GREMLIN Database
Q9HS34 - DNA-directed RNA polymerase subunit
UniProt: Q9HS34 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 104 (100)
Sequences: 518 (384)
Seq/√Len: 38.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
69_N93_T5.5341.00
59_T71_E3.7591.00
91_I98_R3.2971.00
76_M88_R3.1421.00
17_L26_K2.8971.00
2_E27_Q2.7871.00
52_A55_R2.4321.00
76_M86_E2.3661.00
66_D97_H2.2270.99
91_I96_E2.1320.99
63_V70_D1.8570.98
75_Y98_R1.8000.97
95_C99_W1.6640.96
57_L91_I1.6530.96
92_C95_C1.6460.96
14_D17_L1.6240.95
80_R83_D1.6230.95
73_H93_T1.6210.95
50_S53_Q1.5900.95
61_S71_E1.5870.95
85_S90_F1.5870.95
4_C7_C1.5790.94
5_D25_H1.4870.92
75_Y91_I1.4680.92
12_K21_S1.4600.92
39_E42_E1.4480.91
54_D57_L1.4360.91
79_I85_S1.4160.90
40_G43_E1.4050.90
92_C99_W1.4040.90
9_S22_S1.3070.87
43_E47_V1.2960.86
61_S70_D1.2900.86
60_T74_W1.2760.85
69_N72_A1.2310.83
3_F7_C1.2290.83
88_R101_E1.1620.79
79_I87_T1.0980.75
9_S24_G1.0960.75
32_S36_V1.0780.74
65_P80_R1.0770.74
46_V49_V1.0670.73
70_D94_E1.0380.71
9_S12_K1.0250.70
6_D94_E1.0230.70
46_V50_S0.9660.65
81_S86_E0.9640.65
61_S68_D0.9580.65
62_V65_P0.9530.64
54_D58_P0.9490.64
57_L74_W0.9210.62
68_D94_E0.9110.61
43_E51_D0.9090.61
41_Q49_V0.8830.58
39_E45_E0.8820.58
39_E46_V0.8670.57
50_S54_D0.8500.55
34_S37_V0.8430.55
20_C23_C0.8300.54
77_Q87_T0.8200.53
13_A16_E0.8160.52
72_A90_F0.8080.52
56_G91_I0.8070.52
45_E49_V0.8020.51
69_N94_E0.7980.51
13_A27_Q0.7970.51
49_V54_D0.7960.51
6_D68_D0.7880.50
41_Q48_D0.7740.49
94_E98_R0.7740.49
34_S55_R0.7710.48
34_S38_T0.7590.47
79_I100_R0.7570.47
87_T98_R0.7530.47
80_R101_E0.7530.47
86_E101_E0.7440.46
16_E33_A0.7410.46
77_Q86_E0.7390.45
6_D11_M0.7330.45
26_K68_D0.7280.44
49_V56_G0.7280.44
43_E46_V0.7220.44
26_K33_A0.7180.44
74_W86_E0.7140.43
47_V54_D0.7110.43
41_Q46_V0.7110.43
38_T41_Q0.7080.43
40_G46_V0.6980.42
32_S38_T0.6980.42
63_V68_D0.6970.42
22_S75_Y0.6910.41
71_E98_R0.6830.41
76_M80_R0.6810.40
96_E100_R0.6810.40
25_H28_P0.6780.40
57_L73_H0.6770.40
24_G27_Q0.6710.39
51_D55_R0.6600.39
92_C100_R0.6490.38
6_D10_M0.6410.37
49_V55_R0.6390.37
62_V101_E0.6380.37
73_H80_R0.6330.36
24_G86_E0.6330.36
11_M88_R0.6250.36
18_W32_S0.6220.35
61_S79_I0.6210.35
21_S97_H0.6190.35
75_Y79_I0.6130.35
47_V50_S0.6100.34
38_T94_E0.6080.34
6_D15_D0.6010.34
45_E51_D0.6000.34
62_V79_I0.5930.33
36_V70_D0.5910.33
35_F52_A0.5860.32
21_S29_K0.5840.32
57_L60_T0.5820.32
4_C67_C0.5720.31
57_L77_Q0.5650.31
60_T73_H0.5640.31
3_F23_C0.5630.31
14_D19_V0.5590.30
68_D98_R0.5550.30
45_E71_E0.5530.30
7_C11_M0.5510.30
39_E79_I0.5510.30
22_S98_R0.5490.30
38_T61_S0.5480.30
58_P77_Q0.5460.29
53_Q73_H0.5460.29
23_C28_P0.5370.29
48_D53_Q0.5360.29
72_A76_M0.5300.28
37_V40_G0.5270.28
60_T93_T0.5250.28
82_A101_E0.5230.28
19_V35_F0.5200.27
12_K62_V0.5160.27
36_V90_F0.5160.27
23_C84_E0.5140.27
52_A61_S0.5120.27
37_V44_T0.5080.27
79_I86_E0.5070.27
85_S101_E0.5060.26
36_V42_E0.5060.26
59_T74_W0.5060.26
14_D94_E0.5020.26
3_F69_N0.5010.26
48_D68_D0.5000.26
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  
4c2mI 1 0.9808 100 0.279 Contact Map
3h0gI 1 0.9808 100 0.282 Contact Map
1twfI 1 1 100 0.289 Contact Map
3qt1I 1 0.375 100 0.294 Contact Map
1qypA 1 0.5481 99.8 0.562 Contact Map
4cgyA 1 0 99.8 0.563 Contact Map
1tfiA 1 0.4808 99.7 0.588 Contact Map
1pqvS 1 0.9615 99.7 0.594 Contact Map
3po3S 1 0.9712 99.7 0.613 Contact Map
2k4xA 1 0.3462 97.4 0.827 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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