GREMLIN Database
YOQD - SPBc2 prophage-derived putative antirepressor protein YoqD
UniProt: O34449 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 251 (218)
Sequences: 1474 (1202)
Seq/√Len: 81.4

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_A150_V4.6361.00
143_L146_A3.6291.00
62_A65_R3.5371.00
132_E136_K3.3761.00
149_K154_D3.1441.00
63_T67_L3.0121.00
139_L143_L2.9701.00
61_D65_R2.5821.00
136_K139_L2.5311.00
62_A67_L2.5181.00
185_F189_N2.4181.00
162_L212_Q2.4171.00
142_Q146_A2.3421.00
79_M93_T2.3371.00
31_D34_R2.1651.00
34_R38_G2.1211.00
136_K140_Q2.1011.00
35_S80_V2.0251.00
129_Y132_E1.9721.00
139_L142_Q1.8921.00
118_L122_E1.8091.00
19_R23_E1.7971.00
187_R199_N1.7331.00
162_L227_L1.7131.00
17_D71_H1.6931.00
114_I121_N1.6771.00
125_R129_Y1.6721.00
118_L121_N1.6531.00
93_T97_V1.6501.00
75_K101_E1.6481.00
127_I130_F1.6291.00
119_D122_E1.6251.00
126_A132_E1.6131.00
75_K79_M1.6031.00
130_F134_K1.6031.00
135_A140_Q1.5851.00
59_Y65_R1.5791.00
33_L37_D1.5681.00
126_A129_Y1.5641.00
79_M94_A1.5581.00
133_R136_K1.5390.99
61_D67_L1.4700.99
75_K94_A1.4670.99
64_G67_L1.4650.99
79_M97_V1.4290.99
22_A27_K1.4260.99
73_T76_G1.4260.99
114_I120_M1.4240.99
82_N97_V1.4150.99
83_K93_T1.3920.99
77_C81_A1.3880.99
82_N96_Y1.3600.99
79_M90_V1.3580.99
116_T119_D1.3540.99
56_E63_T1.3400.99
150_V154_D1.3160.98
203_Q206_V1.3110.98
210_F235_F1.2960.98
175_K181_N1.2910.98
90_V94_A1.2850.98
79_M82_N1.2710.98
201_P211_F1.2690.98
191_V235_F1.2630.98
65_R69_H1.2630.98
165_I183_F1.2620.98
21_V77_C1.2620.98
59_Y63_T1.2580.98
135_A139_L1.2340.98
170_K193_I1.2200.97
125_R130_F1.2190.97
79_M83_K1.2070.97
27_K86_G1.2030.97
82_N93_T1.1990.97
168_V228_V1.1760.97
90_V93_T1.1670.97
184_R188_E1.1630.96
27_K34_R1.1620.96
28_R31_D1.1560.96
88_K91_L1.1530.96
56_E67_L1.1480.96
211_F228_V1.1460.96
183_F199_N1.1320.96
31_D55_L1.1230.96
32_L35_S1.1230.96
84_M92_F1.1210.96
128_A131_T1.1200.96
60_K65_R1.1140.96
97_V101_E1.1130.95
58_T61_D1.1060.95
211_F226_T1.0970.95
164_K227_L1.0950.95
76_G79_M1.0950.95
26_G86_G1.0900.95
63_T66_S1.0790.95
28_R34_R1.0740.95
62_A66_S1.0630.94
216_Q223_K1.0590.94
74_R78_D1.0560.94
119_D123_D1.0540.94
27_K35_S1.0510.94
37_D68_K1.0500.94
115_D122_E1.0420.94
25_V84_M1.0380.93
59_Y67_L1.0310.93
191_V239_L1.0290.93
96_Y104_E1.0270.93
76_G93_T1.0270.93
192_L199_N1.0240.93
124_E128_A1.0200.93
168_V233_A1.0190.93
