GREMLIN Database
YKJA - UPF0702 transmembrane protein YkjA
UniProt: P49853 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 243 (220)
Sequences: 1698 (1377)
Seq/√Len: 92.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
195_K198_E6.7771.00
179_D189_R6.7161.00
130_D150_A4.0051.00
93_T105_G3.6141.00
201_Y209_I3.3691.00
125_Y146_P3.3221.00
153_V158_L3.2841.00
203_P207_S3.1291.00
28_K93_T3.0681.00
84_W88_L2.9361.00
86_W91_S2.6061.00
127_D130_D2.5701.00
93_T109_E2.3641.00
201_Y224_L2.3611.00
102_D105_G2.2691.00
203_P208_S2.2681.00
177_I206_L2.2271.00
150_A156_R2.2181.00
18_I62_I2.1961.00
187_K191_W2.1941.00
97_R102_D2.1071.00
125_Y131_I2.0701.00
122_E141_E2.0661.00
177_I192_L2.0201.00
22_L69_L1.9871.00
120_L131_I1.9831.00
155_V162_A1.9831.00
172_I212_G1.9401.00
98_N132_D1.9341.00
9_L63_Y1.8931.00
215_N219_D1.8401.00
209_I212_G1.7901.00
120_L144_V1.7671.00
126_A145_I1.7401.00
101_I116_L1.7131.00
130_D146_P1.6891.00
96_I128_P1.6401.00
196_L201_Y1.6281.00
212_G222_L1.6251.00
155_V160_M1.6231.00
111_L119_K1.6121.00
153_V160_M1.6061.00
39_L42_T1.5971.00
96_I116_L1.5841.00
190_S194_E1.5451.00
189_R193_F1.5431.00
177_I191_W1.5051.00
131_I144_V1.4921.00
208_S224_L1.4891.00
182_L191_W1.4831.00
95_L136_I1.4581.00
199_K222_L1.4571.00
30_A42_T1.4501.00
83_K86_W1.4441.00
177_I193_F1.4360.99
171_L214_M1.4300.99
196_L209_I1.4160.99
131_I134_A1.4090.99
85_R114_N1.3960.99
182_L192_L1.3860.99
132_D147_K1.3190.99
103_E210_I1.3160.99
177_I182_L1.3140.99
149_E156_R1.3040.99
39_L44_A1.2980.99
9_L67_A1.2610.99
5_V63_Y1.2420.98
196_L200_G1.2330.98
127_D213_T1.2210.98
122_E139_T1.2150.98
15_V53_I1.2030.98
15_V68_F1.1940.98
85_R112_T1.1860.98
105_G108_K1.1540.98
103_E223_D1.1500.97
202_S208_S1.1390.97
171_L220_I1.1320.97
148_E155_V1.1190.97
44_A47_T1.1100.97
169_I181_N1.0950.97
172_I209_I1.0930.97
113_V210_I1.0860.96
125_Y144_V1.0840.96
191_W195_K1.0810.96
78_L84_W1.0670.96
182_L187_K1.0530.96
170_P173_L1.0350.95
101_I128_P1.0320.95
106_L116_L1.0230.95
195_K199_K1.0170.95
103_E225_N1.0160.95
196_L220_I1.0010.94
23_F44_A1.0000.94
124_G146_P0.9890.94
12_P54_L0.9880.94
146_P151_R0.9880.94
6_W10_L0.9860.94
95_L106_L0.9700.93
16_F71_L0.9690.93
12_P67_A0.9680.93
95_L111_L0.9600.93
119_K142_V0.9590.93
149_E164_R0.9510.93
212_G220_I0.9500.93
146_P152_A0.9500.93
30_A39_L0.9470.93
80_L112_T0.9440.92
42_T46_G0.9430.92
53_I68_F0.9330.92
