GREMLIN Database
YPHF - Uncharacterized protein YphF
UniProt: P39911 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 244 (227)
Sequences: 209 (181)
Seq/√Len: 12.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
101_L104_V5.4481.00
48_F55_L4.5371.00
102_V213_W3.6140.99
191_L208_I3.5950.99
174_P189_T3.5930.99
117_M185_A3.2890.97
175_L183_I3.1160.96
151_L177_I3.0800.96
38_L217_P3.0620.96
51_A82_Y3.0040.96
178_D184_Y2.8100.94
61_K72_P2.7090.92
86_P90_A2.4270.87
55_L185_A2.2430.83
171_N193_S2.2000.81
168_I212_I2.1980.81
176_M224_V2.1870.81
121_I183_I2.1480.80
124_V151_L2.0480.76
46_D107_D2.0310.76
48_F77_R2.0270.76
89_T99_Y1.9880.74
135_H168_I1.9610.73
68_Y74_D1.8290.68
46_D49_Q1.8100.67
62_D72_P1.8070.67
164_V175_L1.7860.66
195_L208_I1.7820.65
26_K30_H1.7700.65
127_R147_D1.7060.62
116_K188_R1.6580.60
144_L176_M1.6320.58
62_D156_L1.6290.58
18_G219_V1.6160.58
41_V89_T1.5990.57
51_A86_P1.5870.56
35_Q217_P1.5700.55
208_I228_V1.5650.55
56_L104_V1.5530.54
76_N128_I1.5410.54
184_Y224_V1.5390.54
97_Y217_P1.5130.52
14_V154_K1.5040.52
152_D155_K1.4600.50
38_L113_I1.4440.49
99_Y167_P1.4440.49
65_T156_L1.4090.47
103_D109_T1.3890.46
195_L200_K1.3780.46
214_H232_Q1.3700.45
69_Q202_F1.3660.45
20_L219_V1.3640.45
34_Y82_Y1.3540.44
60_T66_P1.3470.44
47_E50_K1.3470.44
121_I175_L1.3390.44
11_A15_F1.3320.43
85_E165_T1.2920.41
126_L183_I1.2920.41
91_F123_D1.2840.41
205_G227_T1.2840.41
101_L218_F1.2740.41
148_L224_V1.2710.40
112_L213_W1.2680.40
35_Q112_L1.2660.40
84_A237_L1.2620.40
66_P128_I1.2610.40
66_P69_Q1.2500.39
68_Y210_D1.2430.39
131_Y135_H1.2420.39
63_M112_L1.2380.39
185_A190_E1.2330.39
51_A81_R1.2170.38
69_Q113_I1.2000.37
26_K55_L1.1930.37
195_L199_K1.1650.35
226_Y234_P1.1610.35
52_N55_L1.1590.35
167_P173_L1.1550.35
145_S148_L1.1550.35
90_A229_N1.1530.35
124_V177_I1.1490.35
33_P112_L1.1450.35
221_A235_V1.1410.34
98_Q122_R1.1260.34
34_Y101_L1.1000.32
36_D40_Q1.0970.32
83_I86_P1.0850.32
148_L206_T1.0840.32
49_Q91_F1.0670.31
204_P229_N1.0620.31
68_Y175_L1.0590.31
205_G208_I1.0580.31
7_A32_I1.0440.30
145_S222_F1.0430.30
11_A123_D1.0400.30
70_K73_I1.0370.30
180_D228_V1.0300.29
181_G221_A1.0280.29
41_V83_I1.0260.29
120_K154_K1.0190.29
68_Y104_V1.0080.29
176_M222_F1.0070.29
64_S214_H1.0030.28
14_V235_V1.0030.28
36_D103_D0.9990.28
49_Q104_V0.9960.28
198_S215_E0.9900.28
32_I103_D0.9840.28
33_P90_A0.9820.28
31_A75_F0.9770.27
221_A228_V0.9750.27
70_K123_D0.9730.27
185_A222_F0.9720.27
