GREMLIN Database
SBCD - Nuclease SbcCD subunit D
UniProt: P0AG76 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11094
Length: 400 (363)
Sequences: 3765 (2953)
Seq/√Len: 155.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_I182_T5.1891.00
38_H269_E4.5021.00
254_Y270_N4.0591.00
34_T255_V3.9291.00
40_V257_L3.7611.00
4_L40_V3.6071.00
38_H271_L3.2961.00
3_I42_A3.2291.00
35_A43_I3.1731.00
2_R259_T3.1661.00
31_L241_P3.1321.00
257_L271_L2.9451.00
33_E37_T2.8011.00
78_V126_L2.7661.00
29_D69_N2.7101.00
236_R256_H2.5681.00
34_T38_H2.5441.00
7_S238_C2.5291.00
256_H268_V2.4801.00
34_T271_L2.4711.00
6_T9_W2.4651.00
46_A182_T2.4181.00
125_V177_L2.4141.00
6_T45_V2.3831.00
259_T269_E2.3821.00
36_Q73_T2.3151.00
38_H257_L2.1741.00
3_I258_V2.1361.00
285_D288_S2.1281.00
228_I233_E2.1111.00
281_V308_D2.1021.00
63_Y67_V2.0881.00
259_T267_S2.0501.00
28_L66_F2.0471.00
190_A223_I2.0301.00
5_H219_A2.0261.00
25_Q62_L1.9631.00
42_A78_V1.9461.00
30_W274_P1.9421.00
42_A126_L1.9331.00
283_K310_E1.9121.00
284_G288_S1.8951.00
44_I126_L1.8941.00
116_P125_V1.8911.00
181_A215_A1.8891.00
249_C281_V1.8281.00
31_L255_V1.8181.00
118_R123_G1.8031.00
76_H103_T1.7981.00
27_F31_L1.7651.00
35_A75_C1.7611.00
123_G177_L1.7481.00
226_A256_H1.7351.00
33_E69_N1.6901.00
11_L63_Y1.6891.00
368_R374_E1.6671.00
23_E277_Q1.6631.00
321_Q325_Q1.6581.00
255_V273_V1.6461.00
35_A70_L1.6451.00
49_V79_V1.6291.00
218_I235_V1.6261.00
6_T31_L1.6231.00
35_A40_V1.6141.00
246_F308_D1.6111.00
126_L180_I1.6061.00
181_A218_I1.5911.00
27_F241_P1.5911.00
23_E306_W1.5901.00
9_W45_V1.5881.00
385_H389_T1.5721.00
280_A305_V1.5721.00
261_S264_K1.5681.00
256_H270_N1.5611.00
78_V128_P1.5581.00
258_V268_V1.5581.00
376_D379_Q1.5441.00
36_Q69_N1.5421.00
5_H217_Y1.5321.00
124_A180_I1.5311.00
243_P278_P1.5111.00
4_L255_V1.5071.00
125_V179_I1.4961.00
15_F20_R1.4931.00
226_A254_Y1.4871.00
29_D66_F1.4811.00
4_L257_L1.4801.00
155_A159_D1.4671.00
22_A26_A1.4641.00
20_R23_E1.4641.00
119_D122_P1.4621.00
79_V104_V1.4441.00
2_R38_H1.4401.00
283_K312_T1.4241.00
158_T162_Q1.4221.00
381_Q385_H1.4181.00
155_A158_T1.4171.00
358_S361_S1.4141.00
105_V128_P1.4111.00
4_L34_T1.3941.00
7_S46_A1.3931.00
127_C215_A1.3921.00
215_A218_I1.3841.00
56_P59_A1.3771.00
384_Q388_T1.3511.00
36_Q72_Q1.3431.00
93_S97_M1.3401.00
4_L35_A1.3291.00
24_H244_L1.3261.00
62_L66_F1.3221.00
80_L182_T1.3181.00
122_P178_P1.3151.00
377_E380_Q1.3101.00
226_A270_N1.3051.00
49_V63_Y1.2891.00
364_E380_Q1.2891.00
1_M259_T1.2891.00
159_D163_Q1.2861.00
63_Y79_V1.2831.00
45_V77_L1.2801.00
13_Q244_L1.2781.00
240_S244_L1.2781.00
174_D177_L1.2761.00
281_V310_E1.2681.00
48_D84_H1.2611.00
67_V77_L1.2591.00
338_V341_S1.2431.00
29_D33_E1.2421.00
27_F273_V1.2411.00
3_I44_I1.2341.00
69_N72_Q1.2311.00
32_L70_L1.2291.00
261_S265_L1.2271.00
178_P260_F1.1951.00
116_P123_G1.1921.00
208_P211_N1.1861.00
