GREMLIN Database
DPO3B - DNA polymerase III subunit beta
UniProt: P0A988 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10242
Length: 366 (362)
Sequences: 3541 (2444)
Seq/√Len: 128.4

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_F90_V4.3931.00
32_N69_T3.7991.00
36_Q67_A3.4231.00
243_D246_R3.2531.00
70_V97_M3.2061.00
264_K325_L3.1631.00
269_R304_E3.1551.00
257_E335_N3.1371.00
223_I234_S3.1371.00
259_G262_L3.1111.00
129_T213_P3.0541.00
2_K91_Q2.9891.00
146_M197_R2.7261.00
81_G268_A2.7071.00
160_F169_T2.6941.00
129_T215_R2.6601.00
289_Q305_I2.5801.00
41_T56_R2.5731.00
37_V62_P2.5591.00
35_L42_L2.5281.00
339_M350_E2.4111.00
166_E181_S2.2751.00
256_L285_V2.2731.00
38_A65_P2.2511.00
145_S178_A2.2451.00
255_H339_M2.2311.00
255_H337_R2.2281.00
270_A302_A2.2261.00
286_S314_E2.1951.00
170_V244_Y2.1871.00
283_L324_V2.1541.00
159_L192_S2.1241.00
215_R226_H2.1031.00
35_L75_F2.0911.00
163_E190_S2.0431.00
327_V359_Y2.0401.00
73_R77_D2.0301.00
2_K63_H2.0101.00
290_L308_V2.0051.00
21_L72_A2.0041.00
284_Y316_E1.9921.00
135_M214_L1.9741.00
78_I106_F1.9711.00
127_E215_R1.9061.00
194_I237_V1.8791.00
257_E337_R1.8501.00
141_A180_C1.8491.00
154_Y239_G1.8221.00
138_L169_T1.8221.00
128_F216_V1.8201.00
36_Q43_S1.8101.00
33_L44_L1.7951.00
216_V225_A1.7801.00
154_Y194_I1.7781.00
89_A100_R1.7671.00
203_L225_A1.7661.00
319_F347_V1.7551.00
199_G234_S1.7521.00
335_N352_A1.7521.00
259_G335_N1.7501.00
35_L44_L1.7441.00
97_M110_T1.7111.00
14_L76_F1.6921.00
7_R11_L1.6451.00
253_D313_A1.6391.00
92_L97_M1.6251.00
17_V44_L1.6231.00
328_L336_V1.6191.00
258_A263_L1.6161.00
168_R181_S1.5911.00
291_K303_E1.5901.00
38_A41_T1.5821.00
248_L358_A1.5771.00
37_V60_V1.5741.00
157_G194_I1.5711.00
309_T335_N1.5431.00
257_E309_T1.5271.00
48_D198_K1.5231.00
195_V223_I1.4801.00
137_R332_K1.4801.00
4_T89_A1.4781.00
37_V42_L1.4751.00
163_E245_R1.4541.00
266_A292_I1.4531.00
172_T242_P1.4531.00
4_T61_Q1.4491.00
55_A230_F1.4421.00
91_Q100_R1.4401.00
39_D65_P1.4321.00
161_E192_S1.4311.00
259_G334_E1.4261.00
165_E183_P1.4241.00
2_K89_A1.4161.00
90_V97_M1.4071.00
98_L105_R1.4051.00
159_L194_I1.4031.00
263_L328_L1.4021.00
157_G237_V1.3991.00
43_S54_V1.3921.00
255_H311_S1.3801.00
333_C351_D1.3801.00
161_E245_R1.3791.00
283_L290_L1.3781.00
106_F302_A1.3731.00
212_N228_G1.3251.00
280_G364_M1.3221.00
131_P134_T1.3171.00
152_R174_G1.3151.00
193_V218_I1.3151.00
44_L57_V1.2971.00
252_P339_M1.2971.00
75_F90_V1.2921.00
291_K305_I1.2881.00
271_A321_V1.2871.00
133_A211_D1.2871.00
68_T110_T1.2791.00
54_V231_I1.2441.00
166_E183_P1.2411.00
131_P213_P1.2391.00
226_H231_I1.2391.00
43_S56_R1.2301.00
268_A329_N1.2231.00
192_S240_R1.2130.99
47_T52_E1.2020.99
17_V46_G1.1990.99
177_L249_P1.1980.99
139_I204_M1.1960.99
247_V360_V1.1920.99
170_V179_V1.1840.99
30_L117_P1.1770.99
263_L283_L1.1760.99
254_K310_Y1.1660.99
10_L75_F1.1620.99