75_F100_V0.9650.27
99_Y173_L0.9640.27
106_N163_T0.9620.27
54_G58_I0.9530.26
64_S155_K0.9480.26
11_A115_L0.9320.26
55_L170_G0.9320.26
116_K221_A0.9310.26
54_G162_L0.9310.26
208_I227_T0.9270.25
127_R151_L0.9260.25
180_D204_P0.9250.25
139_P181_G0.9230.25
37_Q167_P0.9220.25
74_D180_D0.9220.25
44_A135_H0.9210.25
68_Y177_I0.9110.25
7_A90_A0.9110.25
128_I183_I0.9080.25
24_E51_A0.9030.24
30_H88_S0.9030.24
63_M170_G0.8980.24
26_K31_A0.8960.24
101_L184_Y0.8930.24
56_L183_I0.8830.24
79_A102_V0.8820.24
70_K109_T0.8790.24
194_C215_E0.8760.23
55_L193_S0.8750.23
46_D152_D0.8750.23
165_T221_A0.8710.23
33_P233_E0.8700.23
64_S152_D0.8700.23
82_Y103_D0.8680.23
155_K197_K0.8640.23
116_K224_V0.8630.23
102_V237_L0.8550.23
64_S135_H0.8550.23
15_F159_G0.8550.23
18_G228_V0.8530.23
31_A51_A0.8490.23
39_K43_S0.8480.22
112_L233_E0.8390.22
9_I140_Y0.8350.22
62_D180_D0.8350.22
135_H154_K0.8280.22
116_K176_M0.8260.22
128_I234_P0.8230.22
9_I13_V0.8230.22
151_L183_I0.8220.22
222_F236_F0.8190.21
76_N101_L0.8170.21
157_G226_Y0.8150.21
55_L97_Y0.8110.21
8_I89_T0.8100.21
60_T71_Y0.8070.21
22_P31_A0.8070.21
112_L118_A0.8060.21
194_C200_K0.8050.21
45_V175_L0.8040.21
33_P85_E0.8030.21
34_Y60_T0.8010.21
100_V169_S0.7970.21
163_T188_R0.7940.21
122_R222_F0.7930.21
88_S137_Y0.7900.21
38_L97_Y0.7900.21
42_Q169_S0.7860.20
77_R149_F0.7850.20
202_F206_T0.7850.20
20_L124_V0.7840.20
89_T112_L0.7840.20
100_V222_F0.7800.20
77_R171_N0.7740.20
89_T224_V0.7710.20
93_S235_V0.7710.20
128_I136_Q0.7700.20
34_Y80_P0.7690.20
125_K142_D0.7680.20
117_M219_V0.7670.20
55_L62_D0.7670.20
148_L176_M0.7670.20
34_Y79_A0.7640.20
81_R234_P0.7620.20
78_L83_I0.7600.20
71_Y156_L0.7490.19
26_K65_T0.7430.19
207_E212_I0.7430.19
20_L216_T0.7400.19
31_A232_Q0.7390.19
78_L102_V0.7370.19
64_S134_E0.7370.19
49_Q130_M0.7360.19
90_A139_P0.7350.19
56_L100_V0.7340.19
55_L85_E0.7340.19
155_K199_K0.7330.19
6_C11_A0.7260.19
75_F99_Y0.7220.18
12_A144_L0.7210.18
22_P30_H0.7190.18
10_F180_D0.7140.18
21_Y66_P0.7100.18
90_A198_S0.7080.18
30_H159_G0.7080.18
151_L175_L0.7020.18
59_Q72_P0.7010.18
8_I48_F0.6980.18
35_Q83_I0.6970.18
124_V216_T0.6940.18
79_A141_K0.6910.17
146_R149_F0.6880.17
148_L225_K0.6880.17
11_A24_E0.6870.17
200_K206_T0.6870.17
93_S175_L0.6870.17
90_A168_I0.6860.17
176_M184_Y0.6780.17
144_L161_S0.6750.17
169_S178_D0.6680.17
100_V104_V0.6670.17
97_Y112_L0.6660.17
10_F15_F0.6640.17
122_R140_Y0.6590.17
46_D171_N0.6580.17
55_L125_K0.6570.17
113_I195_L0.6550.16
