GREMLIN Database
YQJA - Uncharacterized protein YqjA
UniProt: P54538 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 322 (272)
Sequences: 7945 (6332)
Seq/√Len: 383.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_G138_M3.5621.00
275_K278_E3.1451.00
114_G117_T2.6241.00
267_L271_A2.4731.00
18_A134_V2.4351.00
165_A251_H2.3711.00
271_A275_K2.3461.00
204_H207_R2.3301.00
197_A203_N2.3191.00
204_H208_Y2.2261.00
106_I109_H2.1671.00
87_F91_T2.1321.00
58_A62_A2.0881.00
200_D203_N2.0611.00
109_H113_S2.0611.00
108_L112_M2.0601.00
10_K139_N2.0501.00
247_A251_H2.0271.00
219_R222_Q1.9711.00
106_I113_S1.9471.00
17_L134_V1.9221.00
269_R273_M1.8681.00
63_I67_Y1.8351.00
36_I128_I1.8181.00
101_V104_S1.7611.00
102_T105_V1.7571.00
274_R278_E1.7561.00
229_L232_K1.7551.00
122_W126_Q1.7511.00
88_I92_V1.7401.00
18_A37_T1.7261.00
187_H190_I1.7201.00
144_S147_R1.7031.00
240_V244_K1.6741.00
269_R276_E1.6401.00
182_E185_E1.6201.00
270_L273_M1.6071.00
12_A16_A1.6071.00
78_F82_A1.6021.00
220_E227_E1.5921.00
106_I111_Y1.5921.00
21_I25_L1.5821.00
272_D276_E1.5631.00
14_G37_T1.5271.00
227_E230_L1.5081.00
228_R232_K1.5011.00
109_H112_M1.5001.00
184_P187_H1.4911.00
251_H255_E1.4891.00
89_P92_V1.4881.00
21_I134_V1.4801.00
265_K269_R1.4801.00
239_T243_G1.4711.00
269_R274_R1.4661.00
119_T123_N1.4601.00
64_A68_L1.4591.00
270_L274_R1.4421.00
20_Y24_L1.4411.00
186_T189_L1.4341.00
129_T133_G1.4341.00
159_N162_V1.4341.00
221_K225_I1.4291.00
123_N126_Q1.4261.00
213_Y216_F1.4251.00
268_K272_D1.4211.00
269_R272_D1.4141.00
15_T38_I1.4101.00
55_R59_C1.4081.00
19_I34_G1.4021.00
267_L272_D1.4001.00
105_V113_S1.3991.00
86_I90_I1.3971.00
85_L89_P1.3881.00
188_Q192_E1.3841.00
59_C128_I1.3581.00
76_H79_V1.3541.00
267_L270_L1.3511.00
161_A254_R1.3441.00
267_L274_R1.3421.00
254_R258_H1.3411.00
224_E228_R1.3321.00
245_M248_E1.3071.00
255_E259_P1.3061.00
55_R58_A1.3051.00
199_R202_Q1.3021.00
159_N189_L1.3001.00
225_I229_L1.2801.00
55_R124_E1.2791.00
220_E224_E1.2711.00
52_S136_L1.2611.00
102_T106_I1.2531.00
273_M276_E1.2441.00
191_T194_K1.2351.00
8_T12_A1.2291.00
185_E189_L1.2281.00
240_V243_G1.2221.00
219_R223_F1.2211.00
82_A86_I1.2161.00
231_P235_S1.2161.00
265_K272_D1.2141.00
59_C124_E1.2091.00
191_T195_N1.2081.00
205_I209_E1.2071.00
122_W125_V1.2051.00
246_I250_I1.2031.00
220_E228_R1.2011.00
256_A260_G1.1951.00
105_V109_H1.1901.00
217_K220_E1.1901.00
183_I186_T1.1901.00
77_P80_I1.1881.00
159_N185_E1.1871.00
158_D258_H1.1861.00
161_A165_A1.1811.00
18_A22_S1.1781.00
267_L273_M1.1771.00
241_D245_M1.1761.00
268_K275_K1.1731.00
121_I125_V1.1691.00
18_A33_A1.1681.00
264_Y268_K1.1671.00
13_L138_M1.1591.00
225_I228_R1.1591.00
230_L233_V1.1581.00
197_A201_V1.1561.00
201_V205_I1.1531.00
162_V165_A1.1451.00
50_Q54_A1.1411.00
225_I231_P1.1381.00
77_P81_G1.1361.00
272_D275_K1.1351.00
192_E195_N1.1261.00
218_M221_K1.1191.00
266_F272_D1.1171.00
223_F227_E1.1161.00
265_K268_K1.1051.00
246_I249_F1.1051.00
