GREMLIN Database
YPHD - Probable ABC transporter permease protein YphD
UniProt: P77315 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13465
Length: 332 (268)
Sequences: 31181 (19643)
Seq/√Len: 1199.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
112_L232_L3.9361.00
116_A228_T3.6001.00
116_A232_L3.0481.00
93_C114_L2.9281.00
120_T228_T2.8601.00
209_A223_R2.7861.00
97_L110_L2.6051.00
71_T281_T2.5551.00
64_G182_M2.5331.00
202_V226_I2.4711.00
218_N221_R2.4431.00
128_V220_R2.4251.00
115_G235_A2.3671.00
119_G231_G2.3271.00
192_I198_F2.2211.00
221_R225_L2.2201.00
122_A140_L2.2151.00
190_V194_R2.2081.00
191_F195_K2.1741.00
120_T224_I2.1631.00
259_D292_G2.1501.00
201_S222_V2.0781.00
198_F225_L2.0621.00
188_L192_I2.0361.00
124_V128_V2.0211.00
103_P106_V1.9591.00
112_L236_V1.9521.00
66_A260_V1.9301.00
88_A148_G1.9271.00
94_L111_V1.9131.00
105_A109_L1.9111.00
115_G231_G1.8811.00
187_A191_F1.8701.00
60_A289_T1.8091.00
205_V222_V1.7761.00
108_C239_I1.7361.00
94_L239_I1.7351.00
67_A281_T1.7111.00
73_I230_S1.7081.00
142_S145_R1.6911.00
204_A212_A1.6871.00
123_G224_I1.6591.00
72_L189_F1.6551.00
60_A286_L1.6091.00
170_G173_L1.6031.00
197_A201_S1.5951.00
166_D169_G1.5601.00
118_M144_L1.5371.00
75_I203_F1.5281.00
64_G285_V1.5081.00
259_D309_R1.5031.00
89_F118_M1.4731.00
198_F202_V1.4701.00
96_F151_M1.4661.00
112_L239_I1.4601.00
267_G280_G1.4591.00
210_T213_Q1.4471.00
186_F282_L1.4231.00
85_P145_R1.4211.00
140_L144_L1.4191.00
209_A213_Q1.4161.00
66_A87_V1.4091.00
128_V224_I1.4051.00
87_V241_L1.3941.00
277_S280_G1.3731.00
201_S217_I1.3531.00
225_L228_T1.3521.00
96_F99_Q1.3491.00
201_S212_A1.3491.00
102_V106_V1.3451.00
72_L226_I1.3401.00
76_S226_I1.3371.00
69_A233_L1.3211.00
106_V109_L1.3161.00
163_E166_D1.3141.00
65_I237_T1.2901.00
65_I240_L1.2851.00
97_L102_V1.2801.00
224_I228_T1.2761.00
267_G284_G1.2731.00
212_A217_I1.2671.00
217_I222_V1.2671.00
111_V115_G1.2611.00
164_V168_L1.2531.00
68_W189_F1.2511.00
124_V224_I1.2511.00
52_N293_N1.2441.00
78_E133_S1.2441.00
205_V219_V1.2431.00
70_M260_V1.2331.00
102_V110_L1.2291.00
64_G282_L1.2211.00
127_G220_R1.2201.00
83_V234_A1.2111.00
205_V212_A1.1981.00
97_L100_F1.1931.00
70_M264_V1.1911.00
228_T232_L1.1831.00
56_V289_T1.1831.00
78_E227_F1.1751.00
293_N296_V1.1731.00
93_C97_L1.1671.00
109_L113_L1.1601.00
67_A263_A1.1431.00
78_E223_R1.1421.00
113_L116_A1.1381.00
56_V290_L1.1311.00
107_A111_V1.1221.00
194_R203_F1.1181.00
171_Q174_G1.1061.00
180_L184_V1.1061.00
69_A83_V1.1051.00
225_L229_L1.1021.00
94_L243_A1.0981.00
75_I276_G1.0981.00
86_M118_M1.0891.00
173_L180_L1.0871.00
164_V167_W1.0861.00
67_A264_V1.0851.00
85_P144_L1.0851.00
185_L233_L1.0801.00
60_A285_V1.0781.00
213_Q220_R1.0761.00
190_V195_K1.0661.00
127_G137_T1.0571.00
96_F152_T1.0571.00
231_G235_A1.0551.00
125_L136_A1.0441.00
304_F307_V1.0411.00
187_A190_V1.0381.00
117_L120_T1.0321.00
116_A235_A1.0201.00
92_V148_G1.0181.00
263_A284_G1.0151.00