57_S61_D1.0180.93
202_Y205_Y1.0090.92
27_K85_T1.0090.92
116_T121_N1.0090.92
18_S32_L0.9900.92
114_I119_D0.9870.92
43_L47_K0.9850.92
18_S36_I0.9770.91
119_D132_E0.9720.91
60_K67_L0.9610.91
174_I181_N0.9540.90
114_I122_E0.9500.90
31_D35_S0.9480.90
61_D64_G0.9470.90
128_A133_R0.9460.90
15_L71_H0.9430.90
142_Q147_E0.9410.90
191_V205_Y0.9340.89
123_D130_F0.9330.89
56_E65_R0.9300.89
78_D101_E0.9230.89
74_R104_E0.9200.88
167_Q200_A0.9190.88
34_R58_T0.9170.88
10_Q15_L0.9130.88
119_D129_Y0.9080.88
135_A138_E0.9070.88
60_K63_T0.9030.88
130_F133_R0.9010.87
83_K97_V0.9000.87
76_G94_A0.8920.87
83_K86_G0.8850.86
75_K97_V0.8820.86
57_S65_R0.8810.86
80_V83_K0.8810.86
94_A101_E0.8790.86
73_T93_T0.8780.86
140_Q143_L0.8740.86
144_T147_E0.8720.86
132_E135_A0.8710.86
110_R114_I0.8660.85
119_D125_R0.8650.85
86_G96_Y0.8640.85
75_K93_T0.8620.85
147_E151_E0.8580.85
58_T65_R0.8560.85
143_L150_V0.8560.85
114_I118_L0.8550.85
123_D127_I0.8460.84
76_G86_G0.8430.84
123_D132_E0.8430.84
164_K167_Q0.8410.84
58_T64_G0.8370.83
115_D118_L0.8360.83
84_M87_A0.8350.83
166_G183_F0.8320.83
58_T62_A0.8290.83
123_D133_R0.8280.83
189_N240_L0.8260.82
34_R37_D0.8240.82
18_S70_F0.8230.82
44_L94_A0.8150.82
204_K208_R0.8150.82
189_N239_L0.8130.81
131_T135_A0.8130.81
77_C82_N0.8080.81
102_E105_K0.8060.81
9_E12_G0.8050.81
120_M123_D0.8010.80
82_N87_A0.8010.80
126_A130_F0.7870.79
176_G183_F0.7850.79
78_D96_Y0.7850.79
43_L46_A0.7820.79
19_R69_H0.7800.79
64_G68_K0.7790.79
167_Q213_V0.7780.79
193_I197_N0.7740.78
127_I134_K0.7740.78
94_A97_V0.7730.78
72_L78_D0.7710.78
103_M107_L0.7690.78
85_T90_V0.7670.78
112_S118_L0.7660.77
22_A35_S0.7620.77
76_G97_V0.7560.77
80_V86_G0.7550.76
44_L47_K0.7530.76
214_K227_L0.7520.76
18_S47_K0.7470.76
35_S84_M0.7440.75
17_D20_E0.7420.75
112_S122_E0.7360.75
127_I132_E0.7340.74
122_E125_R0.7340.74
79_M86_G0.7310.74
166_G176_G0.7280.74
134_K138_E0.7280.74
56_E62_A0.7230.73
114_I117_Y0.7180.73
137_R140_Q0.7150.72
25_V72_L0.7130.72
205_Y210_F0.7130.72
127_I131_T0.7110.72
76_G90_V0.7100.72
59_Y62_A0.7070.72
192_L201_P0.7040.71
114_I125_R0.7000.71
86_G93_T0.6970.71
201_P213_V0.6960.70
33_L57_S0.6930.70
123_D126_A0.6910.70
84_M89_G0.6880.70
59_Y66_S0.6880.70
22_A72_L0.6850.69
73_T79_M0.6850.69
57_S63_T0.6840.69
183_F187_R0.6840.69
85_T93_T0.6790.69
125_R128_A0.6780.68
75_K82_N0.6770.68
166_G200_A0.6770.68
