GREMLIN Database
YKOC - Putative HMP/thiamine permease protein YkoC
UniProt: O34572 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 254 (233)
Sequences: 5294 (4265)
Seq/√Len: 279.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
227_V232_W6.8101.00
13_K124_T4.3171.00
160_E200_K3.8171.00
13_K123_T3.3671.00
85_N98_D3.3341.00
16_A238_V3.2281.00
12_V227_V3.2231.00
53_K57_L2.9581.00
10_P225_L2.9441.00
162_Q166_Q2.7211.00
86_F94_S2.6431.00
88_F95_I2.5431.00
85_N97_S2.5381.00
8_I234_F2.3931.00
232_W236_C2.3151.00
86_F89_Q2.3061.00
86_F96_N2.2821.00
165_Q169_K2.2671.00
12_V235_F2.2561.00
164_I193_L2.2221.00
17_V120_F2.1691.00
243_A247_L2.1451.00
228_N231_D2.0101.00
164_I168_H1.9911.00
70_V107_G1.9361.00
89_Q94_S1.9301.00
11_T132_S1.8801.00
157_L197_A1.8591.00
134_V141_P1.8151.00
37_Y112_C1.7821.00
229_R233_V1.7361.00
145_Y213_F1.6831.00
166_Q169_K1.6701.00
57_L60_I1.6691.00
87_L97_S1.6611.00
208_M213_F1.5941.00
31_Y35_C1.5801.00
87_L100_V1.5681.00
160_E163_L1.5531.00
160_E196_S1.5401.00
125_D128_L1.5281.00
151_F155_P1.4871.00
24_L36_F1.4801.00
51_P54_K1.4751.00
128_L223_R1.4741.00
152_R193_L1.4621.00
101_S105_S1.4421.00
145_Y149_A1.4381.00
74_A95_I1.4191.00
33_P112_C1.4111.00
146_G150_G1.4111.00
137_C140_S1.4091.00
8_I12_V1.4051.00
24_L112_C1.3911.00
31_Y34_A1.3821.00
7_L230_R1.3651.00
170_I210_S1.3551.00
181_N184_S1.3521.00
97_S101_S1.3491.00
139_L143_L1.3241.00
161_V193_L1.3051.00
99_N103_G1.3031.00
227_V235_F1.2941.00
134_V144_A1.2891.00
41_V116_L1.2761.00
32_T35_C1.2621.00
180_I184_S1.2441.00
205_A209_E1.2321.00
230_R233_V1.2311.00
23_M27_I1.2271.00
85_N89_Q1.2231.00
27_I32_T1.2121.00
161_V165_Q1.2071.00
72_T76_F1.2021.00
89_Q92_P1.1921.00
20_C116_L1.1901.00
239_L242_F1.1851.00
23_M242_F1.1841.00
168_H188_R1.1791.00
17_V116_L1.1741.00
172_G192_P1.1671.00
156_L204_T1.1671.00
60_I64_I1.1601.00
78_K96_N1.1451.00
149_A204_T1.1401.00
153_F204_T1.1311.00
152_R156_L1.1271.00
161_V189_Y1.1231.00
18_F22_V1.1171.00
164_I192_P1.1121.00
44_V119_M1.1111.00
29_N32_T1.1071.00
184_S188_R1.1021.00
179_I183_I1.0911.00
87_L90_A1.0881.00
46_L49_G1.0871.00
241_L245_S1.0851.00
15_A235_F1.0751.00
155_P192_P1.0701.00
24_L116_L1.0631.00
79_V98_D1.0541.00
74_A103_G1.0391.00
102_V106_L1.0321.00
168_H185_A1.0321.00
155_P205_A1.0291.00
181_N185_A1.0221.00
41_V44_V1.0201.00
33_P108_F1.0121.00
133_L147_V1.0111.00
227_V231_D1.0031.00
64_I67_F1.0011.00
91_G94_S1.0011.00
150_G208_M0.9971.00
149_A208_M0.9961.00
168_H192_P0.9921.00
101_S104_I0.9911.00
10_P132_S0.9711.00
