GREMLIN Database
YPIA - TPR repeat-containing protein YpiA
UniProt: P54389 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 423 (355)
Sequences: 9538 (8438)
Seq/√Len: 447.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
253_M256_E5.1771.00
355_Q358_E4.6731.00
287_K290_E4.6121.00
219_L222_T4.5961.00
321_D324_Q4.5631.00
150_A153_K4.1911.00
186_E189_D4.1561.00
82_E85_K3.9591.00
389_L392_E3.8261.00
116_L119_V3.7101.00
245_S261_A3.3341.00
211_G227_L2.9001.00
279_A295_L2.7251.00
178_A194_Y2.5121.00
275_F294_L2.4201.00
313_L329_I2.3991.00
343_N362_S2.3971.00
194_Y209_G2.3591.00
278_A294_L2.3141.00
381_A397_L2.2731.00
174_H193_W2.2201.00
48_D51_K2.2051.00
347_A363_F2.1951.00
108_A124_L2.1431.00
142_G158_F2.1191.00
380_Y384_L2.0811.00
262_K278_A2.0781.00
309_L328_L2.0581.00
228_S244_L2.0531.00
241_Y260_T2.0481.00
248_Y256_E1.9721.00
107_M111_Y1.9611.00
227_L243_P1.9591.00
295_L311_T1.9061.00
195_E210_Y1.8991.00
210_Y226_Q1.8941.00
292_K296_Q1.8941.00
73_Y77_L1.8691.00
330_Q346_L1.8571.00
282_A290_E1.8561.00
296_Q312_L1.8551.00
329_I345_Y1.8331.00
214_A222_T1.8091.00
312_L316_Y1.8031.00
261_A277_Y1.8031.00
326_I330_Q1.8021.00
248_Y260_T1.7971.00
214_A226_Q1.7441.00
159_K177_L1.7371.00
278_A282_A1.7321.00
207_I226_Q1.7271.00
282_A294_L1.7001.00
138_D157_Y1.6941.00
74_A90_L1.6871.00
258_L285_I1.6791.00
298_A308_A1.6701.00
210_Y214_A1.6551.00
258_L282_A1.6291.00
350_Y358_E1.6021.00
258_L262_K1.6011.00
224_I228_S1.5991.00
224_I251_E1.5761.00
292_K312_L1.5711.00
346_L350_Y1.5641.00
158_F176_R1.5621.00
264_G274_L1.5541.00
350_Y355_Q1.5541.00
224_I247_S1.5511.00
177_L181_L1.5461.00
346_L362_S1.5381.00
292_K316_Y1.5301.00
141_L145_Y1.5261.00
248_Y253_M1.5191.00
244_L248_Y1.5181.00
326_I350_Y1.5171.00
258_L281_M1.5111.00
224_I244_L1.4971.00
292_K319_E1.4891.00
145_Y157_Y1.4761.00
208_F243_P1.4721.00
77_L85_K1.4511.00
363_F379_E1.4501.00
316_Y321_D1.4211.00
224_I248_Y1.4001.00
181_L189_D1.3921.00
326_I353_L1.3811.00
121_E125_F1.3801.00
360_K364_E1.3801.00
255_E285_I1.3741.00
364_E380_Y1.3641.00
377_L396_L1.3551.00
347_A366_A1.3501.00
191_I217_A1.3441.00
244_L260_T1.3281.00
214_A219_L1.3221.00
272_K298_A1.3181.00
299_L309_L1.3151.00
145_Y153_K1.3111.00
350_Y362_S1.3101.00
258_L278_A1.3091.00
312_L328_L1.3051.00
111_Y123_K1.3011.00
384_L392_E1.2981.00
181_L193_W1.2891.00
280_K295_L1.2881.00
241_Y264_G1.2741.00
360_K384_L1.2671.00
344_W348_S1.2651.00
191_I195_E1.2441.00
221_K251_E1.2301.00
191_I210_Y1.2231.00
326_I349_A1.2221.00
292_K315_V1.2201.00
155_V159_K1.2131.00
178_A190_A1.2071.00
316_Y328_L1.1961.00
297_E300_A1.1901.00
155_V181_L1.1861.00
191_I214_A1.1821.00
242_M277_Y1.1811.00
90_L106_L1.1801.00
181_L186_E1.1761.00
275_F297_E1.1741.00
360_K383_F1.1731.00
211_G223_A1.1681.00
299_L308_A1.1631.00
121_E145_Y1.1591.00
316_Y324_Q1.1581.00
279_A298_A1.1561.00
197_A206_T1.1551.00
