GREMLIN Database
YTFQ - ABC transporter periplasmic-binding protein YtfQ
UniProt: P39325 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12517
Length: 318 (277)
Sequences: 38410 (28583)
Seq/√Len: 1717.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
131_I173_E3.4221.00
148_K214_C3.1891.00
237_K240_K3.0751.00
82_A280_L2.7711.00
137_I245_G2.7131.00
168_K172_A2.6221.00
249_G267_E2.5731.00
148_K243_L2.5201.00
124_T283_Y2.4691.00
135_K177_N2.3321.00
197_K233_E2.2561.00
48_E51_K2.2561.00
201_E234_A2.2331.00
139_D174_A2.1681.00
48_E278_D2.1241.00
135_K173_E2.1241.00
201_E230_A2.1231.00
135_K174_A2.1211.00
142_V178_A2.1031.00
132_L136_L2.0681.00
275_P278_D2.0591.00
49_A277_F2.0101.00
133_E247_I1.9901.00
141_L215_M1.9881.00
44_V273_A1.9871.00
48_E274_G1.9661.00
131_I169_K1.9601.00
134_G138_G1.9291.00
196_G226_G1.8701.00
282_K287_G1.8291.00
139_D143_K1.8141.00
134_G217_Y1.7961.00
138_G171_F1.7951.00
267_E299_T1.7821.00
153_V213_I1.7731.00
27_G80_V1.7691.00
139_D178_A1.7531.00
218_A227_A1.7461.00
154_E219_H1.7341.00
135_K139_D1.7241.00
197_K230_A1.7191.00
205_K234_A1.7181.00
207_E211_K1.7161.00
200_M227_A1.7081.00
231_I242_I1.6751.00
110_L276_A1.6691.00
232_K259_D1.6411.00
136_L298_S1.6371.00
236_L241_D1.6191.00
275_P294_T1.6081.00
230_A234_A1.6061.00
132_L135_K1.6011.00
169_K173_E1.5841.00
48_E52_R1.5521.00
151_N212_N1.5521.00
237_K241_D1.5301.00
261_E304_D1.5291.00
140_W143_K1.5261.00
142_V174_A1.5171.00
230_A233_E1.4971.00
281_E285_K1.4911.00
271_N275_P1.4701.00
166_D169_K1.4621.00
140_W302_L1.4571.00
172_A176_K1.4511.00
197_K229_Q1.4431.00
129_D132_L1.4391.00
52_R281_E1.4371.00
24_L81_D1.4341.00
48_E277_F1.3971.00
140_W144_E1.3931.00
190_D195_K1.3911.00
151_N214_C1.3881.00
207_E212_N1.3861.00
249_G303_P1.3821.00
174_A177_N1.3701.00
133_E298_S1.3671.00
134_G170_G1.3621.00
231_I236_L1.3511.00
271_N274_G1.3481.00
138_G170_G1.3281.00
183_I186_S1.3261.00
197_K201_E1.3251.00
151_N182_K1.3251.00
153_V203_F1.3201.00
138_G142_V1.3121.00
131_I135_K1.3091.00
98_K102_D1.3041.00
200_M231_I1.2991.00
201_E233_E1.2991.00
138_G174_A1.2891.00
151_N184_I1.2881.00
84_F276_A1.2881.00
27_G75_F1.2871.00
278_D282_K1.2781.00
59_A71_A1.2641.00
201_E205_K1.2621.00
170_G174_A1.2571.00
24_L54_I1.2561.00
59_A75_F1.2401.00
184_I187_Q1.2351.00
136_L139_D1.2341.00
148_K215_M1.2281.00
200_M216_V1.2281.00
45_A277_F1.2281.00
26_V49_A1.2151.00
73_R99_E1.2151.00
49_A56_L1.2151.00
232_K261_E1.2001.00
140_W306_A1.1991.00
28_F45_A1.1901.00
15_M18_M1.1901.00
25_T55_T1.1741.00
172_A183_I1.1621.00
207_E213_I1.1551.00
226_G230_A1.1531.00
171_F175_I1.1461.00
243_L306_A1.1421.00
131_I170_G1.1401.00
25_T57_K1.1401.00
131_I166_D1.1361.00
46_K50_E1.1361.00
228_I244_T1.1311.00
154_E168_K1.1301.00
194_S198_E1.1241.00
52_R278_D1.1051.00
245_G263_N1.1041.00
174_A178_A1.1031.00
199_V202_S1.1031.00
216_V227_A1.0971.00
14_A17_S1.0971.00
202_S206_A1.0951.00
192_T195_K1.0951.00
173_E177_N1.0891.00
139_D177_N1.0831.00
28_F56_L1.0771.00
273_A277_F1.0711.00
45_A84_F1.0671.00