111_K219_V0.6540.16
14_V201_T0.6540.16
90_A105_E0.6510.16
93_S151_L0.6490.16
201_T204_P0.6470.16
101_L113_I0.6460.16
191_L205_G0.6450.16
43_S149_F0.6440.16
90_A93_S0.6410.16
156_L164_V0.6400.16
82_Y229_N0.6400.16
55_L70_K0.6400.16
73_I185_A0.6380.16
41_V180_D0.6350.16
7_A129_Q0.6340.16
142_D229_N0.6330.16
38_L216_T0.6320.16
23_N152_D0.6260.16
23_N40_Q0.6240.16
51_A80_P0.6240.16
172_S234_P0.6230.16
71_Y100_V0.6210.16
34_Y141_K0.6180.15
88_S206_T0.6150.15
10_F161_S0.6110.15
130_M202_F0.6090.15
144_L155_K0.6080.15
59_Q191_L0.6070.15
91_F138_P0.6050.15
144_L178_D0.6040.15
56_L108_P0.6030.15
209_Q212_I0.6030.15
149_F176_M0.6000.15
6_C214_H0.6000.15
192_A196_K0.5990.15
97_Y113_I0.5980.15
89_T96_D0.5970.15
52_N130_M0.5940.15
155_K203_K0.5910.15
67_L73_I0.5910.15
37_Q236_F0.5900.15
56_L91_F0.5880.15
63_M72_P0.5870.15
81_R154_K0.5840.15
86_P111_K0.5840.15
121_I125_K0.5780.14
73_I111_K0.5770.14
79_A82_Y0.5760.14
49_Q60_T0.5750.14
97_Y151_L0.5730.14
72_P100_V0.5730.14
9_I73_I0.5680.14
131_Y149_F0.5680.14
154_K204_P0.5650.14
52_N124_V0.5650.14
50_K142_D0.5640.14
50_K217_P0.5600.14
66_P181_G0.5600.14
8_I13_V0.5600.14
45_V197_K0.5560.14
66_P188_R0.5550.14
149_F199_K0.5520.14
173_L187_Y0.5510.14
15_F18_G0.5510.14
66_P113_I0.5500.14
126_L130_M0.5500.14
95_G166_S0.5460.14
40_Q97_Y0.5440.14
189_T192_A0.5430.14
111_K205_G0.5420.14
17_S20_L0.5400.14
67_L213_W0.5390.14
11_A46_D0.5390.14
98_Q236_F0.5370.13
136_Q177_I0.5330.13
90_A144_L0.5330.13
21_Y100_V0.5310.13
125_K214_H0.5300.13
24_E40_Q0.5290.13
59_Q153_E0.5290.13
127_R130_M0.5280.13
132_R175_L0.5270.13
48_F59_Q0.5270.13
6_C9_I0.5250.13
91_F125_K0.5240.13
84_A147_D0.5230.13
128_I202_F0.5190.13
77_R226_Y0.5190.13
98_Q167_P0.5190.13
79_A149_F0.5170.13
12_A38_L0.5140.13
222_F229_N0.5120.13
69_Q188_R0.5110.13
158_D175_L0.5080.13
36_D158_D0.5080.13
82_Y216_T0.5060.13
54_G121_I0.5050.13
113_I218_F0.5040.13
20_L78_L0.5000.13
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  
3gn9A 1 0.3648 64.8 0.962 Contact Map
4pj0U 1 0.3566 60.9 0.963 Contact Map
1t92A 2 0.3607 60.6 0.963 Contact Map
2kepA 1 0.373 58.2 0.963 Contact Map
3pmqA 1 0.5082 54.9 0.964 Contact Map
3zbiC 1 0.0984 44.1 0.966 Contact Map
4ba6A 1 0.3648 39.8 0.967 Contact Map
2zo4A 1 0.3648 36 0.968 Contact Map
4n4rB 1 0.541 34.6 0.968 Contact Map
4fybB 1 0.5574 27.8 0.97 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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