GREMLIN Database
YTFF - Inner membrane protein YtfF
UniProt: P39314 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12506
Length: 321 (275)
Sequences: 36389 (27149)
Seq/√Len: 1637.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
85_A163_A3.4421.00
7_Y254_V3.0151.00
93_V160_I2.8231.00
254_V258_L2.8131.00
279_T285_Q2.6511.00
42_G195_A2.5731.00
84_S162_L2.5111.00
81_C165_V2.4611.00
21_G239_A2.3521.00
128_A301_G2.3121.00
254_V257_Q2.2811.00
16_G274_A2.2661.00
60_A63_D2.2541.00
206_I209_L2.2471.00
95_T275_G2.1581.00
231_L235_S2.1551.00
104_V167_V2.0921.00
35_M205_L2.0851.00
108_F175_L2.0571.00
40_A241_A2.0491.00
81_C162_L2.0391.00
23_L285_Q2.0371.00
8_A255_A2.0371.00
22_P83_A1.9901.00
115_Q178_A1.8691.00
77_I169_C1.8531.00
63_D183_E1.8411.00
16_G278_Y1.8191.00
39_L198_L1.7771.00
100_T104_V1.7641.00
46_L191_M1.7591.00
161_V165_V1.7451.00
230_P233_F1.7341.00
89_T160_I1.7321.00
105_I265_G1.7211.00
241_A246_W1.7001.00
106_P129_L1.6951.00
89_T159_G1.6951.00
110_N120_L1.6931.00
17_L239_A1.6901.00
109_A115_Q1.6881.00
88_R158_S1.6801.00
81_C169_C1.6601.00
13_L274_A1.6541.00
42_G198_L1.6531.00
185_P188_H1.5971.00
122_W125_L1.5931.00
260_P263_I1.5781.00
303_V307_R1.5641.00
104_V171_A1.5501.00
28_Y233_F1.5481.00
94_S163_A1.5411.00
132_I269_V1.5351.00
109_A113_Y1.5231.00
47_P50_W1.5191.00
288_P291_T1.5141.00
116_R120_L1.4861.00
199_V206_I1.4831.00
14_M243_L1.4771.00
128_A305_A1.4641.00
11_A255_A1.4631.00
84_S88_R1.4591.00
35_M198_L1.4331.00
7_Y251_C1.4331.00
157_T160_I1.4031.00
65_L69_M1.4011.00
61_R65_L1.3811.00
46_L50_W1.3811.00
104_V168_V1.3691.00
289_L293_S1.3661.00
108_F112_L1.3621.00
62_R66_T1.3531.00
177_N253_N1.3521.00
274_A278_Y1.3431.00
231_L234_I1.3401.00
89_T93_V1.3391.00
278_Y282_L1.3371.00
292_L296_A1.3361.00
91_A279_T1.3271.00
43_L47_P1.3241.00
44_I246_W1.3231.00
138_C297_L1.3231.00
29_P32_L1.3191.00
24_I236_L1.3181.00
61_R64_W1.3151.00
27_E233_F1.2861.00
296_A300_I1.2771.00
128_A304_I1.2741.00
41_L194_T1.2651.00
232_V235_S1.2621.00
62_R65_L1.2591.00
33_Q240_I1.2551.00
135_G294_G1.2511.00
126_A130_I1.2451.00
179_R182_R1.2381.00
20_V278_Y1.2311.00
130_I134_I1.2301.00
123_G127_P1.2231.00
270_F274_A1.2231.00
96_M295_I1.2221.00
235_S239_A1.2201.00
138_C290_M1.2191.00
84_S87_Q1.2121.00
69_M176_R1.2111.00
171_A175_L1.2081.00
124_K304_I1.2071.00
76_L200_T1.2051.00
68_L196_Q1.2031.00
209_L212_C1.1961.00
66_T176_R1.1921.00
232_V236_L1.1881.00
92_P276_L1.1881.00
207_G210_V1.1841.00
113_Y175_L1.1791.00
287_P292_L1.1721.00
132_I301_G1.1711.00
157_T161_V1.1631.00
42_G191_M1.1611.00
6_L10_L1.1421.00
90_G93_V1.1371.00
207_G211_A1.1361.00
108_F172_W1.1361.00
179_R183_E1.1311.00
97_I167_V1.1271.00
48_I52_G1.1271.00
21_G236_L1.1211.00
35_M39_L1.1211.00
72_M200_T1.1211.00
37_R245_S1.1201.00
17_L278_Y1.1191.00
88_R162_L1.1171.00
15_W248_G1.1161.00
178_A260_P1.1151.00
139_V294_G1.1071.00
11_A251_C1.1021.00
124_K307_R1.0981.00
88_R156_Y1.0841.00
11_A15_W1.0791.00
