GREMLIN Database
YPLP - Putative sigma L-dependent transcriptional regulator YplP
UniProt: P54156 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 331 (278)
Sequences: 28723 (19372)
Seq/√Len: 1161.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
263_L273_R4.2171.00
91_V126_K3.1711.00
75_E111_S2.9611.00
42_K161_S2.9101.00
101_F132_A2.6091.00
253_F257_L2.4731.00
177_N205_K2.4711.00
29_Q216_S2.4471.00
93_Q127_P2.3141.00
27_A50_F2.3001.00
92_F119_A2.2261.00
168_P189_F2.2061.00
168_P193_E2.1141.00
263_L270_A2.1101.00
71_S114_A2.0781.00
79_I115_Q2.0291.00
171_T208_A2.0161.00
107_R135_D1.9911.00
255_F259_T1.9891.00
259_T263_L1.9581.00
197_F207_A1.9321.00
172_Q189_F1.9261.00
28_K57_E1.9071.00
195_H198_E1.9051.00
40_T156_T1.8561.00
164_K168_P1.8391.00
40_T154_T1.8281.00
89_T93_Q1.8101.00
266_K269_P1.8091.00
50_F157_L1.7941.00
16_E169_L1.7571.00
78_L112_V1.7381.00
279_S283_Q1.7281.00
258_E262_V1.7091.00
17_H165_S1.7071.00
262_V273_R1.6981.00
183_L219_T1.6951.00
257_L261_K1.6591.00
190_P194_K1.6471.00
35_L209_D1.6241.00
251_A255_F1.6201.00
30_F153_L1.5951.00
185_D221_Q1.5751.00
53_A57_E1.5651.00
173_H177_N1.5641.00
269_P273_R1.5531.00
269_P272_R1.5481.00
243_K246_T1.5441.00
260_I270_A1.5381.00
279_S282_T1.5361.00
185_D188_V1.5311.00
168_P172_Q1.5161.00
15_G20_F1.5031.00
268_E272_R1.4951.00
121_D205_K1.4941.00
278_H282_T1.4861.00
171_T184_I1.4741.00
86_N127_P1.4721.00
259_T270_A1.4681.00
48_N118_K1.4591.00
63_E97_R1.4561.00
221_Q224_D1.4381.00
215_S224_D1.4161.00
277_E280_K1.4111.00
164_K167_I1.4111.00
187_S222_P1.4081.00
52_H67_S1.3881.00
13_L20_F1.3871.00
191_V222_P1.3801.00
12_H56_L1.3691.00
23_A50_F1.3661.00
14_I173_H1.3601.00
174_F205_K1.3551.00
195_H203_E1.3441.00
15_G24_K1.3391.00
75_E109_P1.3361.00
188_V192_L1.3241.00
244_L248_M1.3241.00
252_E284_T1.3151.00
248_M251_A1.3021.00
267_G282_T1.2991.00
92_F100_L1.2981.00
247_L251_A1.2941.00
169_L172_Q1.2871.00
189_F193_E1.2861.00
20_F24_K1.2721.00
254_L258_E1.2611.00
89_T94_K1.2571.00
22_E25_R1.2451.00
282_T286_L1.2391.00
178_S212_A1.2381.00
164_K196_A1.2341.00
23_A155_L1.2311.00
244_L247_L1.2261.00
184_I208_A1.2151.00
261_K265_E1.2141.00
271_S275_I1.2131.00
247_L250_K1.2101.00
181_Q209_D1.2091.00
280_K284_T1.2091.00
35_L213_A1.2071.00
176_S180_Q1.2001.00
165_S193_E1.1961.00
188_V222_P1.1921.00
25_R28_K1.1851.00
106_W133_S1.1851.00
175_L184_I1.1841.00
249_E287_T1.1821.00
32_L59_S1.1811.00
254_L257_L1.1791.00
131_C150_L1.1761.00
22_E26_I1.1731.00
10_F53_A1.1721.00
19_T162_E1.1691.00
188_V220_I1.1641.00
34_E181_Q1.1631.00
185_D219_T1.1621.00
167_I193_E1.1611.00
170_L174_F1.1591.00
34_E60_R1.1591.00
93_Q125_E1.1561.00
71_S115_Q1.1541.00
277_E283_Q1.1511.00
91_V94_K1.1431.00
80_H85_P1.1381.00
178_S208_A1.1351.00
164_K193_E1.1301.00
19_T22_E1.1241.00
35_L152_I1.1201.00
81_E85_P1.1141.00
283_Q287_T1.1021.00
190_P193_E1.1001.00
48_N67_S1.1001.00
108_M112_V1.0881.00
45_T157_L1.0871.00
211_M215_S1.0861.00
138_V142_F1.0801.00
258_E261_K1.0771.00
247_L255_F1.0731.00
