GREMLIN Database
RAPH - Response regulator aspartate phosphatase H
UniProt: Q59HN8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 376 (312)
Sequences: 1651 (1465)
Seq/√Len: 83.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
146_A162_I5.0651.00
274_Q277_K4.6941.00
235_D238_M4.1921.00
227_A243_F3.7741.00
195_H198_K3.7471.00
114_E117_E3.6981.00
142_H161_H3.4871.00
187_A203_L3.4451.00
349_H352_Q3.3531.00
106_G122_Y3.2311.00
154_Q157_V3.1261.00
244_Q265_L2.9361.00
105_R109_E2.7371.00
243_F264_G2.6271.00
200_L226_I2.5391.00
159_M186_I2.4971.00
266_S282_I2.4961.00
149_Y157_V2.4661.00
162_I185_V2.4431.00
238_M241_E2.3801.00
240_V268_T2.2591.00
240_V265_L2.2031.00
198_K201_P2.1831.00
223_L245_K2.1731.00
345_E358_R2.0821.00
277_K280_Q2.0651.00
262_L281_F2.0541.00
200_L233_S2.0271.00
102_L124_E1.9991.00
102_L121_Y1.9891.00
308_Y313_D1.9881.00
230_Y238_M1.9811.00
265_L281_F1.9061.00
340_A344_F1.8911.00
142_H164_Q1.8771.00
226_I242_H1.8591.00
125_A141_F1.8471.00
106_G121_Y1.8381.00
180_I206_A1.8201.00
350_F353_A1.8121.00
240_V272_A1.7991.00
309_K312_V1.7851.00
145_V149_Y1.7631.00
341_A357_Y1.7611.00
187_A206_A1.7331.00
184_F225_N1.7301.00
269_L274_Q1.7151.00
240_V269_L1.7141.00
223_L242_H1.7061.00
200_L230_Y1.7021.00
122_Y144_K1.6861.00
187_A202_H1.6531.00
352_Q355_A1.6401.00
143_F185_V1.6281.00
270_C282_I1.5851.00
110_F122_Y1.5391.00
203_L225_N1.5311.00
191_D203_L1.5240.99
183_L202_H1.5170.99
34_A37_E1.5170.99
211_M219_I1.5040.99
333_I337_A1.5010.99
106_G125_A1.4980.99
240_V244_Q1.4830.99
265_L269_L1.4800.99
275_T279_F1.4690.99
156_H193_F1.4620.99
119_I149_Y1.4540.99
268_T272_A1.4460.99
228_N243_F1.4380.99
226_I230_Y1.4280.99
47_Q50_L1.4280.99
220_A246_A1.4200.99
82_L85_T1.4090.99
164_Q167_D1.4090.99
190_Y198_K1.4060.99
266_S285_G1.4040.99
243_F268_T1.4020.99
99_Y125_A1.3990.99
145_V161_H1.3940.99
236_D268_T1.3940.99
186_I202_H1.3850.99
186_I190_Y1.3850.99
119_I148_A1.3740.99
119_I145_V1.3740.99
165_A168_I1.3690.99
38_Q41_Q1.3360.99
31_I35_E1.3240.99
79_V82_L1.3240.99
103_F144_K1.3120.98
219_I223_L1.3050.98
230_Y235_D1.3020.98
269_L277_K1.2970.98
33_K37_E1.2960.98
325_E359_K1.2930.98
226_I265_L1.2800.98
227_A242_H1.2720.98
107_M144_K1.2680.98
40_I47_Q1.2650.98
40_I44_E1.2630.98
166_L183_L1.2580.98
301_F304_L1.2540.98
237_Q272_A1.2480.98
109_E114_E1.2380.98
38_Q42_Q1.2240.98
182_S185_V1.2230.98
336_C340_A1.2200.98
183_L205_A1.2160.97
355_A358_R1.1850.97
344_F352_Q1.1680.97
52_Y56_M1.1600.97
109_E117_E1.1530.97
301_F317_I1.1490.96
