GREMLIN Database
YBDK - Sensor histidine kinase YbdK
UniProt: O31433 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 320 (274)
Sequences: 65573 (52369)
Seq/√Len: 3163.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
199_V236_S3.6851.00
273_R314_G3.5921.00
274_D278_G3.5221.00
305_E316_L3.3621.00
294_E298_R3.2051.00
151_L167_L3.1151.00
271_F314_G2.9391.00
236_S300_L2.8941.00
256_S275_D2.8401.00
155_E168_Y2.6931.00
264_T271_F2.6911.00
198_E235_M2.6631.00
148_R172_E2.5941.00
271_F316_L2.5711.00
224_H262_E2.5231.00
306_L315_F2.4761.00
226_K264_T2.4681.00
198_E233_I2.4371.00
148_R171_I2.3151.00
244_L297_C2.3061.00
155_E165_E2.2921.00
293_I304_Y2.2581.00
262_E273_R2.2281.00
307_H316_L2.1611.00
297_C302_I2.1361.00
200_R203_E2.1091.00
207_T242_E2.0781.00
264_T273_R2.0621.00
197_E238_T2.0531.00
307_H314_G2.0511.00
148_R175_S2.0311.00
266_E271_F2.0171.00
250_Q254_R2.0091.00
212_W246_D1.9791.00
175_S179_N1.9551.00
308_T313_T1.9361.00
226_K262_E1.9311.00
196_N235_M1.8961.00
147_L171_I1.8921.00
297_C317_F1.8361.00
303_T318_S1.8141.00
236_S241_M1.7981.00
244_L296_T1.7451.00
244_L293_I1.7361.00
216_Y253_L1.7091.00
152_F168_Y1.7031.00
139_D243_R1.6461.00
298_R303_T1.6011.00
279_F313_T1.5951.00
119_E123_R1.5811.00
296_T300_L1.5701.00
305_E318_S1.5441.00
168_Y172_E1.5241.00
155_E161_Q1.5181.00
126_E129_K1.5161.00
157_Q160_G1.5111.00
150_Q163_V1.5001.00
151_L168_Y1.4891.00
237_N240_W1.4871.00
256_S260_K1.4821.00
202_N206_E1.4661.00
211_K242_E1.4491.00
247_N293_I1.4481.00
245_F270_V1.4391.00
147_L167_L1.4071.00
99_D102_G1.4041.00
260_K275_D1.4031.00
240_W243_R1.3861.00
98_A102_G1.3861.00
154_L164_F1.3791.00
256_S261_M1.3751.00
148_R168_Y1.3541.00
200_R233_I1.3531.00
194_I237_N1.3451.00
207_T238_T1.3271.00
262_E275_D1.3161.00
270_V317_F1.3071.00
213_D217_S1.2871.00
200_R231_D1.2851.00
119_E122_L1.2771.00
150_Q166_S1.2601.00
241_M300_L1.2571.00
238_T242_E1.2541.00
131_E135_K1.2511.00
308_T311_N1.2491.00
146_A170_Q1.2371.00
127_E131_E1.2311.00
62_F66_I1.2271.00
297_C304_Y1.2231.00
176_E239_L1.2201.00
151_L171_I1.2171.00
196_N300_L1.2121.00
240_W296_T1.2111.00
206_E225_Y1.2001.00
105_I109_N1.2001.00
202_N231_D1.1991.00
274_D312_G1.1951.00
82_H88_R1.1671.00
154_L160_G1.1591.00
227_P265_I1.1561.00
69_L72_K1.1471.00
209_V225_Y1.1421.00
129_K133_L1.1381.00
240_W299_L1.1371.00
109_N112_I1.1301.00
165_E169_Q1.1241.00
257_K260_K1.1241.00
295_D298_R1.1181.00
208_A246_D1.1171.00
208_A242_E1.1071.00
97_R102_G1.1011.00
302_I317_F1.0961.00
215_L218_M1.0921.00
104_L108_V1.0881.00
202_N265_I1.0871.00
60_F64_K1.0871.00
244_L317_F1.0851.00
170_Q173_Y1.0841.00
116_T120_L1.0841.00
302_I319_K1.0831.00
149_L153_Y1.0821.00
204_L236_S1.0761.00
59_A63_S1.0721.00
118_R121_E1.0621.00
141_N179_N1.0571.00
77_N81_R1.0511.00
211_K246_D1.0481.00
194_I240_W1.0481.00
146_A150_Q1.0401.00
199_V204_L1.0361.00
151_L155_E1.0221.00
212_W249_F1.0101.00
132_L136_L1.0061.00
101_I105_I1.0031.00
151_L164_F1.0011.00
204_L208_A0.9991.00
205_L265_I0.9981.00
