GREMLIN Database
RECA - Protein RecA
UniProt: P16971 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 348 (327)
Sequences: 2549 (981)
Seq/√Len: 54.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
108_N111_E6.4441.00
54_Y77_A5.4161.00
195_E211_R4.4341.00
221_L242_I3.9151.00
305_Q309_E3.8581.00
264_E308_K3.8431.00
42_S271_E3.4221.00
316_M320_Q3.4121.00
77_A138_I3.3691.00
128_E179_A3.2641.00
51_I249_V3.2251.00
44_A271_E3.1951.00
261_M304_K3.1631.00
49_L219_V3.0531.00
221_L244_V3.0301.00
306_F313_I3.0261.00
40_S54_Y2.9621.00
242_I258_V2.9241.00
54_Y186_I2.8701.00
37_T51_I2.8701.00
39_P84_Q2.7761.00
16_E21_K2.7441.00
158_G171_Q2.5591.00
318_Q322_R2.5291.00
91_I127_A2.4711.00
281_I317_I2.4571.00
276_G321_I2.4381.00
118_D122_Q2.4091.00
38_V81_V2.4031.00
180_I187_A2.3961.00
226_A241_K2.3671.00
306_F310_N2.3471.00
291_Y316_M2.3051.00
60_I186_I2.2931.00
81_V138_I2.2671.00
272_I314_M2.2641.00
269_E308_K2.2541.00
292_E320_Q2.1641.00
40_S77_A2.1171.00
197_V206_T2.0911.00
228_Q235_V2.0301.00
199_V203_N2.0291.00
78_I140_V2.0191.00
104_K264_E2.0041.00
88_A138_I1.9631.00
241_K255_T1.9551.00
47_T325_Y1.9441.00
7_A11_A1.9161.00
161_H171_Q1.9071.00
283_Q293_E1.8630.99
296_L313_I1.8480.99
274_D300_R1.7870.99
150_K154_E1.7840.99
119_T153_I1.7660.99
74_A190_I1.7490.99
78_I90_F1.7260.99
277_T289_Y1.7220.99
78_I88_A1.6620.99
292_E316_M1.6600.99
310_N313_I1.6580.99
193_I222_E1.6290.98
151_A164_L1.6220.98
73_V223_V1.6160.98
199_V204_P1.6040.98
239_K257_E1.5890.98
14_Q18_Q1.5860.98
38_V186_I1.5740.98
315_L318_Q1.5550.98
8_L12_L1.5540.98
279_L325_Y1.5480.98
3_D6_A1.5310.98
77_A188_I1.5290.98
301_E304_K1.4860.97
270_G274_D1.4810.97
315_L319_E1.4550.97
15_I23_S1.4480.97
320_Q323_E1.4470.97
168_L173_L1.4440.97
26_K111_E1.4120.96
270_G300_R1.4010.96
305_Q308_K1.3820.96
227_E239_K1.3780.96
319_E323_E1.3710.95
303_A306_F1.3480.95
311_K314_M1.3470.95
65_P222_E1.3300.95
271_E275_L1.3160.94
279_L321_I1.3110.94
75_L97_L1.3080.94
231_Q301_E1.3060.94
162_V197_V1.3060.94
6_A9_D1.3020.94
59_I177_S1.2950.94
225_R238_N1.2910.94
87_Q136_V1.2880.94
165_Q208_P1.2840.94
89_A130_L1.2830.94
197_V211_R1.2810.93
273_I282_V1.2770.93
225_R228_Q1.2630.93
268_K318_Q1.2610.93
127_A139_V1.2350.92
273_I300_R1.2260.92
229_L236_M1.2260.92
239_K259_D1.2170.92
276_G314_M1.1930.91
226_A239_K1.1810.90
290_S295_R1.1760.90
311_K315_L1.1740.90
222_E226_A1.1700.90
259_D300_R1.1690.90
297_G303_A1.1560.89
300_R304_K1.1540.89
76_H80_E1.1510.89
39_P46_D1.1490.89
27_L109_I1.1430.89
90_F97_L1.1420.89
11_A14_Q1.1360.89
161_H164_L1.1300.88
11_A129_A1.1280.88
