GREMLIN Database
YDAM - Probable diguanylate cyclase YdaM
UniProt: P77302 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13355
Length: 410 (316)
Sequences: 1484 (1331)
Seq/√Len: 74.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
323_R326_D5.9921.00
288_L374_I3.9411.00
251_H255_H3.8611.00
294_R404_R3.7571.00
242_Q246_E3.5651.00
322_A328_V3.5351.00
267_F337_V3.2981.00
117_A121_A3.2891.00
140_A237_H3.2051.00
288_L352_A3.0141.00
384_S387_E3.0031.00
286_S378_H2.9471.00
393_D397_Y2.7141.00
304_H397_Y2.6661.00
113_L117_A2.5131.00
356_R407_V2.4481.00
267_F339_L2.4171.00
243_K246_E2.4011.00
143_L234_C2.3751.00
382_N391_R2.3141.00
399_A406_R2.3121.00
128_Q132_A2.3101.00
114_G117_A2.2791.00
271_T385_I2.2751.00
274_G277_Q2.2731.00
280_A323_R2.0831.00
300_D304_H2.0621.00
99_E103_I2.0451.00
261_L315_A2.0221.00
289_L396_L2.0091.00
270_I327_L1.9981.00
300_D397_Y1.9931.00
333_G397_Y1.9861.00
166_Y210_A1.9711.00
262_L266_Q1.9681.00
110_P113_L1.8951.00
309_E312_C1.8751.00
296_K300_D1.8611.00
141_P236_V1.8351.00
170_T210_A1.8351.00
146_D150_D1.8301.00
359_V372_V1.8161.00
226_I229_D1.7921.00
340_L351_L1.7881.00
117_A120_S1.7811.00
348_A352_A1.7791.00
135_F155_D1.7661.00
103_I106_G1.7651.00
352_A376_V1.7571.00
379_H382_N1.7431.00
300_D393_D1.7381.00
270_I273_P1.7311.00
204_N243_K1.7171.00
185_R206_V1.7161.00
296_K304_H1.7051.00
304_H393_D1.6811.00
166_Y170_T1.6801.00
239_I243_K1.6621.00
292_T372_V1.6521.00
120_S124_Q1.6381.00
371_T405_N1.6221.00
121_A125_R1.6060.99
103_I107_I1.5970.99
353_E357_V1.5730.99
313_A317_T1.5650.99
107_I110_P1.5620.99
396_L404_R1.5600.99
360_A405_N1.5070.99
266_Q269_H1.5070.99
289_L337_V1.5050.99
344_P347_T1.4960.99
262_L327_L1.4900.99
376_V407_V1.4890.99
286_S348_A1.4830.99
106_G110_P1.4770.99
290_I372_V1.4670.99
141_P163_F1.4470.99
318_L328_V1.4410.99
143_L153_I1.4390.99
294_R334_E1.4320.99
298_I310_V1.4300.99
333_G393_D1.4290.99
293_D373_S1.4270.99
356_R360_A1.4120.99
305_S390_K1.3880.98
296_K393_D1.3800.98
289_L334_E1.3740.98
310_V370_F1.3740.98
351_L354_T1.3710.98
146_D152_Q1.3690.98
266_Q270_I1.3660.98
296_K397_Y1.3590.98
353_E356_R1.3480.98
332_G397_Y1.3220.98
343_T347_T1.3150.98
274_G341_P1.2910.98
288_L340_L1.2900.98
159_A162_N1.2880.98
114_G121_A1.2800.97
96_T100_P1.2790.97
291_D296_K1.2680.97
292_T334_E1.2590.97
304_H333_G1.2590.97
356_R405_N1.2480.97
209_L213_S1.2410.97
110_P114_G1.2270.97
299_N307_G1.2270.97
313_A316_R1.2120.96
399_A403_G1.2110.96
352_A374_I1.2090.96
300_D333_G1.2060.96
348_A376_V1.1970.96
132_A136_L1.1890.96
226_I230_K1.1870.96
266_Q327_L1.1740.96
291_D397_Y1.1670.96
