GREMLIN Database
FECI - Probable RNA polymerase sigma factor FecI
UniProt: P23484 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10291
Length: 173 (158)
Sequences: 38267 (29376)
Seq/√Len: 2337.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
48_R72_V3.2271.00
132_S142_I2.7451.00
23_W62_R2.4711.00
140_S150_I2.3851.00
125_T163_H2.2291.00
120_G167_F2.1821.00
28_L69_A2.1021.00
117_M167_F2.0421.00
70_K74_V1.9831.00
45_T69_A1.9491.00
124_K156_Y1.9441.00
137_L145_K1.9361.00
149_S152_S1.8861.00
151_S154_K1.8331.00
75_D78_R1.7651.00
36_F39_D1.7531.00
31_K73_M1.7151.00
37_D76_L1.7051.00
27_W66_C1.7011.00
72_V75_D1.6601.00
125_T156_Y1.6401.00
14_E18_G1.6381.00
60_D63_S1.6161.00
148_V156_Y1.5981.00
133_Q161_V1.5841.00
138_T141_E1.5591.00
34_S37_D1.5551.00
71_R74_V1.5461.00
49_V65_L1.5431.00
29_T35_A1.5361.00
158_A162_E1.5251.00
139_Y150_I1.5231.00
48_R75_D1.5201.00
139_Y157_V1.5041.00
122_N125_T1.4981.00
152_S156_Y1.4501.00
139_Y154_K1.4451.00
41_I76_L1.4431.00
148_V153_V1.4331.00
67_T70_K1.4301.00
15_S19_T1.4281.00
24_L69_A1.4271.00
44_D72_V1.4211.00
131_L145_K1.3941.00
152_S155_K1.3881.00
128_A157_V1.3881.00
28_L73_M1.3791.00
23_W66_C1.3691.00
163_H167_F1.3681.00
20_H46_F1.3441.00
126_R130_L1.3401.00
150_I154_K1.3331.00
155_K158_A1.2711.00
67_T71_R1.2711.00
62_R66_C1.2601.00
45_T68_I1.2501.00
37_D80_N1.2501.00
140_S144_H1.2471.00
32_L73_M1.2461.00
41_I72_V1.2351.00
24_L42_A1.2341.00
47_L51_V1.2291.00
55_L58_I1.2271.00
155_K159_K1.2251.00
20_H62_R1.2251.00
25_K35_A1.2121.00
25_K29_T1.2111.00
32_L41_I1.2051.00
48_R52_S1.2031.00
131_L137_L1.2021.00
128_A156_Y1.1941.00
28_L41_I1.1901.00
28_L42_A1.1851.00
119_D126_R1.1831.00
13_F50_M1.1791.00
17_Y46_F1.1771.00
128_A160_A1.1721.00
17_Y21_H1.1721.00
59_R63_S1.1601.00
132_S139_Y1.1141.00
27_W70_K1.1131.00
25_K39_D1.1061.00
137_L141_E1.0921.00
35_A39_D1.0901.00
142_I153_V1.0831.00
73_M77_F1.0801.00
49_V64_F1.0691.00
125_T160_A1.0671.00
74_V77_F1.0521.00
20_H65_L1.0481.00
45_T72_V1.0401.00
151_S158_A1.0291.00
151_S155_K1.0201.00
157_V161_V1.0181.00
76_L80_N1.0141.00
117_M164_C1.0081.00
106_S109_E1.0051.00
139_Y153_V0.9991.00
21_H25_K0.9741.00
79_R82_L0.9741.00
125_T128_A0.9641.00
24_L65_L0.9601.00
133_Q157_V0.9431.00
25_K38_A0.9391.00
123_G127_E0.9381.00
130_L134_L0.9331.00
162_E166_L0.9291.00
21_H42_A0.9291.00
48_R51_V0.9141.00
25_K42_A0.9131.00
72_V76_L0.9081.00
29_T38_A0.9061.00
28_L38_A0.8971.00
22_G26_S0.8961.00
41_I73_M0.8961.00
130_L135_D0.8921.00
67_T74_V0.8781.00
20_H23_W0.8781.00
128_A148_V0.8701.00
24_L45_T0.8461.00
64_F68_I0.8441.00
16_L61_P0.8381.00
131_L142_I0.8381.00
80_N83_E0.8361.00
26_S30_R0.8361.00
75_D79_R0.8321.00
