GREMLIN Database
RUVB - Holliday junction ATP-dependent DNA helicase RuvB
UniProt: P0A812 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10924
Length: 336 (270)
Sequences: 17329 (9256)
Seq/√Len: 563.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
190_Q210_L4.7071.00
21_R25_P4.1101.00
185_Q188_D4.0771.00
190_Q194_S3.6811.00
18_V82_N3.4891.00
35_P188_D3.1771.00
186_V214_R3.1401.00
16_E84_R2.8751.00
243_S246_I2.6981.00
186_V213_A2.6221.00
194_S206_D2.6051.00
189_L213_A2.5341.00
191_Y194_S2.5051.00
17_D22_A2.4091.00
210_L214_R2.4071.00
211_E214_R2.3841.00
190_Q209_A2.3821.00
194_S209_A2.2581.00
241_T244_A2.2081.00
105_E154_P2.2011.00
244_A248_A2.1891.00
42_E46_K2.1131.00
119_S171_L2.0071.00
193_V224_N1.9491.00
111_F160_A1.9341.00
186_V190_Q1.9081.00
265_D268_L1.8951.00
95_G99_A1.8641.00
59_L115_I1.7841.00
37_V179_Q1.7191.00
245_D249_Q1.7141.00
183_F220_P1.6881.00
275_K278_G1.6481.00
278_G282_G1.6451.00
266_R269_L1.6231.00
186_V210_L1.6171.00
269_L273_I1.5841.00
102_T105_E1.5701.00
205_S208_G1.5701.00
21_R24_R1.5691.00
193_V212_V1.5671.00
284_D288_A1.5621.00
204_M231_R1.5591.00
31_Y74_I1.5441.00
115_I159_G1.5431.00
193_V209_A1.5301.00
289_A293_E1.5161.00
220_P223_A1.5141.00
297_I300_V1.4761.00
280_P284_D1.4691.00
186_V217_R1.4571.00
287_A291_G1.4551.00
195_R199_F1.4521.00
275_K279_G1.4471.00
211_E215_R1.4371.00
276_F280_P1.4341.00
60_I181_L1.4251.00
89_P135_L1.4101.00
281_V285_N1.4051.00
298_E302_E1.3831.00
285_N289_A1.3801.00
230_V234_A1.3761.00
35_P191_Y1.3751.00
72_A158_I1.3651.00
249_Q252_D1.3531.00
246_I250_A1.3471.00
28_L77_N1.3441.00
29_E42_E1.3221.00
31_Y71_L1.3171.00
203_E206_D1.3101.00
130_M133_Y1.3031.00
238_H246_I1.3021.00
128_P131_E1.2981.00
270_L274_D1.2941.00
18_V21_R1.2941.00
268_L272_V1.2861.00
277_F281_V1.2701.00
288_A292_E1.2611.00
271_A275_K1.2601.00
249_Q253_M1.2541.00
71_L181_L1.2531.00
197_A209_A1.2481.00
248_A252_D1.2451.00
205_S241_T1.2421.00
258_A262_D1.2401.00
208_G211_E1.2201.00
221_R224_N1.2181.00
258_A261_F1.2081.00
291_G295_E1.2051.00
131_E135_L1.2051.00
276_F279_G1.2031.00
225_R228_R1.2011.00
295_E299_D1.1871.00
264_M267_K1.1861.00
190_Q213_A1.1861.00
273_I276_F1.1851.00
279_G282_G1.1841.00
187_P190_Q1.1821.00
131_E134_Q1.1791.00
35_P39_S1.1631.00
267_K271_A1.1591.00
73_N85_T1.1511.00
253_M257_D1.1411.00
281_V284_D1.1401.00
266_R273_I1.1381.00
61_F180_R1.1381.00
187_P191_Y1.1321.00
244_A250_A1.1301.00
211_E244_A1.1231.00
88_G91_L1.1191.00
279_G283_L1.1091.00
297_I301_L1.1051.00
92_E96_D1.1041.00
177_I180_R1.1031.00
283_L287_A1.0991.00
129_A132_D1.0891.00
274_D278_G1.0871.00
82_N103_N1.0831.00
250_A253_M1.0821.00
251_L255_N1.0721.00
91_L100_M1.0721.00
277_F280_P1.0661.00
272_V279_G1.0641.00
245_D248_A1.0641.00
83_L111_F1.0641.00
242_I246_I1.0581.00
257_D261_F1.0541.00
255_N258_A1.0531.00
203_E241_T1.0411.00
256_V260_G1.0401.00
99_A103_N1.0371.00
292_E296_T1.0301.00
26_K77_N1.0281.00
273_I277_F1.0261.00
257_D260_G1.0241.00
