GREMLIN Database
YFKD - Uncharacterized protein YfkD
UniProt: O34579 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 264 (248)
Sequences: 101 (75)
Seq/√Len: 4.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
95_Y226_L4.7040.95
61_A148_V4.1040.90
122_I253_V3.5490.81
32_V100_F3.2900.76
25_H179_A3.2840.76
54_M80_M2.9090.66
157_P219_Y2.7800.62
38_S80_M2.6660.59
69_E249_V2.6210.57
40_S88_G2.3740.49
98_T200_K2.3130.47
156_V254_T2.2290.45
107_G233_L2.1450.42
93_V235_V2.1050.41
67_H231_R1.9690.37
98_T225_V1.9470.36
121_K124_T1.9420.36
46_P212_N1.9400.36
136_A207_Y1.9140.35
38_S68_S1.9040.35
124_T143_E1.8420.33
156_V164_S1.8340.33
134_E148_V1.8210.33
88_G98_T1.8110.32
179_A183_V1.8070.32
156_V184_I1.8070.32
115_A200_K1.8020.32
115_A141_A1.7690.31
133_K198_P1.7480.31
93_V238_V1.7340.30
90_P229_N1.7260.30
38_S168_Q1.7220.30
70_V172_K1.7190.30
135_T249_V1.7190.30
94_G228_G1.6680.29
212_N242_G1.6680.29
109_E133_K1.6260.28
97_A130_R1.6220.27
79_K151_G1.6140.27
105_A209_P1.5670.26
200_K208_A1.5640.26
90_P240_S1.5420.25
73_E169_K1.5370.25
133_K199_K1.5350.25
76_H86_I1.5260.25
51_D214_K1.5240.25
107_G167_M1.4910.24
76_H156_V1.4890.24
50_Q53_P1.4730.24
160_E175_N1.4590.24
37_A190_R1.4560.23
40_S196_V1.4540.23
90_P159_A1.4440.23
46_P112_E1.4270.23
154_A180_F1.4210.23
35_S128_D1.4210.23
89_T229_N1.4120.22
95_Y229_N1.4100.22
90_P201_I1.4060.22
90_P208_A1.4010.22
159_A196_V1.4000.22
25_H184_I1.3920.22
234_V240_S1.3830.22
154_A157_P1.3780.22
133_K256_G1.3760.22
159_A234_V1.3730.22
93_V181_E1.3700.22
233_L259_L1.3630.21
55_L180_F1.3630.21
98_T208_A1.3520.21
29_Q127_A1.3510.21
17_S100_F1.3480.21
13_L93_V1.3430.21
51_D212_N1.3370.21
81_L107_G1.3180.20
68_S115_A1.3140.20
111_N183_V1.3120.20
42_E165_M1.3110.20
55_L151_G1.3060.20
127_A136_A1.2820.20
120_K256_G1.2600.19
156_V192_Q1.2580.19
136_A141_A1.2550.19
14_L21_V1.2500.19
55_L154_A1.2440.19
88_G231_R1.2430.19
34_N208_A1.2210.19
109_E184_I1.2200.19
97_A128_D1.2100.18
63_E200_K1.2090.18
86_I173_K1.2060.18
84_S98_T1.2050.18
84_S259_L1.1970.18
51_D242_G1.1900.18
168_Q171_M1.1840.18
13_L27_K1.1820.18
38_S109_E1.1790.18
115_A139_H1.1750.18
90_P95_Y1.1750.18
153_T244_G1.1720.18
50_Q55_L1.1710.18
46_P242_G1.1680.18
34_N84_S1.1660.18
12_V16_F1.1570.17
138_M200_K1.1490.17
42_E65_L1.1260.17
136_A257_F1.1240.17
49_S164_S1.1200.17
206_A226_L1.1110.17
165_M190_R1.1090.17
53_P128_D1.1020.16
109_E198_P1.0990.16
105_A231_R1.0900.16
105_A238_V1.0840.16
120_K155_K1.0830.16
24_I253_V1.0810.16
84_S157_P1.0710.16
217_V230_K1.0640.16
130_R157_P1.0630.16
26_A93_V1.0590.16
68_S258_Q1.0520.16
212_N231_R1.0510.16
76_H103_K1.0450.15
115_A225_V1.0420.15
90_P96_R1.0370.15