267_G278_H1.0721.00
81_E88_N1.0721.00
156_T162_E1.0671.00
27_A53_A1.0671.00
248_M255_F1.0651.00
65_F98_G1.0611.00
191_V194_K1.0571.00
284_T288_P1.0571.00
36_P123_D1.0521.00
178_S205_K1.0501.00
268_E278_H1.0391.00
282_T285_S1.0361.00
205_K209_D1.0321.00
119_A125_E1.0311.00
120_L129_M1.0281.00
179_G212_A1.0271.00
34_E59_S1.0271.00
78_L82_L1.0231.00
38_L131_C1.0221.00
186_P189_F1.0201.00
178_S182_L1.0201.00
52_H56_L1.0191.00
21_L24_K1.0101.00
246_T250_K1.0051.00
37_V54_I1.0041.00
168_P171_T1.0011.00
26_I214_V0.9971.00
259_T274_I0.9971.00
249_E253_F0.9771.00
24_K27_A0.9741.00
250_K254_L0.9671.00
259_T262_V0.9671.00
210_Y214_V0.9631.00
259_T273_R0.9611.00
244_L251_A0.9581.00
35_L182_L0.9551.00
67_S118_K0.9531.00
256_I259_T0.9501.00
226_P230_R0.9471.00
20_F23_A0.9431.00
13_L50_F0.9401.00
159_E162_E0.9331.00
39_I51_A0.9271.00
151_N154_T0.9271.00
23_A27_A0.9261.00
217_G221_Q0.9241.00
280_K283_Q0.9221.00
51_A65_F0.9191.00
184_I188_V0.9161.00
207_A211_M0.9151.00
18_Q22_E0.9131.00
260_I267_G0.9101.00
55_H99_T0.9101.00
157_L160_L0.9071.00
42_K45_T0.9031.00
88_N91_V0.9001.00
13_L49_H0.8941.00
217_G224_D0.8881.00
281_N285_S0.8861.00
276_S280_K0.8861.00
186_P190_P0.8861.00
184_I189_F0.8851.00
167_I171_T0.8831.00
270_A273_R0.8791.00
256_I281_N0.8741.00
266_K270_A0.8731.00
175_L212_A0.8731.00
253_F288_P0.8681.00
15_G169_L0.8661.00
266_K278_H0.8651.00
27_A155_L0.8601.00
267_G285_S0.8591.00
88_N94_K0.8561.00
182_L213_A0.8551.00
60_R63_E0.8481.00
263_L269_P0.8461.00
39_I50_F0.8431.00
106_W138_V0.8421.00
178_S209_D0.8411.00
147_F151_N0.8401.00
172_Q176_S0.8381.00
267_G279_S0.8361.00
270_A281_N0.8301.00
174_F178_S0.8281.00
16_E21_L0.8261.00
99_T130_I0.8261.00
187_S221_Q0.8221.00
85_P88_N0.8191.00
14_I169_L0.8081.00
249_E252_E0.8041.00
42_K159_E0.8041.00
146_L150_L0.7971.00
106_W134_A0.7971.00
252_E256_I0.7931.00
245_L249_E0.7911.00
277_E282_T0.7891.00
242_A246_T0.7861.00
105_V142_F0.7821.00
53_A56_L0.7791.00
255_F258_E0.7761.00
24_K50_F0.7731.00
273_R277_E0.7731.00
164_K169_L0.7721.00
220_I225_L0.7721.00
211_M220_I0.7711.00
71_S107_R0.7701.00
35_L153_L0.7671.00
81_E91_V0.7661.00
255_F274_I0.7641.00
243_K275_I0.7621.00
70_C102_L0.7611.00
251_A254_L0.7601.00
226_P229_I0.7561.00
182_L212_A0.7541.00
18_Q21_L0.7521.00
208_A211_M0.7511.00
256_I260_I0.7501.00
164_K194_K0.7471.00
177_N181_Q0.7471.00
24_K28_K0.7471.00
246_T249_E0.7451.00
142_F146_L0.7431.00
52_H122_S0.7431.00
23_A157_L0.7421.00
263_L266_K0.7331.00
210_Y213_A0.7321.00
68_V91_V0.7311.00
260_I263_L0.7301.00
36_P131_C0.7291.00
275_I278_H0.7281.00
78_L108_M0.7281.00
283_Q286_L0.7271.00
167_I192_L0.7261.00
33_S213_A0.7261.00
96_V125_E0.7251.00
143_R148_Y0.7241.00
171_T204_L0.7231.00
106_W135_D0.7221.00
267_G271_S0.7191.00
140_H143_R0.7161.00
26_I153_L0.7161.00
152_I206_N0.7121.00
13_L24_K0.7111.00
285_S288_P0.7091.00
118_K122_S0.7081.00
260_I265_E0.7071.00
38_L105_V0.7061.00
26_I29_Q0.7061.00
25_R216_S0.7041.00
178_S181_Q0.7031.00
241_K244_L0.7001.00
156_T159_E0.6981.00