274_D277_F1.0191.00
266_R270_L1.0071.00
233_F237_K1.0021.00
252_D255_N0.9981.00
272_V275_K0.9971.00
296_T299_D0.9921.00
229_R233_F0.9911.00
187_P210_L0.9901.00
276_F283_L0.9861.00
226_L230_V0.9831.00
22_A27_L0.9791.00
220_P227_L0.9771.00
189_L223_A0.9711.00
264_M273_I0.9681.00
298_E301_L0.9671.00
127_Y130_M0.9661.00
207_D244_A0.9641.00
220_P230_V0.9621.00
252_D256_V0.9611.00
234_A238_H0.9601.00
265_D269_L0.9571.00
99_A102_T0.9501.00
228_R232_D0.9481.00
27_L30_E0.9481.00
40_Q179_Q0.9471.00
36_Q182_E0.9461.00
106_P154_P0.9421.00
125_V128_P0.9321.00
275_K280_P0.9311.00
94_A98_A0.9261.00
250_A254_L0.9251.00
253_M256_V0.9181.00
128_P134_Q0.9161.00
132_D135_L0.9161.00
273_I280_P0.9101.00
264_M268_L0.9071.00
212_V227_L0.9061.00
282_G285_N0.9061.00
286_L290_I0.9021.00
270_L273_I0.8941.00
284_D287_A0.8931.00
188_D191_Y0.8881.00
229_R232_D0.8781.00
75_V158_I0.8721.00
271_A274_D0.8721.00
280_P283_L0.8661.00
41_M179_Q0.8651.00
76_A83_L0.8641.00
283_L294_R0.8621.00
250_A257_D0.8581.00
87_S90_V0.8561.00
82_N108_D0.8561.00
287_A290_I0.8551.00
128_P133_Y0.8521.00
170_P174_R0.8521.00
196_S224_N0.8491.00
250_A258_A0.8461.00
283_L290_I0.8461.00
296_T300_V0.8451.00
273_I283_L0.8431.00
104_L110_L0.8421.00
295_E298_E0.8411.00
246_I249_Q0.8391.00
268_L273_I0.8371.00
124_E127_Y0.8351.00
291_G298_E0.8351.00
93_K96_D0.8341.00
101_L105_E0.8321.00
130_M134_Q0.8291.00
17_D21_R0.8291.00
225_R232_D0.8291.00
272_V276_F0.8271.00
268_L271_A0.8271.00
31_Y38_R0.8171.00
247_A250_A0.8161.00
38_R74_I0.8121.00
241_T261_F0.8121.00
40_Q43_I0.8101.00
283_L286_L0.8091.00
291_G294_R0.8081.00
204_M209_A0.8061.00
280_P290_I0.8061.00
159_G175_F0.8061.00
211_E248_A0.8021.00
230_V233_F0.8001.00
269_L272_V0.7981.00
196_S199_F0.7971.00
286_L289_A0.7941.00
280_P287_A0.7941.00
226_L229_R0.7921.00
255_N259_E0.7881.00
193_V223_A0.7881.00
265_D272_V0.7881.00
292_E295_E0.7871.00
269_L276_F0.7831.00
92_E121_V0.7821.00
232_D236_V0.7811.00
264_M269_L0.7811.00
244_A257_D0.7751.00
267_K270_L0.7731.00
221_R228_R0.7701.00
123_E129_A0.7701.00
243_S250_A0.7691.00
224_N228_R0.7671.00
115_I157_L0.7661.00
282_G286_L0.7591.00
112_I157_L0.7591.00
73_N83_L0.7571.00
287_A294_R0.7561.00
96_D99_A0.7561.00
262_D265_D0.7561.00
86_T112_I0.7541.00
58_L179_Q0.7511.00
279_G286_L0.7461.00
216_A223_A0.7451.00
127_Y131_E0.7431.00
224_N227_L0.7421.00
84_R103_N0.7401.00
206_D210_L0.7391.00
76_A109_V0.7381.00
39_S237_K0.7371.00
20_D80_G0.7371.00
87_S91_L0.7361.00
285_N288_A0.7321.00
251_L258_A0.7321.00
257_D262_D0.7291.00
228_R247_A0.7251.00
20_D23_I0.7231.00
38_R42_E0.7151.00
81_V107_H0.7141.00
84_R108_D0.7131.00
256_V259_E0.7121.00
254_L257_D0.7101.00
34_Q37_V0.7101.00
248_A251_L0.7031.00
288_A295_E0.7031.00
191_Y195_R0.7001.00
127_Y132_D0.6981.00
19_A22_A0.6941.00
101_L149_K0.6911.00
225_R229_R0.6891.00
197_A228_R0.6871.00
250_A261_F0.6821.00
254_L258_A0.6821.00
45_I79_M0.6791.00
123_E130_M0.6791.00
288_A291_G0.6771.00
130_M135_L0.6731.00