41_I135_A1.0941.00
162_V166_E1.0931.00
276_E279_E1.0891.00
231_P234_T1.0851.00
108_L113_S1.0841.00
106_I110_L1.0831.00
255_E262_T1.0721.00
214_H218_M1.0671.00
103_S107_I1.0661.00
102_T110_L1.0651.00
265_K276_E1.0621.00
216_F224_E1.0601.00
198_Y201_V1.0591.00
251_H254_R1.0571.00
61_L64_A1.0561.00
198_Y202_Q1.0351.00
227_E234_T1.0291.00
267_L278_E1.0271.00
266_F274_R1.0271.00
227_E231_P1.0251.00
242_Q245_M1.0221.00
10_K138_M1.0221.00
270_L276_E1.0151.00
193_A200_D1.0101.00
274_R277_F1.0011.00
121_I124_E1.0001.00
44_T47_R0.9981.00
271_A274_R0.9961.00
194_K220_E0.9941.00
68_L72_L0.9931.00
15_T34_G0.9911.00
36_I39_L0.9851.00
104_S108_L0.9801.00
105_V110_L0.9771.00
101_V105_V0.9771.00
18_A34_G0.9741.00
118_P122_W0.9741.00
154_K161_A0.9741.00
102_T109_H0.9731.00
190_I194_K0.9731.00
215_Y219_R0.9671.00
199_R203_N0.9561.00
159_N182_E0.9511.00
100_I103_S0.9511.00
32_S59_C0.9491.00
124_E128_I0.9421.00
248_E252_D0.9301.00
83_L87_F0.9291.00
100_I104_S0.9271.00
62_A124_E0.9261.00
215_Y222_Q0.9251.00
105_V112_M0.9241.00
107_I110_L0.9221.00
110_L113_S0.9181.00
51_A124_E0.9131.00
22_S33_A0.9051.00
252_D256_A0.9041.00
213_Y220_E0.9011.00
105_V111_Y0.8981.00
250_I254_R0.8951.00
225_I233_V0.8951.00
197_A200_D0.8921.00
214_H219_R0.8921.00
266_F269_R0.8911.00
154_K158_D0.8861.00
151_A155_K0.8821.00
190_I193_A0.8791.00
205_I208_Y0.8791.00
264_Y273_M0.8771.00
56_F132_I0.8741.00
103_S109_H0.8741.00
14_G134_V0.8671.00
33_A37_T0.8671.00
104_S107_I0.8641.00
264_Y271_A0.8611.00
53_W57_S0.8601.00
124_E127_L0.8571.00
253_L257_I0.8551.00
31_A34_G0.8551.00
222_Q225_I0.8521.00
39_L42_Q0.8501.00
52_S55_R0.8491.00
231_P236_I0.8371.00
224_E229_L0.8371.00
105_V108_L0.8371.00
110_L121_I0.8291.00
103_S106_I0.8281.00
89_P93_L0.8261.00
216_F220_E0.8251.00
245_M249_F0.8151.00
59_C106_I0.8151.00
227_E232_K0.8141.00
202_Q205_I0.8131.00
193_A203_N0.8101.00
213_Y227_E0.8061.00
10_K141_Y0.8011.00
194_K203_N0.8011.00
129_T132_I0.8001.00
248_E251_H0.7991.00
239_T246_I0.7971.00
36_I40_C0.7961.00
200_D204_H0.7951.00
239_T245_M0.7941.00
44_T48_S0.7861.00
22_S127_L0.7831.00
235_S238_I0.7831.00
185_E188_Q0.7821.00
224_E233_V0.7811.00
166_E169_R0.7801.00
131_G135_A0.7751.00
194_K198_Y0.7711.00
266_F270_L0.7701.00
32_S55_R0.7651.00
15_T19_I0.7631.00
219_R232_K0.7621.00
232_K235_S0.7621.00
220_E223_F0.7601.00
55_R128_I0.7571.00
215_Y220_E0.7511.00
260_G263_A0.7511.00
268_K274_R0.7431.00
187_H191_T0.7431.00
150_I154_K0.7421.00
224_E227_E0.7391.00
265_K271_A0.7361.00
107_I111_Y0.7301.00
79_V82_A0.7301.00
134_V138_M0.7291.00
56_F129_T0.7261.00
239_T242_Q0.7231.00
197_A202_Q0.7231.00
249_F254_R0.7221.00
229_L233_V0.7181.00
66_S121_I0.7181.00
264_Y276_E0.7171.00
106_I124_E0.7161.00
249_F263_A0.7161.00
106_I112_M0.7151.00
215_Y226_I0.7131.00
63_I125_V0.7091.00
35_I39_L0.7071.00
69_F73_I0.7071.00
207_R210_N0.7011.00
98_E101_V0.6980.99
269_R277_F0.6940.99
242_Q247_A0.6930.99
225_I236_I0.6920.99
22_S30_F0.6910.99
17_L138_M0.6890.99
