GREMLIN Database
YHBU - Uncharacterized protease YhbU
UniProt: P45527 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12790
Length: 331 (292)
Sequences: 3724 (2302)
Seq/√Len: 134.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_L292_I3.8131.00
289_R293_D3.6061.00
114_V135_V3.4311.00
100_L135_V3.3601.00
55_H90_D3.1231.00
17_I59_R3.1131.00
5_C285_A3.0241.00
92_L110_I2.7951.00
153_A267_A2.6521.00
63_I84_A2.6511.00
77_W99_M2.6451.00
150_K154_R2.6101.00
130_H157_P2.6011.00
26_I61_L2.5811.00
321_T324_G2.5721.00
13_L50_A2.5631.00
43_T46_K2.5131.00
17_I53_F2.4421.00
54_V61_L2.4001.00
153_A160_L2.3581.00
126_I138_V2.3371.00
44_E83_M2.3341.00
256_E309_M2.2911.00
261_L269_V2.2221.00
63_I89_A2.2201.00
51_V89_A2.1901.00
18_E53_F2.1811.00
81_V103_A2.1151.00
14_K53_F2.0741.00
111_E136_A2.0701.00
48_Q52_S2.0251.00
254_T257_L1.9091.00
19_N282_S1.9071.00
162_V261_L1.8771.00
258_L295_C1.8661.00
286_K290_Q1.8611.00
9_N12_A1.8451.00
137_R159_P1.8381.00
262_M292_I1.8301.00
10_L49_E1.8081.00
28_L80_A1.7941.00
31_D76_R1.7521.00
140_L149_V1.7301.00
26_I47_L1.7181.00
255_L291_A1.6991.00
123_E155_V1.6871.00
298_D301_N1.6601.00
52_S56_Q1.6581.00
10_L14_K1.6491.00
114_V118_A1.6471.00
65_I81_V1.6461.00
51_V87_L1.6261.00
10_L50_A1.6151.00
259_P263_A1.5601.00
150_K263_A1.5481.00
151_Q155_V1.5351.00
101_E105_E1.5321.00
323_L327_H1.5281.00
127_N130_H1.5261.00
53_F57_H1.5171.00
205_P246_L1.5061.00
51_V61_L1.5011.00
17_I57_H1.4991.00
14_K49_E1.4931.00
85_A109_H1.4921.00
4_L268_S1.4911.00
128_F133_F1.4891.00
49_E52_S1.4801.00
16_A281_V1.4471.00
54_V59_R1.4441.00
27_G33_N1.4411.00
84_A89_A1.4391.00
306_S310_E1.4311.00
260_E326_Y1.4211.00
262_M269_V1.4171.00
9_N40_L1.4121.00
162_V266_I1.3891.00
120_A125_A1.3861.00
271_I285_A1.3831.00
130_H158_V1.3821.00
82_D106_R1.3761.00
91_A113_H1.3701.00
283_Q315_M1.3701.00
18_E57_H1.3681.00
165_F288_W1.3591.00
22_D59_R1.3461.00
257_L260_E1.3381.00
3_L289_R1.3381.00
146_I264_A1.3301.00
262_M295_C1.3121.00
48_Q87_L1.3121.00
17_I54_V1.3111.00
144_L152_L1.3071.00
13_L54_V1.3011.00
255_L287_V1.2941.00
103_A112_R1.2841.00
83_M87_L1.2821.00
32_T76_R1.2701.00
82_D107_Y1.2671.00
147_H150_K1.2551.00
14_K18_E1.2461.00
311_T314_S1.2311.00
65_I77_W1.2311.00
257_L323_L1.2191.00
287_V312_L1.2161.00
78_Q102_Y1.2091.00
262_M296_K1.2061.00
120_A129_Y1.2051.00
150_K260_E1.2001.00
5_C271_I1.1991.00
71_P123_E1.1991.00
126_I158_V1.1951.00
290_Q308_W1.1931.00
324_G327_H1.1870.99
13_L24_V1.1850.99
140_L162_V1.1800.99
253_N309_M1.1780.99
12_A278_P1.1700.99
294_R308_W1.1690.99
73_G189_T1.1630.99
102_Y106_R1.1480.99
196_A203_Q1.1470.99
55_H61_L1.1380.99
85_A110_I1.1340.99
79_R82_D1.1310.99
140_L160_L1.1150.99
124_E127_N1.1140.99
149_V264_A1.0860.99
4_L23_A1.0860.99
62_H91_A1.0840.99
77_W81_V1.0820.99
127_N132_H1.0810.99
112_R135_V1.0770.99
287_V308_W1.0670.99
94_L100_L1.0640.99
26_I63_I1.0590.99
149_V162_V1.0590.99
126_I152_L1.0480.99
258_L292_I1.0390.99
94_L99_M1.0360.99
50_A61_L1.0230.98
299_P302_F1.0160.98
94_L112_R1.0160.98
26_I42_F1.0130.98
146_I254_T1.0110.98
130_H156_T1.0070.98
153_A156_T1.0030.98
127_N155_V1.0000.98