230_L240_L1.1511.00
241_Y263_E1.1481.00
332_V342_Y1.1431.00
323_D353_L1.1401.00
351_T363_F1.1391.00
378_Y382_S1.1381.00
302_D305_F1.1371.00
333_R343_N1.1341.00
282_A287_K1.1291.00
104_L123_K1.1261.00
53_I57_S1.1261.00
256_E259_K1.1251.00
276_L311_T1.1231.00
343_N365_A1.1101.00
174_H196_K1.1071.00
268_D271_N1.1051.00
188_E217_A1.1041.00
317_H329_I1.1011.00
175_Q209_G1.0991.00
178_A197_A1.0921.00
77_L89_V1.0841.00
313_L332_V1.0831.00
77_L82_E1.0801.00
358_E361_Q1.0731.00
245_S264_G1.0701.00
108_A127_A1.0691.00
211_G230_L1.0651.00
177_L193_W1.0651.00
43_Y51_K1.0641.00
314_A345_Y1.0601.00
207_I229_D1.0491.00
348_S379_E1.0351.00
220_V247_S1.0321.00
111_Y119_V1.0281.00
331_E334_S1.0221.00
74_A93_I1.0221.00
155_V177_L1.0171.00
124_L140_A1.0141.00
191_I213_T1.0131.00
171_V197_A1.0121.00
336_G339_D1.0111.00
222_T225_K1.0071.00
296_Q316_Y1.0061.00
290_E293_K1.0051.00
326_I346_L1.0011.00
145_Y150_A0.9951.00
215_L247_S0.9911.00
394_L398_K0.9881.00
126_Q130_I0.9871.00
138_D160_T0.9771.00
384_L396_L0.9771.00
310_H345_Y0.9751.00
105_L109_D0.9721.00
373_D376_F0.9721.00
108_A120_S0.9691.00
234_D237_Y0.9661.00
231_K240_L0.9661.00
155_V184_S0.9651.00
384_L389_L0.9651.00
279_A294_L0.9631.00
111_Y116_L0.9631.00
125_F141_L0.9621.00
56_I72_F0.9541.00
70_T89_V0.9491.00
313_L325_I0.9461.00
142_G161_T0.9451.00
360_K380_Y0.9441.00
152_A184_S0.9401.00
246_K277_Y0.9381.00
344_W379_E0.9371.00
348_S363_F0.9331.00
87_L91_E0.9331.00
276_L280_K0.9281.00
91_E107_M0.9251.00
322_Y349_A0.9201.00
351_T383_F0.9201.00
380_Y396_L0.9191.00
71_N74_A0.9181.00
343_N369_H0.9101.00
198_V210_Y0.9071.00
360_K387_E0.9031.00
362_S365_A0.9021.00
153_K156_Q0.9001.00
127_A137_I0.8951.00
279_A291_G0.8901.00
180_S184_S0.8891.00
283_L295_L0.8881.00
288_S315_V0.8871.00
331_E335_Y0.8861.00
187_F213_T0.8811.00
238_T264_G0.8811.00
309_L331_E0.8711.00
366_A376_F0.8651.00
142_G154_A0.8621.00
249_E261_A0.8621.00
265_I274_L0.8541.00
208_F212_F0.8541.00
231_K241_Y0.8511.00
365_A368_L0.8491.00
254_Y281_M0.8471.00
190_A213_T0.8431.00
42_L45_E0.8401.00
383_F387_E0.8391.00
349_A353_L0.8361.00
119_V122_Q0.8341.00
348_S351_T0.8301.00
74_A86_A0.8291.00
110_L114_Q0.8241.00
310_H314_A0.8241.00
330_Q358_E0.8231.00
245_S260_T0.8221.00
229_D232_E0.8201.00
175_Q206_T0.8181.00
333_R346_L0.8151.00
283_L311_T0.8131.00
363_F383_F0.8131.00
265_I275_F0.8121.00
57_S73_Y0.8111.00
263_E266_R0.8031.00
106_L109_D0.8031.00
72_F75_E0.8011.00
358_E362_S0.7991.00
324_Q327_D0.7981.00
213_T217_A0.7981.00
207_I233_L0.7981.00
207_I230_L0.7971.00
127_A131_L0.7911.00
128_K138_D0.7911.00
59_L63_Y0.7911.00
179_E209_G0.7901.00
309_L332_V0.7881.00
159_K189_D0.7871.00
385_L397_L0.7861.00
313_L345_Y0.7821.00
276_L308_A0.7811.00
121_E148_Q0.7801.00
376_F379_E0.7771.00
322_Y326_I0.7771.00
298_A301_L0.7741.00
182_S194_Y0.7741.00
246_K261_A0.7721.00
59_L69_L0.7711.00
