GREMLIN Database
RUVB - Holliday junction ATP-dependent DNA helicase RuvB
UniProt: O32055 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 334 (267)
Sequences: 15420 (8464)
Seq/√Len: 518.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
188_A208_L4.5911.00
19_Q23_P4.4361.00
183_T186_E3.9951.00
16_V80_E3.5271.00
188_A192_T3.3771.00
184_Q212_R3.0531.00
33_H186_E2.6841.00
189_D192_T2.6791.00
15_S20_S2.6351.00
192_T204_K2.5521.00
187_L211_A2.4291.00
242_E246_Q2.4111.00
208_L212_R2.4021.00
239_R242_E2.3781.00
184_Q211_A2.3391.00
188_A207_A2.3241.00
209_E212_R2.2301.00
109_F158_A2.1011.00
117_H169_L2.0841.00
191_V222_N2.0541.00
241_T244_I2.0431.00
57_L113_I1.9641.00
243_D247_N1.9561.00
181_Y218_P1.9231.00
93_G97_A1.8561.00
302_Y305_Q1.8501.00
192_T207_A1.8141.00
100_T103_E1.8081.00
184_Q188_A1.7161.00
268_M272_E1.6931.00
276_G280_G1.6901.00
128_M131_F1.6871.00
191_V207_A1.6801.00
263_D266_L1.6701.00
264_H267_L1.6691.00
282_D286_A1.6621.00
218_P221_A1.6481.00
113_I157_G1.6461.00
103_E132_C1.6421.00
285_S289_G1.6301.00
40_R44_D1.6091.00
295_I298_V1.6031.00
191_V210_I1.5931.00
202_I229_R1.5821.00
301_P305_Q1.5631.00
267_L271_I1.5511.00
293_H297_D1.5451.00
87_P123_V1.5391.00
273_K276_G1.5311.00
296_E300_E1.5251.00
240_I244_I1.4971.00
286_A290_E1.4951.00
247_N251_R1.4951.00
19_Q22_R1.4811.00
195_A207_A1.4241.00
184_Q215_R1.4211.00
270_M277_G1.4191.00
297_D301_P1.4151.00
70_A156_V1.4121.00
58_L179_L1.4091.00
203_D206_S1.4071.00
223_R226_R1.3971.00
226_R230_D1.3971.00
274_F278_P1.3931.00
273_K277_G1.3721.00
184_Q208_L1.3521.00
92_P96_A1.3431.00
278_P282_D1.3391.00
193_R197_V1.3341.00
16_V19_Q1.2991.00
26_L75_N1.2961.00
35_V177_S1.2941.00
263_D267_L1.2861.00
279_V283_T1.2801.00
69_L179_L1.2701.00
126_P129_E1.2681.00
281_L285_S1.2601.00
185_E208_L1.2581.00
294_T297_D1.2571.00
33_H37_E1.2571.00
246_Q250_E1.2541.00
287_T291_E1.2531.00
254_V258_G1.2501.00
265_K269_G1.2491.00
243_D246_Q1.2451.00
27_A40_R1.2421.00
99_L103_E1.2421.00
185_E189_D1.2411.00
299_Y303_L1.2381.00
299_Y302_Y1.2381.00
219_R222_N1.2121.00
277_G280_G1.2081.00
209_E213_R1.2061.00
275_N279_V1.1951.00
255_D259_L1.1931.00
274_F277_G1.1861.00
110_I155_L1.1831.00
266_L270_M1.1691.00
201_E204_K1.1671.00
252_L255_D1.1661.00
228_V232_A1.1631.00
29_Y72_I1.1611.00
232_A236_G1.1581.00
271_I274_F1.1581.00
224_L228_V1.1561.00
81_L109_F1.1561.00
38_N177_S1.1391.00
279_V282_D1.1371.00
282_D285_S1.1361.00
74_A107_V1.1361.00
265_K268_M1.1311.00
129_E133_L1.1301.00
296_E299_Y1.1271.00
20_S25_N1.1251.00
242_E248_A1.1221.00
264_H268_M1.1191.00
45_A56_V1.1171.00
33_H189_D1.1121.00
293_H296_E1.1111.00
206_S209_E1.1031.00
294_T298_V1.1021.00
283_T287_T1.0961.00
270_M274_F1.0931.00
272_E276_G1.0911.00
86_G89_I1.0891.00
59_Y178_R1.0871.00
85_S88_A1.0841.00
99_L127_A1.0831.00
89_I98_I1.0811.00
264_H271_I1.0731.00
266_L271_I1.0681.00
129_E132_C1.0631.00
256_R260_D1.0591.00
128_M132_C1.0581.00
