GREMLIN Database
YRAM - Putative isomerase YraM
UniProt: O07931 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 367 (338)
Sequences: 1274 (726)
Seq/√Len: 39.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
206_E209_S5.1021.00
121_I132_A4.5491.00
18_F99_A4.1811.00
206_E317_R3.4151.00
68_T122_L3.1921.00
179_N182_E3.1381.00
175_L180_S3.1181.00
19_F38_V3.1111.00
76_T124_T3.0801.00
63_I103_F2.9641.00
183_F192_E2.8471.00
148_T155_S2.8271.00
38_V358_V2.8051.00
17_V38_V2.7171.00
122_L127_N2.7131.00
327_R334_I2.6281.00
184_L235_I2.5251.00
56_L294_Q2.3971.00
284_I296_L2.3511.00
215_T262_A2.3351.00
212_L223_D2.3261.00
71_I129_M2.2981.00
20_H107_E2.2911.00
280_M329_A2.1830.99
22_S65_K2.1790.99
175_L313_A2.1400.99
205_V232_L2.0890.99
182_E239_K2.0560.99
54_N294_Q2.0530.99
147_V347_V2.0510.99
181_S192_E2.0390.99
132_A161_L2.0310.99
235_I239_K2.0280.99
184_L236_A1.9520.99
78_G87_V1.9490.99
261_V315_P1.9410.99
117_T136_V1.9350.99
18_F96_I1.8870.98
73_V101_G1.8860.98
262_A283_H1.8670.98
180_S313_A1.8540.98
222_T292_P1.8500.98
55_S288_S1.8370.98
286_M300_G1.8040.98
355_D359_Y1.7760.97
73_V110_V1.7690.97
15_K353_I1.7640.97
308_L315_P1.7440.97
17_V50_L1.7410.97
195_I240_C1.7240.97
105_I134_V1.7160.97
296_L304_T1.6890.97
217_L220_E1.6800.96
175_L194_S1.6770.96
184_L239_K1.6760.96
4_T34_F1.6730.96
192_E317_R1.6400.96
3_K357_T1.6300.96
286_M297_A1.6040.95
158_P347_V1.5940.95
8_I50_L1.5750.95
61_A96_I1.5710.95
218_A294_Q1.5690.95
221_F287_M1.5660.95
298_V346_I1.5640.95
78_G89_F1.5530.94
16_G96_I1.5500.94
11_G99_A1.5480.94
203_V232_L1.5260.94
181_S317_R1.5140.94
107_E355_D1.5090.93
42_P83_S1.5080.93
106_E141_V1.4990.93
66_A74_H1.4960.93
7_T352_R1.4870.93
294_Q354_M1.4800.93
106_E143_Y1.4720.93
107_E352_R1.4640.92
204_F261_V1.4610.92
32_E89_F1.4490.92
282_L328_L1.4410.92
327_R336_E1.4350.92
7_T107_E1.4290.91
185_D231_E1.4110.91
42_P85_E1.3880.90
92_N123_N1.3860.90
185_D235_I1.3840.90
214_G262_A1.3810.90
210_I260_I1.3690.90
74_H122_L1.3610.89
45_R54_N1.3610.89
310_V313_A1.3550.89
101_G134_V1.3550.89
135_E158_P1.3540.89
213_D216_E1.3520.89
116_M133_E1.3510.89
67_Y122_L1.3460.89
135_E157_S1.3430.89
41_S83_S1.3400.89
185_D190_Q1.3350.88
27_N30_E1.3290.88
205_V210_I1.3130.88
175_L310_V1.3100.87
41_S58_S1.2980.87
167_A174_L1.2970.87
352_R359_Y1.2950.87
215_T265_E1.2930.87
66_A69_S1.2690.86
202_L259_A1.2660.86
202_L303_C1.2640.85
70_D120_R1.2510.85
133_E162_N1.2440.85
35_L57_T1.2430.84
92_N299_T1.2430.84
204_F304_T1.2390.84
106_E352_R1.2180.83
166_A288_S1.2160.83
118_A133_E1.2090.83
91_G254_A1.1940.82
36_L85_E1.1870.82
352_R355_D1.1830.81
118_A131_I1.1800.81
73_V119_V1.1710.81
19_F23_A1.1680.81
78_G88_D1.1580.80
