GREMLIN Database
YBFM - Uncharacterized membrane protein YbfM
UniProt: O31453 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 162 (153)
Sequences: 6162 (4043)
Seq/√Len: 326.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_L132_L3.2381.00
48_N51_L3.1661.00
57_F144_F2.7131.00
42_T155_R2.6751.00
21_V66_I2.4161.00
65_L136_V2.4091.00
89_K92_R2.3651.00
61_L140_A2.3581.00
103_Y106_Y2.3421.00
105_P134_T2.2381.00
109_I141_I2.2251.00
8_I12_G2.1861.00
53_I148_F2.1561.00
56_S147_C2.1481.00
131_D134_T2.1011.00
105_P138_F1.9551.00
55_I59_G1.9481.00
97_E101_K1.9001.00
49_Y152_T1.8901.00
20_L59_G1.8081.00
13_Y48_N1.7801.00
152_T156_V1.7721.00
21_V62_L1.7401.00
53_I151_I1.6821.00
49_Y53_I1.6071.00
35_M151_I1.5961.00
76_R97_E1.5911.00
132_L136_V1.5811.00
23_G31_D1.5591.00
38_V52_S1.5581.00
17_F59_G1.5311.00
72_R129_K1.5241.00
49_Y151_I1.5171.00
90_E94_M1.5061.00
13_Y51_L1.4651.00
17_F58_V1.4601.00
80_D90_E1.4511.00
17_F55_I1.4511.00
64_M112_Y1.4321.00
71_G127_I1.4121.00
16_I56_S1.4081.00
13_Y55_I1.4001.00
69_M132_L1.3651.00
133_K137_A1.3591.00
94_M98_K1.3581.00
61_L143_A1.3541.00
113_F145_L1.3501.00
69_M73_K1.3361.00
52_S151_I1.3301.00
42_T49_Y1.3301.00
50_E152_T1.2901.00
11_Y15_A1.2821.00
106_Y110_L1.2651.00
51_L55_I1.2611.00
6_Q9_A1.2601.00
73_K77_P1.2371.00
111_G121_T1.2241.00
26_G67_S1.2181.00
100_M125_S1.2101.00
91_K95_K1.2011.00
54_L58_V1.1841.00
109_I145_L1.1791.00
17_F62_L1.1581.00
50_E54_L1.1491.00
97_E128_G1.1471.00
67_S123_Y1.1411.00
76_R80_D1.1411.00
53_I152_T1.1381.00
35_M56_S1.0891.00
139_A143_A1.0861.00
82_Y85_W1.0831.00
94_M97_E1.0751.00
47_L52_S1.0741.00
133_K136_V1.0641.00
69_M72_R1.0641.00
39_G154_G1.0611.00
57_F61_L1.0591.00
60_A143_A1.0571.00
137_A141_I1.0531.00
24_I27_L1.0421.00
98_K102_K1.0041.00
61_L136_V0.9971.00
65_L69_M0.9951.00
35_M39_G0.9871.00
79_I88_L0.9661.00
37_V40_Y0.9561.00
7_L12_G0.9491.00
37_V41_F0.9431.00
145_L148_F0.9281.00
53_I57_F0.9281.00
68_Y132_L0.9261.00
43_H155_R0.9261.00
83_G88_L0.9241.00
54_L57_F0.9131.00
56_S151_I0.9111.00
32_E118_R0.9031.00
40_Y43_H0.9021.00
79_I93_M0.9001.00
64_M139_A0.8991.00
24_I28_P0.8981.00
6_Q10_D0.8971.00
11_Y14_L0.8971.00
13_Y47_L0.8961.00
108_L130_M0.8901.00
99_W107_S0.8871.00
39_G151_I0.8861.00
148_F152_T0.8721.00
57_F147_C0.8661.00
43_H159_I0.8621.00
96_V128_G0.8541.00
51_L54_L0.8441.00
70_I74_A0.8441.00
16_I52_S0.8431.00
84_K88_L0.8361.00
8_I15_A0.8311.00
16_I38_V0.8271.00
9_A12_G0.8251.00
98_K101_K0.8231.00
104_G130_M0.8221.00
50_E53_I0.7921.00
125_S130_M0.7821.00
136_V140_A0.7771.00
114_I117_V0.7761.00