79_R83_E0.8321.00
129_F133_Q0.8281.00
27_W31_K0.8151.00
132_S157_V0.8121.00
138_T142_I0.8091.00
141_E144_H0.8081.00
131_L146_L0.8001.00
43_Q47_L0.7941.00
55_L59_R0.7931.00
140_S154_K0.7901.00
142_I146_L0.7901.00
125_T159_K0.7881.00
102_E106_S0.7811.00
44_D47_L0.7791.00
124_K127_E0.7731.00
148_V152_S0.7731.00
117_M120_G0.7701.00
129_F160_A0.7591.00
38_A42_A0.7521.00
124_K148_V0.7491.00
143_A150_I0.7371.00
82_L86_Y0.7361.00
11_L14_E0.7321.00
113_L116_S0.7321.00
23_W27_W0.7291.00
115_D119_D0.7241.00
29_T33_Q0.7191.00
81_A85_A0.7131.00
127_E130_L0.7121.00
15_S18_G0.7091.00
112_Q116_S0.7001.00
56_S59_R0.6991.00
109_E112_Q0.6971.00
111_L115_D0.6821.00
32_L76_L0.6821.00
117_M168_R0.6811.00
132_S161_V0.6801.00
74_V78_R0.6801.00
77_F81_A0.6791.00
41_I69_A0.6771.00
108_L111_L0.6621.00
69_A73_M0.6601.00
101_P104_R0.6581.00
128_A146_L0.6521.00
31_K74_V0.6521.00
66_C70_K0.6501.00
32_L37_D0.6461.00
28_L32_L0.6431.00
70_K127_E0.6401.00
46_F50_M0.6261.00
13_F17_Y0.6251.00
100_S103_E0.6211.00
107_Q110_T0.6211.00
57_T60_D0.6181.00
44_D76_L0.6171.00
110_T113_L0.6161.00
106_S110_T0.6141.00
31_K70_K0.6101.00
159_K162_E0.6091.00
27_W73_M0.6091.00
81_A84_K0.6021.00
76_L79_R0.6011.00
18_G21_H0.5991.00
45_T49_V0.5981.00
123_G126_R0.5971.00
159_K163_H0.5961.00
87_L90_L0.5951.00
154_K158_A0.5941.00
88_E92_L0.5911.00
55_L63_S0.5891.00
32_L38_A0.5881.00
104_R108_L0.5861.00
40_D43_Q0.5851.00
131_L135_D0.5741.00
163_H166_L0.5741.00
23_W26_S0.5741.00
139_Y142_I0.5721.00
118_L130_L0.5641.00
34_S39_D0.5621.00
108_L112_Q0.5621.00
115_D118_L0.5591.00
116_S120_G0.5591.00
11_L15_S0.5501.00
17_Y43_Q0.5461.00
80_N84_K0.5441.00
34_S38_A0.5421.00
28_L31_K0.5401.00
143_A153_V0.5391.00
42_A46_F0.5391.00
55_L60_D0.5391.00
164_C168_R0.5341.00
143_A146_L0.5321.00
77_F80_N0.5251.00
129_F164_C0.5241.00
161_V165_L0.5231.00
156_Y159_K0.5231.00
49_V68_I0.5231.00
82_L85_A0.5231.00
105_E108_L0.5221.00
122_N163_H0.5201.00
109_E113_L0.5191.00
103_E107_Q0.5171.00
84_K87_L0.5161.00
127_E146_L0.5141.00
49_V61_P0.5121.00
63_S66_C0.5071.00
55_L61_P0.5071.00
121_L160_A0.5051.00
88_E91_A0.5051.00
42_A69_A0.5031.00
118_L129_F0.5001.00
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  
4cxfA 1 0.8555 100 0.167 Contact Map
1or7A 2 0.948 100 0.184 Contact Map
2q1zA 1 0.9538 100 0.2 Contact Map
4nqwA 1 0.8208 100 0.207 Contact Map
4yfkF 1 1 100 0.261 Contact Map
4g97A 1 0.6763 100 0.27 Contact Map
2lfwA 1 0.8382 100 0.27 Contact Map
1rp3A 1 0.9827 100 0.278 Contact Map
3n0rA 1 0.8092 100 0.283 Contact Map
1l0oC 1 0.0694 100 0.284 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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