GREMLIN Database
HOFM - Putative DNA utilization protein HofM
UniProt: P45753 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12925
Length: 259 (249)
Sequences: 1864 (1543)
Seq/√Len: 97.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
205_A223_G4.1691.00
74_L147_A3.7951.00
43_I55_L3.5791.00
147_A154_V3.4451.00
63_S67_P3.2281.00
74_L157_I3.0411.00
37_L61_P2.9131.00
215_D218_S2.8821.00
87_P129_A2.7581.00
195_G200_V2.6751.00
201_G205_A2.6371.00
37_L65_E2.5801.00
114_P119_F2.5101.00
201_G223_G2.4971.00
106_M119_F2.4741.00
220_A223_G2.4281.00
23_V32_Q2.3681.00
56_A149_R2.3211.00
10_L19_A2.2801.00
71_H153_H2.2291.00
224_E228_D2.2071.00
62_W67_P2.2031.00
214_V222_C2.1191.00
63_S68_Q2.1131.00
20_V31_L2.1111.00
113_D116_S2.0761.00
17_A58_T2.0291.00
205_A220_A2.0181.00
51_D54_Q2.0171.00
13_Q18_V1.9901.00
112_M117_L1.9511.00
110_L117_L1.9031.00
71_H155_S1.8851.00
35_W65_E1.8611.00
113_D117_L1.8411.00
21_A33_R1.7621.00
22_I254_A1.7511.00
135_A140_L1.7151.00
214_V219_V1.6981.00
219_V223_G1.6841.00
85_S129_A1.6801.00
118_R137_S1.6661.00
99_T103_S1.6661.00
98_Q102_L1.6591.00
233_V251_L1.6571.00
9_G250_A1.6421.00
114_P117_L1.6301.00
158_T166_R1.5961.00
146_L150_L1.5871.00
113_D121_Y1.5801.00
59_L150_L1.5751.00
218_S221_I1.5731.00
111_D117_L1.5721.00
102_L107_A1.5611.00
11_H18_V1.5411.00
111_D114_P1.5341.00
62_W66_L1.5331.00
228_D244_G1.5131.00
111_D119_F1.5101.00
63_S66_L1.4581.00
7_Q73_M1.4361.00
113_D118_R1.4281.00
20_V34_W1.4261.00
105_T108_R1.4151.00
87_P127_S1.4040.99
226_G236_R1.3970.99
215_D219_V1.3930.99
59_L134_A1.3750.99
16_E36_R1.3710.99
10_L147_A1.3230.99
103_S107_A1.3090.99
229_P232_A1.3070.99
113_D166_R1.3000.99
118_R141_A1.2990.99
18_V36_R1.2920.99
88_R98_Q1.2860.99
22_I29_C1.2770.99
37_L58_T1.2680.99
209_A219_V1.2550.99
104_G107_A1.2420.99
207_E210_A1.2390.99
73_M156_A1.2330.99
228_D231_E1.2290.99
11_H183_N1.2160.99
13_Q181_R1.2110.99
200_V219_V1.2090.98
137_S141_A1.2080.98
25_G30_F1.2060.98
200_V215_D1.2040.98
36_R247_F1.1980.98
84_R89_P1.1850.98
90_S96_R1.1720.98
148_E153_H1.1660.98
8_I21_A1.1510.98
52_A56_A1.1450.98
98_Q106_M1.1420.98
53_Q149_R1.1380.98
97_E100_A1.1330.98
35_W62_W1.1300.98
13_Q183_N1.1070.97
109_E113_D1.1010.97
56_A150_L1.0930.97
99_T102_L1.0910.97
112_M119_F1.0840.97
44_I49_I1.0790.97
10_L59_L1.0710.97
75_A160_D1.0710.97
193_S200_V1.0700.97
180_W187_L1.0590.96
164_L248_A1.0360.96
44_I47_G1.0230.96
140_L157_I1.0220.96
216_P223_G1.0150.96
91_M101_W1.0150.96
230_W233_V1.0120.95
63_S69_R1.0080.95
112_M120_D0.9990.95
65_E69_R0.9960.95
23_V30_F0.9940.95
210_A215_D0.9930.95
115_D118_R0.9850.95
106_M111_D0.9840.95
144_L154_V0.9810.95
209_A215_D0.9790.95
136_Q156_A0.9770.94
226_G232_A0.9700.94