98_T231_R1.0340.15
36_V119_Y1.0320.15
84_S196_V1.0310.15
20_G172_K1.0250.15
160_E206_A1.0250.15
141_A200_K1.0210.15
92_A229_N1.0180.15
101_L130_R1.0170.15
68_S107_G1.0110.15
232_K253_V1.0110.15
56_Q97_A1.0080.15
124_T154_A1.0060.15
65_L122_I1.0010.15
53_P130_R0.9920.15
129_N178_L0.9880.15
88_G95_Y0.9820.14
57_P221_E0.9810.14
65_L105_A0.9710.14
158_N238_V0.9710.14
60_L86_I0.9710.14
68_S233_L0.9680.14
35_S97_A0.9680.14
92_A95_Y0.9660.14
114_V254_T0.9590.14
56_Q240_S0.9560.14
59_K66_D0.9330.14
81_L122_I0.9330.14
183_V233_L0.9310.14
96_R127_A0.9300.14
124_T230_K0.9280.14
62_K66_D0.9270.14
18_F24_I0.9270.14
12_V96_R0.9220.13
195_K203_Y0.9200.13
58_S221_E0.9160.13
17_S149_K0.9160.13
167_M197_A0.9160.13
89_T103_K0.9150.13
94_G227_K0.9080.13
30_F168_Q0.9060.13
90_P234_V0.9040.13
115_A136_A0.9040.13
13_L26_A0.8930.13
56_Q162_V0.8870.13
64_L251_D0.8870.13
147_R253_V0.8870.13
204_L239_T0.8830.13
98_T192_Q0.8790.13
50_Q203_Y0.8780.13
38_S71_K0.8750.13
46_P51_D0.8710.13
88_G105_A0.8680.13
35_S130_R0.8670.13
99_I202_G0.8640.13
138_M191_D0.8610.13
163_K209_P0.8570.13
63_E127_A0.8540.13
100_F238_V0.8500.12
183_V191_D0.8460.12
115_A211_V0.8450.12
91_L141_A0.8430.12
32_V80_M0.8400.12
13_L148_V0.8390.12
32_V158_N0.8370.12
93_V169_K0.8370.12
81_L200_K0.8270.12
34_N107_G0.8270.12
122_I186_A0.8200.12
63_E235_V0.8170.12
80_M168_Q0.8140.12
69_E205_H0.8110.12
157_P230_K0.8070.12
85_N134_E0.8070.12
95_Y103_K0.8050.12
81_L93_V0.8040.12
111_N259_L0.8040.12
111_N201_I0.8040.12
52_Q172_K0.8020.12
241_Q252_H0.8020.12
101_L110_S0.7920.12
22_Q26_A0.7910.12
98_T240_S0.7900.12
31_K198_P0.7870.12
39_I184_I0.7840.12
135_T172_K0.7830.12
122_I191_D0.7800.12
120_K254_T0.7800.12
145_Q195_K0.7780.12
54_M81_L0.7710.11
137_E256_G0.7690.11
118_E212_N0.7630.11
73_E145_Q0.7620.11
145_Q216_K0.7620.11
121_K219_Y0.7600.11
48_A199_K0.7590.11
67_H93_V0.7590.11
21_V24_I0.7590.11
137_E258_Q0.7550.11
158_N183_V0.7530.11
65_L253_V0.7530.11
161_D173_K0.7530.11
95_Y225_V0.7470.11
137_E217_V0.7470.11
199_K216_K0.7410.11
53_P97_A0.7380.11
68_S81_L0.7370.11
89_T192_Q0.7360.11
61_A85_N0.7340.11
66_D235_V0.7320.11
53_P154_A0.7320.11
214_K251_D0.7290.11
92_A231_R0.7250.11
48_A205_H0.7250.11
101_L162_V0.7220.11
16_F138_M0.7210.11
45_Y112_E0.7190.11
76_H211_V0.7140.11
148_V183_V0.7030.11
67_H76_H0.7000.11
156_V242_G0.7000.11
38_S167_M0.6950.10
15_F231_R0.6940.10
162_V166_M0.6930.10
41_K182_T0.6900.10
33_P237_N0.6810.10
62_K134_E0.6790.10
16_F211_V0.6750.10
16_F30_F0.6740.10
132_G166_M0.6700.10
91_L255_F0.6700.10
24_I184_I0.6650.10
208_A234_V0.6640.10
23_P28_K0.6630.10
141_A155_K0.6580.10
15_F257_F0.6560.10
137_E233_L0.6560.10
45_Y55_L0.6520.10