159_M189_N1.1420.96
224_L264_G1.1400.96
264_G267_W1.1340.96
163_L186_I1.1320.96
235_D274_Q1.1310.96
247_A262_L1.1290.96
301_F313_D1.1280.96
262_L284_E1.1240.96
163_L198_K1.1240.96
107_M122_Y1.1220.96
110_F148_A1.1170.96
144_K147_E1.1120.96
179_T183_L1.1040.96
157_V160_Y1.1000.95
36_V39_D1.0960.95
117_E120_G1.0960.95
150_Y162_I1.0920.95
188_G225_N1.0900.95
200_L229_S1.0890.95
146_A158_S1.0860.95
204_E226_I1.0830.95
244_Q277_K1.0800.95
241_E245_K1.0790.95
190_Y195_H1.0700.95
31_I34_A1.0670.95
266_S281_F1.0650.95
149_Y154_Q1.0650.95
143_F182_S1.0600.94
246_A285_G1.0510.94
300_L304_L1.0500.94
310_E313_D1.0480.94
142_H223_L1.0450.94
262_L285_G1.0430.94
55_L68_E1.0430.94
303_F307_V1.0310.94
118_A122_Y1.0240.93
247_A265_L1.0240.93
35_E40_I1.0210.93
197_D233_S1.0190.93
50_L54_S1.0030.93
37_E40_I1.0000.92
33_K43_M0.9960.92
32_L43_M0.9910.92
301_F308_Y0.9890.92
35_E41_Q0.9890.92
341_A353_A0.9880.92
227_A239_A0.9790.92
313_D316_K0.9790.92
161_H165_A0.9750.92
78_T82_L0.9620.91
273_G351_E0.9610.91
140_E144_K0.9600.91
224_L227_A0.9570.91
298_K302_L0.9560.91
31_I36_V0.9550.91
304_L308_Y0.9490.90
113_K117_E0.9430.90
216_D219_I0.9380.90
228_N264_G0.9340.90
78_T81_E0.9340.90
34_A38_Q0.9340.90
200_L207_L0.9250.89
353_A357_Y0.9210.89
32_L35_E0.9170.89
132_V135_D0.9140.89
176_S179_T0.9140.89
196_Y236_D0.9130.89
237_Q241_E0.9120.89
79_V83_L0.9110.88
207_L226_I0.9100.88
316_K319_D0.9090.88
183_L262_L0.9070.88
224_L261_V0.8990.88
31_I39_D0.8950.88
104_F185_V0.8910.87
355_A359_K0.8900.87
180_I210_A0.8900.87
139_A165_A0.8880.87
314_E318_H0.8880.87
357_Y361_L0.8880.87
84_E88_T0.8750.86
341_A360_V0.8740.86
115_Y119_I0.8740.86
186_I192_D0.8720.86
57_C61_Q0.8720.86
38_Q44_E0.8700.86
69_P72_T0.8700.86
146_A165_A0.8670.86
55_L59_R0.8670.86
160_Y164_Q0.8630.86
98_K102_L0.8550.85
337_A356_F0.8520.85
123_R149_Y0.8490.85
297_Y300_L0.8480.85
58_F61_Q0.8460.84
83_L86_I0.8450.84
335_A339_S0.8440.84
86_I89_P0.8430.84
31_I37_E0.8420.84
34_A40_I0.8400.84
200_L203_L0.8380.84
247_A261_V0.8350.84
48_D51_I0.8310.83
66_Y70_G0.8290.83
35_E43_M0.8270.83
99_Y141_F0.8240.83
207_L223_L0.8180.82
148_A152_M0.8130.82
37_E41_Q0.8110.82
199_A229_S0.8090.82
236_D240_V0.8080.82
250_S261_V0.8070.82
47_Q56_M0.8060.82
346_S357_Y0.8050.81
348_C351_E0.8020.81
84_E87_E0.8010.81
299_E306_A0.7970.81
80_T83_L0.7950.81
166_L182_S0.7890.80
351_E354_A0.7880.80
200_L204_E0.7870.80
210_A213_I0.7830.80
38_Q45_E0.7770.79
37_E67_L0.7760.79
183_L223_L0.7750.79
331_A339_S0.7750.79
