GREMLIN Database
SIGW - ECF RNA polymerase sigma factor SigW
UniProt: Q45585 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 187 (160)
Sequences: 41554 (30410)
Seq/√Len: 2404.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_R80_L3.1391.00
148_K158_I2.6081.00
30_K70_S2.4241.00
156_I166_V2.3071.00
136_K183_Q2.2761.00
141_Y179_A2.2571.00
78_T82_I2.1041.00
133_K183_Q2.0721.00
35_C77_A2.0531.00
153_L161_I2.0061.00
52_A77_A2.0001.00
140_K172_R1.9551.00
167_G170_K1.8561.00
147_L161_I1.7991.00
68_K71_T1.7401.00
59_N62_S1.7311.00
21_A25_D1.7181.00
43_H46_E1.6991.00
165_P168_T1.6621.00
22_D26_I1.6481.00
83_D86_R1.6391.00
138_P141_Y1.6381.00
164_I172_R1.6361.00
34_L74_Y1.6321.00
80_L83_D1.5981.00
141_Y172_R1.5971.00
155_L166_V1.5741.00
38_M81_T1.5651.00
56_A73_L1.5451.00
44_E84_R1.5381.00
147_L153_L1.5331.00
41_N44_E1.5131.00
149_Y177_R1.5041.00
168_T172_R1.4971.00
174_H178_E1.4941.00
154_S157_E1.4861.00
168_T171_T1.4751.00
155_L173_I1.4741.00
155_L170_K1.4731.00
30_K74_Y1.4691.00
142_R146_V1.4571.00
48_I84_R1.4341.00
64_D67_R1.4191.00
55_R83_D1.4141.00
51_E80_L1.3821.00
31_I77_A1.3701.00
179_A183_Q1.3651.00
36_Y42_V1.3631.00
35_C81_T1.3291.00
164_I169_V1.3171.00
75_R78_T1.3121.00
27_Y70_S1.2681.00
79_N82_I1.2661.00
144_V173_I1.2571.00
148_K173_I1.2541.00
144_V176_G1.2451.00
70_S74_Y1.2381.00
144_V172_R1.2301.00
31_I49_A1.2051.00
24_V28_K1.2041.00
24_V53_F1.2041.00
156_I160_E1.1941.00
166_V170_K1.1851.00
55_R59_N1.1841.00
135_L142_R1.1791.00
39_L48_I1.1761.00
75_R79_N1.1731.00
171_T174_H1.1681.00
32_Y42_V1.1661.00
122_V125_E1.1631.00
153_L157_E1.1451.00
34_L78_T1.1411.00
27_Y53_F1.1291.00
52_A76_I1.1161.00
54_I58_V1.1151.00
35_C48_I1.1121.00
32_Y36_Y1.0991.00
39_L81_T1.0991.00
35_C49_A1.0901.00
173_I177_R1.0871.00
167_G171_T1.0841.00
16_D19_A1.0771.00
141_Y176_G1.0731.00
148_K155_L1.0721.00
42_V46_E1.0641.00
171_T175_R1.0631.00
149_Y173_I1.0551.00
20_F57_Y1.0541.00
31_I52_A1.0511.00
48_I80_L1.0441.00
63_F66_N1.0261.00
27_Y73_L1.0241.00
44_E88_K1.0191.00
147_L158_I1.0061.00
83_D87_K1.0061.00
84_R88_K1.0061.00
28_K32_Y1.0051.00
52_A80_L1.0031.00
82_I85_I0.9961.00
80_L84_R0.9951.00
133_K136_K0.9951.00
141_Y175_R0.9931.00
158_I169_V0.9871.00
81_T85_I0.9761.00
17_Q21_A0.9731.00
118_E122_V0.9681.00
32_Y46_E0.9681.00
36_Y45_A0.9601.00
48_I81_T0.9521.00
127_S131_Q0.9501.00
139_D143_T0.9451.00
155_L169_V0.9361.00
31_I73_L0.9321.00
146_V150_I0.9261.00
141_Y144_V0.9191.00
133_K180_L0.9151.00
28_K49_A0.9071.00
23_I69_F0.9021.00
144_V164_I0.8971.00
146_V151_D0.8951.00
33_Q37_R0.8951.00
143_T146_V0.8951.00
32_Y45_A0.8951.00
140_K164_I0.8901.00
145_I149_Y0.8891.00
87_K90_P0.8831.00
167_G174_H0.8811.00
