GREMLIN Database
YVCJ - UPF0042 nucleotide-binding protein YvcJ
UniProt: O06973 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 295 (281)
Sequences: 2250 (1473)
Seq/√Len: 87.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
188_A255_A7.2951.00
214_K218_S5.9771.00
212_K270_E5.1231.00
209_L215_E4.7021.00
175_V269_A3.8401.00
232_K235_D3.6351.00
175_V276_F3.2561.00
209_L213_D3.2421.00
10_Q93_R3.2321.00
192_F233_L3.1581.00
273_A284_V3.0921.00
101_D128_A2.9511.00
101_D131_R2.8321.00
238_S275_Y2.7801.00
103_I148_S2.7481.00
184_I191_V2.7401.00
234_I275_Y2.5611.00
230_N268_L2.5001.00
230_N271_N2.4351.00
153_R202_Y2.4331.00
221_M267_T2.3641.00
100_K103_I2.3561.00
201_Y208_P2.3101.00
271_N274_D2.3081.00
190_L244_Y2.2661.00
225_E246_R2.2011.00
256_I272_L2.1191.00
237_L272_L2.1111.00
220_V267_T2.0931.00
232_K239_F2.0631.00
271_N275_Y2.0451.00
270_E274_D1.9731.00
37_V48_F1.9661.00
210_T262_Q1.9561.00
217_S267_T1.9511.00
26_I65_V1.9281.00
191_V255_A1.8881.00
17_M98_D1.8811.00
228_K232_K1.8801.00
151_K154_D1.8631.00
143_I162_H1.7791.00
47_K50_E1.7611.00
158_K161_K1.7271.00
81_L92_P1.7251.00
231_E275_Y1.7191.00
14_I95_L1.7031.00
82_D140_R1.6791.00
25_A159_I1.6391.00
214_K217_S1.6341.00
11_L49_L1.6201.00
132_E135_E1.6151.00
194_V268_L1.5901.00
270_E284_V1.5681.00
50_E87_N1.5671.00
190_L252_V1.5511.00
196_F229_F1.5501.00
230_N275_Y1.5431.00
269_A284_V1.5221.00
173_V241_L1.5211.00
129_L132_E1.5171.00
229_F233_L1.5091.00
154_D157_E1.5081.00
100_K149_D1.4720.99
10_Q91_T1.4640.99
135_E139_G1.4550.99
234_I238_S1.4430.99
188_A191_V1.4410.99
173_V254_I1.4200.99
224_N228_K1.4160.99
138_K144_I1.4090.99
45_L64_L1.4080.99
85_A140_R1.3790.99
98_D138_K1.3760.99
225_E243_S1.3450.99
227_Q231_E1.3330.99
226_T268_L1.3280.99
12_V29_F1.3220.99
274_D277_K1.3120.99
79_E82_D1.2960.99
32_L159_I1.2740.98
152_P202_Y1.2410.98
224_N227_Q1.2340.98
180_F194_V1.2310.98
219_Y223_W1.2260.98
194_V229_F1.2240.98
129_L133_L1.2070.98
217_S271_N1.2070.98
217_S221_M1.2060.98
45_L66_M1.1990.98
105_V124_L1.1860.98
17_M131_R1.1850.98
174_N285_T1.1800.97
274_D278_K1.1720.97
262_Q290_E1.1680.97
82_D86_E1.1590.97
216_V262_Q1.1570.97
24_V110_E1.1440.97
150_M158_K1.1420.97
221_M230_N1.1420.97
194_V256_I1.1410.97
46_P83_E1.1360.97
233_L236_L1.1300.97
201_Y207_R1.1300.97
26_I36_C1.1290.97
228_K231_E1.1270.97
179_G288_D1.1270.97
122_L125_E1.1200.97
182_Y291_K1.1040.96
14_I29_F1.1020.96
201_Y216_V1.0960.96
14_I65_V1.0850.96
218_S222_K1.0820.96
179_G182_Y1.0760.96
203_I219_Y1.0690.95
121_G129_L1.0660.95
10_Q61_K1.0590.95
182_Y262_Q1.0570.95
209_L216_V1.0520.95
170_T281_Y1.0490.95
198_P223_W1.0470.95
118_A126_G1.0450.95
158_K162_H1.0360.95
32_L164_A1.0320.94
73_F126_G1.0300.94
220_V249_K1.0220.94
108_Y111_T1.0200.94
42_P74_F1.0180.94
100_K148_S1.0160.94
233_L256_I1.0130.94
221_M271_N1.0130.94
238_S276_F1.0120.94
201_Y226_T1.0100.94
204_E207_R1.0060.94
244_Y288_D1.0060.94
232_K236_L1.0040.94
95_L163_F1.0020.94
176_M253_V0.9900.93
201_Y210_T0.9850.93
173_V276_F0.9810.93
175_V282_T0.9720.93