45_L221_L1.1230.88
36_S56_R1.1130.88
208_P211_R1.1120.87
241_K257_E1.1050.87
239_K300_R1.1050.87
44_A275_L1.1030.87
43_L47_T1.1010.87
65_P224_R1.1010.87
180_I186_I1.0960.87
15_I24_I1.0870.86
279_L324_H1.0840.86
93_A147_L1.0780.86
41_G46_D1.0740.86
93_A149_P1.0730.86
5_Q87_Q1.0650.85
56_R81_V1.0640.85
131_V180_I1.0600.85
160_S171_Q1.0600.85
6_A10_M1.0520.84
30_K33_T1.0510.84
200_M206_T1.0460.84
26_K29_E1.0330.83
269_E314_M1.0290.83
54_Y60_I1.0200.82
134_G263_G1.0140.82
86_G137_D1.0120.82
280_D324_H1.0100.82
314_M318_Q1.0090.82
288_W298_Q1.0090.82
127_A187_A0.9990.81
323_E327_L0.9930.81
5_Q9_D0.9930.81
181_N184_K0.9920.81
283_Q292_E0.9910.81
295_R302_N0.9810.80
179_A183_S0.9750.80
203_N222_E0.9740.79
80_E268_K0.9730.79
138_I188_I0.9660.79
296_L306_F0.9640.79
10_M14_Q0.9640.79
198_G204_P0.9610.79
44_A47_T0.9460.77
54_Y138_I0.9370.77
312_D316_M0.9360.77
320_Q324_H0.9290.76
127_A131_V0.9260.76
75_L90_F0.9230.76
271_E276_G0.9190.75
90_F114_L0.9150.75
89_A113_L0.9140.75
312_D315_L0.9130.75
148_V178_G0.9020.74
37_T249_V0.8980.74
71_T90_F0.8800.72
319_E328_D0.8780.72
314_M321_I0.8740.72
93_A208_P0.8650.71
160_S164_L0.8650.71
74_A90_F0.8620.71
56_R86_G0.8570.70
319_E326_G0.8500.69
100_V104_K0.8470.69
151_A161_H0.8420.69
90_F95_H0.8380.68
325_Y328_D0.8380.68
273_I303_A0.8380.68
197_V227_E0.8320.68
33_T99_P0.8300.68
302_N305_Q0.8260.67
162_V200_M0.8250.67
193_I283_Q0.8220.67
119_T154_E0.8170.66
308_K314_M0.8150.66
267_S301_E0.8090.66
281_I321_I0.8050.65
47_T278_E0.8000.65
43_L322_R0.7970.64
176_L180_I0.7940.64
273_I276_G0.7920.64
136_V185_T0.7870.63
205_E224_R0.7870.63
129_A322_R0.7860.63
127_A141_V0.7860.63
131_V168_L0.7820.63
124_L172_A0.7810.63
80_E84_Q0.7810.63
287_S298_Q0.7780.63
223_V242_I0.7780.63
152_E174_R0.7740.62
195_E208_P0.7740.62
11_A134_G0.7730.62
44_A256_A0.7710.62
285_S295_R0.7700.62
99_P211_R0.7690.62
9_D13_K0.7690.62
7_A21_K0.7690.62
74_A78_I0.7680.62
10_M13_K0.7610.61
259_D270_G0.7600.61
119_T150_K0.7590.61
238_N260_I0.7570.60
61_E220_R0.7570.60
264_E267_S0.7490.60
11_A15_I0.7470.59
36_S184_K0.7450.59
267_S304_K0.7440.59
136_V139_V0.7440.59
8_L29_E0.7430.59
12_L24_I0.7430.59
303_A310_N0.7400.59
104_K283_Q0.7390.59
36_S127_A0.7380.59
35_I249_V0.7370.58
293_E296_L0.7360.58
131_V176_L0.7340.58
16_E24_I0.7320.58
322_R325_Y0.7290.58
4_R27_L0.7290.58
201_F204_P0.7290.58
299_G302_N0.7280.57
73_V187_A0.7280.57
280_D283_Q0.7270.57
259_D267_S0.7270.57
11_A18_Q0.7210.57
27_L103_Q0.7210.57
197_V208_P0.7200.57
292_E295_R0.7190.57
143_S209_G0.7170.56
101_Y263_G0.7160.56
42_S266_I0.7130.56
18_Q21_K0.7110.56
