GREMLIN Database
YRAA - Putative cysteine protease YraA
UniProt: O06006 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 169 (161)
Sequences: 14653 (9824)
Seq/√Len: 774.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_K31_S2.6921.00
6_A65_F2.6571.00
163_E166_N2.5531.00
6_A35_I2.5181.00
144_V167_L2.4591.00
33_V65_F2.4311.00
118_K146_H2.4261.00
119_D138_K2.3481.00
118_K145_S2.2261.00
115_L120_I2.1921.00
33_V55_K2.1061.00
4_K33_V2.1021.00
119_D140_A1.9511.00
144_V163_E1.9151.00
24_A165_L1.8981.00
116_K136_N1.8581.00
42_E52_K1.8401.00
28_A165_L1.7981.00
93_V147_N1.7721.00
127_R131_I1.7641.00
118_K148_I1.7341.00
22_V26_E1.7161.00
119_D136_N1.7121.00
92_F97_K1.5901.00
93_V99_V1.5751.00
119_D145_S1.5671.00
37_L82_D1.5611.00
144_V149_V1.4981.00
56_A59_D1.4921.00
141_E159_A1.4901.00
15_D19_T1.4851.00
13_F45_G1.4831.00
67_A98_P1.4731.00
129_D133_A1.4661.00
44_T50_K1.4601.00
101_A150_T1.4551.00
36_D39_A1.4251.00
7_V69_L1.4031.00
88_F92_F1.3861.00
58_S84_R1.3841.00
87_E91_A1.3821.00
42_E50_K1.3771.00
7_V22_V1.3711.00
130_L139_D1.3691.00
100_F164_S1.3581.00
86_G90_K1.3571.00
98_P167_L1.3501.00
101_A109_L1.3461.00
129_D132_N1.3421.00
151_S156_D1.3411.00
118_K147_N1.3291.00
111_D133_A1.2921.00
100_F160_F1.2891.00
149_V167_L1.2881.00
120_I137_Y1.2821.00
83_D87_E1.2631.00
91_A95_N1.2571.00
93_V114_L1.2551.00
93_V148_I1.2391.00
55_K59_D1.2271.00
87_E90_K1.2211.00
25_Y161_N1.2071.00
130_L135_A1.2041.00
144_V147_N1.2031.00
5_I67_A1.1941.00
13_F18_Y1.1851.00
50_K54_D1.1821.00
9_V34_A1.1771.00
86_G112_T1.1761.00
84_R87_E1.1761.00
11_D44_T1.1751.00
23_K27_E1.1741.00
96_K147_N1.1601.00
18_Y34_A1.1421.00
16_I20_S1.1381.00
96_K99_V1.1351.00
81_A111_D1.1321.00
20_S158_E1.1141.00
39_A56_A1.1071.00
113_D116_K1.0961.00
22_V34_A1.0801.00
107_Q129_D1.0681.00
104_H126_I1.0661.00
127_R139_D1.0611.00
9_V18_Y1.0551.00
110_I137_Y1.0531.00
119_D143_V1.0501.00
15_D49_E1.0431.00
163_E167_L1.0421.00
8_L85_P1.0371.00
149_V160_F1.0261.00
20_S23_K1.0241.00
66_D97_K1.0171.00
91_A94_E1.0131.00
69_L160_F1.0101.00
20_S161_N1.0041.00
123_Y153_T0.9821.00
30_Y165_L0.9761.00
93_V96_K0.9761.00
62_A91_A0.9621.00
90_K94_E0.9591.00
35_I55_K0.9541.00
37_L84_R0.9451.00
142_V163_E0.9391.00
128_K132_N0.9381.00
30_Y67_A0.9371.00
151_S160_F0.9321.00
13_F51_V0.9301.00
21_P157_L0.9071.00
24_A161_N0.8991.00
7_V32_V0.8921.00
98_P147_N0.8921.00
70_I89_A0.8881.00
101_A106_P0.8871.00
98_P149_V0.8861.00
149_V164_S0.8851.00
62_A88_F0.8831.00
92_F95_N0.8831.00
23_K26_E0.8811.00
5_I30_Y0.8761.00
80_R111_D0.8751.00
20_S157_L0.8501.00
70_I108_V0.8481.00
37_L57_I0.8481.00
69_L100_F0.8381.00
152_R156_D0.8331.00
106_P122_G0.8291.00
22_V32_V0.8281.00
130_L134_G0.8281.00