30_W33_E1.1811.00
25_Q65_R1.1791.00
34_T37_T1.1751.00
33_E36_Q1.1741.00
30_W273_V1.1471.00
44_I258_V1.1451.00
334_E337_L1.1421.00
25_Q29_D1.1381.00
236_R268_V1.1381.00
376_D380_Q1.1351.00
361_S364_E1.1301.00
127_C179_I1.1161.00
13_Q51_D1.1161.00
336_L340_R1.1121.00
365_V369_R1.1111.00
216_D263_G1.1090.99
246_F279_M1.1070.99
126_L182_T1.0970.99
335_V338_V1.0910.99
32_L66_F1.0910.99
291_A294_E1.0890.99
380_Q384_Q1.0880.99
319_D322_R1.0830.99
128_P182_T1.0780.99
240_S253_K1.0640.99
288_S292_Q1.0570.99
9_W49_V1.0550.99
27_F242_I1.0540.99
51_D244_L1.0410.99
382_R385_H1.0410.99
44_I180_I1.0400.99
36_Q75_C1.0380.99
226_A236_R1.0360.99
5_H220_L1.0230.99
159_D162_Q1.0120.99
64_N95_D1.0120.99
26_A276_T1.0050.99
81_A106_A1.0040.99
157_I160_Y1.0010.99
320_I323_K1.0000.99
187_T229_I1.0000.99
43_I77_L0.9910.99
323_K326_A0.9890.99
364_E367_N0.9880.99
278_P305_V0.9790.99
325_Q328_T0.9780.99
289_I293_L0.9740.99
193_S196_V0.9720.99
48_D83_N0.9670.99
42_A180_I0.9670.99
110_H113_Q0.9630.99
84_H224_H0.9590.99
225_R251_K0.9570.99
383_L387_F0.9500.98
114_I125_V0.9390.98
124_A178_P0.9370.98
321_Q331_L0.9360.98
367_N371_A0.9340.98
286_L290_T0.9310.98
339_R343_E0.9310.98
12_G59_A0.9280.98
217_Y236_R0.9280.98
81_A130_P0.9270.98
287_A290_T0.9260.98
43_I73_T0.9220.98
119_D178_P0.9190.98
71_Q101_N0.9110.98
44_I219_A0.9100.98
180_I258_V0.9090.98
260_F265_L0.9080.98
324_I331_L0.9070.98
262_N265_L0.9060.98
337_L340_R0.9040.98
188_V206_A0.8990.98
12_G55_P0.8960.98
326_A329_E0.8950.98
178_P216_D0.8930.98
56_P60_R0.8890.98
363_E383_L0.8850.98
228_I236_R0.8830.97
61_T98_A0.8800.97
180_I260_F0.8800.97
50_F93_S0.8780.97
130_P237_Y0.8750.97
386_L389_T0.8740.97
81_A104_V0.8690.97
26_A29_D0.8690.97
37_T271_L0.8640.97
255_V271_L0.8620.97
179_I216_D0.8610.97
320_I328_T0.8600.97
209_A235_V0.8590.97
66_F69_N0.8580.97
290_T327_L0.8580.97
320_I324_I0.8580.97
70_L77_L0.8570.97
3_I260_F0.8560.97
23_E242_I0.8560.97
325_Q329_E0.8550.97
118_R121_T0.8540.97
15_F246_F0.8510.97
46_A238_C0.8480.97
207_F211_N0.8470.97
219_A236_R0.8450.97
333_V336_L0.8430.97
357_L365_V0.8420.97
257_L269_E0.8380.97
341_S344_Q0.8350.96
282_L309_I0.8340.96
42_A124_A0.8340.96
78_V115_L0.8320.96
41_D259_T0.8300.96
302_E305_V0.8300.96
23_E26_A0.8250.96
284_G289_I0.8240.96
73_T76_H0.8220.96
340_R343_E0.8200.96
286_L293_L0.8190.96
337_L341_S0.8180.96
21_E58_Y0.8160.96
369_R373_E0.8160.96
287_A291_A0.8160.96
310_E339_R0.8150.96
24_H50_F0.8110.96
31_L35_A0.8090.96
5_H238_C0.8070.96
50_F63_Y0.8060.96
173_G179_I0.8030.96
91_N106_A0.8020.96
6_T241_P0.8010.96
322_R325_Q0.7980.95
21_E24_H0.7970.95
32_L73_T0.7960.95
114_I117_R0.7920.95
363_E367_N0.7900.95
160_Y163_Q0.7900.95
57_S60_R0.7890.95
230_G233_E0.7890.95
71_Q102_T0.7880.95
285_D290_T0.7870.95
48_D224_H0.7860.95
385_H388_T0.7770.95
34_T257_L0.7700.94
184_H222_H0.7640.94
