.00
134_F169_Q0.9031.00
214_A217_V0.9021.00
29_P32_E0.8961.00
85_V127_V0.8961.00
230_V239_L0.8941.00
84_L87_Q0.8931.00
316_A319_P0.8931.00
72_H146_E0.8911.00
188_K191_T0.8901.00
91_V95_W0.8851.00
194_V200_Q0.8811.00
259_E263_Y0.8811.00
318_I342_S0.8791.00
278_M282_K0.8761.00
164_R170_I0.8751.00
169_Q173_T0.8711.00
105_S108_G0.8701.00
171_I174_T0.8631.00
271_L301_A0.8621.00
33_Q36_Q0.8601.00
310_L331_T0.8571.00
302_A327_R0.8571.00
204_V210_S0.8541.00
242_M312_Y0.8521.00
26_K32_E0.8491.00
104_A126_I0.8481.00
255_S272_H0.8481.00
36_Q39_M0.8481.00
86_M105_S0.8461.00
64_E67_K0.8451.00
246_V296_L0.8451.00
107_I110_A0.8411.00
128_G132_R0.8401.00
163_H171_I0.8401.00
253_N316_A0.8391.00
203_E207_V0.8371.00
284_I288_E0.8361.00
184_S187_L0.8351.00
299_D323_G0.8341.00
280_R284_I0.8341.00
251_I255_S0.8281.00
192_E195_L0.8261.00
203_E206_K0.8201.00
247_F327_R0.8171.00
206_K209_R0.8121.00
287_F310_L0.8121.00
201_E204_V0.8081.00
77_I88_I0.8041.00
78_L133_V0.7981.00
243_Q311_P0.7961.00
205_L208_Q0.7921.00
149_T179_Q0.7921.00
60_L63_L0.7891.00
108_G111_N0.7851.00
340_V344_V0.7821.00
157_Q160_L0.7791.00
208_Q213_E0.7781.00
131_G134_F0.7761.00
61_P149_T0.7711.00
37_L203_E0.7711.00
135_E139_A0.7701.00
241_G293_P0.7661.00
168_K197_E0.7651.00
234_Q260_K0.7621.00
110_A115_Q0.7591.00
88_I127_V0.7591.00
50_T185_A0.7561.00
191_T199_A0.7531.00
213_E216_K0.7521.00
164_R171_I0.7521.00
164_R169_Q0.7521.00
105_S110_A0.7481.00
216_K219_H0.7471.00
160_L164_R0.7461.00
205_L209_R0.7441.00
218_K337_E0.7431.00
165_E170_I0.7431.00
103_A106_L0.7431.00
255_S258_A0.7421.00
233_L237_S0.7421.00
90_Q281_A0.7411.00
134_F166_T0.7381.00
255_S259_E0.7331.00
75_A151_V0.7331.00
246_V257_Y0.7241.00
148_K178_R0.7181.00
206_K211_K0.7171.00
76_V128_G0.7161.00
113_K116_V0.7161.00
236_L239_L0.7141.00
130_P152_L0.7131.00
211_K214_A0.7121.00
267_E292_F0.7101.00
162_E165_E0.7091.00
30_V33_Q0.7071.00
35_A61_P0.7051.00
168_K171_I0.7041.00
101_L124_H0.7031.00
62_V125_I0.7011.00
347_L350_S0.7001.00
22_S94_D0.6961.00
110_A114_K0.6961.00
126_I147_V0.6951.00
86_M89_F0.6931.00
151_V181_L0.6881.00
58_Y88_I0.6871.00
192_E199_A0.6861.00
242_M336_K0.6861.00
77_I127_V0.6841.00
118_K123_P0.6841.00
96_K99_S0.6821.00
203_E210_S0.6811.00
243_Q293_P0.6791.00
219_H222_L0.6791.00
62_V92_I0.6741.00
234_Q239_L0.6731.00
46_A181_L0.6731.00
42_K179_Q0.6721.00
114_K118_K0.6701.00
151_V183_F0.6681.00
116_V119_L0.6671.00
30_V208_Q0.6661.00
271_L275_A0.6641.00
110_A118_K0.6641.00
256_V259_E0.6621.00
41_G44_V0.6611.00
246_V294_L0.6591.00
312_Y339_N0.6591.00
114_K117_E0.6571.00
270_V275_A0.6561.00
35_A57_A0.6551.00
284_I287_F0.6551.00
27_P35_A0.6531.00
229_K232_L0.6501.00
191_T197_E0.6491.00
170_I174_T0.6471.00
46_A57_A0.6431.00
58_Y77_I0.6381.00
193_D196_R0.6381.00
251_I272_H0.6351.00
341_L345_T0.6351.00
206_K212_A0.6351.00
204_V207_V0.6341.00
245_L310_L0.6341.00
77_I92_I0.6321.00
219_H224_C0.6301.00
342_S345_T0.6301.00