41_L68_F0.9310.92
100_D223_D0.9260.92
197_E202_S0.9260.92
172_I206_L0.9220.92
153_V157_D0.9170.91
51_E54_L0.9090.91
109_E136_I0.9020.91
111_L115_E0.8990.91
36_N44_A0.8950.90
24_R110_R0.8930.90
196_L222_L0.8830.90
188_N191_W0.8810.90
20_Y37_F0.8800.90
12_P72_Y0.8750.89
107_R156_R0.8730.89
113_V173_L0.8680.89
63_Y67_A0.8660.89
96_I134_A0.8640.89
75_M88_L0.8620.89
151_R165_N0.8570.88
170_P211_L0.8540.88
14_I18_I0.8500.88
62_I66_G0.8450.88
48_I65_A0.8450.88
111_L136_I0.8440.88
20_Y46_G0.8440.88
14_I60_M0.8370.87
196_L206_L0.8340.87
92_P133_L0.8330.87
152_A155_V0.8310.87
190_S193_F0.8290.87
180_H183_K0.8230.86
31_V34_M0.8160.86
74_I78_L0.8130.86
95_L116_L0.8060.85
47_T51_E0.8050.85
171_L192_L0.8050.85
149_E162_A0.8010.85
123_K141_E0.8010.85
199_K220_I0.7980.84
16_F75_M0.7960.84
136_I142_V0.7950.84
41_L72_Y0.7880.84
94_V135_I0.7780.83
148_E151_R0.7770.83
95_L122_E0.7760.83
26_A73_L0.7680.82
5_V8_F0.7640.82
28_K109_E0.7620.82
35_N38_D0.7610.82
178_L181_N0.7590.81
23_F36_N0.7590.81
36_N42_T0.7560.81
29_K32_S0.7550.81
21_I87_L0.7530.81
23_F42_T0.7520.81
92_P135_I0.7490.81
26_A76_S0.7490.81
118_G138_E0.7460.80
193_F197_E0.7420.80
101_I106_L0.7410.80
53_I72_Y0.7360.79
179_D183_K0.7350.79
47_T54_L0.7340.79
55_T58_L0.7320.79
21_I161_E0.7320.79
33_Q43_F0.7270.79
51_E55_T0.7240.78
47_T57_K0.7230.78
52_P61_S0.7210.78
157_D160_M0.7180.78
40_L90_V0.7160.77
24_R40_L0.7130.77
23_F39_L0.7090.77
45_I50_S0.7090.77
15_V50_S0.7030.76
13_V71_L0.7000.76
96_I120_L0.6980.76
49_I59_P0.6940.75
112_T115_E0.6920.75
32_S72_Y0.6920.75
127_D215_N0.6890.75
81_S108_K0.6880.75
70_V183_K0.6880.75
97_R184_Y0.6870.75
26_A41_L0.6850.74
33_Q39_L0.6830.74
154_Q158_L0.6830.74
203_P206_L0.6780.74
68_F213_T0.6730.73
48_I53_I0.6730.73
30_A34_M0.6710.73
32_S36_N0.6700.73
22_L65_A0.6690.73
158_L161_E0.6690.73
17_S71_L0.6690.73
114_N173_L0.6670.72
54_L60_M0.6650.72
7_V128_P0.6650.72
41_L47_T0.6620.72
186_Q191_W0.6610.72
29_K72_Y0.6590.71
47_T64_Y0.6580.71
190_S202_S0.6560.71
24_R39_L0.6550.71
192_L195_K0.6460.70
38_D109_E0.6450.70
132_D148_E0.6410.69
104_R107_R0.6400.69
47_T89_V0.6380.69
79_S84_W0.6380.69
130_D147_K0.6320.68
55_T89_V0.6310.68
182_L189_R0.6280.68
155_V159_N0.6270.68
19_A37_F0.6270.68
94_V146_P0.6260.68
20_Y24_R0.6260.68
34_M111_L0.6250.67
16_F24_R0.6240.67
34_M119_K0.6220.67
155_V163_E0.6210.67
8_F185_L0.6200.67
18_I63_Y0.6190.67