378_S381_Q0.7630.94
46_A80_L0.7590.94
43_I75_C0.7580.94
22_A25_Q0.7560.94
11_L56_P0.7550.94
43_I70_L0.7500.94
83_N224_H0.7460.93
362_V367_N0.7430.93
9_W28_L0.7410.93
179_I185_L0.7370.93
333_V337_L0.7370.93
240_S245_S0.7360.93
10_H222_H0.7340.93
25_Q69_N0.7330.93
217_Y258_V0.7310.93
248_E253_K0.7310.93
377_E381_Q0.7310.93
21_E62_L0.7260.93
381_Q384_Q0.7210.92
174_D179_I0.7200.92
103_T106_A0.7200.92
243_P253_K0.7180.92
290_T294_E0.7170.92
129_I183_G0.7130.92
63_Y92_E0.7120.92
286_L317_L0.7100.92
156_A161_Y0.7100.92
10_H224_H0.7080.92
66_F70_L0.7060.91
375_L387_F0.7060.91
23_E240_S0.7040.91
84_H184_H0.7040.91
42_A258_V0.7040.91
334_E340_R0.7030.91
285_D289_I0.7020.91
36_Q155_A0.6970.91
225_R250_G0.6940.91
183_G220_L0.6940.91
70_L75_C0.6900.91
320_I329_E0.6900.91
300_S303_P0.6890.90
360_L363_E0.6850.90
24_H242_I0.6840.90
156_A160_Y0.6840.90
21_E59_A0.6830.90
9_W241_P0.6830.90
363_E388_T0.6830.90
230_G234_H0.6800.90
288_S291_A0.6780.90
3_I124_A0.6780.90
31_L40_V0.6770.90
350_A353_Q0.6770.90
365_V368_R0.6760.90
335_V341_S0.6750.90
201_I205_D0.6740.90
335_V339_R0.6730.89
382_R386_L0.6720.89
86_S134_P0.6720.89
265_L268_V0.6690.89
40_V43_I0.6680.89
27_F30_W0.6660.89
4_L43_I0.6650.89
83_N131_F0.6640.89
241_P273_V0.6640.89
328_T331_L0.6610.89
51_D253_K0.6590.88
158_T211_N0.6580.88
360_L364_E0.6560.88
11_L28_L0.6530.88
323_K327_L0.6520.88
251_K272_N0.6510.88
120_G124_A0.6510.88
79_V102_T0.6510.88
31_L43_I0.6510.88
15_F87_V0.6500.88
338_V342_R0.6500.88
50_F60_R0.6490.88
361_S370_L0.6470.88
220_L237_Y0.6460.87
325_Q331_L0.6450.87
319_D328_T0.6440.87
340_R345_R0.6430.87
133_R136_D0.6430.87
236_R270_N0.6430.87
125_V174_D0.6390.87
197_R223_I0.6360.87
284_G293_L0.6360.87
373_E379_Q0.6360.87
46_A67_V0.6340.86
356_T359_E0.6330.86
8_D12_G0.6310.86
188_V208_P0.6310.86
12_G244_L0.6300.86
9_W66_F0.6300.86
383_L390_T0.6280.86
54_S64_N0.6280.86
334_E338_V0.6280.86
28_L32_L0.6250.86
123_G178_P0.6210.85
289_I292_Q0.6210.85
229_I256_H0.6210.85
124_A260_F0.6200.85
374_E388_T0.6190.85
375_L379_Q0.6190.85
20_R24_H0.6180.85
43_I66_F0.6170.85
61_T65_R0.6160.85
41_D76_H0.6120.85
122_P260_F0.6120.85
186_T223_I0.6110.84
6_T43_I0.6110.84
187_T212_F0.6110.84
84_H222_H0.6100.84
86_S90_L0.6080.84
130_P183_G0.6080.84
20_R242_I0.6060.84
323_K328_T0.6050.84
131_F186_T0.6050.84
32_L35_A0.6040.84
45_V49_V0.6040.84
288_S294_E0.6030.84
348_V351_S0.6020.84
10_H48_D0.6000.83
24_H253_K0.6000.83
15_F279_M0.5940.83
127_C181_A0.5940.83
308_D337_L0.5940.83
309_I324_I0.5940.83
345_R361_S0.5930.83
121_T178_P0.5920.83
2_R257_L0.5920.83
119_D123_G0.5910.82
345_R348_V0.5910.82
77_L92_E0.5900.82
108_A137_I0.5890.82
287_A323_K0.5880.82
313_T316_Y0.5880.82
386_L390_T0.5880.82
228_I256_H0.5880.82
284_G292_Q0.5860.82
290_T293_L0.5860.82
59_A81_A0.5850.82
355_E361_S0.5850.82
244_L253_K0.5840.82
83_N184_H0.5840.82
260_F263_G0.5830.82