76_G82_N0.6770.68
86_G92_F0.6740.68
62_A69_H0.6740.68
216_Q221_G0.6730.68
75_K105_K0.6710.68
31_D57_S0.6710.68
122_E129_Y0.6710.68
116_T120_M0.6700.68
165_I176_G0.6670.67
213_V224_T0.6640.67
128_A132_E0.6630.67
61_D66_S0.6630.67
58_T63_T0.6600.66
93_T101_E0.6590.66
77_C96_Y0.6550.66
132_E139_L0.6500.65
35_S86_G0.6490.65
149_K153_Y0.6480.65
125_R132_E0.6460.65
112_S121_N0.6450.65
18_S80_V0.6420.64
156_F230_P0.6400.64
31_D37_D0.6400.64
169_A182_L0.6390.64
79_M101_E0.6330.63
32_L70_F0.6330.63
78_D92_F0.6320.63
37_D70_F0.6280.63
106_A110_R0.6180.61
117_Y125_R0.6170.61
78_D82_N0.6130.61
83_K96_Y0.6130.61
154_D157_L0.6070.60
129_Y136_K0.6060.60
83_K87_A0.6040.60
25_V80_V0.6030.59
131_T134_K0.6030.59
117_Y122_E0.6020.59
120_M128_A0.6020.59
191_V211_F0.6020.59
113_L119_D0.6010.59
164_K225_I0.5950.58
235_F239_L0.5890.58
73_T77_C0.5880.58
65_R68_K0.5870.57
84_M93_T0.5870.57
152_K233_A0.5860.57
129_Y133_R0.5850.57
182_L236_I0.5830.57
95_Q103_M0.5820.57
63_T69_H0.5770.56
119_D130_F0.5740.56
16_V78_D0.5730.56
128_A136_K0.5710.55
46_A90_V0.5710.55
117_Y120_M0.5710.55
171_A233_A0.5660.55
56_E59_Y0.5650.55
77_C93_T0.5630.54
58_T67_L0.5630.54
163_M168_V0.5610.54
56_E61_D0.5610.54
27_K38_G0.5600.54
153_Y156_F0.5590.54
167_Q198_K0.5570.53
121_N130_F0.5530.53
76_G92_F0.5530.53
47_K94_A0.5490.52
15_L73_T0.5490.52
118_L130_F0.5430.52
213_V226_T0.5430.52
200_A213_V0.5430.52
215_T222_I0.5420.52
193_I200_A0.5420.52
44_L90_V0.5390.51
121_N125_R0.5380.51
44_L93_T0.5370.51
234_D237_V0.5290.50
57_S60_K0.5280.50
120_M124_E0.5280.50
123_D129_Y0.5240.49
139_L146_A0.5230.49
170_K203_Q0.5220.49
80_V84_M0.5200.49
124_E130_F0.5190.49
90_V97_V0.5180.48
87_A91_L0.5180.48
27_K72_L0.5160.48
183_F192_L0.5150.48
193_I199_N0.5150.48
33_L61_D0.5140.48
102_E106_A0.5130.48
165_I226_T0.5050.47
33_L68_K0.5010.46
191_V236_I0.5000.46
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  
1p4xA 1 0.8167 95.6 0.902 Contact Map
2qlzA 2 0.7331 95.2 0.905 Contact Map
4asnA 2 0.3386 86.1 0.926 Contact Map
3hrsA 2 0.3068 84.9 0.927 Contact Map
2frhA 2 0.4741 84 0.928 Contact Map
2qwwA 2 0.4781 81.5 0.93 Contact Map
1on2A 2 0.3227 81.5 0.93 Contact Map
2qq9A 2 0.3108 80.6 0.93 Contact Map
1r7jA 2 0.3187 80.5 0.93 Contact Map
2fbhA 2 0.4382 80.3 0.93 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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