85_R89_V0.6190.67
124_G152_A0.6170.66
116_L134_A0.6150.66
46_G72_Y0.6150.66
171_L185_L0.6150.66
187_K218_G0.6120.66
36_N39_L0.6110.66
89_V115_E0.6090.65
78_L183_K0.6080.65
32_S76_S0.6080.65
69_L119_K0.6080.65
39_L51_E0.6070.65
68_F72_Y0.6060.65
164_R216_A0.5990.64
50_S54_L0.5970.64
36_N41_L0.5950.64
27_G43_F0.5940.64
214_M219_D0.5940.64
69_L73_L0.5930.63
12_P41_L0.5930.63
45_I116_L0.5900.63
35_N115_E0.5890.63
41_L76_S0.5890.63
40_L68_F0.5870.63
159_N222_L0.5830.62
24_R61_S0.5820.62
30_A38_D0.5810.62
156_R163_E0.5800.62
24_R138_E0.5800.62
200_G218_G0.5800.62
113_V211_L0.5790.62
32_S46_G0.5790.62
192_L209_I0.5770.61
116_L138_E0.5750.61
14_I58_L0.5740.61
20_Y71_L0.5740.61
183_K197_E0.5730.61
70_V184_Y0.5630.59
34_M89_V0.5620.59
42_T45_I0.5610.59
97_R100_D0.5610.59
135_I167_I0.5610.59
174_D225_N0.5600.59
127_D165_N0.5590.59
25_L73_L0.5570.59
43_F46_G0.5560.58
199_K219_D0.5540.58
70_V74_I0.5530.58
54_L72_Y0.5510.58
194_E200_G0.5490.58
128_P211_L0.5470.57
50_S53_I0.5460.57
46_G54_L0.5460.57
46_G51_E0.5450.57
134_A172_I0.5450.57
15_V36_N0.5430.57
77_K110_R0.5430.57
125_Y161_E0.5420.57
44_A54_L0.5410.56
35_N89_V0.5390.56
66_G69_L0.5360.56
80_L114_N0.5360.56
47_T72_Y0.5330.55
185_L214_M0.5330.55
42_T51_E0.5310.55
33_Q42_T0.5310.55
41_L51_E0.5300.55
15_V51_E0.5280.55
171_L191_W0.5260.54
89_V112_T0.5260.54
14_I66_G0.5250.54
154_Q160_M0.5240.54
44_A72_Y0.5220.54
19_A36_N0.5220.54
73_L110_R0.5200.54
17_S88_L0.5190.53
68_F76_S0.5160.53
188_N202_S0.5150.53
38_D118_G0.5150.53
186_Q189_R0.5120.52
180_H184_Y0.5110.52
87_L135_I0.5090.52
18_I66_G0.5080.52
6_W124_G0.5080.52
19_A22_L0.5080.52
29_K54_L0.5080.52
180_H207_S0.5060.52
39_L43_F0.5060.52
37_F201_Y0.5060.52
26_A29_K0.5050.51
15_V60_M0.5050.51
95_L134_A0.5050.51
15_V52_P0.5040.51
148_E164_R0.5030.51
186_Q224_L0.5020.51
30_A115_E0.5020.51
74_I190_S0.5000.51
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  
3c6fA 4 0.5679 100 0.423 Contact Map
4b4aA 1 0.3086 19.5 0.961 Contact Map
4dynA 3 0.3374 6.9 0.968 Contact Map
2ma3A 1 0.3251 5.5 0.97 Contact Map
1whzA 1 0.2798 5 0.97 Contact Map
1uxcA 1 0.1564 4.5 0.971 Contact Map
4umwA 1 0.7449 4.2 0.971 Contact Map
3wkvA 3 0.4156 4.2 0.971 Contact Map
2pwjA 2 0.5802 4.2 0.971 Contact Map
1g2hA 1 0.251 4 0.972 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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