273_R309_N0.9951.00
306_L313_T0.9941.00
124_Q128_I0.9811.00
179_N183_L0.9811.00
121_E124_Q0.9771.00
108_V111_L0.9771.00
215_L250_Q0.9611.00
115_T119_E0.9591.00
101_I104_L0.9571.00
80_I83_L0.9561.00
118_R122_L0.9551.00
166_S170_Q0.9551.00
295_D299_L0.9541.00
278_G313_T0.9481.00
111_L115_T0.9461.00
123_R127_E0.9431.00
160_G163_V0.9411.00
180_E240_W0.9401.00
114_R117_Y0.9361.00
208_A212_W0.9341.00
162_A166_S0.9321.00
74_N77_N0.9301.00
195_V237_N0.9251.00
126_E130_K0.9251.00
202_N227_P0.9241.00
274_D313_T0.9211.00
255_H277_I0.9191.00
184_Y291_K0.9161.00
127_E130_K0.9141.00
221_I256_S0.9111.00
113_E117_Y0.9091.00
161_Q165_E0.9081.00
209_V213_D0.9071.00
172_E175_S0.9031.00
228_A266_E0.9011.00
169_Q207_T0.8961.00
148_R152_F0.8961.00
120_L124_Q0.8921.00
80_I84_A0.8881.00
105_I108_V0.8871.00
171_I175_S0.8841.00
196_N301_A0.8841.00
173_Y242_E0.8761.00
183_L243_R0.8731.00
146_A149_L0.8711.00
117_Y121_E0.8691.00
242_E246_D0.8671.00
45_P49_V0.8671.00
120_L123_R0.8641.00
245_F249_F0.8571.00
180_E243_R0.8541.00
200_R232_V0.8481.00
252_T261_M0.8471.00
247_N250_Q0.8441.00
196_N236_S0.8441.00
140_I174_I0.8421.00
239_L242_E0.8371.00
108_V112_I0.8351.00
83_L112_I0.8341.00
115_T118_R0.8281.00
201_L270_V0.8251.00
209_V223_L0.8241.00
130_K188_T0.8221.00
102_G106_K0.8211.00
203_E207_T0.8191.00
165_E168_Y0.8161.00
166_S169_Q0.8151.00
88_R91_D0.8061.00
66_I70_L0.8051.00
82_H91_D0.8021.00
294_E303_T0.8011.00
246_D250_Q0.7991.00
66_I69_L0.7991.00
248_I315_F0.7961.00
248_I293_I0.7871.00
121_E125_Q0.7871.00
167_L171_I0.7831.00
279_F308_T0.7811.00
142_T146_A0.7801.00
281_R308_T0.7801.00
245_F272_I0.7781.00
254_R285_S0.7781.00
271_F307_H0.7751.00
104_L107_S0.7661.00
199_V238_T0.7641.00
220_G259_K0.7641.00
293_I297_C0.7621.00
114_R118_R0.7591.00
288_L292_I0.7571.00
153_Y157_Q0.7561.00
141_N175_S0.7541.00
212_W250_Q0.7531.00
77_N103_E0.7501.00
162_A165_E0.7491.00
102_G105_I0.7421.00
176_E180_E0.7351.00
194_I299_L0.7291.00
122_L125_Q0.7271.00
64_K68_S0.7271.00
92_K112_I0.7241.00
77_N107_S0.7241.00
274_D277_I0.7221.00
216_Y223_L0.7221.00
155_E164_F0.7221.00
279_F315_F0.7211.00
214_Y217_S0.7211.00
216_Y220_G0.7191.00
125_Q129_K0.7181.00
72_K76_L0.7151.00
163_V166_S0.7151.00
248_I317_F0.7131.00
243_R296_T0.7121.00
210_K213_D0.7111.00
183_L240_W0.7101.00
206_E210_K0.7101.00
67_H71_H0.7081.00
221_I253_L0.7081.00
208_A249_F0.7041.00
144_L178_T0.7031.00
92_K113_E0.7021.00
123_R126_E0.7001.00
202_N230_Q0.6981.00
205_L245_F0.6981.00
150_Q170_Q0.6981.00
73_I76_L0.6971.00
279_F306_L0.6971.00
138_H247_N0.6941.00
136_L181_F0.6881.00
182_N186_A0.6881.00
248_I304_Y0.6871.00
116_T119_E0.6811.00
221_I261_M0.6771.00
107_S110_L0.6761.00
220_G258_A0.6761.00
81_R107_S0.6751.00
199_V235_M0.6731.00
79_T82_H0.6711.00
139_D247_N0.6701.00
244_L300_L0.6671.00
94_E109_N0.6661.00
222_E225_Y0.6581.00
257_K277_I0.6541.00
80_I107_S0.6501.00
312_G315_F0.6481.00
97_R105_I0.6471.00
170_Q211_K0.6371.00
297_C319_K0.6341.00
305_E317_F0.6331.00
63_S67_H0.6331.00