310_E314_S0.9960.98
140_L152_L0.9880.98
114_V129_Y0.9880.98
284_V312_L0.9810.98
97_L129_Y0.9780.98
294_R299_P0.9700.98
36_H192_A0.9680.98
100_L112_R0.9630.98
193_C199_V0.9610.98
144_L148_Q0.9600.98
295_C299_P0.9600.98
145_S148_Q0.9570.98
48_Q83_M0.9540.98
259_P295_C0.9530.98
253_N256_E0.9530.98
78_Q99_M0.9500.97
45_K48_Q0.9460.97
118_A129_Y0.9450.97
103_A110_I0.9450.97
100_L114_V0.9440.97
164_A269_V0.9420.97
11_P278_P0.9360.97
94_L103_A0.9320.97
123_E151_Q0.9200.97
161_E270_K0.9180.97
111_E159_P0.9170.97
114_V120_A0.9160.97
3_L284_V0.9110.97
81_V107_Y0.9090.97
309_M313_G0.9060.97
120_A126_I0.9040.97
143_V166_G0.9030.97
78_Q105_E0.9020.97
78_Q82_D0.9000.97
269_V292_I0.8990.97
83_M86_Q0.8970.96
82_D86_Q0.8970.96
97_L128_F0.8960.96
69_A77_W0.8950.96
178_L182_L0.8940.96
2_E60_K0.8930.96
176_C193_C0.8930.96
51_V55_H0.8840.96
29_K43_T0.8790.96
126_I160_L0.8760.96
48_Q86_Q0.8670.96
15_A19_N0.8620.96
260_E263_A0.8610.96
286_K311_T0.8580.95
151_Q154_R0.8580.95
78_Q106_R0.8540.95
160_L266_I0.8540.95
92_L103_A0.8530.95
164_A254_T0.8520.95
292_I295_C0.8490.95
183_T194_S0.8430.95
259_P262_M0.8420.95
19_N285_A0.8400.95
23_A268_S0.8400.95
37_F192_A0.8390.95
38_A41_N0.8380.95
103_A107_Y0.8300.95
81_V99_M0.8250.94
292_I296_K0.8200.94
159_P267_A0.8160.94
294_R297_A0.8160.94
65_I80_A0.8140.94
310_E313_G0.8140.94
136_A159_P0.8110.94
68_F95_A0.8110.94
65_I99_M0.8040.94
23_A62_H0.8040.94
74_Y102_Y0.8030.94
80_A84_A0.8010.93
119_S175_R0.7990.93
121_T141_P0.7970.93
282_S286_K0.7910.93
257_L322_T0.7900.93
263_A295_C0.7850.93
294_R298_D0.7790.92
143_V173_E0.7780.92
104_A132_H0.7780.92
153_A157_P0.7760.92
49_E53_F0.7740.92
317_E321_T0.7720.92
70_H180_S0.7660.92
162_V264_A0.7640.92
119_S141_P0.7620.92
18_E282_S0.7580.91
93_I139_V0.7570.91
240_G243_Y0.7530.91
2_E23_A0.7530.91
78_Q107_Y0.7510.91
137_R268_S0.7480.91
270_K273_G0.7470.91
82_D102_Y0.7470.91
264_A269_V0.7430.91
192_A196_A0.7410.91
180_S186_S0.7410.91
281_V285_A0.7410.91
84_A87_L0.7370.90
70_H148_Q0.7350.90
17_I61_L0.7290.90
121_T175_R0.7270.90
321_T327_H0.7270.90
185_E194_S0.7250.90
15_A278_P0.7240.89
125_A129_Y0.7240.89
75_A78_Q0.7220.89
168_L252_L0.7150.89
253_N288_W0.7150.89
162_V254_T0.7100.89
7_A13_L0.7070.88
254_T261_L0.7060.88
44_E47_L0.7000.88
300_Q303_V0.6990.88
16_A24_V0.6970.88
323_L326_Y0.6920.87
257_L326_Y0.6910.87
263_A299_P0.6890.87
206_Q236_Y0.6870.87
176_C199_V0.6840.87
254_T324_G0.6840.87
15_A282_S0.6830.87
85_A108_P0.6800.86
256_E323_L0.6790.86
254_T326_Y0.6790.86
153_A266_I0.6730.86
15_A18_E0.6720.86
307_A310_E0.6690.85
127_N157_P0.6680.85
44_E48_Q0.6650.85
291_A308_W0.6640.85
162_V325_A0.6620.85
25_Y161_E0.6620.85
85_A106_R0.6590.85
261_L264_A0.6590.85
186_S189_T0.6590.85
34_A67_T0.6580.84
170_I321_T0.6570.84
46_K49_E0.6540.84
115_S270_K0.6520.84
28_L47_L0.6470.84
66_N270_K0.6460.83
85_A107_Y0.6450.83
13_L42_F0.6440.83
162_V269_V0.6440.83
85_A103_A0.6420.83
92_L112_R0.6420.83
239_D243_Y0.6410.83
94_L98_A0.6400.83
6_P270_K0.6400.83
244_H247_E0.6400.83
276_R280_Y0.6390.83
33_N36_H0.6370.83
316_S319_T0.6340.82
79_R83_M0.6310.82
2_E268_S0.6290.82
142_R163_F0.6290.82