227_Q271_N0.9690.92
190_L240_M0.9640.92
176_M255_A0.9630.92
105_V186_I0.9580.92
143_I163_F0.9530.92
151_K202_Y0.9420.91
155_L159_I0.9400.91
175_V272_L0.9390.91
42_P73_F0.9280.91
50_E54_E0.9270.91
256_I268_L0.9250.91
85_A142_Q0.9140.90
98_D131_R0.9140.90
83_E86_E0.9040.90
25_A97_L0.8990.89
231_E235_D0.8980.89
100_K146_D0.8860.89
203_I207_R0.8840.88
122_L176_M0.8820.88
177_S286_H0.8800.88
240_M249_K0.8760.88
242_P252_V0.8720.88
156_R160_V0.8660.87
81_L167_Q0.8650.87
242_P249_K0.8640.87
104_L108_Y0.8590.87
11_L90_I0.8590.87
230_N234_I0.8570.87
13_I49_L0.8540.87
244_Y252_V0.8440.86
77_L137_L0.8420.86
234_I272_L0.8420.86
109_K253_V0.8410.86
52_M62_V0.8400.86
79_E83_E0.8250.85
104_L127_I0.8200.84
159_I163_F0.8180.84
240_M244_Y0.8080.84
12_V34_Y0.8050.83
267_T270_E0.8030.83
217_S274_D0.8010.83
40_L64_L0.7970.83
124_L128_A0.7940.82
225_E228_K0.7900.82
175_V254_I0.7900.82
212_K284_V0.7800.81
23_T27_Q0.7790.81
256_I269_A0.7790.81
20_A97_L0.7770.81
123_P126_G0.7720.81
170_T245_K0.7700.80
91_T170_T0.7670.80
173_V280_Y0.7660.80
243_S246_R0.7590.80
35_F47_K0.7580.79
268_L272_L0.7560.79
122_L126_G0.7550.79
118_A123_P0.7530.79
215_E218_S0.7490.79
241_L280_Y0.7490.79
34_Y61_K0.7460.78
221_M226_T0.7380.78
188_A253_V0.7370.78
168_G201_Y0.7350.77
78_I140_R0.7310.77
81_L94_I0.7280.77
96_F131_R0.7270.77
217_S220_V0.7270.77
108_Y251_Q0.7270.77
44_L48_F0.7260.76
114_S172_T0.7260.76
22_K26_I0.7230.76
34_Y202_Y0.7220.76
230_N272_L0.7220.76
235_D239_F0.7200.76
267_T271_N0.7190.76
20_A32_L0.7160.75
32_L108_Y0.7120.75
262_Q288_D0.7120.75
77_L81_L0.7110.75
201_Y262_Q0.7110.75
137_L161_K0.7100.75
233_L272_L0.7100.75
236_L248_G0.7080.75
109_K247_E0.7050.74
42_P70_G0.7040.74
229_F268_L0.7020.74
225_E237_L0.7020.74
26_I192_F0.7010.74
35_F99_A0.7010.74
125_E128_A0.6980.74
14_I48_F0.6930.73
201_Y253_V0.6930.73
93_R142_Q0.6920.73
228_K239_F0.6900.73
209_L262_Q0.6900.73
213_D256_I0.6850.72
105_V180_F0.6840.72
185_P255_A0.6830.72
48_F62_V0.6820.72
85_A92_P0.6790.72
14_I285_T0.6770.71
40_L67_D0.6760.71
45_L80_A0.6760.71
202_Y207_R0.6750.71
187_D202_Y0.6740.71
83_E87_N0.6740.71
22_K48_F0.6720.71
71_R74_F0.6720.71
243_S276_F0.6670.70
14_I26_I0.6630.70
133_L136_E0.6620.70
259_T288_D0.6610.70
55_S168_G0.6590.69
220_V226_T0.6590.69
218_S221_M0.6580.69
140_R144_I0.6570.69
102_S106_T0.6560.69
110_E202_Y0.6560.69
288_D291_K0.6560.69
93_R162_H0.6550.69
89_W92_P0.6530.69
17_M247_E0.6530.69
44_L108_Y0.6520.68
192_F242_P0.6510.68
236_L249_K0.6510.68
239_F243_S0.6490.68
165_T227_Q0.6490.68
70_G74_F0.6470.68
273_A277_K0.6410.67
196_F244_Y0.6370.67
212_K215_E0.6350.66
124_L237_L0.6340.66
94_I137_L0.6330.66
76_R79_E0.6320.66
37_V208_P0.6320.66
80_A83_E0.6310.66
85_A91_T0.6310.66
156_R242_P0.6280.66
181_K201_Y0.6280.66
35_F40_L0.6270.65
43_S76_R0.6200.65
95_L159_I0.6140.64
171_F245_K0.6140.64
145_Y158_K0.6100.63
94_I140_R0.6080.63
103_I262_Q0.6070.63
77_L80_A0.6000.62
101_D126_G0.5990.62
11_L92_P0.5990.62
48_F52_M0.5990.62
27_Q108_Y0.5980.62
221_M227_Q0.5940.61
114_S196_F0.5900.61