238_N262_Y0.7070.55
304_K308_K0.7030.55
45_L49_L0.7020.55
261_M270_G0.6990.54
324_H327_L0.6990.54
5_Q228_Q0.6980.54
223_V240_T0.6960.54
324_H329_N0.6950.54
81_V88_A0.6950.54
290_S303_A0.6940.54
148_V211_R0.6930.54
319_E324_H0.6910.54
236_M261_M0.6880.53
4_R324_H0.6880.53
95_H181_N0.6880.53
326_G329_N0.6870.53
4_R7_A0.6860.53
24_I113_L0.6810.53
53_G70_K0.6800.52
157_M175_K0.6800.52
274_D277_T0.6800.52
113_L130_L0.6770.52
33_T36_S0.6770.52
6_A19_F0.6760.52
144_V169_M0.6760.52
173_L189_F0.6710.51
325_Y329_N0.6710.51
15_I19_F0.6700.51
231_Q234_D0.6690.51
5_Q13_K0.6680.51
227_E233_N0.6670.51
235_V262_Y0.6660.51
234_D254_R0.6650.51
34_R281_I0.6640.51
190_I195_E0.6630.51
321_I325_Y0.6620.50
3_D326_G0.6620.50
323_E326_G0.6620.50
13_K327_L0.6610.50
3_D10_M0.6600.50
6_A14_Q0.6600.50
307_L317_I0.6530.50
19_F193_I0.6530.50
127_A176_L0.6520.49
80_E83_Q0.6510.49
323_E328_D0.6500.49
78_I138_I0.6480.49
8_L135_A0.6460.49
29_E326_G0.6460.49
131_V139_V0.6420.48
70_K142_D0.6400.48
95_H123_A0.6390.48
36_S84_Q0.6380.48
15_I20_G0.6360.48
54_Y188_I0.6360.48
53_G64_G0.6360.48
279_L327_L0.6350.48
200_M203_N0.6330.47
324_H328_D0.6320.47
45_L73_V0.6280.47
40_S46_D0.6280.47
12_L129_A0.6270.47
60_I219_V0.6270.47
11_A132_R0.6260.47
291_Y317_I0.6220.46
319_E329_N0.6220.46
228_Q255_T0.6220.46
113_L136_V0.6200.46
135_A323_E0.6190.46
13_K18_Q0.6180.46
39_P54_Y0.6150.45
157_M168_L0.6150.45
258_V266_I0.6140.45
10_M328_D0.6140.45
309_E329_N0.6140.45
196_K204_P0.6110.45
275_L279_L0.6110.45
159_D164_L0.6110.45
189_F213_L0.6100.45
193_I227_E0.6080.45
185_T269_E0.6030.44
313_I316_M0.6030.44
230_K233_N0.6010.44
122_Q284_K0.6010.44
49_L244_V0.5980.44
7_A14_Q0.5960.43
9_D43_L0.5960.43
5_Q10_M0.5960.43
315_L323_E0.5960.43
200_M204_P0.5960.43
51_I129_A0.5940.43
319_E327_L0.5920.43
104_K308_K0.5890.43
189_F247_N0.5870.43
303_A307_L0.5860.42
63_Y222_E0.5860.42
179_A232_G0.5850.42
305_Q316_M0.5840.42
282_V303_A0.5820.42
42_S227_E0.5800.42
53_G142_D0.5790.42
13_K193_I0.5790.42
97_L161_H0.5790.42
162_V201_F0.5760.41
33_T37_T0.5750.41
44_A54_Y0.5750.41
13_K283_Q0.5750.41
138_I186_I0.5750.41
204_P224_R0.5740.41
9_D31_T0.5740.41
275_L320_Q0.5730.41
94_E143_S0.5720.41
283_Q295_R0.5710.41
303_A325_Y0.5700.41
12_L113_L0.5700.41
321_I328_D0.5690.41
88_A180_I0.5670.40
315_L326_G0.5660.40
124_L175_K0.5660.40
128_E132_R0.5650.40
101_Y262_Y0.5630.40
231_Q280_D0.5620.40
293_E323_E0.5620.40
16_E22_G0.5610.40
240_T258_V0.5610.40
101_Y260_I0.5610.40
281_I291_Y0.5600.40
313_I317_I0.5600.40
47_T279_L0.5590.40
280_D285_S0.5580.40
320_Q326_G0.5570.39
6_A13_K0.5560.39
76_H81_V0.5550.39