39_M60_V1.1570.80
201_P257_K1.1510.80
194_S303_C1.1450.79
168_G172_G1.1440.79
16_G99_A1.1420.79
257_K301_A1.1390.79
297_A300_G1.1360.79
175_L196_I1.1320.78
6_V354_M1.1230.78
96_I99_A1.1170.77
56_L297_A1.1120.77
34_F360_T1.1070.77
8_I17_V1.1070.77
205_V229_F1.1060.77
204_F315_P1.1020.76
30_E34_F1.1010.76
28_K32_E1.0970.76
123_N170_V1.0940.76
196_I303_C1.0890.76
37_D360_T1.0810.75
263_K266_K1.0650.74
264_P320_K1.0650.74
65_K111_K1.0610.74
220_E223_D1.0570.73
81_S84_E1.0510.73
28_K31_W1.0490.73
215_T283_H1.0480.73
3_K359_Y1.0470.73
47_I153_P1.0450.73
230_E290_Q1.0410.72
191_I209_S1.0380.72
114_E136_V1.0300.71
90_K253_P1.0280.71
261_V318_I1.0250.71
45_R53_G1.0240.71
50_L358_V1.0200.71
36_L42_P1.0200.71
198_Y303_C1.0200.71
50_L354_M1.0190.71
81_S86_K1.0170.70
53_G57_T1.0090.70
20_H109_L1.0080.70
177_T182_E1.0080.70
168_G171_T1.0040.69
295_A339_V1.0030.69
199_A297_A1.0030.69
213_D262_A1.0020.69
218_A295_A1.0010.69
34_F38_V0.9950.69
305_T337_T0.9940.69
46_Q58_S0.9930.69
103_F107_E0.9890.68
208_S263_K0.9870.68
7_T355_D0.9840.68
39_M358_V0.9800.68
101_G119_V0.9780.67
150_S334_I0.9720.67
17_V96_I0.9670.67
8_I354_M0.9630.66
20_H103_F0.9620.66
284_I328_L0.9600.66
97_S161_L0.9570.66
150_S330_H0.9560.66
24_M31_W0.9530.65
211_G214_G0.9480.65
202_L286_M0.9460.65
184_L193_V0.9460.65
137_E142_K0.9450.65
235_I238_E0.9410.64
222_T291_K0.9380.64
37_D361_H0.9360.64
73_V100_V0.9290.63
64_K124_T0.9280.63
236_A240_C0.9270.63
207_A285_R0.9170.62
130_I299_T0.9160.62
353_I358_V0.9120.62
180_S312_G0.9090.62
43_D53_G0.9080.62
55_S257_K0.9070.62
212_L260_I0.9060.61
177_T195_I0.9050.61
207_A211_G0.9040.61
180_S310_V0.9020.61
21_E64_K0.9020.61
33_P360_T0.9000.61
123_N171_T0.9000.61
71_I74_H0.8900.60
116_M135_E0.8900.60
63_I96_I0.8860.60
66_A122_L0.8800.59
159_I308_L0.8780.59
68_T74_H0.8770.59
199_A303_C0.8710.58
292_P354_M0.8670.58
91_G289_M0.8670.58
105_I117_T0.8630.58
54_N57_T0.8630.58
3_K355_D0.8620.58
198_Y302_I0.8600.57
8_I56_L0.8560.57
181_S314_I0.8550.57
162_N345_K0.8550.57
56_L288_S0.8540.57
159_I350_A0.8510.57
282_L308_L0.8490.56
105_I110_V0.8490.56
18_F100_V0.8490.56
261_V307_A0.8420.56
43_D46_Q0.8410.56
212_L216_E0.8390.56
183_F190_Q0.8300.55
97_S102_P0.8290.55
337_T344_I0.8200.54
47_I57_T0.8200.54
168_G197_D0.8190.54
204_F314_I0.8170.54
295_A332_S0.8170.54
64_K122_L0.8160.53
201_P240_C0.8140.53
313_A316_A0.8040.52
122_L128_K0.7990.52
263_K318_I0.7990.52
281_D329_A0.7980.52
195_I236_A0.7980.52
38_V360_T0.7950.52
123_N126_T0.7900.51
169_S194_S0.7900.51
209_S317_R0.7870.51
229_F287_M0.7870.51
71_I122_L0.7870.51
18_F63_I0.7860.51
218_A222_T0.7840.51
29_N32_E0.7810.50
7_T63_I0.7800.50
34_F37_D0.7780.50
261_V314_I0.7770.50