10_F27_A0.6861.00
270_A274_I0.6861.00
25_R29_Q0.6821.00
276_S281_N0.6811.00
21_L25_R0.6811.00
64_P94_K0.6791.00
66_I95_A0.6791.00
250_K253_F0.6781.00
191_V195_H0.6781.00
274_I277_E0.6771.00
173_H176_S0.6761.00
256_I284_T0.6721.00
171_T189_F0.6711.00
105_V131_C0.6701.00
265_E270_A0.6661.00
31_S57_E0.6641.00
246_T254_L0.6621.00
248_M252_E0.6601.00
107_R134_A0.6561.00
260_I264_N0.6531.00
267_G274_I0.6531.00
268_E271_S0.6531.00
260_I285_S0.6531.00
271_S274_I0.6531.00
249_E288_P0.6521.00
172_Q183_L0.6521.00
188_V191_V0.6521.00
265_E269_P0.6501.00
279_S286_L0.6471.00
100_L129_M0.6471.00
219_T222_P0.6461.00
17_H166_D0.6431.00
135_D141_T0.6401.00
169_L173_H0.6391.00
156_T160_L0.6391.00
267_G281_N0.6381.00
256_I270_A0.6381.00
256_I274_I0.6361.00
232_T235_G0.6341.00
76_E79_I0.6331.00
281_N284_T0.6311.00
27_A54_I0.6301.00
257_L260_I0.6281.00
10_F56_L0.6271.00
92_F129_M0.6241.00
39_I157_L0.6191.00
69_N107_R0.6191.00
73_H91_V0.6181.00
265_E285_S0.6161.00
34_E182_L0.6141.00
151_N210_Y0.6121.00
145_D148_Y0.6111.00
175_L179_G0.6091.00
67_S124_T0.6091.00
27_A57_E0.6061.00
29_Q214_V0.6041.00
16_E165_S0.6031.00
246_T251_A0.6001.00
252_E255_F0.6001.00
222_P225_L0.6001.00
274_I284_T0.6001.00
211_M225_L0.6001.00
225_L228_Y0.5991.00
268_E282_T0.5981.00
274_I281_N0.5911.00
174_F208_A0.5911.00
244_L255_F0.5891.00
277_E281_N0.5871.00
263_L267_G0.5861.00
74_S77_T0.5861.00
159_E166_D0.5861.00
158_P163_R0.5811.00
15_G21_L0.5811.00
271_S281_N0.5801.00
171_T175_L0.5781.00
245_L248_M0.5771.00
212_A215_S0.5761.00
10_F24_K0.5761.00
154_T210_Y0.5741.00
230_R234_D0.5711.00
11_Q56_L0.5711.00
170_L201_V0.5701.00
228_Y231_G0.5681.00
242_A245_L0.5671.00
153_L214_V0.5641.00
100_L119_A0.5641.00
195_H229_I0.5571.00
256_I285_S0.5571.00
129_M150_L0.5561.00
261_K264_N0.5541.00
267_G270_A0.5521.00
284_T287_T0.5511.00
251_A256_I0.5481.00
191_V226_P0.5471.00
140_H144_Q0.5461.00
12_H52_H0.5461.00
216_S224_D0.5451.00
20_F50_F0.5441.00
91_V95_A0.5391.00
112_V115_Q0.5381.00
78_L115_Q0.5381.00
160_L193_E0.5381.00
252_E288_P0.5341.00
43_I144_Q0.5341.00
231_G234_D0.5331.00
77_T80_H0.5311.00
163_R167_I0.5311.00
179_G182_L0.5261.00
10_F28_K0.5241.00
235_G238_S0.5221.00
209_D213_A0.5221.00
30_F37_V0.5181.00
278_H281_N0.5131.00
256_I288_P0.5131.00
227_P231_G0.5121.00
39_I130_I0.5121.00
70_C73_H0.5121.00
227_P230_R0.5081.00
276_S282_T0.5051.00
184_I220_I0.5041.00
168_P190_P0.5021.00
110_A114_A0.5011.00
51_A130_I0.5011.00
19_T165_S0.5011.00
66_I94_K0.5001.00
43_I147_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  
4l4uA 2 0.6858 100 0.257 Contact Map
1ojlA 3 0.8187 100 0.315 Contact Map
3dzdA 2 0.6647 100 0.419 Contact Map
4qhsA 3 0.6465 100 0.477 Contact Map
4qosA 1 0.6616 100 0.483 Contact Map
1qvrA 3 0.7221 100 0.484 Contact Map
1r6bX 1 0.7372 100 0.486 Contact Map
3pxiA 3 0.7039 100 0.496 Contact Map
3vkgA 2 0.9517 100 0.508 Contact Map
4d2uA 3 0.7281 100 0.509 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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