GREMLIN Database
RCSA - Transcriptional regulatory protein RcsA
UniProt: P0DMC9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10820
Length: 207 (177)
Sequences: 64098 (43459)
Seq/√Len: 3266.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
13_R32_D3.6401.00
13_R34_E3.1121.00
17_T32_D3.0561.00
6_M39_L2.6371.00
40_A70_L2.4261.00
37_D61_D2.4121.00
62_A70_L2.2561.00
167_K170_S2.2311.00
35_T61_D2.2091.00
31_N48_P2.1871.00
141_T144_S2.1361.00
36_V62_A2.1241.00
19_Y110_P2.1041.00
17_T21_L2.0611.00
92_D112_S2.0411.00
44_D74_Q2.0401.00
154_G158_I1.9541.00
23_R114_D1.9311.00
2_S29_E1.9171.00
31_N42_A1.8361.00
33_I42_A1.8191.00
34_E38_D1.7621.00
58_F86_I1.7311.00
89_V109_K1.7301.00
82_V95_L1.7201.00
35_T38_D1.7051.00
72_I101_L1.7021.00
31_N46_Q1.6431.00
159_S162_M1.6011.00
20_L117_L1.5751.00
68_I80_F1.5571.00
172_H175_N1.5551.00
4_I33_I1.5321.00
70_L74_Q1.5291.00
82_V100_N1.5051.00
154_G157_Q1.5031.00
42_A46_Q1.4971.00
53_I67_R1.4871.00
147_R151_A1.4741.00
158_I162_M1.4691.00
142_E179_K1.4641.00
36_V67_R1.4611.00
2_S31_N1.4511.00
86_I91_F1.4381.00
81_I120_I1.4261.00
62_A66_Q1.3971.00
51_V78_T1.3841.00
50_V117_L1.3611.00
42_A45_S1.3611.00
10_S34_E1.3401.00
102_L116_I1.3291.00
63_S66_Q1.3261.00
37_D62_A1.3151.00
70_L73_N1.2811.00
43_C71_I1.2791.00
28_R118_G1.2561.00
69_K98_R1.2471.00
68_I82_V1.2381.00
101_L123_K1.2251.00
66_Q69_K1.2231.00
6_M59_I1.1821.00
40_A67_R1.1821.00
27_K118_G1.1801.00
156_I159_S1.1721.00
23_R27_K1.1701.00
97_V118_G1.1621.00
55_E65_S1.1531.00
4_I48_P1.1521.00
7_D13_R1.1471.00
154_G159_S1.1421.00
23_R118_G1.1361.00
128_T135_T1.1351.00
171_S174_G1.1351.00
41_I45_S1.1311.00
153_Q161_Q1.1301.00
148_M161_Q1.1251.00
4_I39_L1.1211.00
50_V121_L1.1211.00
38_D41_I1.1211.00
114_D118_G1.1161.00
88_N91_F1.1161.00
38_D42_A1.1031.00
155_T170_S1.0891.00
55_E82_V1.0851.00
40_A62_A1.0751.00
33_I39_L1.0711.00
75_H78_T1.0661.00
65_S94_Y1.0451.00
120_I123_K1.0401.00
53_I68_I1.0351.00
173_K177_K1.0331.00
89_V93_E1.0291.00
42_A48_P1.0281.00
167_K171_S1.0221.00
37_D41_I1.0131.00
90_H94_Y1.0071.00
65_S98_R1.0061.00
112_S115_D0.9971.00
119_D124_E0.9921.00
115_D119_D0.9911.00
92_D105_S0.9831.00
155_T159_S0.9831.00
4_I42_A0.9771.00
8_L54_N0.9741.00
144_S147_R0.9711.00
130_F135_T0.9671.00
157_Q161_Q0.9581.00
3_T28_R0.9581.00
143_S147_R0.9581.00
94_Y98_R0.9431.00
167_K174_G0.9381.00
140_R144_S0.9351.00
156_I166_A0.9331.00
33_I38_D0.9301.00
65_S95_L0.9171.00
168_T172_H0.9161.00
2_S46_Q0.9111.00
11_Y15_G0.9081.00
139_S179_K0.9061.00
10_S14_L0.9041.00
4_I31_N0.9031.00
28_R114_D0.9001.00
148_M152_G0.8981.00
69_K94_Y0.8961.00
170_S173_K0.8891.00
101_L120_I0.8881.00
39_L43_C0.8851.00
14_L32_D0.8741.00
16_L83_F0.8671.00
149_W173_K0.8631.00
18_G22_S0.8631.00
6_M51_V0.8411.00
55_E63_S0.8401.00
79_L101_L0.8391.00
166_A170_S0.8341.00
6_M33_I0.8331.00
175_N178_R0.8331.00
5_I16_L0.8321.00
96_L116_I0.8321.00
40_A44_D0.8321.00
127_I144_S0.8301.00