139_F143_E0.7711.00
256_E260_T0.7691.00
230_L233_L0.7691.00
292_K321_D0.7661.00
315_V319_E0.7651.00
226_Q229_D0.7651.00
53_I80_I0.7641.00
392_E395_P0.7631.00
361_Q365_A0.7621.00
226_Q230_L0.7611.00
297_E301_L0.7591.00
223_A247_S0.7591.00
224_I253_M0.7551.00
198_V207_I0.7551.00
317_H345_Y0.7541.00
247_S251_E0.7511.00
283_L315_V0.7501.00
228_S248_Y0.7501.00
280_K311_T0.7481.00
275_F298_A0.7481.00
198_V206_T0.7471.00
293_K297_E0.7461.00
87_L114_Q0.7451.00
228_S256_E0.7441.00
245_S257_A0.7441.00
262_K282_A0.7441.00
87_L107_M0.7441.00
294_L297_E0.7421.00
201_N204_P0.7421.00
225_K229_D0.7411.00
317_H349_A0.7391.00
121_E141_L0.7371.00
215_L227_L0.7341.00
85_K88_A0.7341.00
161_T164_E0.7271.00
50_E53_I0.7241.00
179_E194_Y0.7231.00
135_P161_T0.7221.00
78_I86_A0.7191.00
87_L111_Y0.7191.00
310_H342_Y0.7181.00
159_K163_E0.7171.00
306_V332_V0.7101.00
343_N366_A0.7091.00
102_E106_L0.7081.00
83_E86_A0.7061.00
162_A174_H0.7061.00
249_E281_M0.7051.00
155_V180_S0.7031.00
178_A193_W0.7031.00
365_A369_H0.7021.00
311_T314_A0.6991.00
379_E382_S0.6981.00
242_M264_G0.6981.00
211_G226_Q0.6961.00
215_L250_A0.6961.00
238_T268_D0.6941.00
296_Q324_Q0.6931.00
357_E387_E0.6921.00
192_P196_K0.6921.00
55_L59_L0.6891.00
104_L130_I0.6881.00
89_V92_T0.6881.00
322_Y353_L0.6881.00
364_E392_E0.6881.00
332_V335_Y0.6871.00
345_Y348_S0.6871.00
51_K57_S0.6851.00
381_A393_A0.6851.00
146_F158_F0.6831.00
237_Y240_L0.6831.00
112_Q140_A0.6821.00
275_F301_L0.6811.00
157_Y161_T0.6801.00
104_L126_Q0.6791.00
254_Y258_L0.6781.00
89_V93_I0.6771.00
249_E254_Y0.6761.00
162_A177_L0.6721.00
138_D164_E0.6711.00
160_T164_E0.6661.00
179_E183_A0.6641.00
261_A281_M0.6631.00
51_K54_S0.6621.00
193_W197_A0.6601.00
340_P366_A0.6601.00
262_K290_E0.6551.00
351_T356_Y0.6551.00
328_L331_E0.6531.00
360_K363_F0.6531.00
328_L332_V0.6511.00
193_W196_K0.6511.00
347_A362_S0.6501.00
333_R342_Y0.6460.99
277_Y311_T0.6460.99
123_K127_A0.6450.99
347_A359_A0.6450.99
189_D192_P0.6420.99
347_A383_F0.6420.99
282_A285_I0.6420.99
241_Y275_F0.6410.99
212_F243_P0.6400.99
70_T93_I0.6390.99
283_L288_S0.6350.99
330_Q350_Y0.6350.99
309_L335_Y0.6330.99
367_Y376_F0.6300.99
195_E214_A0.6290.99
71_N75_E0.6270.99
174_H197_A0.6200.99
43_Y48_D0.6190.99
392_E396_L0.6190.99
317_H352_E0.6190.99
78_I83_E0.6180.99
125_F129_S0.6170.99
42_L46_W0.6160.99
144_L148_Q0.6150.99
360_K389_L0.6150.99
326_I355_Q0.6140.99
260_T263_E0.6140.99
143_E147_A0.6140.99
105_L108_A0.6140.99
229_D233_L0.6120.99
262_K266_R0.6080.99
201_N206_T0.6060.99
305_F308_A0.6060.99
351_T379_E0.6060.99
212_F215_L0.6050.99
87_L110_L0.6050.99
156_Q160_T0.6040.99
196_K199_D0.6020.99
288_S319_E0.6000.99
366_A369_H0.6000.99
363_F380_Y0.5990.99
53_I76_L0.5980.99
220_V251_E0.5970.99
195_E222_T0.5960.99
44_Y49_V0.5960.99
227_L244_L0.5960.99
152_A156_Q0.5950.99
126_Q129_S0.5930.99
364_E384_L0.5930.99
197_A200_E0.5920.99