21_P69_L0.8241.00
70_I85_P0.8181.00
111_D134_G0.8171.00
126_I129_D0.8121.00
121_T143_V0.8111.00
9_V13_F0.8081.00
62_A65_F0.8081.00
13_F71_P0.7991.00
102_I157_L0.7991.00
141_E144_V0.7951.00
120_I135_A0.7861.00
158_E162_R0.7851.00
86_G111_D0.7781.00
11_D38_E0.7731.00
18_Y22_V0.7661.00
134_G137_Y0.7581.00
68_L92_F0.7571.00
124_R137_Y0.7571.00
149_V163_E0.7561.00
67_A164_S0.7531.00
25_Y164_S0.7441.00
116_K134_G0.7421.00
36_D53_I0.7411.00
65_F92_F0.7391.00
90_K112_T0.7371.00
88_F91_A0.7301.00
82_D85_P0.7301.00
67_A100_F0.7241.00
26_E32_V0.7231.00
70_I105_G0.7201.00
63_S91_A0.7151.00
122_G137_Y0.7021.00
15_D45_G0.6951.00
24_A162_R0.6951.00
89_A108_V0.6941.00
7_V18_Y0.6931.00
128_K131_I0.6831.00
109_L112_T0.6731.00
64_D95_N0.6721.00
135_A139_D0.6681.00
138_K141_E0.6671.00
159_A162_R0.6661.00
33_V54_D0.6651.00
101_A105_G0.6631.00
93_V118_K0.6611.00
86_G89_A0.6581.00
98_P164_S0.6571.00
42_E53_I0.6541.00
81_A86_G0.6511.00
83_D86_G0.6451.00
12_Q44_T0.6371.00
39_A53_I0.6351.00
25_Y30_Y0.6311.00
7_V21_P0.6301.00
141_E156_D0.6301.00
8_L35_I0.6231.00
117_G136_N0.6191.00
17_E154_P0.6191.00
142_V149_V0.6181.00
121_T137_Y0.6151.00
124_R153_T0.6141.00
157_L161_N0.6131.00
30_Y66_D0.6131.00
15_D47_H0.6101.00
5_I25_Y0.6011.00
6_A88_F0.5991.00
44_T48_G0.5991.00
89_A112_T0.5961.00
107_Q126_I0.5961.00
24_A27_E0.5941.00
14_E23_K0.5931.00
125_S128_K0.5911.00
110_I115_L0.5871.00
75_S79_L0.5791.00
86_G108_V0.5791.00
99_V148_I0.5771.00
140_A143_V0.5761.00
90_K114_L0.5731.00
122_G126_I0.5721.00
102_I160_F0.5641.00
40_G52_K0.5641.00
17_E72_G0.5631.00
78_L81_A0.5621.00
24_A28_A0.5591.00
100_F149_V0.5581.00
20_S24_A0.5581.00
110_I130_L0.5551.00
8_L68_L0.5521.00
120_I130_L0.5511.00
22_V49_E0.5481.00
36_D54_D0.5451.00
79_L82_D0.5441.00
99_V114_L0.5431.00
63_S95_N0.5401.00
18_Y71_P0.5401.00
39_A59_D0.5391.00
65_F68_L0.5361.00
24_A158_E0.5351.00
68_L88_F0.5261.00
62_A92_F0.5241.00
77_D81_A0.5231.00
89_A114_L0.5181.00
123_Y154_P0.5151.00
162_R166_N0.5141.00
69_L151_S0.5131.00
7_V25_Y0.5121.00
73_G108_V0.5111.00
16_I157_L0.5051.00
110_I135_A0.5051.00
77_D80_R0.5041.00
159_A163_E0.5011.00
127_R137_Y0.5001.00
35_I65_F0.5001.00
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  
1oi4A 2 1 100 0.156 Contact Map
3fseA 2 0.9882 100 0.162 Contact Map
3ewnA 2 0.9882 100 0.163 Contact Map
3noqA 2 0.9822 100 0.166 Contact Map
3mgkA 2 0.9763 100 0.175 Contact Map
3l18A 2 0.9882 100 0.175 Contact Map
2rk3A 2 0.9941 100 0.175 Contact Map
4e08A 2 0.9941 100 0.177 Contact Map
2vrnA 2 0.9941 100 0.179 Contact Map
4oggA 3 0.9882 100 0.183 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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