123_G126_A1.0721.00
27_E230_P1.0701.00
206_I210_V1.0651.00
105_I261_T1.0491.00
108_F171_A1.0471.00
76_L201_L1.0461.00
82_L86_I1.0431.00
91_A283_R1.0421.00
111_L114_S1.0371.00
158_S162_L1.0361.00
86_I94_S1.0231.00
15_W252_W1.0201.00
22_P86_I1.0171.00
34_S83_A1.0161.00
256_S264_L1.0111.00
89_T163_A1.0081.00
108_F168_V1.0021.00
88_R159_G0.9941.00
44_I242_V0.9921.00
66_T180_W0.9921.00
115_Q125_L0.9911.00
10_L251_C0.9901.00
65_L68_L0.9901.00
97_I163_A0.9891.00
5_V267_L0.9851.00
120_L126_A0.9831.00
108_F111_L0.9791.00
238_V241_A0.9781.00
234_I238_V0.9761.00
105_I174_A0.9701.00
158_S161_V0.9561.00
63_D184_N0.9531.00
178_A261_T0.9531.00
73_M172_W0.9511.00
260_P264_L0.9481.00
235_S238_V0.9461.00
20_V282_L0.9451.00
273_L295_I0.9451.00
256_S260_P0.9441.00
105_I171_A0.9401.00
31_M80_F0.9401.00
91_A285_Q0.9351.00
135_G298_L0.9331.00
14_M251_C0.9281.00
30_A34_S0.9261.00
141_I288_P0.9201.00
124_K308_A0.9121.00
23_L26_P0.9121.00
97_I160_I0.9111.00
71_T196_Q0.9101.00
167_V171_A0.9101.00
259_L264_L0.9091.00
96_M137_A0.9051.00
243_L247_V0.9041.00
63_D66_T0.9021.00
239_A243_L0.8981.00
100_T136_L0.8951.00
289_L292_L0.8871.00
200_T206_I0.8871.00
229_R234_I0.8871.00
131_C301_G0.8781.00
159_G163_A0.8771.00
66_T70_L0.8761.00
9_L274_A0.8761.00
35_M208_Y0.8751.00
137_A141_I0.8661.00
38_Y197_A0.8561.00
31_M207_G0.8551.00
45_A246_W0.8541.00
259_L263_I0.8511.00
238_V242_V0.8511.00
12_G16_G0.8511.00
12_G274_A0.8411.00
36_G40_A0.8411.00
230_P234_I0.8391.00
107_V111_L0.8371.00
178_A182_R0.8321.00
110_N114_S0.8301.00
34_S201_L0.8241.00
47_P51_L0.8241.00
67_A184_N0.8241.00
276_L287_P0.8221.00
64_W196_Q0.8221.00
76_L80_F0.8211.00
154_A157_T0.8181.00
60_A64_W0.8111.00
205_L208_Y0.8091.00
20_V279_T0.8081.00
280_F287_P0.8071.00
12_G270_F0.8041.00
75_N173_Y0.7971.00
105_I175_L0.7951.00
19_F82_L0.7931.00
237_M241_A0.7931.00
134_I138_C0.7891.00
247_V251_C0.7841.00
73_M169_C0.7831.00
196_Q199_V0.7821.00
293_S297_L0.7761.00
66_T179_R0.7741.00
49_A191_M0.7681.00
134_I297_L0.7671.00
138_C293_S0.7661.00
80_F84_S0.7651.00
103_V132_I0.7651.00
110_N116_R0.7631.00
64_W67_A0.7631.00
290_M293_S0.7621.00
156_Y160_I0.7611.00
208_Y211_A0.7551.00
255_A264_L0.7541.00
228_P231_L0.7501.00
276_L295_I0.7491.00
20_V91_A0.7491.00
32_L208_Y0.7461.00
136_L140_N0.7461.00
46_L195_A0.7461.00
127_P131_C0.7431.00
280_F286_M0.7401.00
78_Y169_C0.7401.00
77_I81_C0.7391.00
191_M195_A0.7361.00
44_I241_A0.7351.00
106_P120_L0.7331.00
236_L239_A0.7331.00
197_A201_L0.7311.00
195_A199_V0.7281.00
184_N189_P0.7261.00
206_I212_C0.7231.00
44_I47_P0.7211.00
163_A167_V0.7201.00
141_I144_L0.7191.00
122_W126_A0.7161.00
196_Q200_T0.7071.00
192_W196_Q0.7061.00
102_P269_V0.7021.00
113_Y178_A0.7021.00
42_G46_L0.7011.00
170_W174_A0.6991.00
64_W68_L0.6971.00
55_R185_P0.6901.00
104_V164_L0.6861.00
106_P125_L0.6861.00
66_T69_M0.6851.00
32_L36_G0.6841.00
28_Y33_Q0.6821.00
295_I299_V0.6821.00
229_R233_F0.6801.00
8_A267_L0.6781.00
50_W53_R0.6751.00