171_F252_V0.5900.61
156_R248_G0.5900.61
109_K187_D0.5890.61
228_K243_S0.5880.61
11_L62_V0.5870.60
229_F240_M0.5870.60
65_V288_D0.5860.60
127_I241_L0.5860.60
15_T67_D0.5840.60
98_D101_D0.5840.60
143_I254_I0.5840.60
106_T256_I0.5820.60
109_K251_Q0.5810.60
108_Y188_A0.5810.60
160_V249_K0.5800.59
150_M154_D0.5800.59
202_Y251_Q0.5790.59
63_A117_L0.5780.59
46_P80_A0.5780.59
32_L160_V0.5780.59
18_S48_F0.5750.59
190_L233_L0.5740.59
35_F198_P0.5740.59
227_Q230_N0.5740.59
176_M187_D0.5730.59
205_S208_P0.5720.58
49_L90_I0.5720.58
65_V141_S0.5720.58
108_Y197_L0.5720.58
106_T190_L0.5710.58
203_I208_P0.5700.58
38_D189_D0.5700.58
79_E87_N0.5690.58
22_K111_T0.5680.58
172_T283_H0.5680.58
233_L239_F0.5680.58
68_L117_L0.5670.58
241_L248_G0.5670.58
121_G126_G0.5660.58
40_L48_F0.5660.58
142_Q162_H0.5650.58
28_S160_V0.5650.58
46_P64_L0.5650.58
12_V95_L0.5640.57
11_L93_R0.5620.57
215_E219_Y0.5610.57
40_L69_R0.5600.57
95_L254_I0.5590.57
138_K248_G0.5580.57
111_T126_G0.5570.56
36_C110_E0.5570.56
45_L117_L0.5560.56
9_I23_T0.5540.56
269_A272_L0.5540.56
83_E90_I0.5520.56
110_E242_P0.5520.56
66_M70_G0.5520.56
196_F247_E0.5510.56
123_P249_K0.5490.55
217_S270_E0.5490.55
125_E285_T0.5480.55
11_L64_L0.5480.55
61_K236_L0.5480.55
106_T137_L0.5460.55
99_A205_S0.5450.55
12_V50_E0.5450.55
20_A174_N0.5440.55
238_S278_K0.5440.55
235_D278_K0.5430.55
54_E191_V0.5400.54
17_M126_G0.5390.54
39_N288_D0.5380.54
115_H266_V0.5380.54
226_T267_T0.5360.54
176_M188_A0.5360.54
70_G77_L0.5350.53
148_S207_R0.5350.53
23_T157_E0.5340.53
237_L254_I0.5340.53
94_I154_D0.5320.53
42_P201_Y0.5320.53
53_K90_I0.5320.53
11_L106_T0.5310.53
29_F237_L0.5310.53
100_K186_I0.5300.53
12_V25_A0.5300.53
104_L152_P0.5300.53
44_L47_K0.5300.53
119_A125_E0.5300.53
93_R163_F0.5290.53
68_L133_L0.5280.53
75_D133_L0.5280.53
192_F252_V0.5260.52
70_G202_Y0.5260.52
64_L185_P0.5250.52
226_T229_F0.5240.52
94_I282_T0.5240.52
14_I72_E0.5230.52
235_D238_S0.5220.52
106_T141_S0.5200.51
147_T269_A0.5170.51
37_V40_L0.5170.51
49_L92_P0.5170.51
15_T249_K0.5170.51
14_I198_P0.5160.51
129_L234_I0.5150.51
22_K202_Y0.5150.51
114_S156_R0.5140.51
14_I25_A0.5130.50
14_I289_I0.5130.50
109_K184_I0.5130.50
229_F232_K0.5120.50
15_T59_M0.5110.50
42_P187_D0.5110.50
108_Y122_L0.5110.50
85_A149_D0.5110.50
29_F163_F0.5090.50
44_L171_F0.5080.50
86_E89_W0.5070.50
12_V163_F0.5060.50
28_S163_F0.5050.49
64_L152_P0.5050.49
234_I237_L0.5050.49
60_S141_S0.5040.49
24_V152_P0.5020.49
85_A90_I0.5020.49
15_T94_I0.5000.49
231_E234_I0.5000.49
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  
3nwjA 2 0.5051 99.7 0.854 Contact Map
2if2A 1 0.5186 99.6 0.864 Contact Map
3lw7A 2 0.4881 99.6 0.865 Contact Map
2grjA 2 0.4814 99.5 0.874 Contact Map
1knqA 2 0.5186 99.5 0.875 Contact Map
1ckeA 1 0.5119 99.5 0.875 Contact Map
1ak2A 1 0.5254 99.5 0.875 Contact Map
2pezA 2 0.5153 99.5 0.876 Contact Map
3trfA 2 0.5051 99.5 0.877 Contact Map
3kb2A 2 0.5288 99.5 0.877 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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