GREMLIN Database
PKSA - HTH-type transcriptional regulator PksA
UniProt: O34381 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 205 (185)
Sequences: 47673 (38542)
Seq/√Len: 2833.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
33_R43_L4.1181.00
25_R34_N3.9901.00
20_R38_E3.4971.00
51_S55_E2.7061.00
22_I30_A2.3111.00
52_T55_E2.2391.00
21_V38_E2.1661.00
21_V34_N2.0881.00
36_A46_L2.0671.00
11_R59_F2.0201.00
21_V25_R1.9881.00
24_E38_E1.9851.00
17_A38_E1.9741.00
10_R13_Q1.9261.00
21_V30_A1.9201.00
187_Q191_S1.9131.00
12_K63_L1.9101.00
87_L186_M1.8411.00
13_Q17_A1.8221.00
33_R37_K1.8191.00
91_L182_K1.7741.00
85_K138_Y1.7701.00
133_R152_D1.7621.00
17_A20_R1.7471.00
133_R137_A1.7431.00
81_L84_E1.7371.00
19_W63_L1.7231.00
18_T22_I1.6221.00
15_A59_F1.6201.00
42_S45_A1.6011.00
32_A47_R1.5981.00
11_R49_Y1.5901.00
19_W64_V1.5691.00
12_K16_E1.5621.00
137_A140_D1.5421.00
137_A151_K1.5151.00
20_R24_E1.4991.00
32_A43_L1.4931.00
34_N38_E1.4841.00
34_N37_K1.4761.00
137_A141_E1.4691.00
31_S34_N1.4551.00
157_R161_L1.4471.00
59_F62_K1.4221.00
50_F59_F1.4201.00
63_L67_K1.4091.00
19_W60_A1.3941.00
30_A35_I1.3821.00
18_T56_L1.3741.00
138_Y142_S1.3441.00
26_G30_A1.3111.00
25_R29_G1.2971.00
16_E63_L1.2891.00
140_D147_Q1.2881.00
9_K13_Q1.2881.00
187_Q190_E1.2861.00
32_A46_L1.2671.00
58_A62_K1.2601.00
139_L145_L1.2601.00
26_G29_G1.2521.00
17_A21_V1.2431.00
139_L144_L1.2421.00
41_L45_A1.2061.00
45_A48_H1.2051.00
43_L47_R1.1891.00
182_K186_M1.1851.00
87_L91_L1.1851.00
153_I183_R1.1831.00
71_R92_E1.1731.00
186_M190_E1.1691.00
42_S48_H1.1681.00
44_G48_H1.1521.00
83_K87_L1.1391.00
136_I139_L1.1291.00
177_N180_R1.1191.00
73_K131_G1.1141.00
17_A39_A1.1131.00
129_F133_R1.1121.00
55_E59_F1.1081.00
22_I27_M1.1041.00
88_Q91_L1.1041.00
150_D153_I1.1031.00
84_E88_Q1.0911.00
10_R49_Y1.0841.00
9_K12_K1.0821.00
135_L139_L1.0721.00
54_D58_A1.0711.00
18_T60_A1.0671.00
140_D149_A1.0661.00
15_A60_A1.0581.00
15_A50_F1.0521.00
19_W23_L1.0491.00
25_R38_E1.0421.00
47_R52_T1.0381.00
35_I56_L1.0281.00
55_E58_A1.0231.00
16_E20_R1.0201.00
183_R186_M1.0171.00
118_K121_F1.0121.00
27_M57_L1.0041.00
181_I184_V0.9971.00
45_A49_Y0.9951.00
80_L88_Q0.9941.00
178_K182_K0.9911.00
20_R102_R0.9891.00
46_L56_L0.9781.00
28_E113_Y0.9741.00
105_E109_A0.9691.00
110_F113_Y0.9671.00
131_G134_N0.9671.00
10_R41_L0.9511.00
91_L186_M0.9481.00
117_K120_M0.9431.00
36_A43_L0.9391.00
92_E95_P0.9381.00
81_L144_L0.9361.00
73_K77_V0.9361.00
75_I92_E0.9351.00
160_A164_G0.9221.00
85_K135_L0.9161.00
127_G131_G0.9161.00
64_V67_K0.9081.00
7_H48_H0.9081.00
79_D85_K0.9061.00
140_D151_K0.9061.00
59_F63_L0.9011.00
84_E87_L0.9011.00
100_T103_E0.8991.00
69_T73_K0.8981.00
88_Q92_E0.8961.00
62_K66_E0.8941.00
134_N138_Y0.8941.00
129_F156_E0.8921.00
138_Y141_E0.8911.00
188_H191_S0.8901.00
179_D182_K0.8841.00
134_N137_A0.8811.00
146_K149_A0.8811.00
71_R74_D0.8681.00
8_E12_K0.8661.00
15_A63_L0.8621.00
75_I88_Q0.8571.00
7_H10_R0.8491.00
63_L66_E0.8491.00
109_A113_Y0.8431.00
43_L48_H0.8391.00
169_A172_D0.8381.00
152_D156_E0.8361.00