192_I195_R0.6661.00
272_V283_L0.6661.00
32_V195_R0.6661.00
40_Q253_M0.6661.00
162_T165_G0.6571.00
251_L261_F0.6561.00
265_D273_I0.6541.00
290_I293_E0.6521.00
231_R234_A0.6481.00
190_Q206_D0.6471.00
147_S151_D0.6461.00
74_I77_N0.6461.00
205_S243_S0.6451.00
37_V71_L0.6441.00
242_I247_A0.6431.00
22_A25_P0.6421.00
69_T113_D0.6421.00
219_T227_L0.6411.00
299_D302_E0.6411.00
266_R274_D0.6401.00
193_V227_L0.6401.00
128_P132_D0.6381.00
294_R298_E0.6361.00
215_R251_L0.6321.00
241_T249_Q0.6301.00
247_A258_A0.6261.00
41_M75_V0.6261.00
283_L300_V0.6261.00
116_H162_T0.6241.00
290_I294_R0.6241.00
129_A134_Q0.6221.00
241_T257_D0.6211.00
213_A223_A0.6191.00
43_I237_K0.6191.00
164_A180_R0.6171.00
27_L77_N0.6161.00
129_A135_L0.6161.00
35_P187_P0.6151.00
163_R166_S0.6061.00
289_A292_E0.6021.00
268_L301_L0.5971.00
134_Q149_K0.5941.00
223_A228_R0.5931.00
225_R230_V0.5911.00
279_G301_L0.5881.00
265_D283_L0.5881.00
235_E239_D0.5831.00
61_F164_A0.5831.00
251_L257_D0.5801.00
294_R297_I0.5801.00
286_L291_G0.5791.00
113_D118_L0.5751.00
243_S249_Q0.5740.99
265_D280_P0.5730.99
123_E132_D0.5730.99
259_E263_Y0.5730.99
220_P226_L0.5720.99
30_E195_R0.5720.99
221_R230_V0.5710.99
93_K98_A0.5700.99
246_I257_D0.5690.99
96_D112_I0.5680.99
194_S210_L0.5680.99
245_D261_F0.5680.99
242_I248_A0.5650.99
124_E128_P0.5640.99
40_Q229_R0.5620.99
44_F58_L0.5610.99
241_T250_A0.5600.99
265_D279_G0.5590.99
221_R226_L0.5580.99
53_D79_M0.5570.99
268_L290_I0.5550.99
259_E262_D0.5540.99
234_A239_D0.5540.99
200_M242_I0.5540.99
61_F177_I0.5540.99
184_Y189_L0.5540.99
190_Q214_R0.5540.99
197_A204_M0.5530.99
230_V236_V0.5530.99
241_T245_D0.5510.99
125_V129_A0.5490.99
45_I75_V0.5490.99
113_D116_H0.5440.99
101_L129_A0.5440.99
275_K283_L0.5420.99
248_A254_L0.5410.99
123_E133_Y0.5400.99
87_S92_E0.5370.99
122_V133_Y0.5360.99
212_V216_A0.5350.99
209_A213_A0.5300.99
43_I233_F0.5300.99
256_V261_F0.5300.99
192_I220_P0.5290.99
244_A249_Q0.5280.99
237_K240_G0.5270.99
279_G285_N0.5260.99
266_R276_F0.5260.99
244_A254_L0.5260.99
290_I297_I0.5250.99
30_E199_F0.5240.99
276_F286_L0.5240.99
242_I254_L0.5240.99
28_L45_I0.5240.99
280_P294_R0.5230.99
246_I258_A0.5220.99
216_A219_T0.5170.99
69_T85_T0.5160.99
24_R82_N0.5130.99
279_G284_D0.5100.99
227_L230_V0.5090.99
125_V131_E0.5070.99
228_R231_R0.5070.99
223_A227_L0.5070.99
284_D294_R0.5060.99
246_I251_L0.5050.99
194_S198_R0.5040.99
292_E300_V0.5010.99
221_R231_R0.5010.99
241_T246_I0.5000.99
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 0.9821 100 0.391 Contact Map
4rh7A 1 0.9137 100 0.422 Contact Map
1in4A 1 0.8869 100 0.484 Contact Map
4cr2J 1 0.7679 100 0.488 Contact Map
4akgA 2 0.8571 100 0.488 Contact Map
3b9pA 1 0.7381 100 0.496 Contact Map
2qp9X 1 0.7054 100 0.498 Contact Map
2zanA 1 0.747 100 0.501 Contact Map
1xwiA 1 0.7619 100 0.505 Contact Map
4cr2L 1 0.7619 100 0.507 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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