39_L205_L0.6721.00
116_R124_K0.6711.00
172_W176_R0.6691.00
85_A159_G0.6681.00
300_I304_I0.6681.00
100_T103_V0.6681.00
18_I244_C0.6681.00
279_T283_R0.6671.00
190_M253_N0.6671.00
208_Y212_C0.6661.00
28_Y32_L0.6651.00
73_M176_R0.6651.00
107_V129_L0.6621.00
89_T94_S0.6621.00
192_W195_A0.6611.00
270_F273_L0.6581.00
69_M72_M0.6531.00
8_A259_L0.6521.00
287_P291_T0.6511.00
67_A71_T0.6501.00
85_A94_S0.6501.00
266_P305_A0.6501.00
97_I164_L0.6481.00
50_W54_V0.6451.00
71_T76_L0.6451.00
60_A65_L0.6411.00
230_P235_S0.6391.00
170_W252_W0.6391.00
68_L71_T0.6371.00
96_M140_N0.6361.00
19_F95_T0.6331.00
233_F236_L0.6281.00
50_W55_R0.6261.00
190_M193_A0.6241.00
24_I283_R0.6231.00
288_P292_L0.6221.00
135_G301_G0.6211.00
75_N249_A0.6191.00
78_Y173_Y0.6171.00
39_L43_L0.6151.00
188_H192_W0.6151.00
106_P110_N0.6131.00
40_A44_I0.6121.00
5_V263_I0.6051.00
14_M244_C0.6041.00
301_G305_A0.6001.00
173_Y253_N0.5951.00
48_I187_K0.5901.00
68_L72_M0.5901.00
277_L280_F0.5891.00
174_A252_W0.5891.00
131_C304_I0.5891.00
162_L165_V0.5861.00
58_Q61_R0.5851.00
250_L254_V0.5851.00
14_M248_G0.5821.00
36_G237_M0.5801.00
40_A237_M0.5791.00
51_L54_V0.5781.00
41_L241_A0.5771.00
52_G55_R0.5761.00
205_L209_L0.5751.00
82_L94_S0.5731.00
116_R123_G0.5701.00
184_N188_H0.5701.00
99_G136_L0.5701.00
125_L260_P0.5661.00
99_G102_P0.5661.00
75_N193_A0.5641.00
54_V57_R0.5601.00
133_G269_V0.5591.00
277_L281_L0.5561.00
99_G167_V0.5541.00
168_V172_W0.5531.00
10_L14_M0.5501.00
291_T295_I0.5471.00
112_L172_W0.5441.00
190_M194_T0.5391.00
9_L12_G0.5391.00
286_M290_M0.5381.00
18_I240_I0.5381.00
16_G271_E0.5371.00
29_P211_A0.5371.00
81_C166_S0.5361.00
140_N160_I0.5351.00
255_A259_L0.5351.00
239_A242_V0.5341.00
100_T167_V0.5341.00
195_A198_L0.5341.00
68_L200_T0.5321.00
276_L280_F0.5311.00
302_V305_A0.5311.00
56_L59_L0.5301.00
82_L166_S0.5281.00
8_A252_W0.5271.00
198_L205_L0.5251.00
17_L20_V0.5251.00
64_W192_W0.5231.00
174_A265_G0.5231.00
189_P192_W0.5211.00
29_P212_C0.5201.00
25_V86_I0.5201.00
34_S80_F0.5191.00
278_Y281_L0.5171.00
31_M201_L0.5161.00
201_L206_I0.5161.00
20_V275_G0.5151.00
95_T99_G0.5131.00
133_G137_A0.5121.00
173_Y177_N0.5101.00
85_A89_T0.5091.00
292_L295_I0.5091.00
43_L46_L0.5091.00
286_M291_T0.5081.00
41_L246_W0.5061.00
78_Y82_L0.5061.00
19_F23_L0.5051.00
154_A158_S0.5051.00
280_F292_L0.5051.00
173_Y193_A0.5041.00
134_I137_A0.5031.00
16_G275_G0.5031.00
268_I271_E0.5021.00
67_A189_P0.5001.00
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  
2i68A 2 0.2399 98.9 0.771 Contact Map
3b5dA 2 0.3146 98.5 0.802 Contact Map
1pw4A 1 0.9128 76 0.914 Contact Map
2cfqA 1 0.5763 58.7 0.924 Contact Map
3wdoA 1 0.8941 53.2 0.926 Contact Map
4j05A 3 0.9065 45.9 0.929 Contact Map
4he8J 1 0.4891 22.1 0.94 Contact Map
4pypA 1 0.567 18.3 0.942 Contact Map
4tphA 2 0.8474 17 0.943 Contact Map
4xnjA 1 0.8847 16 0.944 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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