GREMLIN Database
DPO3B - DNA polymerase III subunit beta
UniProt: P05649 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 378 (363)
Sequences: 3540 (2437)
Seq/√Len: 127.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_F96_I4.2591.00
32_G76_V3.6971.00
36_V74_S3.5931.00
265_I346_E3.2851.00
267_N270_E3.2121.00
251_D254_S3.1581.00
231_V242_S3.1481.00
272_L336_L3.1101.00
136_Q221_L3.1081.00
2_K97_E3.0311.00
277_R314_E3.0211.00
136_Q223_D2.8541.00
167_W176_C2.7601.00
41_G56_F2.7291.00
153_V205_G2.6981.00
299_S315_A2.6921.00
88_K276_D2.6131.00
37_A69_I2.5161.00
59_K69_I2.4931.00
173_E188_K2.4851.00
35_I42_V2.4671.00
350_S361_R2.4121.00
38_S72_P2.3871.00
263_E348_R2.3741.00
295_K325_E2.2911.00
263_E350_S2.2801.00
152_A185_A2.2501.00
264_I294_A2.2191.00
170_E198_S2.1941.00
278_A312_V2.1811.00
177_T252_T2.1801.00
166_N200_N2.1571.00
223_D234_K2.1301.00
2_K70_E2.1051.00
80_R84_E2.0791.00
35_I82_F2.0781.00
292_L335_M2.0741.00
293_S327_N2.0631.00
21_V79_A1.9881.00
85_I113_F1.9711.00
318_A321_I1.9711.00
300_I318_A1.9701.00
134_A223_D1.9671.00
346_E363_P1.9561.00
338_A370_Q1.9511.00
265_I348_R1.9231.00
36_V43_S1.9141.00
148_Q187_R1.8821.00
95_E107_R1.8801.00
142_L222_V1.8641.00
77_L103_L1.8401.00
33_I44_F1.8101.00
202_V245_L1.8081.00
267_N346_E1.7931.00
161_I247_G1.7851.00
135_I224_I1.7791.00
145_L176_C1.7711.00
161_I202_V1.7511.00
224_I233_F1.7151.00
35_I44_F1.6981.00
37_A59_K1.6971.00
211_L233_F1.6851.00
261_K324_E1.6841.00
207_S242_S1.6751.00
14_V83_S1.6711.00
330_F358_F1.6711.00
38_S41_G1.6701.00
266_V271_F1.6411.00
7_K11_V1.6401.00
301_E313_V1.6181.00
175_L188_K1.5871.00
256_I369_V1.5671.00
265_I320_Q1.5561.00
274_A302_I1.5491.00
39_D72_P1.5471.00
48_D206_K1.5461.00
144_N343_E1.5321.00
17_V44_F1.4991.00
97_E107_R1.4961.00
164_G202_V1.4951.00
4_T68_T1.4881.00
292_L300_I1.4781.00
4_T95_E1.4771.00
271_F339_L1.4741.00
339_L347_I1.4681.00
2_K95_E1.4621.00
170_E253_T1.4521.00
263_E322_E1.4471.00
267_N345_A1.4411.00
43_S54_E1.4181.00
37_A42_V1.4161.00
168_K200_N1.4141.00
55_S238_V1.4081.00
173_E190_K1.3971.00
172_S190_K1.3961.00
166_N202_V1.3881.00
301_E315_A1.3851.00
344_G362_T1.3521.00
168_K253_T1.3421.00
203_I231_V1.3411.00
220_E236_K1.3381.00
138_P141_L1.3381.00
54_E239_L1.3331.00
260_S350_S1.3311.00
113_F312_V1.3241.00
329_S377_T1.3241.00
289_V375_V1.3141.00
164_G245_L1.2961.00
279_S332_P1.2851.00
138_P221_L1.2791.00
75_I117_G1.2721.00
234_K239_L1.2711.00
179_T250_P1.2701.00
200_N248_N1.2651.00
43_S56_F1.2641.00
42_V59_K1.2511.00
201_V226_I1.2451.00
269_K273_Q1.2421.00
159_R181_S1.2401.00
82_F96_I1.2311.00
4_T93_T1.2281.00
47_S52_S1.2140.99
44_F57_I1.2080.99
183_R337_D1.2050.99
30_L124_P1.2030.99
298_E320_Q1.2010.99
276_D340_K1.1930.99
293_S301_E1.1900.99
255_L371_L1.1900.99
69_I73_G1.1860.99
262_T321_I1.1780.99
17_V46_G1.1740.99
177_T186_L1.1660.99
145_L187_R1.1640.99