334_E396_L1.1630.95
92_L95_L1.1630.95
138_N142_M1.1480.95
153_I157_N1.1460.95
121_A124_Q1.1440.95
243_K247_E1.1400.95
241_E244_R1.1280.95
246_E250_E1.1250.95
99_E106_G1.1250.95
174_K178_E1.1180.94
113_L121_A1.1170.94
326_D351_L1.1140.94
218_Q237_H1.1120.94
295_F311_L1.1120.94
261_L328_V1.1110.94
314_L359_V1.0970.94
141_P157_N1.0950.94
269_H327_L1.0910.94
128_Q131_Y1.0800.93
99_E107_I1.0770.93
92_L96_T1.0760.93
291_D400_K1.0760.93
334_E371_T1.0720.93
340_L348_A1.0650.93
291_D299_N1.0600.93
381_G391_R1.0540.92
157_N238_D1.0510.92
291_D393_D1.0460.92
290_I374_I1.0460.92
335_E397_Y1.0400.92
379_H388_L1.0360.92
291_D304_H1.0320.92
100_P107_I1.0230.91
315_A328_V1.0230.91
335_E393_D1.0170.91
245_L249_L1.0150.91
156_A161_L1.0100.91
304_H307_G1.0100.91
277_Q280_A1.0090.91
310_V364_I1.0020.90
353_E407_V0.9940.90
377_A382_N0.9930.90
291_D300_D0.9860.90
302_Y394_D0.9860.90
402_D406_R0.9850.90
356_R371_T0.9840.90
299_N333_G0.9770.89
395_A399_A0.9730.89
164_Y171_M0.9720.89
399_A408_L0.9710.89
302_Y367_L0.9680.89
285_Y354_T0.9670.89
134_F144_L0.9670.89
167_N170_T0.9570.88
350_S354_T0.9520.88
402_D408_L0.9480.88
206_V216_H0.9450.88
307_G332_G0.9370.87
181_M185_R0.9370.87
286_S343_T0.9360.87
254_H266_Q0.9240.86
255_H334_E0.9210.86
96_T99_E0.9160.86
331_W334_E0.9040.85
292_T311_L0.9030.85
294_R362_V0.9020.85
299_N308_D0.8960.85
244_R248_Q0.8940.85
356_R374_I0.8920.84
134_F159_A0.8890.84
100_P103_I0.8790.84
267_F271_T0.8790.84
390_K394_D0.8760.83
218_Q242_Q0.8750.83
93_R100_P0.8750.83
295_F399_A0.8750.83
253_A304_H0.8720.83
296_K299_N0.8720.83
107_I114_G0.8700.83
202_P218_Q0.8700.83
249_L252_A0.8640.83
124_Q128_Q0.8610.82
256_D330_R0.8590.82
306_K364_I0.8580.82
294_R359_V0.8540.82
304_H335_E0.8480.81
337_V389_F0.8450.81
352_A403_G0.8440.81
316_R319_E0.8430.81
209_L215_R0.8400.81
157_N240_T0.8320.80
143_L160_A0.8290.80
293_D403_G0.8290.80
298_I362_V0.8290.80
294_R396_L0.8270.80
359_V362_V0.8240.79
116_K119_R0.8230.79
274_G280_A0.8200.79
219_T236_V0.8140.79
329_F337_V0.8140.79
144_L157_N0.8090.78
280_A326_D0.8040.78
146_D149_R0.8030.78
277_Q341_P0.8020.78
349_L353_E0.8010.78
310_V334_E0.8010.78
99_E102_I0.7990.77
180_N189_I0.7950.77
258_M304_H0.7900.77
377_A395_A0.7890.76
321_C354_T0.7890.76
124_Q127_K0.7870.76
175_H178_E0.7840.76
398_R408_L0.7810.76
204_N218_Q0.7800.76
364_I367_L0.7750.75
107_I111_A0.7730.75
206_V214_T0.7720.75
176_T181_M0.7720.75
343_T378_H0.7700.75
181_M184_R0.7680.75
255_H262_L0.7660.74
363_S368_P0.7630.74
317_T334_E0.7630.74
289_L389_F0.7620.74
153_I171_M0.7580.74
96_T106_G0.7540.73
160_A164_Y0.7510.73