67_N70_K1.0671.00
171_F217_Y1.0611.00
155_L227_A1.0571.00
275_P279_A1.0551.00
152_V175_I1.0531.00
165_I169_K1.0521.00
137_I217_Y1.0491.00
142_V181_I1.0461.00
193_R229_Q1.0441.00
50_E67_N1.0441.00
195_K198_E1.0331.00
169_K172_A1.0331.00
151_N211_K1.0271.00
221_D246_S1.0261.00
69_I73_R1.0251.00
218_A223_M1.0241.00
42_T46_K1.0161.00
274_G278_D1.0121.00
52_R285_K1.0051.00
221_D265_S0.9991.00
54_I281_E0.9991.00
198_E202_S0.9891.00
218_A224_V0.9881.00
149_P214_C0.9831.00
132_L297_K0.9821.00
275_P296_T0.9801.00
144_E302_L0.9721.00
144_E306_A0.9711.00
162_S166_D0.9711.00
51_K274_G0.9701.00
280_L284_K0.9581.00
94_E98_K0.9571.00
143_K178_A0.9541.00
196_G200_M0.9511.00
152_V215_M0.9431.00
200_M204_I0.9391.00
124_T279_A0.9381.00
279_A294_T0.9381.00
43_N47_S0.9341.00
64_K67_N0.9331.00
159_V188_S0.9311.00
37_W270_P0.9281.00
138_G175_I0.9271.00
142_V149_P0.9251.00
157_G191_F0.9241.00
299_T302_L0.9161.00
84_F280_L0.9121.00
137_I266_V0.9091.00
267_E301_Y0.8991.00
130_N167_R0.8911.00
269_T299_T0.8911.00
45_A273_A0.8811.00
26_V84_F0.8771.00
149_P181_I0.8721.00
160_G165_I0.8671.00
221_D249_G0.8661.00
216_V242_I0.8641.00
228_I258_M0.8631.00
128_A269_T0.8601.00
73_R77_A0.8591.00
198_E201_E0.8581.00
156_Q168_K0.8561.00
25_T78_Q0.8511.00
153_V216_V0.8501.00
204_I230_A0.8471.00
82_A284_K0.8471.00
129_D295_L0.8471.00
236_L242_I0.8451.00
224_V246_S0.8421.00
189_G223_M0.8411.00
231_I244_T0.8401.00
41_E110_L0.8391.00
47_S51_K0.8311.00
195_K199_V0.8291.00
229_Q232_K0.8201.00
28_F42_T0.8191.00
173_E176_K0.8181.00
228_I238_P0.8171.00
44_V274_G0.8161.00
70_K73_R0.8091.00
45_A56_L0.8081.00
128_A268_L0.8071.00
279_A282_K0.8071.00
42_T58_I0.8061.00
277_F281_E0.8011.00
126_V279_A0.8011.00
67_N71_A0.8001.00
128_A298_S0.7941.00
43_N46_K0.7931.00
249_G301_Y0.7881.00
132_L298_S0.7871.00
175_I183_I0.7871.00
23_P81_D0.7811.00
200_M230_A0.7801.00
57_K80_V0.7781.00
101_K123_M0.7771.00
141_L245_G0.7761.00
140_W300_L0.7731.00
99_E102_D0.7701.00
155_L218_A0.7691.00
44_V48_E0.7691.00
204_I234_A0.7671.00
154_E217_Y0.7651.00
269_T296_T0.7621.00
127_T295_L0.7611.00
57_K78_Q0.7601.00
246_S265_S0.7561.00
29_S71_A0.7501.00
175_I181_I0.7491.00
47_S274_G0.7491.00
212_N236_L0.7481.00
96_V99_E0.7471.00
140_W263_N0.7431.00
166_D170_G0.7431.00
248_D268_L0.7401.00
27_G83_I0.7381.00
302_L306_A0.7371.00
31_V38_R0.7351.00
200_M203_F0.7341.00
82_A108_F0.7321.00
253_I262_A0.7301.00
129_D297_K0.7231.00
125_T293_L0.7191.00
22_A81_D0.7161.00
62_Q67_N0.7131.00
135_K170_G0.7131.00
231_I238_P0.7121.00
84_F110_L0.7111.00
256_A261_E0.7111.00
46_K56_L0.7101.00
98_K101_K0.7081.00
100_A107_V0.7001.00
202_S205_K0.6991.00
76_V103_A0.6971.00
191_F219_H0.6971.00
229_Q261_E0.6941.00
136_L266_V0.6891.00
26_V277_F0.6871.00
220_N248_D0.6831.00
22_A285_K0.6811.00
164_A191_F0.6791.00
66_E70_K0.6761.00
221_D224_V0.6731.00
109_L114_I0.6631.00
225_I252_D0.6621.00
69_I96_V0.6601.00
111_D163_V0.6591.00
82_A276_A0.6591.00
282_K286_D0.6591.00
144_E243_L0.6591.00
217_Y245_G0.6581.00
154_E171_F0.6561.00