76_H86_G0.5550.39
20_G25_M0.5540.39
318_Q321_I0.5530.39
195_E278_E0.5530.39
247_N250_A0.5520.39
156_D161_H0.5520.39
67_S211_R0.5510.39
181_N240_T0.5510.39
4_R9_D0.5500.39
64_G70_K0.5490.39
316_M319_E0.5480.39
67_S195_E0.5480.39
94_E209_G0.5470.38
140_V316_M0.5470.38
315_L324_H0.5450.38
62_V188_I0.5450.38
279_L326_G0.5440.38
190_I211_R0.5420.38
8_L99_P0.5410.38
99_P129_A0.5410.38
4_R129_A0.5400.38
228_Q240_T0.5390.38
13_K280_D0.5390.38
56_R137_D0.5380.38
148_V179_A0.5370.37
95_H132_R0.5370.37
219_V249_V0.5360.37
56_R184_K0.5350.37
77_A88_A0.5340.37
79_A116_Q0.5340.37
81_V186_I0.5330.37
7_A16_E0.5330.37
6_A328_D0.5330.37
239_K274_D0.5320.37
240_T262_Y0.5320.37
7_A10_M0.5320.37
4_R104_K0.5310.37
90_F157_M0.5310.37
76_H266_I0.5290.37
268_K272_I0.5290.37
11_A23_S0.5280.37
290_S293_E0.5280.37
210_G237_G0.5270.36
26_K249_V0.5260.36
264_E269_E0.5260.36
272_I318_Q0.5260.36
21_K125_E0.5250.36
105_L288_W0.5240.36
18_Q227_E0.5240.36
222_E241_K0.5240.36
313_I328_D0.5240.36
47_T321_I0.5230.36
131_V290_S0.5230.36
137_D152_E0.5230.36
43_L46_D0.5220.36
291_Y321_I0.5210.36
55_P219_V0.5210.36
118_D157_M0.5200.36
294_E315_L0.5190.36
70_K94_E0.5180.36
203_N224_R0.5180.36
122_Q125_E0.5170.35
59_I184_K0.5170.35
233_N255_T0.5170.35
134_G183_S0.5160.35
3_D60_I0.5140.35
79_A207_T0.5140.35
129_A227_E0.5140.35
312_D319_E0.5130.35
277_T284_K0.5130.35
61_E192_Q0.5130.35
236_M306_F0.5120.35
307_L313_I0.5120.35
44_A258_V0.5120.35
5_Q14_Q0.5110.35
186_I322_R0.5110.35
233_N239_K0.5110.35
61_E194_R0.5110.35
79_A107_V0.5100.35
273_I294_E0.5100.35
305_Q323_E0.5090.35
40_S219_V0.5090.35
9_D111_E0.5090.35
35_I218_S0.5090.35
286_G299_G0.5080.35
5_Q129_A0.5080.35
30_K271_E0.5080.35
314_M319_E0.5080.35
125_E153_I0.5080.35
5_Q179_A0.5070.34
75_L105_L0.5060.34
77_A186_I0.5060.34
256_A272_I0.5050.34
5_Q324_H0.5050.34
317_I321_I0.5050.34
30_K129_A0.5040.34
29_E32_D0.5040.34
248_K252_P0.5040.34
226_A255_T0.5030.34
17_K233_N0.5020.34
281_I320_Q0.5020.34
187_A195_E0.5020.34
201_F327_L0.5020.34
270_G304_K0.5020.34
228_Q262_Y0.5000.34
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  
3hr8A 1 0.9655 100 0.376 Contact Map
4ppfA 1 0.8908 100 0.383 Contact Map
3cmwA 1 0.8994 100 0.394 Contact Map
3cmuA 1 0.8937 100 0.395 Contact Map
1u94A 3 0.8793 100 0.411 Contact Map
1xp8A 3 0.8534 100 0.441 Contact Map
3io5A 2 0.7184 100 0.446 Contact Map
2z43A 1 0.658 100 0.635 Contact Map
3ldaA 1 0.6552 100 0.64 Contact Map
1pznA 5 0.6753 100 0.645 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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