159_L170_V1.1600.99
176_R326_D1.1590.99
62_P66_G1.1490.99
333_C353_A1.1480.99
261_D265_Q1.1420.99
288_N309_T1.1420.99
158_M200_V1.1280.99
310_Y314_E1.1270.99
139_I200_V1.1240.99
144_F359_Y1.1210.99
42_L60_V1.1180.99
35_L68_T1.1140.99
14_L33_L1.1130.99
41_T58_A1.1060.99
138_L180_C1.1060.99
34_L45_T1.1040.99
37_V65_P1.1000.99
82_L88_I1.0980.99
127_E217_Q1.0950.99
165_E185_G1.0880.99
107_S301_E1.0860.99
10_L90_V1.0830.99
337_R350_E1.0780.99
67_A114_A1.0760.99
249_P348_Q1.0760.99
36_Q45_T1.0750.99
4_T87_E1.0660.99
327_V349_I1.0610.99
112_P115_D1.0520.98
138_L182_M1.0460.98
46_G116_F1.0430.98
13_P55_A1.0370.98
160_F167_L1.0360.98
34_L67_A1.0350.98
267_F281_V1.0310.98
282_R316_E1.0290.98
284_Y291_K1.0290.98
285_V290_L1.0260.98
284_Y293_T1.0180.98
96_R107_S1.0180.98
158_M171_A1.0100.98
103_R305_I1.0100.98
40_G58_A1.0080.98
141_A332_K1.0070.98
202_E205_R0.9960.98
4_T63_H0.9940.98
37_V66_G0.9940.98
177_L248_L0.9920.98
145_S171_A0.9920.98
286_S291_K0.9860.98
144_F330_A0.9840.98
177_L242_P0.9830.98
253_D341_T0.9830.98
32_N111_L0.9830.98
266_A306_L0.9810.98
176_R323_Y0.9790.98
82_L101_S0.9760.98
178_A359_Y0.9740.98
29_I69_T0.9740.98
161_E168_R0.9720.97
256_L310_Y0.9670.97
84_E101_S0.9620.97
260_C264_K0.9590.97
33_L46_G0.9490.97
148_H197_R0.9470.97
2_K64_E0.9440.97
20_P46_G0.9440.97
18_S76_F0.9430.97
17_V20_P0.9430.97
348_Q360_V0.9420.97
62_P65_P0.9420.97
30_L49_L0.9220.97
344_V365_R0.9220.97
6_E9_H0.9210.96
75_F79_C0.9190.96
216_V223_I0.9140.96
69_T113_A0.9140.96
257_E352_A0.9070.96
15_Q80_R0.9060.96
85_G101_S0.9000.96
6_E85_G0.9000.96
282_R318_G0.8970.96
83_P269_R0.8970.96
61_Q87_E0.8930.96
280_G318_G0.8900.96
77_D80_R0.8880.96
58_A229_D0.8860.96
68_T97_M0.8810.95
3_F10_L0.8810.95
240_R243_D0.8790.95
199_G232_F0.8770.95
320_N323_Y0.8760.95
13_P57_V0.8750.95
254_K312_G0.8730.95
168_R245_R0.8720.95
342_D345_S0.8720.95
103_R307_D0.8710.95
159_L244_Y0.8690.95
10_L88_I0.8690.95
132_Q207_L0.8670.95
338_M347_V0.8650.95
13_P44_L0.8650.95
124_S217_Q0.8620.95
139_I158_M0.8590.95
173_D176_R0.8570.95
142_T178_A0.8570.95
287_E314_E0.8560.95
327_V330_A0.8540.95
143_Q158_M0.8540.95
147_A150_D0.8440.94
100_R105_R0.8440.94
269_R272_I0.8390.94
260_C336_V0.8370.94
17_V33_L0.8360.94
285_V340_L0.8360.94
223_I236_L0.8360.94
21_L234_S0.8360.94
281_V321_V0.8360.94
194_I239_G0.8310.94
171_A178_A0.8300.94
1_M66_G0.8300.94
132_Q212_N0.8290.94
158_M169_T0.8260.94
176_R320_N0.8250.94
256_L338_M0.8200.93
337_R352_A0.8190.93
162_T191_H0.8170.93
11_L76_F0.8150.93
266_A304_E0.8120.93
6_E87_E0.8090.93
157_G196_P0.8090.93
260_C334_E0.8080.93
143_Q200_V0.8080.93
217_Q224_R0.8040.93
267_F321_V0.8030.93
348_Q358_A0.8020.93
198_K202_E0.8000.93
78_I273_L0.8000.93
9_H58_A0.7950.92
181_S356_S0.7920.92
135_M169_T0.7910.92
226_H229_D0.7900.92
218_I223_I0.7870.92
224_R233_T0.7860.92
151_V155_L0.7850.92
351_D354_S0.7830.92