165_L168_L1.0141.00
122_A136_A1.0121.00
189_F229_L1.0081.00
256_L259_D1.0021.00
92_V250_A1.0021.00
229_L233_L0.9951.00
111_V239_I0.9941.00
202_V222_V0.9921.00
213_Q219_V0.9911.00
177_V180_L0.9891.00
222_V225_L0.9881.00
71_T264_V0.9851.00
145_R149_L0.9811.00
186_F233_L0.9771.00
164_V169_G0.9771.00
66_A237_T0.9751.00
238_G242_A0.9701.00
279_F283_L0.9701.00
198_F222_V0.9691.00
124_V129_F0.9661.00
184_V188_L0.9621.00
84_G257_E0.9611.00
80_D83_V0.9541.00
292_G309_R0.9541.00
109_L112_L0.9531.00
71_T276_G0.9431.00
221_R224_I0.9391.00
294_G298_L0.9351.00
141_W145_R0.9341.00
61_A179_A0.9301.00
54_M58_R0.9301.00
74_I264_V0.9191.00
263_A285_V0.9171.00
62_T237_T0.9141.00
97_L107_A0.9101.00
76_S202_V0.9061.00
89_F93_C0.9061.00
306_Q309_R0.9051.00
230_S234_A0.9041.00
85_P141_W0.9031.00
92_V152_T0.9021.00
91_S242_A0.9011.00
166_D170_G0.8991.00
182_M186_F0.8961.00
67_A285_V0.8941.00
70_M83_V0.8941.00
211_A215_C0.8921.00
169_G172_F0.8871.00
113_L117_L0.8841.00
126_R136_A0.8831.00
64_G186_F0.8821.00
288_I309_R0.8781.00
84_G255_G0.8771.00
87_V253_A0.8751.00
125_L129_F0.8741.00
178_S240_L0.8731.00
130_N209_A0.8711.00
75_I194_R0.8661.00
73_I80_D0.8601.00
112_L235_A0.8571.00
277_S281_T0.8531.00
183_I187_A0.8521.00
150_F304_F0.8481.00
200_R203_F0.8471.00
86_M234_A0.8451.00
51_N54_M0.8441.00
96_F100_F0.8411.00
275_R279_F0.8401.00
87_V256_L0.8381.00
157_V160_D0.8361.00
72_L229_L0.8351.00
162_N166_D0.8311.00
205_V226_I0.8311.00
255_G259_D0.8301.00
68_W185_L0.8261.00
208_N211_A0.8251.00
295_L308_V0.8251.00
59_D63_I0.8231.00
315_V319_A0.8211.00
193_S202_V0.8181.00
234_A238_G0.8161.00
90_V111_V0.8161.00
123_G127_G0.8131.00
106_V110_L0.8121.00
281_T285_V0.8101.00
190_V279_F0.8101.00
219_V223_R0.8081.00
68_W281_T0.8081.00
90_V115_G0.8031.00
121_L125_L0.8021.00
165_L169_G0.8011.00
123_G128_V0.7961.00
120_T124_V0.7931.00
86_M115_G0.7921.00
93_C96_F0.7901.00
91_S248_G0.7891.00
220_R223_R0.7871.00
90_V238_G0.7851.00
65_I182_M0.7831.00
205_V223_R0.7821.00
66_A83_V0.7811.00
251_G254_N0.7771.00
112_L116_A0.7771.00
53_Q294_G0.7771.00
72_L193_S0.7721.00
156_P159_I0.7701.00
177_V181_I0.7691.00
95_A248_G0.7681.00
293_N297_L0.7671.00
91_S252_A0.7571.00
220_R224_I0.7571.00
156_P160_D0.7541.00
117_L121_L0.7531.00
286_L290_L0.7491.00
232_L235_A0.7481.00
155_L158_P0.7481.00
66_A69_A0.7461.00
55_N59_D0.7451.00
146_G149_L0.7391.00
209_A219_V0.7381.00
192_I195_K0.7311.00
232_L236_V0.7281.00
81_V261_I0.7241.00
69_A234_A0.7211.00
87_V237_T0.7201.00
201_S218_N0.7201.00
65_I185_L0.7191.00
170_G174_G0.7171.00
188_L191_F0.7131.00
89_F115_G0.7101.00
74_I261_I0.7091.00
100_F103_P0.7071.00
63_I259_D0.7071.00
179_A183_I0.7061.00
311_V315_V0.7051.00
145_R257_E0.7041.00
60_A64_G0.7011.00
133_S227_F0.7001.00
90_V114_L0.6941.00
94_L107_A0.6881.00
61_A182_M0.6881.00
63_I263_A0.6831.00
57_L61_A0.6821.00
86_M122_A0.6801.00
303_F306_Q0.6791.00
172_F180_L0.6771.00
143_A147_M0.6751.00