14_N51_D0.5820.81
336_L342_R0.5820.81
234_H265_L0.5800.81
13_Q20_R0.5800.81
69_N73_T0.5790.81
129_I157_I0.5780.81
68_V72_Q0.5770.81
26_A275_V0.5760.81
387_F390_T0.5760.81
21_E25_Q0.5750.81
321_Q330_S0.5750.81
63_Y104_V0.5730.80
55_P86_S0.5730.80
20_R240_S0.5710.80
186_T201_I0.5710.80
334_E341_S0.5710.80
280_A307_L0.5700.80
367_N384_Q0.5700.80
184_H224_H0.5700.80
375_L380_Q0.5700.80
284_G287_A0.5690.80
86_S186_T0.5690.80
11_L25_Q0.5680.80
198_D201_I0.5680.80
95_D98_A0.5670.80
32_L69_N0.5660.80
228_I268_V0.5650.80
90_L104_V0.5630.79
59_A130_P0.5630.79
81_A87_V0.5630.79
11_L16_Y0.5620.79
352_Q356_T0.5620.79
29_D62_L0.5610.79
322_R326_A0.5590.79
161_Y211_N0.5580.79
176_P263_G0.5580.79
345_R349_L0.5560.78
287_A302_E0.5550.78
352_Q355_E0.5550.78
240_S278_P0.5550.78
156_A159_D0.5540.78
122_P126_L0.5540.78
212_F218_I0.5540.78
347_R351_S0.5530.78
20_R55_P0.5530.78
294_E301_Q0.5530.78
162_Q215_A0.5530.78
51_D90_L0.5510.78
127_C185_L0.5500.78
13_Q240_S0.5500.78
92_E133_R0.5480.77
357_L360_L0.5460.77
322_R328_T0.5450.77
192_K198_D0.5450.77
43_I71_Q0.5440.77
334_E342_R0.5420.77
78_V105_V0.5420.77
357_L364_E0.5420.77
361_S365_V0.5420.77
180_I385_H0.5410.77
4_L31_L0.5410.77
117_R122_P0.5400.76
157_I161_Y0.5400.76
72_Q99_F0.5390.76
49_V90_L0.5370.76
33_E293_L0.5370.76
277_Q305_V0.5370.76
282_L324_I0.5370.76
34_T273_V0.5370.76
361_S367_N0.5360.76
336_L339_R0.5360.76
359_E362_V0.5350.76
3_I126_L0.5340.76
2_R39_Q0.5330.76
191_S210_Q0.5320.75
353_Q356_T0.5320.75
360_L368_R0.5290.75
87_V90_L0.5290.75
10_H84_H0.5280.75
37_T302_E0.5280.75
241_P255_V0.5270.75
26_A30_W0.5260.75
249_C308_D0.5260.75
325_Q330_S0.5230.74
3_I180_I0.5230.74
12_G15_F0.5230.74
365_V370_L0.5230.74
333_V338_V0.5230.74
254_Y273_V0.5220.74
361_S369_R0.5210.74
256_H259_T0.5210.74
354_R362_V0.5190.74
13_Q128_P0.5190.74
34_T40_V0.5190.74
368_R371_A0.5180.73
183_G212_F0.5180.73
209_A229_I0.5180.73
349_L352_Q0.5180.73
289_I309_I0.5150.73
185_L201_I0.5150.73
57_S218_I0.5130.73
45_V79_V0.5130.73
194_D247_D0.5120.73
351_S364_E0.5120.73
362_V370_L0.5110.72
51_D55_P0.5100.72
285_D312_T0.5090.72
9_W31_L0.5080.72
162_Q303_P0.5080.72
120_G123_G0.5070.72
351_S367_N0.5040.71
6_T255_V0.5030.71
367_N370_L0.5030.71
358_S367_N0.5020.71
338_V345_R0.5020.71
269_E272_N0.5010.71
217_Y220_L0.5000.71
190_A207_F0.5000.71
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  
4ltyC 1 0.845 100 0.309 Contact Map
3thoB 2 0.875 100 0.396 Contact Map
1ii7A 2 0.7475 100 0.447 Contact Map
4nzvA 1 0.7625 100 0.451 Contact Map
4ykeA 2 0.77 100 0.467 Contact Map
3av0A 1 0.8525 100 0.467 Contact Map
3t1iA 2 0.82 100 0.488 Contact Map
4fbwA 2 0.77 100 0.489 Contact Map
4fbkA 2 0.785 100 0.491 Contact Map
3d03A 5 0.635 99.9 0.717 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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