187_L200_V0.9680.94
228_D232_A0.9680.94
188_W196_R0.9670.94
56_A60_L0.9630.94
99_T106_M0.9610.94
111_D118_R0.9600.94
25_G28_E0.9590.94
94_G97_E0.9540.94
181_R188_W0.9520.94
59_L72_I0.9510.94
226_G229_P0.9440.93
115_D121_Y0.9420.93
116_S136_Q0.9390.93
116_S224_E0.9370.93
39_L44_I0.9330.93
17_A39_L0.9320.93
111_D115_D0.9290.93
148_E154_V0.9270.93
100_A104_G0.9260.93
109_E117_L0.9200.93
211_A215_D0.9170.92
207_E214_V0.9160.92
215_D220_A0.9060.92
110_L113_D0.9060.92
10_L72_I0.9060.92
132_V158_T0.9040.92
59_L146_L0.8990.92
45_K50_V0.8980.92
244_G247_F0.8920.91
74_L154_V0.8910.91
159_P162_S0.8850.91
105_T112_M0.8820.91
99_T121_Y0.8800.91
10_L62_W0.8800.91
205_A216_P0.8780.91
98_Q105_T0.8780.91
111_D120_D0.8760.91
20_V250_A0.8610.90
227_F232_A0.8570.90
205_A219_V0.8570.90
111_D121_Y0.8550.90
84_R134_A0.8480.89
214_V218_S0.8450.89
183_N223_G0.8440.89
116_S120_D0.8430.89
184_E220_A0.8430.89
211_A214_V0.8410.89
117_L120_D0.8400.89
167_F248_A0.8340.88
117_L121_Y0.8330.88
19_A66_L0.8330.88
209_A214_V0.8330.88
83_Q133_T0.8310.88
66_L69_R0.8290.88
9_G75_A0.8250.88
62_W68_Q0.8230.88
184_E201_G0.8200.87
77_P81_T0.8200.87
39_L42_D0.8190.87
118_R121_Y0.8170.87
209_A216_P0.8130.87
81_T119_F0.8070.87
249_I253_L0.8040.86
80_R154_V0.8000.86
111_D116_S0.7960.86
227_F230_W0.7920.86
183_N201_G0.7890.85
145_T149_R0.7800.85
109_E112_M0.7780.85
80_R153_H0.7760.84
112_M115_D0.7760.84
9_G73_M0.7720.84
43_I54_Q0.7720.84
60_L151_R0.7690.84
113_D120_D0.7660.84
100_A103_S0.7650.84
191_R195_G0.7640.84
242_P247_F0.7610.83
161_A213_S0.7610.83
226_G230_W0.7590.83
64_R208_L0.7560.83
218_S222_C0.7520.83
13_Q39_L0.7510.82
184_E223_G0.7460.82
91_M94_G0.7440.82
19_A35_W0.7420.82
154_V157_I0.7410.82
143_L146_L0.7400.82
105_T110_L0.7390.81
10_L47_G0.7380.81
78_A161_A0.7380.81
135_A139_E0.7350.81
15_Q184_E0.7290.81
61_P64_R0.7180.80
42_D49_I0.7150.79
18_V183_N0.7110.79
14_Q46_D0.7080.79
57_K171_L0.7070.78
57_K60_L0.7060.78
98_Q107_A0.7060.78
98_Q103_S0.7030.78
14_Q18_V0.7020.78
89_P127_S0.7020.78
208_L223_G0.7000.78
183_N219_V0.6990.78
232_A236_R0.6940.77
11_H250_A0.6940.77
115_D120_D0.6910.77
65_E68_Q0.6900.77
244_G255_L0.6900.77
101_W104_G0.6890.77
83_Q164_L0.6880.77
110_L115_D0.6850.76
72_I147_A0.6840.76
215_D223_G0.6760.75
100_A107_A0.6760.75
76_F133_T0.6730.75
98_Q128_P0.6710.75
143_L158_T0.6710.75
231_E242_P0.6700.75
8_I63_S0.6690.75
47_G85_S0.6660.74
95_E115_D0.6650.74
72_I79_S0.6640.74
100_A105_T0.6610.74
118_R135_A0.6570.73
237_Q242_P0.6560.73
230_W235_V0.6520.73
86_F132_V0.6460.72
49_I52_A0.6460.72
106_M117_L0.6450.72
214_V217_E0.6440.72
168_L179_A0.6430.72
63_S72_I0.6380.71
227_F236_R0.6360.71
110_L114_P0.6350.71
52_A146_L0.6290.70
227_F233_V0.6250.70