104_P152_P1.0561.00
250_E253_Q1.0531.00
269_G273_K1.0481.00
301_P304_L1.0301.00
248_A255_D1.0281.00
247_N250_E1.0251.00
168_P172_R1.0181.00
251_R255_D1.0091.00
284_I287_T1.0031.00
125_Y128_M1.0011.00
198_F240_I1.0001.00
244_I248_A0.9981.00
255_D258_G0.9941.00
250_E254_V0.9941.00
25_N28_Q0.9771.00
283_T286_A0.9741.00
29_Y69_L0.9731.00
39_L177_S0.9691.00
280_G283_T0.9681.00
38_N41_V0.9681.00
281_L284_I0.9681.00
277_G281_L0.9621.00
245_S248_A0.9601.00
97_A101_A0.9561.00
253_Q256_R0.9541.00
227_R230_D0.9471.00
230_D234_V0.9461.00
126_P130_D0.9371.00
237_D241_T0.9351.00
126_P131_F0.9311.00
248_A252_L0.9281.00
175_V178_R0.9251.00
188_A211_A0.9221.00
289_G293_H0.9201.00
127_A130_D0.9191.00
288_I292_S0.9171.00
97_A100_T0.9161.00
252_L256_R0.9121.00
223_R228_V0.9101.00
185_E188_A0.9101.00
256_R259_L0.9011.00
239_R259_L0.9011.00
94_D97_A0.8901.00
122_E125_Y0.8871.00
157_G173_F0.8861.00
298_V301_P0.8801.00
74_A81_L0.8751.00
223_R230_D0.8711.00
37_E235_L0.8671.00
231_F235_L0.8601.00
16_V82_R0.8571.00
268_M271_I0.8541.00
80_E106_D0.8521.00
269_G272_E0.8501.00
90_E94_D0.8491.00
270_M281_L0.8441.00
272_E275_N0.8381.00
290_E293_H0.8381.00
249_L256_R0.8371.00
292_S296_E0.8321.00
241_T248_A0.8321.00
128_M133_L0.8251.00
299_Y305_Q0.8221.00
286_A293_H0.8221.00
284_I288_I0.8191.00
120_I123_V0.8181.00
275_N278_P0.8181.00
130_D133_L0.8161.00
39_L73_V0.8141.00
24_Q75_N0.8141.00
73_V156_V0.8121.00
203_D239_R0.8041.00
252_L259_L0.8041.00
253_Q257_L0.8031.00
248_A251_R0.8021.00
71_S83_T0.8021.00
194_T222_N0.7921.00
38_N227_R0.7911.00
125_Y130_D0.7911.00
280_G284_I0.7891.00
204_K208_L0.7871.00
248_A256_R0.7861.00
259_L262_I0.7821.00
190_I193_R0.7821.00
34_K180_E0.7821.00
210_I225_L0.7781.00
223_R227_R0.7781.00
161_R164_L0.7761.00
285_S292_S0.7761.00
218_P225_L0.7751.00
289_G292_S0.7741.00
300_E303_L0.7731.00
85_S89_I0.7641.00
300_E304_L0.7631.00
237_D244_I0.7621.00
36_K72_I0.7591.00
244_I247_N0.7581.00
290_E294_T0.7581.00
270_M273_K0.7581.00
202_I207_A0.7561.00
38_N251_R0.7561.00
278_P281_L0.7561.00
226_R229_R0.7551.00
219_R226_R0.7521.00
249_L253_Q0.7471.00
102_L108_L0.7441.00
251_R254_V0.7431.00
85_S90_E0.7421.00
28_Q193_R0.7371.00
195_A225_L0.7371.00
248_A259_L0.7361.00
213_R249_L0.7361.00
267_L274_F0.7331.00
263_D277_G0.7291.00
80_E101_A0.7271.00
287_T290_E0.7261.00
271_I281_L0.7251.00
273_K284_I0.7251.00
123_V126_P0.7221.00
77_M154_T0.7221.00
292_S295_I0.7211.00
266_L299_Y0.7161.00
71_S81_L0.7161.00
292_S299_Y0.7141.00
291_E295_I0.7141.00
285_S288_I0.7121.00
296_E301_P0.7101.00
263_D270_M0.7101.00
267_L270_M0.7101.00
210_I214_S0.7031.00
295_I301_P0.7021.00
289_G296_E0.7021.00
221_A226_R0.7021.00
20_S23_P0.6951.00
271_I275_N0.6931.00
57_L162_V0.6921.00
189_D193_R0.6921.00
298_V305_Q0.6911.00
26_L43_I0.6861.00
59_Y162_V0.6821.00
295_I299_Y0.6771.00
35_V69_L0.6771.00
263_D271_I0.6761.00
227_R231_F0.6751.00
186_E189_D0.6751.00
297_D302_Y0.6731.00