290_Q294_R0.6250.81
37_F275_Q0.6230.81
287_V290_Q0.6230.81
104_A112_R0.6220.81
116_V141_P0.6210.81
33_N64_A0.6210.81
257_L327_H0.6180.81
75_A79_R0.6170.81
12_A15_A0.6170.81
256_E259_P0.6140.80
295_C302_F0.6120.80
313_G319_T0.6110.80
289_R292_I0.6090.80
13_L53_F0.6060.79
41_N275_Q0.6040.79
287_V311_T0.6040.79
29_K46_K0.6030.79
148_Q151_Q0.6020.79
144_L149_V0.6000.79
3_L293_D0.6000.79
19_N286_K0.5990.79
81_V102_Y0.5980.78
301_N304_P0.5980.78
165_F251_S0.5960.78
116_V276_R0.5960.78
141_P144_L0.5910.78
204_T207_G0.5900.78
23_A137_R0.5880.77
100_L133_F0.5850.77
47_L87_L0.5850.77
167_S195_P0.5830.77
321_T325_A0.5820.77
153_A264_A0.5810.76
105_E127_N0.5810.76
169_C270_K0.5800.76
254_T325_A0.5790.76
205_P208_L0.5760.76
123_E127_N0.5750.76
138_V156_T0.5740.76
29_K41_N0.5730.75
291_A294_R0.5720.75
50_A53_F0.5700.75
3_L288_W0.5700.75
82_D85_A0.5690.75
270_K274_R0.5660.75
303_V306_S0.5650.74
304_P309_M0.5640.74
297_A301_N0.5640.74
167_S251_S0.5630.74
51_V54_V0.5630.74
50_A54_V0.5620.74
163_F270_K0.5610.74
105_E132_H0.5610.74
66_N169_C0.5600.74
6_P274_R0.5600.74
303_V307_A0.5600.74
60_K111_E0.5600.74
150_K264_A0.5590.74
260_E327_H0.5590.74
199_V203_Q0.5590.74
258_L262_M0.5590.74
70_H170_I0.5580.74
166_G173_E0.5560.73
25_Y93_I0.5560.73
302_F306_S0.5550.73
107_Y110_I0.5540.73
239_D244_H0.5530.73
120_A141_P0.5520.73
123_E152_L0.5510.73
193_C200_R0.5500.72
43_T49_E0.5490.72
10_L13_L0.5490.72
89_A110_I0.5480.72
267_A296_K0.5480.72
37_F187_P0.5460.72
69_A99_M0.5450.72
284_V287_V0.5410.71
146_I261_L0.5410.71
115_S176_C0.5400.71
277_S315_M0.5380.71
178_L246_L0.5370.71
117_Q188_N0.5360.71
142_R169_C0.5350.70
170_I249_P0.5350.70
104_A136_A0.5340.70
169_C273_G0.5330.70
47_L63_I0.5330.70
66_N93_I0.5320.70
117_Q142_R0.5320.70
304_P308_W0.5320.70
5_C281_V0.5300.70
76_R79_R0.5290.70
259_P264_A0.5270.69
23_A60_K0.5270.69
321_T326_Y0.5260.69
139_V161_E0.5250.69
201_W245_A0.5230.69
206_Q209_E0.5230.69
154_R297_A0.5220.69
147_H260_E0.5220.69
271_I284_V0.5210.68
45_K49_E0.5210.68
19_N279_A0.5210.68
24_V61_L0.5210.68
313_G317_E0.5200.68
84_A92_L0.5200.68
165_F253_N0.5190.68
115_S163_F0.5190.68
164_A271_I0.5180.68
251_S318_G0.5180.68
173_E248_E0.5180.68
66_N115_S0.5170.68
38_A275_Q0.5160.68
165_F284_V0.5160.68
322_T326_Y0.5160.68
122_N125_A0.5140.67
138_V158_V0.5140.67
13_L17_I0.5130.67
33_N67_T0.5120.67
178_L196_A0.5120.67
148_Q208_L0.5100.67
117_Q169_C0.5100.67
195_P203_Q0.5080.67
153_A265_N0.5080.67
129_Y135_V0.5070.66
123_E156_T0.5060.66
252_L322_T0.5060.66
259_P298_D0.5040.66
307_A311_T0.5030.66
62_H288_W0.5020.66
93_I164_A0.5000.65
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  
2bdqA 2 0.5589 98.1 0.886 Contact Map
3f4wA 2 0.429 96.3 0.915 Contact Map
2ftpA 3 0.574 96.3 0.915 Contact Map
1h5yA 1 0.4381 96.3 0.916 Contact Map
4u28A 1 0.4048 96.3 0.916 Contact Map
3iwpA 3 0.6888 96.1 0.917 Contact Map
3iixA 1 0.5166 96.1 0.917 Contact Map
3tsmA 2 0.3958 95.9 0.919 Contact Map
1wa3A 3 0.4109 95.9 0.919 Contact Map
2y88A 1 0.4169 95.9 0.919 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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