146_I212_S1.1600.99
134_A225_V1.1590.99
110_K315_A1.1410.99
41_G58_P1.1410.99
151_F370_Q1.1360.99
348_R361_R1.1330.99
34_K45_T1.1300.99
172_S192_D1.1270.99
35_I75_I1.1210.99
10_L96_I1.1190.99
293_S303_S1.1090.99
320_Q346_E1.1080.99
146_I208_L1.1040.99
14_V33_I1.1010.99
338_A360_I1.0980.99
165_V208_L1.0960.99
321_I325_E1.0930.99
10_L82_F1.0910.99
36_V45_T1.0880.99
46_G123_Y1.0880.99
184_L257_P1.0840.99
119_D122_E1.0770.99
37_A72_P1.0720.99
145_L189_A1.0690.99
74_S121_D1.0650.99
166_N177_T1.0620.99
165_V178_A1.0610.99
291_K327_N1.0590.99
4_T70_E1.0590.99
114_N311_K1.0560.99
98_V103_L1.0510.98
13_S55_S1.0470.98
261_K352_T1.0470.98
148_Q343_E1.0320.98
37_A73_G1.0290.98
271_F292_L1.0240.98
91_M108_S1.0210.98
2_K71_Q1.0180.98
275_I290_V1.0150.98
131_E225_V1.0120.98
257_P359_L1.0100.98
34_K74_S1.0060.98
40_D58_P1.0050.98
155_T205_G0.9990.98
295_K301_E0.9870.98
264_I321_I0.9860.98
296_P325_E0.9860.98
29_I76_V0.9850.98
167_W174_L0.9840.98
89_L94_V0.9750.97
265_I363_P0.9700.97
168_K175_L0.9700.97
32_G118_L0.9680.97
184_L256_I0.9670.97
183_R334_Y0.9650.97
18_L83_S0.9630.97
110_K317_V0.9610.97
107_R112_E0.9600.97
103_L117_G0.9560.97
89_L108_S0.9560.97
210_E213_K0.9550.97
15_Q87_K0.9530.97
152_A178_A0.9450.97
6_Q92_A0.9400.97
6_Q9_R0.9400.97
6_Q93_T0.9390.97
185_A370_Q0.9380.97
268_T272_L0.9380.97
151_F341_V0.9360.97
359_L371_L0.9350.97
76_V120_A0.9340.97
224_I231_V0.9330.97
338_A341_V0.9230.96
20_A46_G0.9200.96
127_P230_Q0.9160.96
90_P277_R0.9110.96
68_T93_T0.9100.96
362_T365_D0.9060.96
331_S334_Y0.9060.96
13_S44_F0.9040.96
154_S157_E0.9000.96
30_L49_S0.8990.96
274_A316_I0.8950.96
33_I46_G0.8950.96
175_L253_T0.8910.96
268_T347_I0.8900.96
13_S57_I0.8870.96
207_S240_F0.8840.96
69_I72_P0.8830.95
180_D183_R0.8830.95
348_R363_P0.8830.95
248_N251_D0.8720.95
172_S193_I0.8700.95
40_D72_P0.8650.95
294_A300_I0.8630.95
184_L250_P0.8610.95
150_V165_V0.8600.95
295_K299_S0.8600.95
178_A185_A0.8590.95
17_V20_A0.8580.95
169_V199_Y0.8560.95
188_K367_T0.8540.95
353_G356_R0.8530.95
84_E87_K0.8520.95
277_R280_L0.8520.95
92_A108_S0.8520.95
149_T185_A0.8510.94
264_I349_V0.8510.94
344_G364_N0.8480.94
349_V358_F0.8470.94
10_L94_V0.8440.94
170_E173_E0.8400.94
139_T215_L0.8390.94
9_R58_P0.8380.94
294_A351_F0.8380.94
291_K329_S0.8350.94
82_F86_V0.8340.94
8_D91_M0.8340.94
17_V33_I0.8310.94
11_V83_S0.8310.94
3_F10_L0.8290.94
21_V242_S0.8290.94
206_K210_E0.8280.94
25_T31_T0.8260.94
232_L239_L0.8220.93
202_V247_G0.8200.93
165_V176_C0.8190.93
225_V232_L0.8180.93
58_P237_N0.8160.93
146_I165_V0.8130.93
268_T345_A0.8110.93
275_I332_P0.8020.93
166_N252_T0.8010.93
289_V329_S0.8010.93
141_L144_N0.8010.93
262_T323_G0.8000.92
232_L241_F0.8000.92
234_K237_N0.7990.92
150_V208_L0.7930.92
361_R366_E0.7930.92
47_S123_Y0.7910.92
274_A314_E0.7880.92
174_L191_L0.7830.92
203_I208_L0.7820.92
359_L369_V0.7810.92
183_R331_S0.7780.91