233_V237_L0.9711.00
237_L241_L0.9701.00
157_L161_V0.9701.00
226_S229_R0.9631.00
176_E182_K0.9451.00
19_C242_F0.9421.00
64_I68_G0.9411.00
159_D162_Q0.9351.00
187_K191_I0.9291.00
33_P36_F0.9261.00
30_P101_S0.9241.00
98_D101_S0.9211.00
13_K128_L0.9181.00
43_G46_L0.9181.00
157_L173_G0.9171.00
30_P105_S0.9161.00
182_K185_A0.9141.00
88_F94_S0.9101.00
226_S231_D0.9081.00
70_V103_G0.8931.00
234_F238_V0.8891.00
86_F90_A0.8871.00
236_C247_L0.8811.00
201_A204_T0.8801.00
98_D102_V0.8801.00
131_L225_L0.8791.00
52_L56_L0.8791.00
108_F112_C0.8781.00
34_A38_I0.8761.00
61_P64_I0.8751.00
206_L209_E0.8711.00
179_I182_K0.8711.00
30_P34_A0.8681.00
205_A208_M0.8621.00
12_V231_D0.8611.00
133_L144_A0.8601.00
71_W75_V0.8531.00
53_K56_L0.8521.00
73_A99_N0.8481.00
199_R203_R0.8381.00
90_A93_I0.8371.00
73_A106_L0.8361.00
14_A132_S0.8341.00
244_G247_L0.8301.00
126_P151_F0.8291.00
87_L98_D0.8291.00
124_T128_L0.8281.00
156_L160_E0.8261.00
36_F112_C0.8221.00
215_G218_N0.8200.99
38_I43_G0.8200.99
238_V242_F0.8180.99
56_L60_I0.8130.99
163_L203_R0.8080.99
130_M148_I0.8060.99
162_Q165_Q0.8050.99
5_L48_A0.8040.99
12_V234_F0.7980.99
168_H189_Y0.7960.99
9_N225_L0.7940.99
79_V96_N0.7920.99
152_R160_E0.7910.99
16_A234_F0.7900.99
14_A120_F0.7890.99
23_M32_T0.7880.99
12_V232_W0.7880.99
232_W235_F0.7820.99
46_L52_L0.7720.99
136_Q224_T0.7700.99
8_I230_R0.7690.99
45_L55_W0.7620.99
6_H13_K0.7620.99
34_A37_Y0.7590.99
120_F129_F0.7580.99
109_R161_V0.7550.99
9_N12_V0.7540.99
37_Y108_F0.7500.99
200_K203_R0.7440.99
42_A45_L0.7440.99
185_A189_Y0.7410.99
164_I189_Y0.7400.99
146_G204_T0.7390.99
134_V221_Y0.7390.99
124_T129_F0.7320.99
110_I114_S0.7310.99
33_P105_S0.7280.99
126_P157_L0.7270.99
87_L96_N0.7250.99
21_V113_F0.7240.99
5_L44_V0.7220.99
170_I207_A0.7180.99
15_A239_L0.7130.99
65_L110_I0.7110.99
19_C239_L0.7110.99
119_M123_T0.7090.99
201_A205_A0.7060.98
38_I46_L0.7040.98
55_W59_T0.7020.98
229_R232_W0.7020.98
141_P214_T0.7010.98
196_S202_E0.6990.98
16_A20_C0.6980.98
107_G111_L0.6940.98
9_N132_S0.6930.98
232_W237_L0.6920.98
62_F114_S0.6910.98
209_E212_G0.6900.98
169_K176_E0.6890.98
145_Y168_H0.6880.98
11_T225_L0.6880.98
236_C240_L0.6870.98
141_P215_G0.6860.98
240_L243_A0.6840.98
191_I199_R0.6840.98
73_A77_G0.6820.98
138_R144_A0.6810.98
230_R247_L0.6800.98
17_V107_G0.6790.98
174_A182_K0.6780.98
126_P155_P0.6780.98
28_Y33_P0.6750.98
17_V117_S0.6660.98
165_Q189_Y0.6650.98
15_A224_T0.6640.98
221_Y224_T0.6610.98
69_C73_A0.6600.98
23_M241_L0.6540.98
120_F124_T0.6540.98
159_D163_L0.6500.97
228_N232_W0.6490.97