91_G253_P0.7770.50
179_N239_K0.7710.49
307_A315_P0.7700.49
171_T197_D0.7700.49
166_A299_T0.7690.49
199_A296_L0.7680.49
50_L353_I0.7670.49
53_G84_E0.7670.49
34_F361_H0.7630.49
135_E142_K0.7620.49
191_I205_V0.7610.48
121_I358_V0.7590.48
98_A303_C0.7560.48
257_K288_S0.7530.48
33_P37_D0.7530.48
296_L335_I0.7510.48
36_L53_G0.7500.47
265_E283_H0.7490.47
349_T356_G0.7480.47
198_Y306_R0.7480.47
92_N167_A0.7440.47
192_E209_S0.7430.47
130_I198_Y0.7420.47
264_P318_I0.7370.46
131_I164_H0.7340.46
199_A299_T0.7310.46
134_V141_V0.7310.46
169_S255_V0.7310.46
58_S77_F0.7280.45
230_E234_S0.7260.45
302_I353_I0.7200.45
31_W35_L0.7200.45
147_V158_P0.7190.45
55_S344_I0.7190.45
207_A262_A0.7180.45
110_V120_R0.7170.44
251_L263_K0.7150.44
88_D91_G0.7140.44
42_P46_Q0.7130.44
169_S303_C0.7130.44
325_K336_E0.7080.44
213_D265_E0.7070.44
123_N299_T0.7070.44
259_A284_I0.7060.43
296_L301_A0.7050.43
131_I162_N0.7030.43
61_A75_Y0.7030.43
221_F292_P0.7010.43
261_V317_R0.7010.43
117_T134_V0.6980.43
238_E243_A0.6970.43
9_M352_R0.6940.42
92_N103_F0.6930.42
287_M329_A0.6930.42
109_L301_A0.6920.42
257_K289_M0.6910.42
16_G35_L0.6890.42
132_A157_S0.6870.42
6_V17_V0.6870.42
52_G79_Q0.6850.42
166_A302_I0.6840.41
56_L166_A0.6800.41
67_Y110_V0.6790.41
88_D230_E0.6780.41
63_I107_E0.6770.41
288_S299_T0.6760.41
180_S326_V0.6750.41
91_G237_A0.6730.41
16_G25_P0.6730.41
102_P134_V0.6730.41
308_L319_A0.6710.40
114_E138_D0.6710.40
101_G132_A0.6680.40
212_L226_L0.6670.40
10_R14_S0.6670.40
73_V121_I0.6670.40
15_K96_I0.6670.40
56_L290_Q0.6660.40
55_S166_A0.6640.40
193_V323_S0.6640.40
91_G303_C0.6600.39
86_K239_K0.6590.39
90_K170_V0.6580.39
154_G349_T0.6570.39
8_I295_A0.6530.39
195_I201_P0.6530.39
16_G354_M0.6450.38
182_E191_I0.6430.38
148_T326_V0.6420.38
21_E31_W0.6420.38
134_V159_I0.6410.38
242_F353_I0.6400.38
214_G285_R0.6390.38
88_D254_A0.6380.37
24_M32_E0.6370.37
259_A303_C0.6370.37
130_I161_L0.6350.37
120_R164_H0.6350.37
123_N297_A0.6350.37
89_F123_N0.6340.37
149_I152_V0.6340.37
64_K67_Y0.6330.37
99_A181_S0.6300.37
112_A115_P0.6230.36
96_I199_A0.6230.36
169_S173_H0.6230.36
62_I78_G0.6220.36
121_I131_I0.6210.36
184_L195_I0.6200.36
211_G216_E0.6200.36
200_N298_V0.6170.36
6_V332_S0.6160.36
65_K109_L0.6150.36
71_I120_R0.6150.36
116_M229_F0.6150.36
213_D272_G0.6110.35
102_P157_S0.6100.35
10_R13_T0.6100.35
141_V157_S0.6090.35
286_M299_T0.6070.35
231_E235_I0.6060.35
126_T154_G0.6050.35
67_Y231_E0.6040.35
218_A292_P0.6030.35
185_D265_E0.6030.35
203_V258_L0.6010.34
308_L360_T0.6000.34
57_T302_I0.6000.34
194_S290_Q0.6000.34
160_Y347_V0.5990.34
128_K170_V0.5980.34
101_G110_V0.5980.34
91_G200_N0.5960.34
79_Q331_S0.5960.34
68_T71_I0.5940.34
254_A257_K0.5910.34
