GREMLIN Database
YFIK - Uncharacterized transcriptional regulatory protein YfiK
UniProt: P94439 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 220 (199)
Sequences: 80167 (57690)
Seq/√Len: 4089.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_R32_T3.7761.00
18_A32_T3.3291.00
14_R34_R3.3201.00
40_F68_L2.7911.00
7_T39_A2.7741.00
37_Q59_V2.5831.00
60_S68_L2.3021.00
35_N59_V2.3021.00
36_G60_S2.2301.00
20_L108_A2.1141.00
44_K72_S2.1041.00
33_A42_K2.0411.00
3_K28_D2.0371.00
18_A22_Q2.0361.00
31_A42_K1.9281.00
56_R84_F1.9181.00
53_M65_G1.8981.00
34_R38_E1.8911.00
187_G190_K1.8051.00
66_T78_V1.7961.00
35_N38_E1.7931.00
90_I110_T1.7811.00
31_A46_L1.7341.00
80_M93_A1.7301.00
42_K46_L1.7301.00
31_A48_P1.7291.00
67_K96_E1.7211.00
25_E112_V1.6921.00
3_K31_A1.6881.00
5_I33_A1.6661.00
80_M98_A1.6651.00
70_T99_S1.6571.00
87_S107_S1.6321.00
161_R164_E1.6231.00
175_N190_K1.6191.00
36_G65_G1.5781.00
42_K45_E1.5251.00
61_N64_E1.5241.00
100_G114_A1.5191.00
60_S64_E1.5121.00
73_L76_V1.5081.00
68_L72_S1.4961.00
43_A69_I1.4831.00
21_L115_V1.4791.00
168_E181_K1.4771.00
173_L181_K1.4661.00
167_A171_Y1.4621.00
192_H195_N1.4531.00
84_F89_L1.4461.00
68_L71_S1.4311.00
51_V76_V1.4161.00
174_N177_E1.4101.00
11_D34_R1.3931.00
66_T80_M1.3851.00
37_Q60_S1.3821.00
40_F65_G1.3511.00
50_I115_V1.3501.00
64_E67_K1.3381.00
3_K46_L1.3351.00
42_K48_P1.3291.00
79_L118_V1.3241.00
99_S121_G1.2961.00
162_E199_K1.2831.00
99_S118_V1.2811.00
55_I63_V1.2661.00
63_V93_A1.2541.00
27_L116_M1.2461.00
40_F60_S1.2351.00
7_T57_M1.2261.00
8_D14_R1.2231.00
41_E45_E1.2091.00
92_E96_E1.2071.00
202_V211_Y1.2011.00
112_V116_M1.1721.00
9_D54_D1.1711.00
33_A39_A1.1711.00
53_M66_T1.1701.00
38_E41_E1.1601.00
38_E42_K1.1501.00
55_I80_M1.1361.00
26_E116_M1.1361.00
5_I48_P1.1271.00
86_D89_L1.1181.00
163_I167_A1.1181.00
177_E181_K1.1161.00
37_Q41_E1.1111.00
63_V92_E1.1091.00
5_I39_A1.1031.00
4_I27_L1.0971.00
176_K186_E1.0951.00
50_I119_H1.0721.00
135_N138_K1.0711.00
168_E172_G1.0621.00
113_K117_T1.0601.00
187_G191_N1.0401.00
148_E155_L1.0331.00
5_I42_K1.0281.00
88_A92_E1.0251.00
40_F44_K1.0211.00
6_I17_L1.0191.00
110_T113_K1.0191.00
33_A38_E1.0171.00
95_E116_M1.0151.00
191_N194_S1.0151.00
165_V169_L1.0111.00
91_A95_E1.0071.00
173_L177_E1.0001.00
87_S91_A0.9991.00
39_A65_G0.9921.00
15_E32_T0.9871.00
164_E167_A0.9791.00
67_K92_E0.9771.00
90_I103_L0.9771.00
51_V69_I0.9691.00
11_D15_E0.9621.00
168_E173_L0.9581.00
43_A73_L0.9561.00
139_R152_P0.9531.00
39_A43_A0.9531.00
18_A29_V0.9441.00
12_I16_G0.9421.00
160_E164_E0.9411.00
164_E168_E0.9331.00
55_I61_N0.9321.00
201_A204_D0.9271.00
53_M78_V0.9191.00
5_I31_A0.9151.00
17_L81_L0.9131.00
132_Q135_N0.9101.00
41_E44_K0.9071.00
66_T98_A0.9061.00
7_T33_A0.9061.00
63_V96_E0.9051.00
188_T192_H0.9031.00
66_T96_E0.9011.00
87_S90_I0.8881.00
52_L111_I0.8841.00
150_E155_L0.8771.00
51_V78_V0.8711.00
7_T51_V0.8621.00
15_E18_A0.8601.00
64_E68_L0.8591.00
27_L112_V0.8581.00
5_I43_A0.8581.00
11_D14_R0.8551.00
55_I89_L0.8541.00
79_L114_A0.8541.00
53_M80_M0.8531.00
161_R183_Y0.8511.00
118_V121_G0.8491.00
92_E95_E0.8441.00
19_S23_L0.8401.00
136_E139_R0.8361.00
85_K103_L0.8341.00
77_K99_S0.8331.00
108_A112_V0.8241.00
65_G69_I0.8241.00
