GREMLIN Database
LMRA - HTH-type transcriptional regulator LmrA
UniProt: O34619 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 188 (174)
Sequences: 43254 (34050)
Seq/√Len: 2581.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_N39_K4.1311.00
21_Q30_Q4.1301.00
16_R34_E3.5381.00
47_P52_Q2.7371.00
18_F26_T2.4611.00
48_G52_Q2.1741.00
13_A34_E2.1491.00
6_S9_K2.1121.00
32_I42_L2.1061.00
131_A149_K2.0311.00
17_L34_E2.0081.00
20_L34_E2.0031.00
9_K13_A1.9831.00
8_E60_E1.9681.00
17_L30_Q1.9601.00
17_L26_T1.9541.00
78_D81_E1.8661.00
15_T60_E1.8581.00
131_A135_E1.8541.00
17_L21_Q1.8221.00
7_R56_E1.8041.00
38_P41_S1.7831.00
13_A16_R1.7811.00
29_N33_K1.7701.00
135_E148_A1.7681.00
11_L56_E1.7461.00
135_E139_R1.7191.00
82_G136_E1.6701.00
14_A18_F1.6501.00
28_L39_K1.6351.00
8_E12_S1.6261.00
28_L43_Y1.5851.00
135_E138_L1.5301.00
136_E140_Q1.5221.00
60_E64_Y1.5151.00
14_A53_L1.5141.00
154_V158_M1.5061.00
30_Q34_E1.5011.00
15_T57_A1.4921.00
30_Q33_K1.4881.00
59_N122_A1.4831.00
56_E59_N1.4721.00
138_L145_E1.4451.00
46_F56_E1.4351.00
88_K179_S1.4141.00
55_I59_N1.4131.00
12_S60_E1.4061.00
15_T61_M1.3921.00
5_D9_K1.3921.00
16_R20_L1.3841.00
41_S44_Y1.3671.00
22_G26_T1.3661.00
27_G30_Q1.3341.00
133_V137_K1.3181.00
22_G25_G1.3111.00
138_L146_S1.2791.00
26_T31_I1.2581.00
28_L42_L1.2571.00
52_Q56_E1.2461.00
55_I118_P1.2421.00
37_A41_S1.2331.00
127_Y131_A1.2301.00
41_S45_H1.2291.00
137_K142_G1.2131.00
23_Y54_A1.2081.00
40_G44_Y1.2071.00
13_A17_L1.2041.00
81_E85_A1.2021.00
51_E55_I1.1911.00
18_F23_Y1.1791.00
38_P44_Y1.1581.00
21_Q25_G1.1541.00
68_K89_E1.1511.00
137_K143_C1.1471.00
11_L46_F1.1361.00
84_Q88_K1.1351.00
107_L111_E1.1301.00
7_R45_H1.1211.00
52_Q55_I1.0951.00
11_L57_A1.0871.00
147_R150_E1.0821.00
138_L148_A1.0821.00
39_K43_Y1.0791.00
5_D8_E1.0721.00
85_A88_K1.0611.00
78_D142_G1.0561.00
80_A84_Q1.0531.00
59_N63_E1.0511.00
13_A35_S1.0331.00
150_E177_H1.0321.00
174_P177_H1.0281.00
31_I53_L1.0261.00
93_Q97_T1.0141.00
70_A129_E1.0091.00
157_A161_G1.0031.00
12_S16_R0.9991.00
42_L53_L0.9961.00
138_L141_T0.9941.00
15_T19_Q0.9821.00
6_S45_H0.9821.00
21_Q34_E0.9801.00
14_A57_A0.9761.00
72_C89_E0.9651.00
48_G51_E0.9571.00
72_C85_A0.9491.00
61_M64_Y0.9481.00
81_E84_Q0.9391.00
32_I39_K0.9341.00
127_Y153_T0.9331.00
149_K153_T0.9311.00
133_V136_E0.9301.00
60_E63_E0.9001.00
85_A89_E0.8991.00
39_K44_Y0.8961.00
6_S37_A0.8951.00
89_E92_C0.8921.00
129_E132_S0.8881.00
11_L60_E0.8881.00
68_K71_D0.8851.00
43_Y48_G0.8751.00
56_E60_E0.8721.00
76_C82_G0.8661.00
103_L107_L0.8651.00
88_K176_L0.8651.00
136_E139_R0.8621.00
128_K132_S0.8541.00
132_S136_E0.8471.00
132_S135_E0.8391.00
9_K12_S0.8361.00
70_A74_E0.8341.00
166_S169_A0.8331.00
88_K92_C0.8291.00
79_P140_Q0.8171.00
9_K35_S0.8151.00
23_Y50_K0.8151.00
79_P137_K0.8091.00
67_Q71_D0.8081.00
118_P122_A0.8031.00
117_E121_E0.8011.00
118_P121_E0.7881.00