259_A286_M0.5900.33
53_G85_E0.5890.33
98_A227_A0.5890.33
56_L298_V0.5870.33
56_L295_A0.5850.33
213_D220_E0.5840.33
308_L327_R0.5830.33
281_D327_R0.5830.33
130_I163_F0.5810.33
110_V117_T0.5800.33
96_I126_T0.5800.33
89_F135_E0.5790.33
148_T154_G0.5780.33
129_M159_I0.5780.33
201_P255_V0.5780.33
313_A339_V0.5770.32
57_T297_A0.5750.32
227_A266_K0.5750.32
296_L328_L0.5740.32
42_P45_R0.5710.32
240_C257_K0.5710.32
309_S339_V0.5690.32
26_N183_F0.5660.32
123_N328_L0.5660.32
299_T303_C0.5650.31
67_Y111_K0.5650.31
314_I347_V0.5630.31
76_T123_N0.5620.31
149_I349_T0.5600.31
13_T39_M0.5580.31
31_W62_I0.5580.31
34_F90_K0.5570.31
46_Q55_S0.5570.31
254_A289_M0.5560.31
102_P145_G0.5560.31
99_A155_S0.5550.31
230_E330_H0.5540.31
99_A103_F0.5530.31
54_N128_K0.5520.30
237_A245_R0.5520.30
128_K332_S0.5520.30
41_S46_Q0.5510.30
7_T103_F0.5510.30
130_I288_S0.5500.30
284_I288_S0.5490.30
139_G145_G0.5490.30
264_P283_H0.5480.30
193_V239_K0.5480.30
297_A302_I0.5470.30
97_S352_R0.5460.30
111_K220_E0.5440.30
166_A198_Y0.5440.30
9_M99_A0.5410.30
27_N342_T0.5400.30
113_K117_T0.5390.29
88_D259_A0.5390.29
8_I15_K0.5380.29
16_G24_M0.5380.29
123_N128_K0.5380.29
16_G289_M0.5370.29
19_F76_T0.5350.29
227_A231_E0.5350.29
107_E144_D0.5350.29
194_S306_R0.5340.29
169_S242_F0.5330.29
24_M34_F0.5330.29
150_S156_G0.5320.29
177_T236_A0.5320.29
234_S290_Q0.5320.29
218_A284_I0.5310.29
198_Y299_T0.5310.29
181_S282_L0.5310.29
97_S286_M0.5310.29
16_G356_G0.5270.29
184_L229_F0.5260.29
185_D228_Q0.5240.28
261_V323_S0.5240.28
55_S286_M0.5220.28
180_S194_S0.5220.28
126_T170_V0.5220.28
146_D183_F0.5210.28
73_V105_I0.5210.28
222_T309_S0.5210.28
41_S85_E0.5200.28
330_H356_G0.5190.28
15_K37_D0.5180.28
74_H124_T0.5170.28
170_V202_L0.5140.28
55_S291_K0.5140.28
159_I180_S0.5130.28
30_E353_I0.5130.28
231_E239_K0.5120.27
18_F345_K0.5120.27
6_V50_L0.5120.27
42_P97_S0.5100.27
266_K312_G0.5100.27
117_T137_E0.5100.27
301_A335_I0.5070.27
217_L335_I0.5070.27
324_T340_E0.5050.27
50_L229_F0.5050.27
203_V236_A0.5050.27
97_S130_I0.5040.27
172_G179_N0.5020.27
26_N225_Q0.5010.27
191_I232_L0.5000.27
199_A350_A0.5000.27
100_V327_R0.5000.27
263_K272_G0.5000.27
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  
2pw0A 2 0.9809 100 0.189 Contact Map
3g7kA 3 0.9973 100 0.353 Contact Map
1w61A 2 0.8392 99.9 0.832 Contact Map
4lb0A 2 0.8283 99.7 0.872 Contact Map
4k8lA 2 0.7602 99.7 0.874 Contact Map
2otnA 2 0.7548 98.4 0.932 Contact Map
2gkeA 1 0.7221 97.6 0.943 Contact Map
3ednA 2 0.7411 97.5 0.945 Contact Map
1xubA 2 0.7003 97.4 0.946 Contact Map
4jbdA 2 0.7548 97.2 0.948 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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