107_I113_L0.7470.72
307_G333_G0.7370.71
291_D307_G0.7360.71
164_Y215_R0.7350.71
106_G114_G0.7330.71
134_F216_H0.7330.71
300_D335_E0.7310.71
333_G400_K0.7300.71
127_K130_F0.7300.71
252_A255_H0.7250.70
377_A391_R0.7250.70
326_D354_T0.7220.70
300_D332_G0.7210.70
141_P238_D0.7200.70
288_L338_L0.7200.70
216_H239_I0.7190.70
285_Y379_H0.7180.69
271_T339_L0.7180.69
181_M206_V0.7180.69
299_N304_H0.7120.69
165_G212_G0.7120.69
373_S403_G0.7110.69
195_H200_H0.7100.69
225_E231_L0.7090.68
250_E254_H0.7090.68
156_A171_M0.7090.68
262_L329_F0.7070.68
267_F329_F0.7060.68
354_T396_L0.7050.68
95_L99_E0.7050.68
180_N185_R0.7040.68
346_D384_S0.7020.68
283_Q342_R0.6990.67
296_K335_E0.6990.67
309_E313_A0.6980.67
331_W337_V0.6970.67
100_P110_P0.6970.67
110_P117_A0.6950.67
155_D158_L0.6900.66
335_E400_K0.6890.66
255_H261_L0.6850.66
264_R308_D0.6840.66
299_N335_E0.6820.65
275_Q385_I0.6810.65
245_L252_A0.6810.65
270_I339_L0.6790.65
323_R354_T0.6780.65
382_N387_E0.6780.65
292_T371_T0.6760.65
248_Q252_A0.6750.65
332_G335_E0.6750.65
307_G397_Y0.6750.65
118_S121_A0.6740.65
257_A265_R0.6730.64
321_C355_I0.6710.64
285_Y388_L0.6690.64
291_D333_G0.6690.64
99_E113_L0.6670.64
135_F160_A0.6650.64
113_L120_S0.6640.63
307_G393_D0.6620.63
338_L355_I0.6610.63
383_E391_R0.6610.63
323_R397_Y0.6590.63
278_H379_H0.6580.63
398_R404_R0.6560.62
193_I221_A0.6550.62
100_P106_G0.6530.62
254_H265_R0.6510.62
322_A355_I0.6510.62
296_K333_G0.6510.62
136_L390_K0.6470.61
223_P230_K0.6460.61
242_Q245_L0.6460.61
255_H266_Q0.6450.61
125_R128_Q0.6430.61
106_G117_A0.6420.61
313_A362_V0.6420.61
295_F403_G0.6420.61
248_Q251_H0.6410.61
306_K309_E0.6410.61
300_D307_G0.6400.61
117_A123_Y0.6390.60
259_T311_L0.6360.60
271_T285_Y0.6330.60
292_T298_I0.6330.60
299_N400_K0.6310.60
328_V338_L0.6310.60
103_I110_P0.6300.59
221_A234_C0.6290.59
292_T314_L0.6280.59
191_H195_H0.6270.59
309_E365_S0.6260.59
138_N165_G0.6250.59
347_T350_S0.6200.58
273_P327_L0.6200.58
210_A215_R0.6190.58
300_D400_K0.6160.58
359_V370_F0.6160.58
332_G393_D0.6160.58
257_A396_L0.6160.58
302_Y396_L0.6120.57
274_G334_E0.6100.57
352_A399_A0.6100.57
280_A342_R0.6090.57
207_H217_V0.6080.57
141_P233_L0.6050.56
308_D330_R0.6030.56
205_F219_T0.6020.56
310_V396_L0.5990.56
317_T358_S0.5980.55
275_Q379_H0.5970.55
351_L355_I0.5940.55
352_A372_V0.5940.55
247_E250_E0.5940.55
317_T362_V0.5930.55
135_F138_N0.5930.55
373_S397_Y0.5930.55
338_L384_S0.5930.55
115_L338_L0.5920.55
221_A232_M0.5910.55
295_F333_G0.5900.54
135_F157_N0.5880.54
255_H396_L0.5870.54
288_L376_V0.5870.54
184_R206_V0.5860.54
161_L164_Y0.5860.54
152_Q175_H0.5860.54