137_S142_T0.6240.69
142_T145_T0.6220.69
14_Q43_I0.6190.69
81_T139_E0.6170.69
139_E143_L0.6160.68
161_A194_W0.6140.68
214_V223_G0.6140.68
90_S126_L0.6110.68
195_G199_A0.6090.68
239_P243_P0.6080.67
201_G220_A0.6080.67
107_A110_L0.6060.67
91_M104_G0.5990.66
33_R204_S0.5980.66
77_P158_T0.5940.66
51_D140_L0.5930.65
74_L164_L0.5920.65
86_F130_Y0.5900.65
40_E54_Q0.5890.65
25_G208_L0.5890.65
207_E211_A0.5890.65
10_L45_K0.5890.65
243_P247_F0.5880.65
35_W68_Q0.5860.65
161_A216_P0.5830.64
88_R102_L0.5820.64
225_G233_V0.5820.64
172_P180_W0.5790.64
121_Y130_Y0.5790.64
63_S152_V0.5780.64
46_D198_L0.5770.63
239_P242_P0.5750.63
97_E131_N0.5750.63
88_R111_D0.5740.63
183_N204_S0.5700.62
33_R61_P0.5690.62
34_W239_P0.5680.62
30_F221_I0.5650.62
91_M128_P0.5640.62
46_D190_T0.5610.61
14_Q47_G0.5600.61
166_R253_L0.5600.61
102_L108_R0.5570.61
169_P172_P0.5570.61
42_D47_G0.5540.60
76_F165_Q0.5540.60
65_E110_L0.5530.60
106_M112_M0.5520.60
81_T131_N0.5520.60
44_I55_L0.5510.60
150_L155_S0.5450.59
34_W90_S0.5440.59
99_T108_R0.5440.59
110_L121_Y0.5410.58
228_D234_S0.5400.58
83_Q161_A0.5390.58
17_A252_G0.5380.58
202_M206_K0.5350.58
158_T162_S0.5330.57
9_G138_K0.5330.57
44_I72_I0.5320.57
229_P234_S0.5320.57
106_M230_W0.5310.57
237_Q241_P0.5300.57
181_R249_I0.5280.57
21_A204_S0.5280.57
238_P247_F0.5280.57
76_F81_T0.5280.57
193_S197_K0.5270.57
60_L149_R0.5270.57
164_L179_A0.5270.57
94_G102_L0.5270.57
31_L64_R0.5260.56
46_D186_W0.5250.56
251_L255_L0.5250.56
72_I152_V0.5240.56
112_M116_S0.5230.56
147_A164_L0.5200.56
191_R194_W0.5180.55
224_E231_E0.5180.55
161_A186_W0.5180.55
199_A212_L0.5170.55
110_L120_D0.5170.55
128_P187_L0.5160.55
9_G12_L0.5160.55
207_E215_D0.5150.55
106_M110_L0.5150.55
208_L240_L0.5150.55
9_G120_D0.5140.55
250_A253_L0.5140.55
82_L178_L0.5120.54
21_A68_Q0.5120.54
200_V218_S0.5110.54
27_K153_H0.5090.54
205_A215_D0.5080.54
211_A218_S0.5070.54
56_A146_L0.5070.54
108_R118_R0.5050.53
103_S106_M0.5050.53
43_I178_L0.5040.53
165_Q168_L0.5040.53
244_G254_A0.5030.53
22_I31_L0.5030.53
231_E234_S0.5030.53
47_G55_L0.5030.53
230_W251_L0.5020.53
185_Q202_M0.5020.53
83_Q162_S0.5020.53
239_P246_D0.5010.53
13_Q220_A0.5000.53
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  
2ychA 1 0.9035 100 0.481 Contact Map
3wqtA 2 0.9575 99.9 0.582 Contact Map
3wt0A 1 0.973 99.9 0.584 Contact Map
4a2aA 1 0.9614 99.9 0.615 Contact Map
1nbwA 2 0.973 99.6 0.703 Contact Map
2d0oA 2 0.973 99.5 0.728 Contact Map
4phtX 1 0.834 99.2 0.762 Contact Map
3h1qA 1 0.7529 99.1 0.777 Contact Map
2bh1A 1 0.8649 98.2 0.831 Contact Map
4j8fA 2 0.9266 98.2 0.832 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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