GREMLIN Database
PERR - Peroxide operon regulator
UniProt: P71086 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 145 (132)
Sequences: 7245 (4765)
Seq/√Len: 414.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
97_E126_S4.0241.00
98_N135_V3.6271.00
101_K138_E3.3121.00
124_K140_S3.1191.00
31_L72_V2.8191.00
125_V132_I2.3551.00
30_Y46_A2.2641.00
122_G137_Q2.1931.00
20_I25_H2.0981.00
67_R74_E2.0721.00
97_E133_Y2.0701.00
10_L25_H2.0491.00
97_E135_V1.9321.00
40_A63_L1.8771.00
99_C136_C1.8411.00
74_E82_S1.8371.00
45_K48_E1.8131.00
34_S46_A1.8061.00
44_Y56_V1.7941.00
67_R72_V1.7901.00
64_R74_E1.7751.00
11_E15_E1.7111.00
18_V69_S1.6811.00
94_A103_V1.6561.00
27_I62_N1.6541.00
126_S135_V1.6421.00
37_H85_D1.5911.00
99_C139_C1.5551.00
96_C99_C1.5421.00
29_E33_N1.5031.00
92_Y128_H1.4601.00
103_V123_F1.4591.00
116_L120_V1.4401.00
94_A123_F1.4291.00
30_Y43_I1.3801.00
44_Y48_E1.3771.00
136_C139_C1.3101.00
28_L66_F1.3081.00
12_T16_T1.2981.00
96_C136_C1.2941.00
39_T42_D1.2811.00
46_A49_G1.2801.00
23_Q58_T1.2741.00
123_F137_Q1.2691.00
26_A29_E1.2671.00
25_H29_E1.2271.00
30_Y47_L1.2231.00
26_A50_K1.2191.00
115_Q119_H1.1341.00
38_P83_R1.1251.00
90_D128_H1.1191.00
62_N65_V1.1141.00
37_H93_H1.1111.00
112_E116_L1.0991.00
65_V69_S1.0811.00
34_S38_P1.0721.00
124_K135_V1.0611.00
44_Y59_V1.0481.00
30_Y38_P1.0331.00
95_I100_G1.0311.00
38_P46_A1.0181.00
37_H104_D1.0061.00
12_T15_E0.9981.00
66_F71_L0.9971.00
36_A46_A0.9921.00
95_I133_Y0.9921.00
10_L14_K0.9811.00
95_I131_E0.9681.00
103_V121_T0.9581.00
137_Q141_K0.9551.00
123_F134_G0.9541.00
24_R65_V0.9531.00
91_H104_D0.9501.00
107_Y113_V0.9481.00
18_V65_V0.9381.00
94_A134_G0.9361.00
30_Y50_K0.9321.00
23_Q54_M0.9191.00
96_C139_C0.9081.00
45_K49_G0.9071.00
108_P128_H0.8961.00
107_Y110_L0.8951.00
41_D45_K0.8941.00
127_H133_Y0.8931.00
37_H91_H0.8871.00
122_G140_S0.8821.00
38_P43_I0.8781.00
135_V140_S0.8771.00
36_A42_D0.8761.00
37_H102_I0.8601.00
40_A59_V0.8601.00
31_L38_P0.8541.00
22_P26_A0.8491.00
64_R67_R0.8491.00
109_G112_E0.8461.00
48_E56_V0.8451.00
75_L104_D0.8331.00
26_A51_F0.8241.00
47_L54_M0.8221.00
100_G103_V0.8161.00
92_Y105_F0.8101.00
30_Y34_S0.8031.00
28_L71_L0.8031.00
114_E128_H0.8011.00
97_E127_H0.8011.00
118_A125_V0.8001.00
47_L51_F0.7921.00
92_Y114_E0.7851.00
64_R68_E0.7821.00
22_P25_H0.7791.00
24_R62_N0.7671.00
128_H132_I0.7661.00
29_E50_K0.7601.00
42_D45_K0.7591.00
94_A121_T0.7571.00
90_D111_D0.7511.00
92_Y130_L0.7291.00
71_L86_F0.7271.00
41_D81_S0.7271.00
14_K20_I0.7221.00
23_Q55_S0.7141.00
79_D83_R0.7101.00
110_L113_V0.7071.00
37_H55_S0.7021.00
63_L67_R0.7021.00
27_I43_I0.6951.00
13_L28_L0.6911.00
32_V86_F0.6901.00
33_N46_A0.6821.00
40_A56_V0.6811.00
41_D56_V0.6801.00
138_E141_K0.6731.00
39_T83_R0.6721.00
92_Y108_P0.6690.99
95_I102_I0.6630.99
128_H133_Y0.6610.99
75_L131_E0.6590.99
33_N50_K0.6560.99
37_H41_D0.6540.99
106_H109_G0.6510.99
110_L114_E0.6480.99
58_T62_N0.6450.99
116_L119_H0.6420.99
129_R133_Y0.6310.99
23_Q62_N0.6250.99
27_I30_Y0.6220.99
41_D44_Y0.6210.99
43_I59_V0.6210.99
18_V24_R0.6130.99
63_L72_V0.6020.99
31_L43_I0.6010.99
108_P132_I0.5990.99
10_L20_I0.5960.99
73_K129_R0.5960.99
73_K87_V0.5900.99
126_S134_G0.5880.99
137_Q140_S0.5880.99
35_M87_V0.5880.99
44_Y54_M0.5850.99
123_F140_S0.5850.99
43_I72_V0.5840.99
28_L32_V0.5810.99
109_G116_L0.5800.99
58_T61_N0.5740.98
31_L86_F0.5730.98
26_A47_L0.5720.98
26_A30_Y0.5690.98
114_E117_A0.5680.98
77_Y129_R0.5630.98
92_Y132_I0.5620.98
94_A117_A0.5610.98
13_L65_V0.5560.98
89_S106_H0.5550.98
13_L18_V0.5520.98
84_F104_D0.5490.98
11_E14_K0.5470.98
21_T25_H0.5450.98
112_E115_Q0.5390.98
107_Y120_V0.5390.98
40_A81_S0.5360.98
21_T58_T0.5320.97
106_H120_V0.5320.97
107_Y112_E0.5300.97
96_C123_F0.5250.97
16_T69_S0.5220.97
41_D74_E0.5210.97
83_R86_F0.5200.97
20_I28_L0.5190.97
30_Y33_N0.5190.97
13_L20_I0.5170.97
31_L39_T0.5160.97
103_V138_E0.5160.97
77_Y82_S0.5090.97
26_A54_M0.5090.97
98_N101_K0.5080.97
66_F72_V0.5060.97
47_L52_P0.5030.96
42_D46_A0.5000.96
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  
2fe3A 2 0.9862 100 0.088 Contact Map
2xigA 4 0.9931 100 0.132 Contact Map
4mtdA 2 1 100 0.136 Contact Map
4etsA 2 1 100 0.154 Contact Map
3eyyA 2 0.9103 100 0.157 Contact Map
3mwmA 2 0.8621 100 0.163 Contact Map
2w57A 2 0.8897 100 0.182 Contact Map
2o03A 2 0.8828 100 0.191 Contact Map
4lmyA 2 1 100 0.198 Contact Map
1mzbA 4 0.9034 100 0.218 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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