224_R231_I0.7780.92
8_E84_E0.7770.91
252_P255_H0.7770.91
153_Y156_N0.7740.91
40_G65_P0.7710.91
167_L184_I0.7660.91
120_D222_N0.7660.91
25_P31_G0.7630.91
64_E92_L0.7610.91
160_F195_V0.7610.91
35_L70_V0.7580.90
172_T362_M0.7570.90
78_I108_L0.7560.90
199_G225_A0.7550.90
134_T182_M0.7530.90
33_L72_A0.7520.90
264_K329_N0.7480.90
201_I205_R0.7470.90
38_A43_S0.7470.90
21_L116_F0.7430.90
195_V200_V0.7420.89
179_V245_R0.7380.89
241_F244_Y0.7370.89
254_K315_M0.7370.89
12_K16_Q0.7370.89
268_A362_M0.7340.89
290_L306_L0.7330.89
155_L242_P0.7330.89
7_R88_I0.7300.89
146_M171_A0.7300.89
163_E166_E0.7290.89
286_S289_Q0.7270.89
45_T54_V0.7270.89
15_Q76_F0.7250.88
285_V315_M0.7240.88
256_L290_L0.7220.88
74_K300_E0.7210.88
91_Q98_L0.7200.88
168_R179_V0.7200.88
47_T116_F0.7180.88
207_L214_L0.7160.88
134_T137_R0.7150.88
351_D355_Q0.7150.88
17_V53_M0.7130.88
53_M206_M0.7130.88
315_M340_L0.7080.87
242_P247_V0.7060.87
10_L35_L0.7010.87
256_L308_V0.7000.87
184_I187_S0.6990.86
131_P211_D0.6990.86
153_Y235_K0.6980.86
185_G213_P0.6970.86
42_L57_V0.6960.86
53_M232_F0.6960.86
277_K298_E0.6950.86
5_V10_L0.6950.86
331_L351_D0.6930.86
74_K81_G0.6930.86
235_K238_D0.6910.86
83_P304_E0.6870.86
254_K313_A0.6860.85
242_P362_M0.6850.85
106_F270_A0.6830.85
133_A137_R0.6830.85
196_P236_L0.6830.85
3_F37_V0.6810.85
317_I340_L0.6810.85
128_F184_I0.6810.85
16_Q230_F0.6800.85
27_L49_L0.6790.85
135_M139_I0.6770.85
64_E91_Q0.6760.85
7_R83_P0.6760.85
217_Q226_H0.6760.85
67_A113_A0.6760.85
138_L142_T0.6750.85
49_L174_G0.6750.85
262_L307_D0.6740.84
331_L336_V0.6730.84
170_V247_V0.6680.84
1_M37_V0.6670.84
165_E186_Q0.6670.84
48_D149_Q0.6650.84
49_L52_E0.6630.83
93_E98_L0.6620.83
50_E235_K0.6610.83
327_V361_V0.6580.83
140_E332_K0.6570.83
258_A290_L0.6560.83
179_V244_Y0.6550.83
244_Y362_M0.6550.83
297_P300_E0.6530.83
22_G25_P0.6520.82
283_L292_I0.6520.82
270_A292_I0.6490.82
19_G202_E0.6470.82
41_T229_D0.6460.82
69_T111_L0.6450.82
105_R303_E0.6420.81
268_A325_L0.6410.81
253_D342_D0.6410.81
317_I347_V0.6380.81
175_H279_R0.6370.81
68_T92_L0.6370.81
164_G189_P0.6370.81
287_E311_S0.6350.81
159_L241_F0.6340.81
49_L244_Y0.6340.81
325_L329_N0.6310.80
284_Y314_E0.6310.80
42_L236_L0.6300.80
45_T52_E0.6280.80
29_I111_L0.6260.80
30_L47_T0.6260.80
161_E238_D0.6230.80
110_T120_D0.6220.79
156_N237_V0.6220.79
136_K209_G0.6220.79
329_N362_M0.6200.79
165_E188_L0.6170.79
252_P341_T0.6150.79
147_A151_V0.6140.79
155_L247_V0.6140.79
196_P234_S0.6140.79
340_L347_V0.6140.79
146_M200_V0.6140.79
344_V362_M0.6120.78
11_L15_Q0.6120.78
289_Q307_D0.6110.78
152_R194_I0.6110.78
27_L50_E0.6100.78
151_V238_D0.6060.78
5_V57_V0.6050.78
92_L110_T0.6050.78
267_F361_V0.6040.77
280_G321_V0.6040.77
83_P101_S0.6030.77
322_S326_D0.6030.77
350_E358_A0.6030.77
8_E301_E0.6000.77
111_L115_D0.5980.77
170_V362_M0.5980.77
146_M158_M0.5980.77
161_E190_S0.5980.77