185_V203_L0.7730.79
259_P266_S0.7640.78
39_D43_M0.7630.78
85_T88_T0.7620.78
34_A43_M0.7600.78
61_Q65_D0.7600.78
337_A359_K0.7590.77
250_S258_L0.7560.77
281_F284_E0.7530.77
41_Q44_E0.7530.77
170_Q179_T0.7510.77
52_Y55_L0.7510.77
231_D243_F0.7480.76
354_A358_R0.7480.76
210_A222_S0.7450.76
281_F285_G0.7450.76
314_E317_I0.7440.76
290_T293_S0.7410.76
100_Y104_F0.7380.75
121_Y125_A0.7320.75
317_I320_L0.7300.75
109_E121_Y0.7290.75
238_M242_H0.7280.74
113_K151_H0.7270.74
319_D322_S0.7240.74
83_L321_L0.7220.74
88_T344_F0.7210.74
342_A350_F0.7180.73
242_H265_L0.7180.73
124_E127_K0.7170.73
162_I182_S0.7170.73
85_T89_P0.7160.73
63_M69_P0.7130.73
119_I154_Q0.7120.73
220_A250_S0.7110.73
35_E45_E0.7020.72
36_V40_I0.7020.72
164_Q205_A0.7020.72
184_F222_S0.7010.72
204_E207_L0.7010.72
82_L90_Q0.7010.72
76_R80_T0.7000.72
342_A357_Y0.7000.72
106_G110_F0.6950.71
40_I43_M0.6940.71
345_E357_Y0.6920.71
33_K44_E0.6920.71
343_V346_S0.6880.70
123_R145_V0.6850.70
146_A189_N0.6850.70
119_I152_M0.6850.70
317_I321_L0.6850.70
147_E151_H0.6840.70
223_L246_A0.6830.70
334_E360_V0.6830.70
349_H355_A0.6810.70
31_I38_Q0.6770.69
32_L38_Q0.6760.69
235_D273_G0.6730.69
213_I216_D0.6680.68
62_L66_Y0.6680.68
194_K234_G0.6670.68
146_A161_H0.6660.68
31_I42_Q0.6610.67
34_A39_D0.6520.66
332_Y339_S0.6520.66
142_H165_A0.6510.66
302_L305_Q0.6470.66
234_G271_K0.6470.66
60_H65_D0.6430.65
273_G293_S0.6430.65
139_A146_A0.6420.65
147_E162_I0.6400.65
110_F151_H0.6380.64
42_Q49_L0.6380.64
115_Y148_A0.6380.64
245_K248_K0.6350.64
33_K36_V0.6340.64
229_S233_S0.6340.64
165_A169_Y0.6340.64
55_L62_L0.6340.64
97_L196_Y0.6340.64
350_F354_A0.6330.64
37_E44_E0.6310.64
139_A169_Y0.6290.63
125_A140_E0.6290.63
278_A282_I0.6280.63
35_E39_D0.6280.63
227_A246_A0.6270.63
184_F188_G0.6270.63
315_R319_D0.6260.63
188_G203_L0.6260.63
207_L219_I0.6250.63
189_N192_D0.6250.63
32_L39_D0.6240.63
181_Q184_F0.6220.63
249_V271_K0.6210.62
245_K249_V0.6210.62
52_Y58_F0.6210.62
300_L332_Y0.6180.62
202_H205_A0.6150.62
154_Q162_I0.6150.62
220_A248_K0.6130.61
102_L125_A0.6120.61
246_A261_V0.6120.61
216_D249_V0.6110.61
79_V86_I0.6100.61
34_A42_Q0.6100.61
50_L53_Y0.6090.61
36_V47_Q0.6090.61
206_A209_L0.6080.61
318_H351_E0.6060.61
46_D49_L0.6060.61
225_N228_N0.6060.61
159_M334_E0.6050.60
273_G352_Q0.6030.60
56_M324_F0.6020.60
65_D69_P0.5980.60
59_R63_M0.5980.60
143_F263_F0.5980.60
329_L332_Y0.5970.59
46_D57_C0.5970.59
351_E355_A0.5970.59
203_L226_I0.5960.59
32_L37_E0.5950.59
317_I339_S0.5940.59
146_A262_L0.5930.59