285_Y339_L0.5860.54
349_L407_V0.5850.54
144_L155_D0.5840.54
295_F335_E0.5830.54
156_A160_A0.5830.54
176_T189_I0.5820.53
376_V395_A0.5810.53
334_E404_R0.5810.53
204_N208_K0.5800.53
159_A221_A0.5780.53
397_Y400_K0.5770.53
223_P228_G0.5730.52
266_Q329_F0.5690.52
296_K400_K0.5690.52
101_V105_E0.5690.52
99_E117_A0.5680.52
302_Y334_E0.5680.52
310_V317_T0.5670.52
278_H283_Q0.5660.51
329_F389_F0.5650.51
263_N332_G0.5650.51
249_L254_H0.5640.51
387_E390_K0.5630.51
323_R347_T0.5630.51
153_I234_C0.5620.51
196_L200_H0.5620.51
204_N242_Q0.5620.51
205_F217_V0.5600.51
337_V396_L0.5600.51
141_P209_L0.5600.51
306_K367_L0.5590.51
334_E393_D0.5570.50
143_L377_A0.5560.50
323_R351_L0.5560.50
278_H285_Y0.5560.50
114_G118_S0.5540.50
164_Y207_H0.5540.50
174_K200_H0.5490.49
331_W396_L0.5480.49
202_P220_Y0.5470.49
127_K132_A0.5470.49
321_C328_V0.5450.49
239_I246_E0.5450.49
139_S157_N0.5440.49
192_E197_P0.5430.49
363_S366_G0.5420.48
139_S233_L0.5420.48
304_H332_G0.5400.48
143_L156_A0.5400.48
295_F395_A0.5400.48
334_E356_R0.5390.48
302_Y310_V0.5370.48
157_N160_A0.5370.48
371_T403_G0.5370.48
99_E114_G0.5370.48
254_H262_L0.5360.48
310_V362_V0.5350.48
144_L153_I0.5350.48
357_V360_A0.5350.48
389_F396_L0.5330.47
138_N141_P0.5330.47
334_E397_Y0.5300.47
134_F145_I0.5290.47
359_V401_N0.5280.47
377_A388_L0.5240.46
255_H294_R0.5240.46
275_Q388_L0.5230.46
275_Q381_G0.5220.46
280_A347_T0.5220.46
253_A292_T0.5210.46
92_L99_E0.5210.46
93_R107_I0.5200.46
274_G289_L0.5190.46
284_D343_T0.5180.45
133_R157_N0.5160.45
122_N126_K0.5160.45
252_A265_R0.5150.45
203_L233_L0.5140.45
291_D295_F0.5130.45
193_I196_L0.5130.45
175_H179_I0.5120.45
134_F139_S0.5120.45
107_I124_Q0.5110.45
253_A266_Q0.5100.44
160_A171_M0.5090.44
138_N217_V0.5090.44
122_N357_V0.5090.44
295_F393_D0.5090.44
107_I117_A0.5080.44
104_F108_E0.5080.44
331_W389_F0.5060.44
318_L338_L0.5050.44
238_D243_K0.5040.44
308_D333_G0.5040.44
135_F159_A0.5040.44
261_L334_E0.5030.44
318_L355_I0.5020.43
282_A353_E0.5020.43
143_L221_A0.5020.43
134_F141_P0.5010.43
141_P144_L0.5000.43
151_G157_N0.5000.43
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  
1w25A 2 0.8927 100 0.501 Contact Map
3ezuA 2 0.7634 100 0.508 Contact Map
4h54A 2 0.639 100 0.535 Contact Map
4j40A 2 0 100 0.539 Contact Map
3pjxA 1 0.4244 100 0.546 Contact Map
3breA 4 0.661 100 0.555 Contact Map
4rnhA 2 0.3732 100 0.559 Contact Map
3ignA 1 0.3927 100 0.562 Contact Map
3i5cA 2 0.4561 100 0.562 Contact Map
3qyyA 1 0.3732 100 0.568 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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