127_G224_I0.6741.00
78_E209_A0.6701.00
119_G228_T0.6701.00
71_T75_I0.6691.00
86_M90_V0.6691.00
71_T278_L0.6671.00
292_G305_Q0.6601.00
86_M231_G0.6601.00
285_V289_T0.6591.00
73_I227_F0.6581.00
162_N167_W0.6571.00
235_A239_I0.6571.00
191_F194_R0.6561.00
115_G119_G0.6451.00
86_M144_L0.6441.00
198_F229_L0.6431.00
108_C112_L0.6421.00
89_F144_L0.6421.00
56_V293_N0.6401.00
162_N165_L0.6391.00
192_I225_L0.6371.00
241_L245_L0.6341.00
76_S205_V0.6321.00
186_F190_V0.6311.00
189_F233_L0.6281.00
229_L232_L0.6281.00
126_R133_S0.6271.00
168_L171_Q0.6251.00
82_S122_A0.6221.00
189_F193_S0.6211.00
192_I196_T0.6211.00
69_A73_I0.6181.00
55_N293_N0.6161.00
93_C110_L0.6151.00
267_G281_T0.6131.00
116_A119_G0.6091.00
72_L192_I0.6071.00
63_I285_V0.6061.00
164_V171_Q0.6061.00
138_L142_S0.6051.00
219_V222_V0.6041.00
50_L53_Q0.6031.00
94_L238_G0.6031.00
184_V187_A0.6031.00
52_N297_L0.6011.00
130_N220_R0.6011.00
76_S223_R0.6001.00
302_S305_Q0.5991.00
262_A313_I0.5981.00
56_V60_A0.5961.00
102_V105_A0.5961.00
145_R254_N0.5961.00
90_V234_A0.5941.00
102_V107_A0.5931.00
62_T244_R0.5921.00
112_L115_G0.5901.00
185_L236_V0.5871.00
212_A219_V0.5861.00
80_D230_S0.5851.00
223_R226_I0.5801.00
104_L243_A0.5771.00
210_T214_L0.5751.00
97_L114_L0.5741.00
86_M119_G0.5731.00
142_S146_G0.5721.00
295_L300_I0.5701.00
158_P161_E0.5701.00
266_V284_G0.5691.00
58_R179_A0.5691.00
168_L172_F0.5681.00
89_F114_L0.5681.00
88_A253_A0.5671.00
263_A281_T0.5671.00
62_T241_L0.5651.00
254_N257_E0.5641.00
263_A288_I0.5631.00
126_R227_F0.5621.00
141_W257_E0.5611.00
53_Q57_L0.5611.00
116_A231_G0.5611.00
58_R244_R0.5601.00
241_L256_L0.5581.00
57_L60_A0.5571.00
190_V277_S0.5551.00
175_V243_A0.5491.00
249_N252_A0.5491.00
93_C111_V0.5461.00
266_V316_A0.5451.00
228_T231_G0.5441.00
280_G284_G0.5411.00
138_L141_W0.5401.00
53_Q56_V0.5391.00
52_N55_N0.5371.00
309_R313_I0.5291.00
231_G234_A0.5291.00
259_D306_Q0.5281.00
97_L101_E0.5271.00
83_V230_S0.5261.00
59_D293_N0.5261.00
98_L107_A0.5261.00
63_I256_L0.5251.00
194_R197_A0.5241.00
203_F276_G0.5241.00
181_I236_V0.5231.00
166_D171_Q0.5221.00
68_W186_F0.5211.00
309_R317_V0.5191.00
156_P161_E0.5181.00
93_C115_G0.5161.00
68_W190_V0.5131.00
148_G151_M0.5131.00
305_Q309_R0.5131.00
137_T141_W0.5131.00
258_F262_A0.5111.00
203_F206_G0.5101.00
264_V281_T0.5101.00
181_I185_L0.5091.00
64_G68_W0.5091.00
155_L160_D0.5081.00
61_A65_I0.5001.00
284_G287_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  
4g1uA 2 0.7892 96.8 0.886 Contact Map
2qi9A 2 0.8705 96.6 0.889 Contact Map
2nq2A 2 0.8193 96.4 0.89 Contact Map
3d31C 2 0.6958 79.8 0.928 Contact Map
2onkC 2 0.7078 76.8 0.929 Contact Map
1u7gA 3 0.5633 38 0.945 Contact Map
2gfpA 2 0.5422 33.5 0.947 Contact Map
2rddB 1 0.0934 33.2 0.947 Contact Map
2ks1B 1 0.1325 29.6 0.948 Contact Map
2jwaA 2 0.1325 25.7 0.95 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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