177_K182_T0.8281.00
51_V71_I0.8271.00
52_F83_F0.8201.00
93_E97_V0.8151.00
155_T158_I0.8021.00
93_E111_E0.7951.00
68_I98_R0.7941.00
94_Y97_V0.7861.00
87_A105_S0.7821.00
39_L67_R0.7821.00
174_G178_R0.7811.00
41_I44_D0.7671.00
119_D122_K0.7591.00
89_V92_D0.7521.00
10_S13_R0.7511.00
66_Q70_L0.7491.00
156_I160_D0.7491.00
4_I43_C0.7461.00
130_F133_M0.7391.00
16_L113_L0.7341.00
141_T172_H0.7321.00
110_P114_D0.7301.00
90_H111_E0.7221.00
171_S175_N0.7171.00
14_L18_G0.7171.00
53_I80_F0.7141.00
59_I67_R0.7131.00
58_F85_A0.7121.00
14_L17_T0.7091.00
164_I169_V0.7041.00
69_K73_N0.7041.00
127_I143_S0.7031.00
68_I100_N0.6991.00
52_F113_L0.6981.00
91_F94_Y0.6981.00
53_I82_V0.6901.00
71_I76_P0.6891.00
83_F108_I0.6871.00
81_I102_L0.6861.00
112_S116_I0.6851.00
43_C75_H0.6851.00
20_L28_R0.6851.00
131_L181_K0.6821.00
54_N106_K0.6801.00
148_M158_I0.6781.00
154_G162_M0.6771.00
7_D106_K0.6751.00
17_T30_I0.6741.00
84_M103_I0.6741.00
77_N126_T0.6701.00
51_V80_F0.6701.00
44_D75_H0.6691.00
36_V40_A0.6571.00
40_A43_C0.6561.00
142_E175_N0.6551.00
55_E86_I0.6511.00
15_G19_Y0.6481.00
67_R71_I0.6471.00
92_D109_K0.6461.00
7_D59_I0.6391.00
43_C48_P0.6341.00
5_I17_T0.6341.00
148_M151_A0.6331.00
55_E91_F0.6331.00
157_Q160_D0.6321.00
159_S170_S0.6311.00
43_C78_T0.6301.00
62_A67_R0.6261.00
89_V111_E0.6241.00
2_S49_S0.6241.00
97_V115_D0.6201.00
79_L121_L0.6191.00
28_R121_L0.6191.00
13_R17_T0.6161.00
146_L176_I0.6071.00
6_M67_R0.6071.00
121_L124_E0.6051.00
21_L29_E0.6051.00
9_C85_A0.6041.00
111_E115_D0.6011.00
84_M106_K0.5981.00
150_M153_Q0.5961.00
5_I32_D0.5961.00
3_T50_V0.5921.00
23_R28_R0.5881.00
36_V61_D0.5861.00
47_R75_H0.5811.00
43_C51_V0.5811.00
108_I112_S0.5791.00
131_L134_P0.5791.00
19_Y114_D0.5751.00
108_I113_L0.5751.00
109_K112_S0.5711.00
12_T108_I0.5681.00
115_D118_G0.5681.00
153_Q157_Q0.5651.00
84_M92_D0.5631.00
148_M153_Q0.5581.00
81_I116_I0.5571.00
144_S148_M0.5541.00
158_I161_Q0.5501.00
44_D70_L0.5491.00
47_R76_P0.5461.00
154_G160_D0.5461.00
3_T20_L0.5451.00
52_F117_L0.5371.00
36_V59_I0.5361.00
116_I126_T0.5361.00
8_L84_M0.5331.00
15_G18_G0.5321.00
38_D61_D0.5301.00
147_R150_M0.5281.00
68_I72_I0.5241.00
102_L120_I0.5231.00
53_I59_I0.5231.00
145_M172_H0.5221.00
145_M149_W0.5211.00
93_E96_L0.5201.00
139_S142_E0.5191.00
138_L176_I0.5191.00
159_S163_N0.5081.00
95_L100_N0.5061.00
40_A74_Q0.5041.00
129_S143_S0.5041.00
151_A161_Q0.5001.00
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  
4gvpA 1 0.942 100 0.219 Contact Map
3c3wA 2 0.942 100 0.221 Contact Map
1yioA 1 0.9179 100 0.226 Contact Map
1a04A 1 0.9324 100 0.238 Contact Map
4ldzA 2 0.9082 100 0.249 Contact Map
3kloA 2 0.9372 100 0.259 Contact Map
4hyeA 2 0.9372 100 0.266 Contact Map
3q9sA 1 0.8986 100 0.294 Contact Map
1ys7A 2 0.9469 100 0.298 Contact Map
4b09A 2 0.9179 100 0.313 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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