354_A360_V0.5920.59
110_F115_Y0.5900.58
61_Q64_L0.5890.58
71_K79_V0.5880.58
231_D268_T0.5880.58
243_F261_V0.5870.58
52_Y63_M0.5850.58
87_E90_Q0.5850.58
227_A230_Y0.5840.58
100_Y103_F0.5840.58
39_D42_Q0.5830.58
178_R185_V0.5820.57
37_E48_D0.5810.57
146_A185_V0.5800.57
344_F356_F0.5780.57
342_A346_S0.5780.57
105_R121_Y0.5750.57
82_L88_T0.5740.56
336_C341_A0.5740.56
43_M47_Q0.5720.56
39_D54_S0.5720.56
210_A218_F0.5690.56
46_D53_Y0.5680.56
307_V312_V0.5670.56
150_Y203_L0.5660.55
107_M146_A0.5660.55
32_L40_I0.5650.55
52_Y60_H0.5650.55
162_I280_Q0.5630.55
33_K42_Q0.5620.55
32_L36_V0.5580.54
159_M190_Y0.5580.54
321_L358_R0.5570.54
31_I40_I0.5560.54
36_V45_E0.5550.54
38_Q43_M0.5550.54
348_C353_A0.5550.54
247_A258_L0.5530.54
67_L71_K0.5530.54
42_Q45_E0.5530.54
54_S58_F0.5530.54
80_T84_E0.5510.53
125_A206_A0.5500.53
141_F145_V0.5470.53
39_D50_L0.5470.53
207_L265_L0.5460.53
66_Y69_P0.5450.53
49_L59_R0.5430.52
282_I285_G0.5420.52
36_V43_M0.5390.52
162_I266_S0.5380.52
163_L202_H0.5380.52
205_A209_L0.5350.51
48_D52_Y0.5340.51
34_A44_E0.5340.51
118_A134_D0.5330.51
352_Q356_F0.5330.51
104_F107_M0.5320.51
59_R66_Y0.5300.51
223_L262_L0.5300.51
102_L122_Y0.5290.51
59_R65_D0.5290.51
31_I48_D0.5290.51
226_I246_A0.5280.50
188_G191_D0.5280.50
333_I353_A0.5270.50
292_R295_K0.5260.50
156_H189_N0.5260.50
141_F144_K0.5260.50
49_L55_L0.5250.50
290_T295_K0.5240.50
99_Y106_G0.5240.50
258_L262_L0.5240.50
310_E347_S0.5230.50
35_E38_Q0.5230.50
155_T189_N0.5220.50
71_K77_P0.5220.50
348_C359_K0.5220.50
61_Q70_G0.5210.49
78_T83_L0.5210.49
339_S352_Q0.5210.49
148_A268_T0.5200.49
125_A225_N0.5200.49
343_V350_F0.5170.49
62_L70_G0.5170.49
37_E42_Q0.5160.49
266_S278_A0.5160.49
68_E71_K0.5150.49
348_C361_L0.5140.49
84_E89_P0.5130.48
37_E49_L0.5120.48
285_G289_I0.5090.48
48_D53_Y0.5090.48
159_M193_F0.5080.48
197_D201_P0.5060.47
319_D326_K0.5050.47
37_E43_M0.5050.47
62_L67_L0.5040.47
62_L69_P0.5020.47
36_V61_Q0.5020.47
178_R276_Q0.5000.47
305_Q308_Y0.5000.47
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  
3q15A 2 0.9707 100 0.228 Contact Map
4gyoA 2 0.9574 100 0.235 Contact Map
3ulqA 1 0.9761 100 0.238 Contact Map
4i1aA 2 0.9521 100 0.239 Contact Map
4gpkA 3 0.9149 100 0.308 Contact Map
1w3bA 2 0.883 100 0.375 Contact Map
4ui9C 2 0.9202 100 0.402 Contact Map
3sf4A 1 0.8431 100 0.416 Contact Map
3q7aA 1 0.7287 100 0.421 Contact Map
4a1sA 1 0.8059 100 0.422 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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