96_I103_L0.7760.91
231_V244_L0.7730.91
262_T326_L0.7710.91
160_P163_T0.7690.91
33_I79_A0.7680.91
355_M376_R0.7680.91
207_S233_F0.7660.91
77_L104_T0.7650.91
45_T54_E0.7640.91
85_I281_L0.7630.91
158_T162_L0.7630.91
21_V123_Y0.7610.90
299_S317_V0.7610.90
15_Q83_S0.7600.90
141_L189_A0.7590.90
90_P314_E0.7590.90
142_L176_C0.7580.90
328_I351_F0.7550.90
186_L253_T0.7510.90
286_R308_E0.7490.90
164_G204_P0.7480.90
38_S43_S0.7470.90
272_L340_K0.7470.90
264_I318_A0.7460.90
17_V53_I0.7420.89
153_V178_A0.7420.89
322_E348_R0.7410.89
290_V332_P0.7400.89
12_E16_D0.7390.89
71_Q97_E0.7380.89
85_I115_L0.7370.89
7_K94_V0.7360.89
292_L302_I0.7340.89
1_M73_G0.7340.89
262_T324_E0.7340.89
260_S263_E0.7330.89
342_L362_T0.7320.89
226_I231_V0.7320.89
243_R246_D0.7310.89
162_L250_P0.7290.89
209_T213_K0.7280.88
74_S120_A0.7280.88
145_L149_T0.7260.88
147_R343_E0.7250.88
42_V57_I0.7250.88
56_F237_N0.7230.88
136_Q193_I0.7230.88
135_I191_L0.7170.88
102_Y114_N0.7160.88
133_H360_I0.7160.88
270_E317_V0.7150.88
192_D221_L0.7140.87
53_I214_I0.7130.87
35_I77_L0.7090.87
140_D144_N0.7070.87
175_L186_L0.7060.87
249_Y252_T0.7060.87
225_V234_K0.7010.87
71_Q98_V0.7000.86
5_I10_L0.6990.86
300_I316_I0.6980.86
19_K210_E0.6950.86
10_L35_I0.6940.86
53_I240_F0.6930.86
362_T366_E0.6920.86
113_F278_A0.6820.85
50_D243_R0.6800.85
215_L222_V0.6790.85
16_D238_V0.6790.85
328_I358_F0.6780.85
167_W203_I0.6770.85
294_A326_L0.6760.85
100_N340_K0.6760.85
338_A372_I0.6750.84
342_L347_I0.6750.84
179_T373_L0.6720.84
326_L351_F0.6710.84
250_P255_L0.6690.84
266_V300_I0.6680.84
133_H197_R0.6660.84
177_T255_L0.6650.84
139_T220_E0.6630.83
336_L340_K0.6590.83
276_D373_L0.6590.83
264_I300_I0.6580.83
49_S52_S0.6570.83
27_I49_S0.6530.82
142_L146_I0.6520.82
172_S195_E0.6510.82
167_W201_V0.6500.82
77_L82_F0.6490.82
1_M37_A0.6490.82
112_E313_V0.6480.82
76_V118_L0.6470.82
276_D336_L0.6470.82
49_S181_S0.6460.82
160_P243_R0.6460.82
261_K353_G0.6450.82
7_K90_P0.6440.82
269_K343_E0.6430.81
75_I98_V0.6430.81
87_K114_N0.6400.81
250_P373_L0.6390.81
81_F310_G0.6360.81
98_V117_G0.6360.81
22_S25_T0.6330.80
140_D220_E0.6310.80
112_E311_K0.6290.80
3_F35_I0.6260.80
11_V15_Q0.6260.80
293_S325_E0.6260.80
3_F37_A0.6250.80
104_T107_R0.6240.79
53_I238_V0.6230.79
100_N347_I0.6210.79
186_L252_T0.6210.79
153_V165_V0.6190.79
41_G237_N0.6180.79
275_I372_I0.6180.79
7_K86_V0.6170.79
81_F88_K0.6160.79
45_T52_S0.6160.79
49_S252_T0.6150.79
29_I118_L0.6140.78
36_V72_P0.6140.78
5_I57_I0.6120.78
182_H288_N0.6100.78
34_K120_A0.6080.78
333_K337_D0.6080.78
168_K246_D0.6080.78
296_P322_E0.6070.78
355_M373_L0.6060.78
56_F72_P0.6050.77
289_V332_P0.6040.77
7_K91_M0.6030.77
289_V377_T0.6010.77
49_S243_R0.5970.76
158_T246_D0.5970.76
204_P242_S0.5960.76
271_F302_I0.5960.76
139_T216_D0.5930.76
278_A302_I0.5930.76
162_L255_L0.5910.76
99_Q104_T0.5900.76
351_F358_F0.5900.76
249_Y342_L0.5890.75
