GREMLIN Database
YDCA - Putative rhomboid protease YdcA
UniProt: P96617 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 199 (178)
Sequences: 6384 (4878)
Seq/√Len: 365.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_I105_G5.9341.00
104_S131_G5.4121.00
107_I183_G4.0021.00
57_E60_R3.5951.00
64_P109_N3.5231.00
105_G128_A3.3211.00
69_A123_V3.2051.00
112_T173_N3.0421.00
26_A74_L2.7111.00
71_F75_L2.7021.00
18_V97_F2.6561.00
111_G179_F2.5321.00
134_G181_L2.4481.00
22_L78_S2.4391.00
25_Q101_Y2.4211.00
112_T122_H2.4161.00
122_H173_N2.0691.00
22_L82_F2.0531.00
25_Q78_S1.9761.00
138_F185_F1.8921.00
100_V104_S1.7621.00
17_V98_L1.7251.00
49_Y52_G1.7151.00
79_M83_L1.7141.00
100_V135_V1.6761.00
17_V94_K1.6581.00
41_L45_T1.6561.00
156_I160_A1.6411.00
76_F80_S1.6281.00
101_Y128_A1.6201.00
47_T121_V1.5991.00
108_G127_G1.5531.00
135_V188_S1.5281.00
22_L25_Q1.4951.00
62_I106_I1.4221.00
64_P122_H1.4211.00
138_F188_S1.3991.00
21_I25_Q1.3951.00
157_T160_A1.3811.00
127_G176_A1.3701.00
81_I129_I1.3291.00
86_P90_R1.3171.00
18_V89_E1.2701.00
45_T49_Y1.2571.00
164_L168_I1.2191.00
92_L100_V1.2141.00
99_L103_G1.2101.00
43_R47_T1.2101.00
183_G187_L1.1961.00
175_M179_F1.1841.00
108_G179_F1.1771.00
81_I85_A1.1641.00
16_P94_K1.1621.00
65_I128_A1.1531.00
48_G53_V1.1511.00
75_L79_M1.1411.00
104_S183_G1.1391.00
19_T23_A1.1261.00
53_V56_G1.1181.00
29_W74_L1.1141.00
59_W63_T1.0981.00
22_L26_A1.0911.00
61_L113_Y1.0911.00
61_L109_N1.0851.00
20_F24_L1.0831.00
68_H73_H1.0771.00
101_Y125_A1.0621.00
173_N176_A1.0601.00
80_S129_I1.0591.00
41_L44_D1.0341.00
115_T175_M1.0331.00
166_S174_M1.0211.00
40_V44_D1.0191.00
29_W32_F1.0131.00
78_S81_I1.0001.00
77_N126_S0.9991.00
16_P19_T0.9981.00
70_G123_V0.9931.00
150_E153_K0.9861.00
137_L155_I0.9831.00
65_I106_I0.9831.00
30_L34_L0.9751.00
46_V49_Y0.9581.00
65_I109_N0.9581.00
23_A27_V0.9521.00
80_S83_L0.9511.00
67_L123_V0.9371.00
130_F162_A0.9361.00
58_W62_I0.9311.00
107_I111_G0.9251.00
109_N122_H0.9241.00
159_L181_L0.9201.00
138_F189_F0.9181.00
25_Q66_L0.9131.00
136_Y151_H0.9091.00
187_L191_C0.9021.00
29_W33_S0.9001.00
185_F189_F0.8991.00
141_L145_E0.8981.00
158_L162_A0.8971.00
72_T75_L0.8971.00
66_L102_A0.8951.00
26_A78_S0.8941.00
55_N58_W0.8861.00
14_L19_T0.8791.00
130_F158_L0.8641.00
21_I81_I0.8631.00
134_G185_F0.8621.00
109_N127_G0.8571.00
97_F101_Y0.8511.00
48_G109_N0.8491.00
21_I101_Y0.8481.00
134_G188_S0.8471.00
159_L178_L0.8471.00
108_G131_G0.8451.00
62_I65_I0.8401.00
47_T123_V0.8391.00
103_G183_G0.8361.00
51_L55_N0.8341.00
116_E119_D0.8301.00
107_I179_F0.8271.00
25_Q32_F0.8231.00
189_F192_V0.8231.00
91_M140_V0.8171.00
77_N177_H0.8131.00
28_L32_F0.8091.00
111_G115_T0.8071.00
27_V31_F0.8061.00
65_I101_Y0.7981.00
162_A174_M0.7971.00
61_L106_I0.7961.00
58_W61_L0.7941.00
126_S177_H0.7931.00
48_G113_Y0.7901.00
102_A106_I0.7891.00
28_L67_L0.7891.00
88_L92_L0.7871.00
62_I66_L0.7851.00
98_L102_A0.7851.00
16_P20_F0.7831.00
111_G175_M0.7821.00