75_L79_T0.6311.00
44_Y48_I0.6281.00
192_S240_W0.6281.00
248_I297_C0.6251.00
240_W300_L0.6221.00
249_F263_V0.6191.00
145_T149_L0.6181.00
133_L137_R0.6171.00
277_I283_E0.6161.00
252_T272_I0.6161.00
139_D143_P0.6131.00
73_I77_N0.6121.00
152_F156_D0.6111.00
256_S259_K0.6111.00
84_A87_Q0.6081.00
212_W253_L0.6071.00
201_L234_W0.6071.00
203_E238_T0.6071.00
216_Y221_I0.6061.00
217_S220_G0.6051.00
159_H163_V0.6051.00
204_L241_M0.6041.00
104_L111_L0.6031.00
78_Q82_H0.6001.00
150_Q167_L0.5981.00
90_P94_E0.5971.00
124_Q127_E0.5961.00
74_N78_Q0.5961.00
91_D94_E0.5951.00
103_E106_K0.5951.00
228_A232_V0.5941.00
107_S111_L0.5941.00
76_L80_I0.5941.00
154_L163_V0.5921.00
105_I112_I0.5911.00
153_Y158_C0.5901.00
206_E227_P0.5901.00
100_E104_L0.5881.00
122_L126_E0.5861.00
216_Y261_M0.5851.00
138_H142_T0.5831.00
205_L263_V0.5811.00
99_D103_E0.5811.00
273_R310_D0.5801.00
164_F168_Y0.5791.00
95_V106_K0.5771.00
79_T93_I0.5761.00
45_P48_I0.5741.00
202_N232_V0.5741.00
146_A166_S0.5721.00
226_K266_E0.5721.00
68_S71_H0.5721.00
281_R309_N0.5701.00
110_L114_R0.5691.00
228_A265_I0.5691.00
254_R283_E0.5671.00
112_I116_T0.5671.00
204_L242_E0.5661.00
90_P116_T0.5661.00
172_E176_E0.5651.00
81_R84_A0.5641.00
188_T295_D0.5641.00
97_R100_E0.5641.00
135_K139_D0.5631.00
210_K214_Y0.5621.00
160_G164_F0.5611.00
98_A101_I0.5601.00
205_L208_A0.5601.00
158_C161_Q0.5591.00
89_V93_I0.5581.00
153_Y163_V0.5571.00
291_K295_D0.5551.00
81_R103_E0.5531.00
60_F63_S0.5521.00
206_E209_V0.5511.00
168_Y171_I0.5511.00
208_A211_K0.5501.00
91_D95_V0.5491.00
304_Y315_F0.5481.00
243_R246_D0.5471.00
69_L73_I0.5471.00
216_Y219_S0.5441.00
84_A110_L0.5431.00
98_A104_L0.5431.00
184_Y188_T0.5421.00
219_S253_L0.5411.00
207_T211_K0.5401.00
82_H86_D0.5401.00
103_E107_S0.5401.00
83_L87_Q0.5391.00
139_D177_L0.5381.00
49_V53_I0.5381.00
221_I260_K0.5361.00
275_D311_N0.5331.00
131_E295_D0.5321.00
251_N289_G0.5311.00
132_L139_D0.5291.00
214_Y218_M0.5251.00
79_T91_D0.5231.00
232_V265_I0.5231.00
221_I275_D0.5211.00
72_K75_L0.5191.00
221_I225_Y0.5181.00
80_I108_V0.5161.00
263_V272_I0.5151.00
113_E116_T0.5151.00
52_L56_L0.5141.00
104_L109_N0.5141.00
95_V98_A0.5131.00
44_Y47_M0.5121.00
70_L74_N0.5121.00
112_I115_T0.5101.00
155_E158_C0.5101.00
68_S72_K0.5081.00
106_K110_L0.5071.00
215_L219_S0.5071.00
105_I111_L0.5051.00
87_Q91_D0.5051.00
139_D292_I0.5041.00
97_R104_L0.5041.00
142_T149_L0.5041.00
174_I178_T0.5041.00
278_G312_G0.5041.00
197_E239_L0.5011.00
203_E206_E0.5001.00
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  
4i5sA 2 0.7906 100 0.338 Contact Map
4bixA 2 0.6469 100 0.387 Contact Map
4ctiA 2 0.6937 100 0.424 Contact Map
4q20A 2 0.6469 100 0.457 Contact Map
3jz3A 2 0.4813 100 0.458 Contact Map
4mpcA 2 0.8469 100 0.462 Contact Map
2q8gA 2 0.8625 100 0.474 Contact Map
2c2aA 2 0.6531 100 0.474 Contact Map
4r39A 1 0.5938 100 0.476 Contact Map
4e01A 3 0.8156 100 0.482 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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