173_T177_H0.7851.00
63_E67_Q0.7711.00
107_L110_A0.7701.00
66_R70_A0.7671.00
104_P107_L0.7641.00
28_L32_I0.7591.00
128_K131_A0.7521.00
131_A148_A0.7441.00
124_H128_K0.7441.00
150_E180_S0.7421.00
66_R129_E0.7401.00
29_N43_Y0.7401.00
148_A152_S0.7401.00
91_S176_L0.7401.00
84_Q180_S0.7331.00
122_A125_E0.7321.00
87_L155_V0.7311.00
150_E154_V0.7301.00
33_K39_K0.7301.00
17_L20_L0.7241.00
76_C85_A0.7191.00
12_S15_T0.7181.00
20_L30_Q0.7141.00
135_E149_K0.7131.00
138_L143_C0.7131.00
10_I35_S0.7081.00
113_S116_S0.6991.00
92_C96_C0.6921.00
75_A85_A0.6881.00
18_F54_A0.6871.00
51_E116_S0.6871.00
112_T116_S0.6861.00
102_G107_L0.6811.00
111_E115_K0.6811.00
131_A152_S0.6811.00
64_Y67_Q0.6801.00
176_L180_S0.6801.00
102_G106_G0.6771.00
121_E125_E0.6731.00
10_I42_L0.6671.00
120_R123_C0.6661.00
147_R151_A0.6621.00
125_E129_E0.6461.00
6_S38_P0.6431.00
6_S41_S0.6421.00
137_K141_T0.6371.00
71_D89_E0.6351.00
23_Y51_E0.6331.00
35_S38_P0.6301.00
10_I45_H0.6281.00
175_L179_S0.6281.00
84_Q87_L0.6281.00
171_N174_P0.6241.00
150_E153_T0.6201.00
165_L168_T0.6191.00
134_Y138_L0.6191.00
117_E120_R0.6141.00
87_L90_L0.6131.00
165_L169_A0.6121.00
67_Q70_A0.6111.00
157_A165_L0.6111.00
21_Q26_T0.6101.00
157_A160_E0.6091.00
92_C175_L0.6091.00
106_G109_A0.6051.00
78_D82_G0.6041.00
82_G133_V0.6031.00
82_G137_K0.6031.00
24_Y111_E0.6031.00
127_Y149_K0.6011.00
158_M161_G0.5981.00
88_K180_S0.5961.00
79_P142_G0.5961.00
32_I38_P0.5921.00
106_G110_A0.5881.00
106_G111_E0.5871.00
15_T64_Y0.5811.00
59_N118_P0.5811.00
160_E165_L0.5771.00
90_L94_F0.5771.00
24_Y107_L0.5761.00
11_L15_T0.5711.00
174_P179_S0.5661.00
28_L50_K0.5661.00
66_R125_E0.5611.00
80_A142_G0.5611.00
154_V157_A0.5581.00
64_Y68_K0.5561.00
92_C95_S0.5531.00
172_S176_L0.5531.00
103_L106_G0.5491.00
6_S44_Y0.5401.00
134_Y155_V0.5391.00
37_A45_H0.5391.00
23_Y26_T0.5341.00
72_C75_A0.5331.00
134_Y137_K0.5331.00
71_D75_A0.5331.00
77_T85_A0.5331.00
35_S39_K0.5301.00
116_S120_R0.5281.00
32_I37_A0.5271.00
137_K140_Q0.5271.00
51_E112_T0.5261.00
134_Y151_A0.5261.00
87_L159_I0.5251.00
72_C76_C0.5241.00
175_L178_I0.5231.00
17_L27_G0.5221.00
14_A31_I0.5221.00
153_T165_L0.5211.00
71_D74_E0.5211.00
93_Q96_C0.5211.00
32_I35_S0.5181.00
89_E93_Q0.5171.00
90_L160_E0.5111.00
29_N44_Y0.5061.00
40_G45_H0.5041.00
134_Y148_A0.5031.00
51_E118_P0.5021.00
29_N38_P0.5001.00
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  
1sgmA 2 0.9734 100 0.223 Contact Map
2genA 2 0.9681 100 0.224 Contact Map
3kz9A 2 0.9947 100 0.227 Contact Map
4kwaA 2 0.984 100 0.229 Contact Map
1vi0A 2 0.9734 100 0.233 Contact Map
4udsA 2 0.9574 100 0.234 Contact Map
2ibdA 2 0.9787 100 0.236 Contact Map
3himA 2 0.9894 100 0.236 Contact Map
3bruA 2 0.984 100 0.239 Contact Map
2hyjA 2 0.9947 100 0.242 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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