232_A238_S0.6731.00
209_E242_E0.6721.00
126_P132_C0.6721.00
246_Q249_L0.6711.00
266_L269_G0.6711.00
85_S91_R0.6691.00
29_Y36_K0.6691.00
114_H159_T0.6681.00
201_E239_R0.6641.00
194_T197_V0.6601.00
248_A273_K0.6601.00
233_Q237_D0.6541.00
297_D300_E0.6531.00
232_A237_D0.6521.00
67_T111_D0.6511.00
244_I255_D0.6501.00
285_S290_E0.6471.00
266_L288_I0.6471.00
214_S221_A0.6461.00
218_P228_V0.6461.00
228_V234_V0.6441.00
261_H265_K0.6401.00
236_G244_I0.6381.00
114_H160_T0.6321.00
123_V131_F0.6311.00
32_Q35_V0.6301.00
242_E255_D0.6271.00
286_A304_L0.6271.00
232_A235_L0.6251.00
235_L238_S0.6231.00
218_P222_N0.6191.00
222_N225_L0.6191.00
297_D303_L0.6191.00
235_L247_N0.6171.00
123_V129_E0.6111.00
41_V231_F0.6091.00
284_I299_Y0.6061.00
192_T208_L0.6031.00
289_G299_Y0.6011.00
162_V178_R0.5950.99
281_L292_S0.5950.99
91_R94_D0.5940.99
241_T247_N0.5900.99
299_Y304_L0.5880.99
182_Y218_P0.5870.99
125_Y129_E0.5870.99
90_E119_S0.5860.99
291_E298_V0.5850.99
86_G90_E0.5830.99
219_R228_V0.5820.99
298_V302_Y0.5820.99
290_E301_P0.5820.99
254_V257_L0.5780.99
294_T299_Y0.5770.99
43_I77_M0.5740.99
297_D305_Q0.5740.99
233_Q236_G0.5730.99
273_K278_P0.5720.99
242_E247_N0.5710.99
262_I265_K0.5710.99
224_L227_R0.5700.99
258_G261_H0.5700.99
225_L229_R0.5690.99
288_I291_E0.5690.99
191_V221_A0.5680.99
294_T305_Q0.5660.99
294_T302_Y0.5650.99
263_D278_P0.5650.99
296_E302_Y0.5640.99
295_I302_Y0.5580.99
270_M288_I0.5560.99
125_Y133_L0.5540.99
249_L252_L0.5540.99
36_K40_R0.5530.99
70_A109_F0.5520.99
18_E78_G0.5510.99
271_I278_P0.5510.99
229_R232_A0.5500.99
256_R271_I0.5500.99
93_G96_A0.5500.99
191_V225_L0.5490.99
126_P133_L0.5480.99
80_E86_G0.5480.99
294_T301_P0.5470.99
284_I289_G0.5460.99
296_E303_L0.5450.99
276_G279_V0.5430.99
242_E249_L0.5400.99
95_L98_I0.5350.99
243_D248_A0.5350.99
242_E252_L0.5340.99
182_Y187_L0.5330.99
256_R261_H0.5310.99
111_D116_L0.5300.99
124_L132_C0.5290.99
285_S303_L0.5260.99
42_F56_V0.5260.99
112_E160_T0.5260.99
267_L281_L0.5240.99
257_L261_H0.5210.99
17_I20_S0.5180.99
280_G285_S0.5170.99
231_F236_G0.5170.99
280_G287_T0.5160.99
290_E302_Y0.5160.99
18_E21_L0.5130.98
224_L230_D0.5130.98
121_E125_Y0.5130.98
34_K37_E0.5130.98
127_A131_F0.5100.98
257_L260_D0.5090.98
275_N283_T0.5090.98
258_G262_I0.5080.98
243_D259_L0.5040.98
124_L128_M0.5040.98
79_V90_E0.5040.98
284_I296_E0.5020.98
205_P242_E0.5010.98
245_S249_L0.5010.98
278_P292_S0.5000.98
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  
3vkgA 2 0.9731 100 0.41 Contact Map
4rh7A 1 0.9132 100 0.429 Contact Map
1in4A 1 0.8922 100 0.491 Contact Map
4akgA 2 0.8533 100 0.494 Contact Map
1qvrA 3 0.8713 100 0.511 Contact Map
1sxjD 1 0.8383 100 0.515 Contact Map
1hqcA 1 0.9341 100 0.515 Contact Map
4cr2J 1 0.7665 100 0.517 Contact Map
2qp9X 1 0.7096 100 0.52 Contact Map
4ciuA 1 0.8413 100 0.524 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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