27_Y30_K0.8791.00
35_C45_A0.8761.00
32_Y49_A0.8731.00
56_A72_W0.8651.00
29_D33_Q0.8501.00
67_R71_T0.8491.00
178_E182_K0.8441.00
55_R58_V0.8401.00
72_W76_I0.8321.00
18_D21_A0.8191.00
133_K184_L0.8181.00
164_I168_T0.8021.00
63_F67_R0.8001.00
20_F61_D0.7971.00
159_G166_V0.7901.00
75_R82_I0.7901.00
143_T162_L0.7781.00
143_T147_L0.7741.00
88_K91_D0.7631.00
30_K34_L0.7621.00
22_D25_D0.7621.00
49_A53_F0.7421.00
129_T132_Q0.7311.00
156_I170_K0.7301.00
45_A49_A0.7291.00
34_L38_M0.7291.00
144_V162_L0.7241.00
51_E84_R0.7211.00
128_N132_Q0.7171.00
157_E160_E0.7171.00
126_L129_T0.7161.00
50_Q54_I0.7111.00
145_I176_G0.7091.00
154_S158_I0.7091.00
121_V125_E0.7081.00
51_E54_I0.7051.00
131_Q135_L0.7021.00
158_I162_L0.6921.00
74_Y78_T0.6891.00
140_K143_T0.6681.00
87_K91_D0.6671.00
147_L162_L0.6661.00
117_P120_A0.6611.00
125_E129_T0.6601.00
92_Y95_D0.6581.00
89_K93_Y0.6571.00
82_I86_R0.6511.00
38_M82_I0.6491.00
47_D50_Q0.6411.00
91_D95_D0.6381.00
125_E128_N0.6341.00
56_A76_I0.6281.00
177_R181_R0.6261.00
175_R178_E0.6261.00
25_D28_K0.6241.00
120_A124_L0.6211.00
84_R87_K0.6201.00
28_K53_F0.6181.00
34_L81_T0.6161.00
57_Y60_I0.6161.00
88_K92_Y0.6161.00
121_V124_L0.6161.00
85_I89_K0.6151.00
124_L127_S0.6081.00
95_D99_A0.6061.00
145_I180_L0.6061.00
77_A81_T0.6041.00
52_A56_A0.6031.00
175_R179_A0.6021.00
60_I69_F0.5931.00
147_L151_D0.5921.00
39_L84_R0.5901.00
30_K33_Q0.5851.00
93_Y97_E0.5841.00
63_F71_T0.5821.00
139_D142_R0.5791.00
143_T161_I0.5781.00
172_R176_G0.5711.00
18_D22_D0.5661.00
39_L45_A0.5641.00
63_F68_K0.5641.00
159_G162_L0.5611.00
36_Y40_G0.5601.00
155_L158_I0.5601.00
65_I68_K0.5581.00
138_P179_A0.5561.00
90_P94_L0.5561.00
132_Q136_K0.5521.00
96_A99_A0.5511.00
134_I146_V0.5461.00
159_G169_V0.5451.00
41_N46_E0.5421.00
94_L97_E0.5421.00
131_Q134_I0.5401.00
71_T74_Y0.5401.00
116_L119_D0.5351.00
94_L98_V0.5341.00
38_M78_T0.5341.00
137_L176_G0.5331.00
179_A182_K0.5331.00
119_D123_S0.5311.00
56_A69_F0.5291.00
48_I77_A0.5221.00
158_I173_I0.5201.00
123_S126_L0.5171.00
131_Q150_I0.5131.00
81_T84_R0.5131.00
39_L44_E0.5111.00
20_F24_V0.5071.00
29_D32_Y0.5051.00
134_I145_I0.5041.00
89_K92_Y0.5031.00
170_K174_H0.5001.00
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  
1or7A 2 0.9519 100 0.167 Contact Map
4cxfA 1 0.8182 100 0.177 Contact Map
4nqwA 1 0.7861 100 0.212 Contact Map
2q1zA 1 0.9251 100 0.216 Contact Map
4yfkF 1 1 100 0.235 Contact Map
1rp3A 1 0.9465 100 0.259 Contact Map
1l0oC 1 0.0856 100 0.259 Contact Map
2a6hF 1 0.9733 100 0.287 Contact Map
1l9zH 1 0.9572 100 0.295 Contact Map
2lfwA 1 0.7701 100 0.31 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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