147_N164_E0.8181.00
89_L92_E0.8181.00
110_T114_A0.8141.00
130_T134_L0.8101.00
159_T199_K0.8101.00
176_K180_E0.8091.00
52_L115_V0.8071.00
195_N198_S0.8031.00
168_E178_I0.8011.00
191_N195_N0.8001.00
29_V32_T0.7961.00
186_E190_K0.7951.00
177_E180_E0.7931.00
3_K49_D0.7891.00
193_V197_I0.7861.00
47_E73_L0.7851.00
67_K71_S0.7771.00
3_K48_P0.7761.00
55_I84_F0.7711.00
57_M65_G0.7711.00
43_A76_V0.7671.00
13_V106_M0.7621.00
43_A48_P0.7611.00
81_L106_M0.7561.00
36_G40_F0.7561.00
6_I29_V0.7561.00
25_E116_M0.7561.00
117_T120_S0.7531.00
122_G126_P0.7481.00
15_E19_S0.7471.00
131_A134_L0.7461.00
91_A109_D0.7401.00
60_S65_G0.7391.00
107_S110_T0.7311.00
187_G194_S0.7301.00
194_S198_S0.7261.00
52_L81_L0.7261.00
150_E153_N0.7251.00
17_L111_I0.7251.00
7_T65_G0.7171.00
28_D31_A0.7071.00
168_E171_Y0.7071.00
88_A109_D0.6931.00
56_R83_T0.6921.00
36_G59_V0.6911.00
117_T122_G0.6871.00
147_N163_I0.6861.00
20_L112_V0.6851.00
119_H122_G0.6821.00
106_M111_I0.6801.00
100_G117_T0.6731.00
16_G20_L0.6731.00
8_D57_M0.6681.00
36_G57_M0.6671.00
69_I78_V0.6651.00
197_I202_V0.6641.00
77_K121_G0.6641.00
169_L193_V0.6621.00
40_F43_A0.6621.00
70_T77_K0.6591.00
190_K193_V0.6561.00
43_A51_V0.6531.00
44_K73_L0.6531.00
109_D113_K0.6531.00
166_L169_L0.6531.00
94_L114_A0.6531.00
14_R18_A0.6511.00
10_Q13_V0.6491.00
75_S125_L0.6471.00
22_Q29_V0.6451.00
6_I18_A0.6441.00
175_N186_E0.6441.00
69_I74_P0.6381.00
114_A118_V0.6371.00
44_K68_L0.6361.00
93_A98_A0.6361.00
95_E113_K0.6321.00
52_L79_L0.6261.00
180_E183_Y0.6261.00
155_L211_Y0.6241.00
6_I32_T0.6231.00
135_N139_R0.6211.00
79_L100_G0.6171.00
106_M110_T0.6141.00
169_L172_G0.6101.00
10_Q83_T0.6081.00
90_I107_S0.6071.00
54_D104_K0.6041.00
184_I189_V0.6021.00
77_K119_H0.6011.00
171_Y181_K0.5971.00
4_I50_I0.5931.00
82_T90_I0.5931.00
63_V89_L0.5921.00
4_I21_L0.5921.00
21_L27_L0.5911.00
131_A135_N0.5901.00
151_K201_A0.5891.00
66_T70_T0.5821.00
77_K125_L0.5811.00
75_S124_V0.5801.00
87_S109_D0.5791.00
55_I93_A0.5771.00
161_R192_H0.5741.00
166_L170_G0.5731.00
175_N179_A0.5691.00
151_K154_E0.5651.00
151_K203_R0.5651.00
38_E59_V0.5641.00
53_M69_I0.5631.00
113_K116_M0.5631.00
172_G181_K0.5621.00
158_L162_E0.5601.00
114_A117_T0.5571.00
82_T104_K0.5551.00
9_D82_T0.5531.00
88_A91_A0.5501.00
116_M120_S0.5491.00
13_V16_G0.5461.00
162_E165_V0.5451.00
40_F72_S0.5431.00
35_N57_M0.5411.00
185_T188_T0.5391.00
23_L26_E0.5361.00
167_A170_G0.5331.00
69_I76_V0.5281.00
70_T76_V0.5241.00
22_Q28_D0.5231.00
27_L119_H0.5231.00
91_A94_L0.5231.00
159_T162_E0.5181.00
85_K105_D0.5181.00
77_K118_V0.5091.00
82_T101_Y0.5071.00
117_T121_G0.5051.00
165_V170_G0.5051.00
179_A183_Y0.5041.00
16_G19_S0.5031.00
154_E157_D0.5021.00
130_T133_M0.5001.00
47_E74_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  
3c3wA 2 0.9591 100 0.2 Contact Map
4gvpA 1 0.9455 100 0.209 Contact Map
4ldzA 2 0.8818 100 0.225 Contact Map
1a04A 1 0.9273 100 0.23 Contact Map
1ys7A 2 0.9773 100 0.231 Contact Map
1yioA 1 0.8955 100 0.239 Contact Map
3r0jA 2 0.95 100 0.24 Contact Map
4b09A 2 0.9 100 0.249 Contact Map
1kgsA 1 0.9682 100 0.249 Contact Map
4kfcA 2 0.9682 100 0.253 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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