113_F117_S0.6480.97
55_W115_A0.6450.97
156_L211_K0.6440.97
20_C24_L0.6410.97
152_R204_T0.6400.97
58_F62_F0.6400.97
60_I68_G0.6390.97
58_F69_C0.6320.97
74_A99_N0.6310.97
90_A94_S0.6290.97
212_G215_G0.6280.97
154_L208_M0.6260.97
132_S138_R0.6260.97
21_V117_S0.6260.97
229_R243_A0.6260.97
136_Q139_L0.6240.97
120_F209_E0.6230.97
35_C38_I0.6230.97
153_F205_A0.6210.97
87_L95_I0.6180.96
58_F122_F0.6180.96
195_A198_I0.6160.96
144_A155_P0.6150.96
233_V243_A0.6150.96
38_I42_A0.6140.96
228_N235_F0.6130.96
233_V240_L0.6120.96
168_H172_G0.6110.96
20_C36_F0.6100.96
5_L8_I0.6050.96
63_L111_L0.6050.96
26_F246_F0.6040.96
143_L150_G0.6030.96
226_S232_W0.6020.96
180_I241_L0.6010.96
88_F91_G0.5990.96
33_P37_Y0.5970.96
37_Y42_A0.5910.95
175_A190_T0.5890.95
163_L166_Q0.5870.95
237_L244_G0.5860.95
202_E206_L0.5830.95
146_G213_F0.5820.95
25_S148_I0.5820.95
239_L243_A0.5810.95
88_F92_P0.5800.95
66_A70_V0.5750.95
170_I211_K0.5750.95
11_T15_A0.5740.95
153_F195_A0.5730.95
19_C246_F0.5720.95
67_F70_V0.5720.95
49_G229_R0.5720.95
153_F156_L0.5710.95
6_H124_T0.5680.94
139_L144_A0.5670.94
188_R192_P0.5660.94
146_G200_K0.5650.94
150_G186_L0.5590.94
114_S127_I0.5570.94
62_F111_L0.5560.94
66_A69_C0.5550.94
48_A123_T0.5540.94
202_E211_K0.5510.94
32_T36_F0.5510.94
60_I63_L0.5500.93
100_V104_I0.5470.93
160_E197_A0.5450.93
174_A185_A0.5410.93
59_T63_L0.5400.93
73_A103_G0.5390.93
53_K60_I0.5390.93
104_I107_G0.5380.93
197_A208_M0.5370.93
117_S154_L0.5360.93
218_N229_R0.5350.92
118_M122_F0.5330.92
130_M144_A0.5330.92
59_T69_C0.5320.92
39_I238_V0.5300.92
85_N88_F0.5290.92
97_S102_V0.5280.92
127_I131_L0.5230.92
232_W240_L0.5220.92
230_R241_L0.5210.92
113_F153_F0.5210.92
19_C238_V0.5200.91
70_V99_N0.5190.91
200_K204_T0.5160.91
109_R171_R0.5150.91
227_V236_C0.5140.91
59_T62_F0.5140.91
113_F201_A0.5120.91
144_A147_V0.5110.91
74_A78_K0.5100.91
16_A24_L0.5070.90
8_I231_D0.5070.90
133_L139_L0.5060.90
55_W145_Y0.5050.90
225_L231_D0.5030.90
77_G102_V0.5020.90
228_N233_V0.5020.90
5_L47_A0.5000.90
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  
4huqT 1 0.9094 100 0.152 Contact Map
2l0eA 1 0.122 5.1 0.953 Contact Map
4mt1A 3 0.622 4 0.956 Contact Map
2fz1A 8 0.2362 3.7 0.957 Contact Map
4dx5A 3 0.6339 3.3 0.958 Contact Map
2zvkU 1 0.0354 2.8 0.959 Contact Map
2dc0A 2 0.3622 2.6 0.96 Contact Map
4k0jA 3 0.5748 2.2 0.961 Contact Map
3w9iA 3 0.6181 1.9 0.963 Contact Map
2ww9C 1 0.0827 1.5 0.965 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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