139_T235_A0.5890.75
104_T112_E0.5880.75
166_N249_Y0.5860.75
137_I141_L0.5860.75
148_Q362_T0.5850.75
224_I245_L0.5840.75
171_Q195_E0.5830.75
204_P244_L0.5830.75
86_V94_V0.5820.75
298_E322_E0.5820.75
17_V55_S0.5810.75
21_V46_G0.5800.74
99_Q134_A0.5800.74
143_K217_D0.5800.74
211_L240_F0.5790.74
211_L230_Q0.5780.74
171_Q196_D0.5770.74
174_L189_A0.5750.74
42_V244_L0.5750.74
159_R202_V0.5740.74
260_S359_L0.5710.73
4_T106_I0.5690.73
30_L47_S0.5690.73
146_I211_L0.5680.73
198_S293_S0.5640.72
88_K373_L0.5630.72
118_L122_E0.5630.72
27_I50_D0.5620.72
153_V208_L0.5600.72
361_R369_V0.5600.72
132_H237_N0.5590.72
99_Q316_I0.5590.72
90_P108_S0.5580.72
157_E357_P0.5550.71
172_S198_S0.5550.71
163_T245_L0.5550.71
307_P310_G0.5540.71
208_L243_R0.5530.71
48_D156_S0.5530.71
148_Q268_T0.5520.71
8_D311_K0.5510.71
2_K46_G0.5510.71
340_K373_L0.5500.70
147_R212_S0.5490.70
211_L215_L0.5480.70
269_K345_A0.5480.70
98_V104_T0.5460.70
361_R368_I0.5450.70
330_F371_L0.5450.70
154_S158_T0.5440.70
22_S82_F0.5440.70
190_K367_T0.5420.69
181_S252_T0.5420.69
161_I245_L0.5420.69
38_S220_E0.5420.69
35_I96_I0.5420.69
350_S359_L0.5410.69
16_D55_S0.5400.69
359_L373_L0.5390.69
210_E240_F0.5390.69
47_S371_L0.5380.69
119_D234_K0.5380.69
117_G127_P0.5360.69
20_A51_I0.5350.68
184_L252_T0.5340.68
252_T373_L0.5340.68
275_I287_N0.5320.68
52_S126_L0.5310.68
271_F347_I0.5310.68
260_S352_T0.5300.68
129_I230_Q0.5290.68
159_R257_P0.5290.68
154_S181_S0.5290.68
179_T358_F0.5280.67
168_K198_S0.5270.67
282_A306_S0.5270.67
179_T184_L0.5270.67
287_N306_S0.5260.67
48_D122_E0.5260.67
33_I82_F0.5260.67
171_Q270_E0.5260.67
10_L44_F0.5250.67
20_A44_F0.5230.67
294_A321_I0.5230.67
129_I232_L0.5230.67
339_L360_I0.5210.66
266_V347_I0.5200.66
29_I288_N0.5190.66
95_E296_P0.5190.66
42_V320_Q0.5180.66
54_E128_Q0.5180.66
182_H249_Y0.5160.66
324_E353_G0.5160.66
3_F59_K0.5160.66
351_F354_A0.5150.65
230_Q377_T0.5120.65
57_I82_F0.5110.65
177_T184_L0.5110.65
181_S356_R0.5100.65
150_V212_S0.5100.65
189_A229_T0.5080.64
6_Q26_T0.5080.64
140_D345_A0.5080.64
21_V26_T0.5070.64
344_G365_D0.5070.64
166_N255_L0.5060.64
90_P273_Q0.5060.64
171_Q198_S0.5060.64
87_K277_R0.5060.64
4_T8_D0.5050.64
156_S163_T0.5050.64
150_V209_T0.5050.64
268_T342_L0.5040.64
136_Q354_A0.5030.64
295_K298_E0.5030.64
106_I259_D0.5030.64
39_D223_D0.5020.64
162_L179_T0.5000.63
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  
4tr6A 2 0.9921 100 0.026 Contact Map
4tr8A 2 0.9577 100 0.028 Contact Map
4k3lA 2 0.9444 100 0.03 Contact Map
2avtA 2 0.9709 100 0.032 Contact Map
1vpkA 2 0.9656 100 0.038 Contact Map
5agvA 3 0.9603 100 0.041 Contact Map
3t0pA 2 0.963 100 0.041 Contact Map
4trtA 2 0.9444 100 0.062 Contact Map
3k4xA 1 0.8942 100 0.349 Contact Map
3ifvA 3 0.5926 100 0.573 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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