8_I11_Y0.7711.00
122_C139_A0.7711.00
92_R95_K0.7641.00
74_A77_P0.7621.00
83_G90_E0.7601.00
64_M132_L0.7570.99
58_V62_L0.7560.99
65_L139_A0.7550.99
107_S110_L0.7540.99
61_L139_A0.7510.99
12_G15_A0.7470.99
39_G52_S0.7320.99
77_P81_K0.7270.99
24_I112_Y0.7250.99
82_Y90_E0.7210.99
149_V152_T0.7190.99
20_L147_C0.7190.99
76_R79_I0.7190.99
74_A78_F0.7150.99
137_A140_A0.7110.99
100_M107_S0.7010.99
42_T52_S0.6980.99
106_Y138_F0.6970.99
97_E129_K0.6960.99
10_D14_L0.6930.99
42_T151_I0.6860.99
23_G112_Y0.6850.99
155_R159_I0.6820.99
107_S121_T0.6780.99
67_S119_H0.6770.99
75_G79_I0.6770.99
144_F148_F0.6770.99
95_K98_K0.6750.99
147_C151_I0.6590.99
77_P80_D0.6570.99
81_K85_W0.6560.99
92_R96_V0.6490.98
115_P119_H0.6450.98
31_D139_A0.6430.98
66_I69_M0.6410.98
100_M121_T0.6400.98
156_V159_I0.6400.98
81_K84_K0.6370.98
78_F82_Y0.6290.98
17_F21_V0.6250.98
19_M34_M0.6180.98
109_I113_F0.6180.98
22_L26_G0.6180.98
78_F81_K0.6160.98
46_V50_E0.6150.98
119_H150_F0.6140.98
60_A112_Y0.6130.98
31_D135_Y0.6070.98
105_P130_M0.6050.98
134_T137_A0.6030.97
135_Y142_G0.6020.97
24_I122_C0.6020.97
68_Y126_G0.5960.97
32_E112_Y0.5960.97
153_I156_V0.5950.97
153_I157_I0.5900.97
81_K88_L0.5900.97
41_F46_V0.5880.97
38_V151_I0.5850.97
43_H158_G0.5850.97
135_Y139_A0.5820.97
22_L27_L0.5790.97
149_V153_I0.5770.97
36_T40_Y0.5770.97
32_E142_G0.5760.97
9_A46_V0.5750.97
126_G129_K0.5730.97
31_D115_P0.5700.96
85_W88_L0.5690.96
28_P116_G0.5630.96
134_T138_F0.5620.96
75_G78_F0.5570.96
95_K99_W0.5540.96
27_L67_S0.5540.96
91_K94_M0.5520.96
12_G47_L0.5510.96
62_L66_I0.5480.96
29_I119_H0.5480.96
80_D85_W0.5440.95
20_L119_H0.5440.95
49_Y148_F0.5420.95
16_I55_I0.5410.95
7_L10_D0.5390.95
23_G119_H0.5380.95
43_H46_V0.5370.95
106_Y124_F0.5340.95
111_G115_P0.5340.95
60_A146_W0.5270.95
68_Y125_S0.5270.95
112_Y118_R0.5250.94
99_W102_K0.5240.94
14_L17_F0.5230.94
140_A144_F0.5210.94
96_V120_V0.5210.94
38_V47_L0.5140.94
112_Y139_A0.5120.94
24_I119_H0.5120.94
93_M100_M0.5090.94
80_D91_K0.5050.93
152_T155_R0.5040.93
79_I82_Y0.5020.93
7_L11_Y0.5000.93
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  
2lbgA 1 0.1667 5.6 0.941 Contact Map
1tpxA 1 0.4691 5.5 0.941 Contact Map
4ma7A 1 0.5 5.5 0.942 Contact Map
3spcA 3 0.3827 4.8 0.943 Contact Map
4eneA 2 0.5802 4.5 0.944 Contact Map
3syaA 3 0.4136 4.2 0.945 Contact Map
4w6vA 1 0.4691 3.7 0.946 Contact Map
4xtlA 1 0.9074 3.3 0.948 Contact Map
2qksA 4 0.3827 3.3 0.948 Contact Map
2kncA 1 0.3272 3.1 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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