348_S352_E0.5910.99
367_Y371_R0.5900.99
246_K249_E0.5900.99
329_I346_L0.5900.99
385_L390_Q0.5890.99
131_L134_E0.5890.99
364_E368_L0.5870.99
53_I73_Y0.5860.99
374_R381_A0.5860.99
182_S213_T0.5860.99
281_M285_I0.5850.99
299_L312_L0.5850.99
308_A311_T0.5850.99
191_I219_L0.5840.99
276_L298_A0.5840.99
376_F380_Y0.5830.99
139_F176_R0.5830.99
128_K131_L0.5800.99
140_A143_E0.5780.99
70_T73_Y0.5770.99
296_Q300_A0.5770.99
104_L111_Y0.5760.99
380_Y383_F0.5740.99
295_L315_V0.5720.99
313_L346_L0.5710.99
97_D100_Y0.5710.99
57_S61_D0.5710.99
220_V224_I0.5700.99
76_L80_I0.5700.99
317_H322_Y0.5700.99
242_M246_K0.5680.99
263_E267_Y0.5670.99
77_L80_I0.5650.99
101_P127_A0.5650.99
94_P98_P0.5650.99
67_T74_A0.5640.99
289_E319_E0.5630.99
75_E79_D0.5610.99
56_I60_H0.5600.99
215_L220_V0.5580.99
43_Y55_L0.5570.99
237_Y271_N0.5560.99
367_Y380_Y0.5550.98
63_Y66_E0.5530.98
317_H348_S0.5520.98
60_H63_Y0.5510.98
160_T163_E0.5510.98
46_W50_E0.5500.98
92_T95_E0.5500.98
122_Q126_Q0.5500.98
118_E148_Q0.5490.98
189_D193_W0.5490.98
175_Q179_E0.5480.98
151_Y184_S0.5470.98
370_Y373_D0.5470.98
261_A265_I0.5460.98
70_T92_T0.5450.98
257_A281_M0.5440.98
146_F151_Y0.5430.98
322_Y352_E0.5420.98
182_S209_G0.5400.98
377_L381_A0.5380.98
330_Q334_S0.5370.98
182_S187_F0.5370.98
290_E294_L0.5360.98
271_N274_L0.5350.98
291_G295_L0.5340.98
314_A348_S0.5330.98
58_D62_L0.5320.98
265_I278_A0.5310.98
109_D140_A0.5310.98
181_L184_S0.5300.98
260_T264_G0.5300.98
309_L316_Y0.5300.98
59_L62_L0.5290.98
154_A180_S0.5280.98
161_T173_V0.5270.98
102_E105_L0.5270.98
310_H329_I0.5250.98
53_I56_I0.5240.98
344_W376_F0.5230.98
88_A91_E0.5230.98
87_L90_L0.5230.98
170_G174_H0.5230.98
326_I329_I0.5220.98
356_Y360_K0.5220.98
176_R179_E0.5210.98
139_F173_V0.5210.98
55_L58_D0.5210.98
382_S386_E0.5200.98
277_Y281_M0.5200.98
243_P277_Y0.5190.98
378_Y381_A0.5190.98
167_E170_G0.5170.98
302_D308_A0.5160.98
192_P195_E0.5160.98
249_E277_Y0.5160.98
222_T226_Q0.5160.98
196_K200_E0.5160.98
194_Y210_Y0.5150.98
272_K305_F0.5130.97
50_E57_S0.5120.97
314_A318_K0.5100.97
351_T386_E0.5100.97
91_E94_P0.5090.97
227_L247_S0.5090.97
381_A396_L0.5090.97
271_N275_F0.5070.97
107_M110_L0.5060.97
157_Y160_T0.5050.97
194_Y206_T0.5050.97
390_Q393_A0.5050.97
329_I349_A0.5020.97
241_Y267_Y0.5020.97
143_E176_R0.5010.97
359_A363_F0.5000.97
52_A56_I0.5000.97
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  
1w3bA 2 0.9149 100 0.143 Contact Map
4ui9J 2 0.9882 100 0.168 Contact Map
4ui9C 2 0.9858 100 0.184 Contact Map
2xpiA 2 0.9811 100 0.19 Contact Map
4ui9X 2 0.9764 100 0.195 Contact Map
4rg9A 2 0.8534 100 0.201 Contact Map
4kvmA 3 1 100 0.23 Contact Map
4bujB 1 0.9929 100 0.242 Contact Map
2gw1A 2 0.9858 100 0.256 Contact Map
3fp2A 1 0.9149 100 0.257 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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