183_I187_Q0.6551.00
225_I258_M0.6551.00
249_G253_I0.6541.00
117_K122_Y0.6511.00
229_Q233_E0.6501.00
189_G195_K0.6491.00
206_A211_K0.6471.00
72_V83_I0.6461.00
171_F183_I0.6451.00
157_G164_A0.6451.00
35_S222_D0.6441.00
76_V105_I0.6371.00
108_F283_Y0.6361.00
142_V175_I0.6351.00
40_A270_P0.6341.00
44_V270_P0.6331.00
152_V214_C0.6301.00
221_D250_V0.6291.00
193_R252_D0.6271.00
23_P55_T0.6261.00
187_Q206_A0.6251.00
200_M226_G0.6251.00
220_N223_M0.6231.00
263_N306_A0.6221.00
109_L125_T0.6221.00
111_D130_N0.6191.00
228_I232_K0.6181.00
206_A212_N0.6171.00
196_G199_V0.6171.00
261_E303_P0.6141.00
253_I265_S0.6131.00
141_L217_Y0.6121.00
217_Y247_I0.6111.00
70_K74_S0.6101.00
127_T293_L0.6091.00
26_V284_K0.6041.00
41_E270_P0.6031.00
83_I105_I0.6021.00
101_K107_V0.6021.00
16_S20_L0.6021.00
54_I81_D0.6001.00
229_Q259_D0.6001.00
109_L123_M0.5981.00
108_F280_L0.5971.00
231_I234_A0.5961.00
65_Q69_I0.5941.00
46_K60_D0.5911.00
224_V262_A0.5891.00
229_Q256_A0.5861.00
232_K237_K0.5861.00
206_A213_I0.5861.00
117_K123_M0.5841.00
151_N187_Q0.5831.00
26_V82_A0.5831.00
37_W41_E0.5831.00
203_F207_E0.5821.00
101_K122_Y0.5811.00
130_N163_V0.5801.00
49_A54_I0.5801.00
218_A246_S0.5801.00
38_R86_A0.5801.00
136_L140_W0.5781.00
124_T292_K0.5771.00
214_C243_L0.5761.00
26_V54_I0.5751.00
247_I268_L0.5751.00
71_A74_S0.5721.00
178_A181_I0.5691.00
164_A219_H0.5661.00
113_S125_T0.5651.00
193_R226_G0.5651.00
108_F126_V0.5611.00
95_P98_K0.5591.00
99_E103_A0.5571.00
167_R268_L0.5521.00
108_F279_A0.5521.00
130_N166_D0.5501.00
199_V203_F0.5481.00
225_I250_V0.5471.00
137_I215_M0.5471.00
279_A283_Y0.5471.00
59_A74_S0.5461.00
127_T130_N0.5461.00
140_W245_G0.5451.00
76_V79_G0.5451.00
197_K226_G0.5441.00
135_K138_G0.5441.00
272_M296_T0.5441.00
111_D272_M0.5421.00
258_M261_E0.5391.00
283_Y286_D0.5371.00
151_N213_I0.5331.00
108_F276_A0.5321.00
116_V122_Y0.5321.00
17_S20_L0.5321.00
194_S197_K0.5301.00
238_P241_D0.5291.00
69_I99_E0.5241.00
54_I284_K0.5241.00
253_I256_A0.5231.00
49_A281_E0.5221.00
152_V171_F0.5211.00
107_V123_M0.5211.00
161_A164_A0.5201.00
221_D253_I0.5201.00
43_N62_Q0.5201.00
215_M243_L0.5191.00
151_N207_E0.5181.00
197_K200_M0.5171.00
191_F223_M0.5171.00
227_A231_I0.5151.00
213_I216_V0.5141.00
275_P282_K0.5111.00
25_T80_V0.5101.00
155_L199_V0.5081.00
36_G222_D0.5081.00
233_E259_D0.5081.00
144_E148_K0.5071.00
25_T81_D0.5061.00
148_K180_N0.5051.00
189_G196_G0.5031.00
74_S77_A0.5031.00
73_R76_V0.5031.00
23_P54_I0.5031.00
95_P99_E0.5001.00
75_F80_V0.5001.00
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  
3huuA 2 0.8333 100 0.132 Contact Map
2hsgA 1 0.9057 100 0.14 Contact Map
2iksA 2 0.8616 100 0.143 Contact Map
4o5aA 2 0.8428 100 0.152 Contact Map
1qpzA 2 0.9403 100 0.152 Contact Map
3dbiA 2 0.8616 100 0.153 Contact Map
3e3mA 2 0.8333 100 0.153 Contact Map
3h5oA 2 0.8396 100 0.154 Contact Map
2o20A 2 0.8553 100 0.156 Contact Map
3bilA 2 0.805 100 0.156 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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