106_I110_I0.7791.00
85_A89_E0.7781.00
41_L47_T0.7761.00
185_F188_S0.7711.00
88_L135_V0.7711.00
89_E94_K0.7611.00
100_V188_S0.7571.00
103_G187_L0.7561.00
21_I98_L0.7531.00
25_Q29_W0.7491.00
125_A128_A0.7471.00
20_F23_A0.7391.00
50_N53_V0.7391.00
73_H126_S0.7361.00
41_L49_Y0.7351.00
92_L139_M0.7321.00
72_T76_F0.7311.00
54_A113_Y0.7311.00
60_R63_T0.7311.00
17_V97_F0.7261.00
153_K157_T0.7251.00
26_A30_L0.7221.00
90_R94_K0.7221.00
15_Y19_T0.7191.00
45_T48_G0.7120.99
103_G107_I0.7000.99
42_W46_V0.6970.99
87_A90_R0.6960.99
73_H177_H0.6920.99
157_T161_F0.6890.99
17_V20_F0.6840.99
42_W48_G0.6840.99
95_A99_L0.6800.99
19_T22_L0.6780.99
106_I109_N0.6780.99
45_T52_G0.6780.99
89_E93_G0.6730.99
47_T51_L0.6670.99
141_L149_Q0.6660.99
47_T50_N0.6660.99
104_S108_G0.6620.99
179_F183_G0.6600.99
160_A164_L0.6600.99
161_F165_M0.6560.99
29_W70_G0.6560.99
108_G111_G0.6540.99
101_Y132_L0.6410.99
162_A165_M0.6400.99
49_Y53_V0.6400.99
100_V187_L0.6390.99
62_I102_A0.6380.99
152_S156_I0.6380.99
19_T82_F0.6300.99
163_V178_L0.6280.99
77_N125_A0.6270.99
73_H77_N0.6250.99
74_L78_S0.6240.99
61_L64_P0.6210.99
46_V67_L0.6150.98
144_N150_E0.6120.98
22_L81_I0.6090.98
82_F141_L0.6080.98
78_S101_Y0.6060.98
53_V113_Y0.6030.98
104_S188_S0.5960.98
186_L189_F0.5950.98
154_M158_L0.5940.98
24_L28_L0.5930.98
81_I101_Y0.5910.98
44_D47_T0.5880.98
52_G56_G0.5860.98
142_F152_S0.5850.98
154_M157_T0.5850.98
105_G108_G0.5810.98
25_Q28_L0.5800.98
87_A136_Y0.5790.98
33_S36_A0.5750.98
92_L97_F0.5750.98
64_P127_G0.5750.98
178_L182_C0.5740.98
112_T116_E0.5730.98
36_A39_V0.5710.98
103_G108_G0.5680.97
26_A29_W0.5630.97
157_T164_L0.5620.97
80_S84_F0.5620.97
26_A71_F0.5610.97
32_F67_L0.5600.97
56_G60_R0.5600.97
112_T175_M0.5540.97
147_I150_E0.5530.97
186_L190_L0.5520.97
84_F132_L0.5500.97
93_G96_R0.5480.97
101_Y105_G0.5470.97
36_A41_L0.5470.97
76_F83_L0.5460.97
154_M162_A0.5450.97
96_R99_L0.5450.97
46_V53_V0.5440.97
162_A166_S0.5440.97
122_H175_M0.5420.97
154_M165_M0.5410.97
35_P38_S0.5400.97
147_I152_S0.5400.97
139_M188_S0.5400.97
127_G177_H0.5340.96
32_F45_T0.5320.96
102_A105_G0.5320.96
54_A58_W0.5300.96
72_T79_M0.5290.96
107_I131_G0.5290.96
100_V191_C0.5240.96
135_V139_M0.5240.96
80_S133_F0.5220.96
92_L135_V0.5200.96
53_V58_W0.5190.96
84_F136_Y0.5190.96
122_H176_A0.5190.96
86_P94_K0.5180.96
50_N113_Y0.5090.95
41_L52_G0.5090.95
99_L187_L0.5080.95
68_H77_N0.5030.95
29_W71_F0.5000.95
38_S41_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  
2nr9A 2 0.9347 100 0.262 Contact Map
4njnA 4 0.8995 100 0.269 Contact Map
2xovA 1 0.8945 100 0.301 Contact Map
3giaA 1 0.9196 33.1 0.927 Contact Map
3l1lA 2 0.9246 19.9 0.934 Contact Map
4tphA 2 0.8492 14.7 0.938 Contact Map
4pypA 1 0.8693 13.8 0.939 Contact Map
2wswA 3 0.9598 12.1 0.941 Contact Map
2kluA 1 0.1508 11.1 0.941 Contact Map
1pw4A 1 0.8995 8.4 0.945 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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