53_M230_F0.5970.77
132_Q208_D0.5970.77
160_F193_V0.5960.76
311_S337_R0.5940.76
241_F331_L0.5940.76
96_R301_E0.5920.76
21_L46_G0.5900.76
81_G362_M0.5890.76
200_V235_K0.5880.76
263_L292_I0.5880.76
274_S279_R0.5870.75
80_R107_S0.5860.75
261_D332_K0.5840.75
285_V310_Y0.5840.75
17_V55_A0.5830.75
174_G345_S0.5830.75
36_Q65_P0.5810.75
164_G187_S0.5790.74
213_P229_D0.5790.74
105_R301_E0.5790.74
139_I203_L0.5790.74
34_L113_A0.5780.74
155_L362_M0.5770.74
70_V75_F0.5770.74
22_G75_F0.5770.74
140_E204_M0.5760.74
7_R79_C0.5750.74
147_A174_G0.5750.74
167_L182_M0.5740.74
104_S304_E0.5720.74
172_T177_L0.5720.74
79_C88_I0.5700.73
203_L232_F0.5700.73
49_L235_K0.5680.73
203_L207_L0.5660.73
350_E357_A0.5630.72
49_L362_M0.5610.72
56_R229_D0.5610.72
13_P60_V0.5610.72
258_A336_V0.5540.71
203_L222_N0.5540.71
40_G228_G0.5520.71
85_G102_G0.5510.71
184_I188_L0.5500.71
33_L75_F0.5490.70
152_R365_R0.5470.70
141_A260_C0.5470.70
29_I279_R0.5460.70
154_Y237_V0.5440.70
46_G53_M0.5440.70
5_V42_L0.5440.70
127_E356_S0.5440.70
341_T345_S0.5440.70
20_P44_L0.5400.69
7_R84_E0.5400.69
143_Q204_M0.5400.69
97_M140_E0.5390.69
34_L169_T0.5390.69
129_T186_Q0.5390.69
252_P348_Q0.5390.69
4_T99_V0.5380.69
97_M122_W0.5380.69
189_P353_A0.5370.69
80_R269_R0.5360.69
89_A287_E0.5350.69
129_T343_S0.5350.69
20_P51_M0.5330.68
260_C331_L0.5330.68
20_P53_M0.5320.68
35_L90_V0.5320.68
156_N197_R0.5300.68
104_S269_R0.5290.68
136_K208_D0.5280.68
152_R249_P0.5270.67
263_L336_V0.5270.67
79_C99_V0.5270.67
56_R65_P0.5260.67
17_V115_D0.5250.67
57_V75_F0.5240.67
319_F360_V0.5230.67
130_L195_V0.5230.67
132_Q227_V0.5230.67
151_V362_M0.5220.67
21_L26_T0.5210.67
125_E220_S0.5210.67
141_A351_D0.5210.67
52_E119_L0.5210.67
170_V177_L0.5200.66
54_V121_D0.5200.66
72_A108_L0.5180.66
174_G244_Y0.5170.66
3_F60_V0.5170.66
202_E232_F0.5160.66
48_D115_D0.5160.66
182_M221_N0.5160.66
288_N307_D0.5140.65
216_V237_V0.5140.65
133_A209_G0.5130.65
3_F35_L0.5120.65
16_Q55_A0.5100.65
175_H241_F0.5100.65
172_T347_V0.5090.65
162_T167_L0.5080.65
142_T169_T0.5070.64
264_K268_A0.5070.64
150_D346_S0.5050.64
143_Q201_I0.5050.64
30_L116_F0.5040.64
135_M196_P0.5040.64
348_Q362_M0.5040.64
16_Q53_M0.5030.64
27_L30_L0.5030.64
209_G353_A0.5030.64
189_P211_D0.5030.64
175_H280_G0.5010.64
141_A357_A0.5010.64
2_K46_G0.5010.64
153_Y239_G0.5000.63
175_H242_P0.5000.63
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  
4tr8A 2 0.9891 100 0.013 Contact Map
4k3lA 2 0.9781 100 0.014 Contact Map
1vpkA 2 0.9918 100 0.02 Contact Map
4tr6A 2 0.9945 100 0.024 Contact Map
2avtA 2 0.9863 100 0.028 Contact Map
3t0pA 2 0.9891 100 0.031 Contact Map
5agvA 3 0.9863 100 0.032 Contact Map
4trtA 2 0.9727 100 0.05 Contact Map
3k4xA 1 0.8989 100 0.342 Contact Map
3ifvA 3 0.6093 100 0.565 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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