29_Q65_L0.6510.10
54_M172_K0.6500.10
146_Y178_L0.6490.10
17_S137_E0.6470.10
85_N235_V0.6460.10
69_E137_E0.6440.10
66_D233_L0.6440.10
54_M70_V0.6430.10
91_L154_A0.6420.10
167_M231_R0.6400.10
90_P235_V0.6390.10
71_K91_L0.6370.10
57_P166_M0.6360.10
34_N256_G0.6360.10
223_Y238_V0.6310.10
208_A255_F0.6240.10
86_I93_V0.6240.10
32_V127_A0.6240.10
160_E179_A0.6230.10
170_A187_G0.6200.10
37_A254_T0.6180.10
58_S242_G0.6180.10
93_V259_L0.6130.10
85_N156_V0.6120.10
55_L68_S0.6100.10
124_T257_F0.6080.09
78_I173_K0.6080.09
37_A59_K0.6060.09
31_K66_D0.6050.09
93_V197_A0.6040.09
25_H127_A0.6030.09
40_S209_P0.6010.09
135_T259_L0.5970.09
139_H193_I0.5970.09
28_K109_E0.5940.09
38_S195_K0.5930.09
137_E224_L0.5920.09
65_L99_I0.5910.09
143_E165_M0.5910.09
61_A232_K0.5910.09
211_V233_L0.5910.09
27_K32_V0.5870.09
40_S115_A0.5830.09
87_S199_K0.5820.09
25_H196_V0.5820.09
26_A168_Q0.5800.09
20_G65_L0.5780.09
169_K172_K0.5750.09
36_V177_P0.5750.09
133_K144_Q0.5730.09
144_Q205_H0.5720.09
48_A73_E0.5720.09
79_K103_K0.5720.09
68_S151_G0.5690.09
118_E173_K0.5650.09
42_E157_P0.5650.09
112_E208_A0.5640.09
36_V95_Y0.5630.09
86_I179_A0.5600.09
58_S204_L0.5580.09
90_P219_Y0.5580.09
97_A219_Y0.5580.09
90_P107_G0.5560.09
200_K234_V0.5540.09
167_M233_L0.5520.09
190_R199_K0.5520.09
18_F26_A0.5510.09
135_T143_E0.5510.09
85_N255_F0.5490.09
161_D183_V0.5490.09
12_V20_G0.5480.09
186_A229_N0.5480.09
87_S115_A0.5460.09
76_H164_S0.5450.09
84_S114_V0.5450.09
186_A200_K0.5450.09
67_H130_R0.5440.09
41_K242_G0.5440.09
79_K89_T0.5400.09
115_A219_Y0.5360.09
181_E233_L0.5360.09
42_E138_M0.5330.09
226_L231_R0.5310.09
13_L28_K0.5310.09
85_N119_Y0.5300.09
41_K250_Q0.5290.09
70_V160_E0.5260.09
144_Q229_N0.5260.09
137_E193_I0.5240.09
136_A154_A0.5220.09
129_N247_I0.5210.09
109_E195_K0.5200.09
66_D114_V0.5190.09
79_K190_R0.5180.09
37_A259_L0.5160.09
93_V229_N0.5160.09
151_G187_G0.5150.09
23_P158_N0.5150.09
32_V96_R0.5130.09
98_T234_V0.5130.09
109_E253_V0.5080.08
45_Y50_Q0.5070.08
100_F164_S0.5070.08
154_A171_M0.5070.08
98_T206_A0.5040.08
120_K197_A0.5030.08
94_G231_R0.5020.08
145_Q224_L0.5020.08
170_A180_F0.5010.08
91_L196_V0.5000.08
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  
4n91A 2 0.7273 27.6 0.976 Contact Map
4ng7A 1 0.7008 14.7 0.979 Contact Map
4n6dA 1 0.7311 12.2 0.98 Contact Map
4nf0A 2 0.7273 11.7 0.98 Contact Map
4nhbA 2 0.7311 9.8 0.981 Contact Map
4p47A 1 0.7576 9.4 0.981 Contact Map
4mx6A 1 0.7462 8.7 0.981 Contact Map
4o8mA 4 0.7273 7.1 0.982 Contact Map
4n6kA 1 0.7311 6.9 0.982 Contact Map
4xfeA 1 0.7273 6.7 0.982 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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