130_S134_N0.8221.00
104_M107_W0.8201.00
21_V24_E0.8191.00
95_P178_K0.8171.00
13_Q16_E0.8161.00
105_E108_F0.8151.00
54_D117_K0.8151.00
37_K43_L0.8101.00
176_V180_R0.8061.00
91_L95_P0.8021.00
149_A154_E0.7921.00
69_T127_G0.7901.00
70_D74_D0.7871.00
13_Q39_A0.7831.00
180_R184_V0.7801.00
133_R151_K0.7771.00
140_D143_D0.7731.00
66_E70_D0.7631.00
135_L138_Y0.7601.00
87_L182_K0.7561.00
182_K187_Q0.7551.00
80_L84_E0.7551.00
82_P142_S0.7541.00
6_D9_K0.7451.00
32_A53_Q0.7431.00
105_E113_Y0.7401.00
14_I46_L0.7381.00
153_I156_E0.7381.00
83_K190_E0.7311.00
153_I180_R0.7261.00
96_T100_T0.7241.00
24_E34_N0.7231.00
133_R155_A0.7211.00
181_I185_I0.7211.00
114_A118_K0.7151.00
16_E19_W0.7081.00
27_M53_Q0.7061.00
23_L102_R0.7051.00
168_H171_L0.7041.00
82_P139_L0.7021.00
160_A163_D0.7011.00
157_R160_A0.7001.00
33_R47_R0.7001.00
127_G130_S0.6981.00
69_T131_G0.6931.00
14_I39_A0.6891.00
15_A19_W0.6861.00
79_D84_E0.6861.00
151_K155_A0.6851.00
25_R30_A0.6821.00
184_V188_H0.6821.00
114_A117_K0.6791.00
62_K123_A0.6771.00
130_S133_R0.6761.00
182_K185_I0.6721.00
32_A36_A0.6691.00
129_F152_D0.6691.00
153_I157_R0.6681.00
10_R45_A0.6651.00
39_A42_S0.6631.00
180_R183_R0.6611.00
168_H172_D0.6581.00
140_D145_L0.6511.00
113_Y116_H0.6511.00
178_K181_I0.6451.00
98_E178_K0.6441.00
101_I105_E0.6411.00
54_D119_D0.6411.00
132_M139_L0.6331.00
90_L158_L0.6331.00
117_K121_F0.6321.00
118_K122_D0.6311.00
179_D183_R0.6291.00
87_L90_L0.6281.00
67_K70_D0.6281.00
139_L143_D0.6251.00
76_A134_N0.6141.00
116_H119_D0.6131.00
74_D92_E0.6121.00
78_R88_Q0.6111.00
115_R118_K0.6091.00
153_I187_Q0.6071.00
79_D88_Q0.6041.00
14_I49_Y0.6011.00
7_H49_Y0.5951.00
104_M109_A0.5901.00
107_W110_F0.5881.00
95_P99_E0.5871.00
183_R187_Q0.5841.00
22_I57_L0.5791.00
43_L46_L0.5781.00
126_D130_S0.5771.00
6_D10_R0.5761.00
71_R96_T0.5711.00
75_I78_R0.5681.00
58_A119_D0.5641.00
82_P144_L0.5631.00
27_M54_D0.5621.00
184_V187_Q0.5561.00
87_L190_E0.5561.00
70_D73_K0.5521.00
184_V191_S0.5511.00
161_L164_G0.5471.00
58_A123_A0.5451.00
19_W67_K0.5451.00
154_E157_R0.5421.00
27_M30_A0.5411.00
39_A43_L0.5411.00
93_M97_N0.5381.00
83_K144_L0.5371.00
119_D122_D0.5371.00
185_I188_H0.5361.00
136_I151_K0.5361.00
81_L85_K0.5361.00
74_D78_R0.5351.00
136_I140_D0.5291.00
114_A121_F0.5191.00
163_D168_H0.5181.00
122_D126_D0.5171.00
36_A41_L0.5151.00
10_R42_S0.5151.00
109_A112_A0.5141.00
90_L93_M0.5131.00
95_P182_K0.5101.00
106_V110_F0.5101.00
90_L162_V0.5081.00
185_I189_V0.5081.00
141_E145_L0.5071.00
33_R42_S0.5031.00
36_A42_S0.5001.00
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  
2gfnA 2 0.9171 100 0.213 Contact Map
1ui5A 2 0.9707 100 0.235 Contact Map
3he0A 2 0.9073 100 0.235 Contact Map
2d6yA 2 0.8927 100 0.24 Contact Map
2xdnA 2 0.9561 100 0.241 Contact Map
2np5A 3 0.9122 100 0.243 Contact Map
2iaiA 2 0.922 100 0.244 Contact Map
2nx4A 2 0.9268 100 0.244 Contact Map
3eupA 2 0.9561 100 0.247 Contact Map
4udsA 2 0.8927 100 0.248 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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