221_K236_I0.6880.99
51_A55_R0.6870.99
30_F33_A0.6860.99
189_L194_K0.6830.99
157_E160_F0.6820.99
216_F222_Q0.6800.99
266_F273_M0.6780.99
60_C125_V0.6740.99
221_K227_E0.6740.99
107_I113_S0.6730.99
225_I230_L0.6730.99
267_L276_E0.6700.99
52_S58_A0.6650.99
154_K254_R0.6620.99
256_A263_A0.6580.99
202_Q206_L0.6530.99
66_S69_F0.6510.99
215_Y221_K0.6490.99
247_A250_I0.6460.99
227_E233_V0.6460.99
103_S110_L0.6460.99
213_Y221_K0.6440.99
268_K271_A0.6430.99
32_S124_E0.6380.99
249_F252_D0.6380.99
186_T190_I0.6370.99
51_A98_E0.6350.99
258_H262_T0.6350.99
271_A279_E0.6340.99
14_G18_A0.6310.99
54_A57_S0.6310.99
265_K278_E0.6310.99
220_E226_I0.6310.99
55_R62_A0.6300.99
152_Y192_E0.6290.99
221_K224_E0.6240.99
100_I108_L0.6230.99
87_F90_I0.6210.99
101_V106_I0.6190.99
219_R226_I0.6180.99
275_K279_E0.6160.99
133_G137_L0.6110.99
222_Q228_R0.6100.99
241_D244_K0.6090.99
212_H215_Y0.6050.99
108_L111_Y0.6050.99
126_Q130_V0.6040.99
59_C66_S0.6030.99
273_M277_F0.6020.99
49_L52_S0.5990.98
40_C63_I0.5990.98
222_Q226_I0.5980.98
184_P188_Q0.5960.98
183_I187_H0.5960.98
240_V248_E0.5950.98
203_N207_R0.5950.98
186_T194_K0.5900.98
100_I105_V0.5830.98
229_L236_I0.5830.98
166_E182_E0.5820.98
22_S25_L0.5820.98
153_R156_I0.5820.98
92_V95_K0.5780.98
234_T237_S0.5770.98
205_I210_N0.5770.98
91_T96_I0.5750.98
225_I232_K0.5750.98
109_H124_E0.5750.98
135_A139_N0.5710.98
218_M229_L0.5700.98
239_T260_G0.5700.98
140_L143_P0.5680.98
40_C135_A0.5640.98
222_Q227_E0.5630.98
218_M226_I0.5620.98
67_Y71_E0.5610.98
16_A20_Y0.5600.98
33_A127_L0.5600.98
32_S127_L0.5580.98
181_K185_E0.5580.98
233_V237_S0.5550.97
38_I42_Q0.5540.97
267_L275_K0.5520.97
215_Y228_R0.5520.97
145_L199_R0.5510.97
248_E261_N0.5500.97
247_A253_L0.5480.97
226_I230_L0.5480.97
88_I91_T0.5470.97
173_T176_Q0.5390.97
227_E237_S0.5370.97
32_S128_I0.5370.97
171_L178_W0.5370.97
190_I203_N0.5360.97
102_T111_Y0.5310.97
84_L92_V0.5310.97
71_E74_G0.5310.97
200_D205_I0.5300.97
173_T177_D0.5290.97
247_A254_R0.5280.97
184_P191_T0.5280.97
211_L226_I0.5270.97
271_A276_E0.5240.96
193_A199_R0.5240.96
230_L237_S0.5230.96
145_L148_K0.5220.96
222_Q229_L0.5180.96
162_V182_E0.5140.96
264_Y269_R0.5140.96
81_G85_L0.5140.96
183_I203_N0.5130.96
11_T14_G0.5100.96
45_Q48_S0.5090.96
101_V112_M0.5070.96
214_H229_L0.5060.96
48_S128_I0.5060.96
257_I260_G0.5050.96
80_I87_F0.5040.96
155_K189_L0.5030.96
60_C64_A0.5030.96
243_G247_A0.5020.96
215_Y230_L0.5000.95
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  
3kmiA 2 0.5311 98.4 0.781 Contact Map
4jkvA 2 0.2609 56.1 0.915 Contact Map
3effK 4 0.4317 42.5 0.922 Contact Map
4n78F 1 0.3416 32.9 0.926 Contact Map
4k0jA 3 0.4503 31.6 0.927 Contact Map
2oltA 5 0.5652 30.2 0.928 Contact Map
4q4gX 1 0 28.5 0.929 Contact Map
2d4yA 1 0.3727 28.5 0.929 Contact Map
3ne5A 3 0.4689 23.9 0.931 Contact Map
4cgkA 3 0.5 19.2 0.934 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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