102_R122_H0.6281.00
144_M147_V0.6261.00
72_H124_H0.6261.00
214_A219_H0.6251.00
203_E209_R0.6241.00
186_T326_H0.6231.00
107_I111_N0.6231.00
245_L307_I0.6221.00
249_R317_D0.6211.00
241_G244_A0.6211.00
205_L211_K0.6181.00
196_R199_A0.6181.00
228_D231_K0.6111.00
134_F138_K0.6101.00
325_V328_S0.6101.00
82_R109_G0.6081.00
156_D326_H0.6071.00
86_M285_A0.6071.00
177_D180_L0.6061.00
220_Q224_C0.6051.00
267_E286_T0.6041.00
230_V236_L0.6021.00
62_V77_I0.6021.00
163_H169_Q0.6001.00
78_L130_P0.5991.00
217_V222_L0.5991.00
202_P205_L0.5981.00
338_G341_L0.5981.00
230_V235_K0.5981.00
205_L210_S0.5971.00
43_D179_Q0.5961.00
220_Q225_D0.5961.00
201_E205_L0.5921.00
162_E166_T0.5921.00
286_T290_G0.5921.00
56_L95_W0.5911.00
167_M174_T0.5891.00
231_K239_L0.5881.00
194_V201_E0.5821.00
262_A267_E0.5811.00
192_E204_V0.5791.00
142_L145_H0.5751.00
197_E202_P0.5751.00
132_R135_E0.5751.00
185_A329_G0.5731.00
202_P207_V0.5731.00
205_L212_A0.5721.00
175_L178_R0.5711.00
247_F301_A0.5691.00
215_G219_H0.5641.00
299_D327_R0.5621.00
75_A125_I0.5601.00
255_S274_E0.5601.00
245_L297_A0.5601.00
160_L163_H0.5571.00
338_G345_T0.5571.00
27_P60_L0.5571.00
39_M65_R0.5571.00
273_S280_R0.5561.00
66_I101_L0.5541.00
218_K221_Y0.5541.00
192_E197_E0.5521.00
44_V205_L0.5511.00
60_L64_E0.5501.00
81_S303_R0.5481.00
278_M281_A0.5471.00
137_I173_T0.5471.00
243_Q287_F0.5461.00
196_R200_Q0.5461.00
86_M107_I0.5451.00
271_L280_R0.5431.00
56_L60_L0.5421.00
225_D228_D0.5421.00
195_L202_P0.5411.00
81_S84_L0.5411.00
136_L140_K0.5391.00
271_L297_A0.5391.00
150_I177_D0.5381.00
251_I254_L0.5381.00
166_T173_T0.5371.00
102_R105_S0.5361.00
280_R300_I0.5361.00
168_K174_T0.5331.00
202_P206_K0.5321.00
269_G293_P0.5321.00
50_T329_G0.5301.00
329_G332_G0.5301.00
160_L165_E0.5271.00
43_D180_L0.5251.00
212_A216_K0.5251.00
41_G179_Q0.5251.00
132_R136_L0.5231.00
247_F313_V0.5221.00
233_L239_L0.5211.00
170_I173_T0.5191.00
284_I307_I0.5191.00
249_R253_N0.5191.00
47_E187_L0.5191.00
115_Q119_L0.5181.00
246_V316_A0.5171.00
92_I96_K0.5171.00
250_D254_L0.5141.00
338_G342_S0.5141.00
102_R123_P0.5131.00
269_G295_L0.5131.00
230_V233_L0.5131.00
59_A96_K0.5121.00
136_L139_A0.5121.00
162_E167_M0.5111.00
90_Q288_E0.5081.00
30_V48_S0.5081.00
249_R320_D0.5071.00
271_L284_I0.5071.00
90_Q285_A0.5071.00
34_A38_I0.5061.00
165_E171_I0.5051.00
217_V220_Q0.5041.00
195_L200_Q0.5031.00
286_T289_D0.5021.00
311_P338_G0.5011.00
245_L331_T0.5001.00
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  
4pxaA 1 0.9947 100 0.163 Contact Map
2db3A 1 0.984 100 0.177 Contact Map
4d25A 1 0.984 100 0.191 Contact Map
4nhoA 1 0.9654 100 0.191 Contact Map
4c9bA 1 0.9867 100 0.194 Contact Map
4ljyA 1 0.9947 100 0.202 Contact Map
3eiqA 1 0.9362 100 0.203 Contact Map
4w7sA 2 0.9973 100 0.21 Contact Map
2i4iA 1 0.9814 100 0.213 Contact Map
1s2mA 1 0.9894 100 0.215 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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