GREMLIN Database
AgrB - Accessory gene regulator B
PFAM: PF04647 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 183 (173)
Sequences: 3915 (3513)
Seq/√Len: 267.1
META: 0.746

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
39_I79_L5.7931.00
74_T77_R5.4251.00
73_K77_R3.6161.00
49_I52_E3.3641.00
44_G53_T3.0241.00
72_A81_I2.7901.00
67_A179_Q2.4731.00
139_K143_I2.4511.00
6_N20_R2.4491.00
49_I94_K2.4201.00
16_D19_D2.3551.00
32_S75_Y2.2901.00
126_D131_P2.2331.00
24_E28_E2.2331.00
9_I20_R2.1881.00
20_R24_E2.0141.00
49_I90_L2.0111.00
19_D22_I1.9821.00
167_A171_G1.9591.00
117_I121_L1.8561.00
59_S168_I1.8111.00
171_G175_V1.7051.00
40_I53_T1.6641.00
141_L144_L1.6211.00
5_A9_I1.6111.00
28_E75_Y1.6111.00
67_A145_S1.6021.00
141_L145_S1.5941.00
5_A24_E1.5701.00
56_F89_I1.5561.00
72_A77_R1.5371.00
118_I122_L1.5061.00
33_T36_K1.5041.00
7_Y11_N1.4681.00
122_L125_V1.4671.00
21_E24_E1.4531.00
18_E22_I1.4231.00
79_L83_I1.3961.00
165_S168_I1.3791.00
144_L151_I1.3671.00
28_E32_S1.3621.00
59_S62_P1.3421.00
5_A20_R1.3201.00
75_Y79_L1.3191.00
43_I83_I1.2911.00
67_A123_A1.2811.00
91_L94_K1.2761.00
176_A179_Q1.2731.00
147_I151_I1.2701.00
148_L152_L1.2491.00
127_T132_L1.2481.00
17_E20_R1.2351.00
4_I27_L1.2341.00
140_K144_L1.2321.00
41_L54_L1.2261.00
23_Y27_L1.2241.00
4_I31_L1.2111.00
58_L62_P1.1931.00
126_D132_L1.1891.00
32_S36_K1.1841.00
36_K82_S1.1801.00
56_F90_L1.1711.00
107_I111_L1.1621.00
26_G29_I1.1321.00
136_E140_K1.1231.00
140_K145_S1.1211.00
53_T86_F1.1201.00
56_F60_F1.1081.00
137_K141_L1.0891.00
119_I149_L1.0811.00
45_L50_L1.0671.00
41_L50_L1.0621.00
130_K140_K1.0601.00
135_K139_K1.0571.00
112_L116_L1.0521.00
40_I86_F1.0471.00
60_F178_L1.0301.00
112_L153_L1.0241.00
127_T130_K1.0201.00
66_F144_L1.0141.00
137_K140_K1.0141.00
59_S171_G1.0031.00
82_S86_F1.0001.00
48_G51_L0.9981.00
5_A27_L0.9931.00
85_I178_L0.9931.00
33_T75_Y0.9851.00
127_T131_P0.9821.00
37_I57_L0.9791.00
15_I23_Y0.9781.00
36_K75_Y0.9721.00
126_D130_K0.9681.00
36_K79_L0.9621.00
160_K163_I0.9601.00
115_S176_A0.9431.00
106_I110_I0.9411.00
6_N10_K0.9381.00
152_L156_S0.9351.00
92_L95_Y0.9291.00
5_A23_Y0.9261.00
75_Y127_T0.9151.00
41_L44_G0.9111.00
139_K142_K0.9101.00
63_L67_A0.9021.00
50_L53_T0.8981.00
56_F171_G0.8881.00
144_L148_L0.8871.00
164_I168_I0.8861.00
145_S151_I0.8821.00
145_S152_L0.8811.00
68_G130_K0.8761.00
124_P131_P0.8751.00
63_L123_A0.8701.00
138_R141_L0.8661.00
53_T90_L0.8631.00
67_A175_V0.8531.00
29_I65_S0.8471.00
76_L80_I0.8390.99
71_H78_C0.8260.99
67_A119_I0.8170.99
44_G86_F0.8100.99
26_G30_L0.8100.99
23_Y26_G0.8020.99
40_I82_S0.8000.99
83_I87_I0.7990.99
8_L23_Y0.7980.99
62_P65_S0.7940.99
120_L145_S0.7920.99
73_K128_P0.7880.99
39_I83_I0.7820.99
31_L35_L0.7800.99
23_Y56_F0.7680.99
49_I53_T0.7680.99
51_L55_I0.7660.99
126_D137_K0.7580.99
7_Y10_K0.7540.99
70_Y73_K0.7530.99
33_T37_I0.7530.99
36_K83_I0.7500.99
9_I15_I0.7500.99
56_F86_F0.7490.99
60_F75_Y0.7490.99
130_K136_E0.7450.99
8_L27_L0.7400.99
87_I90_L0.7400.99
148_L151_I0.7380.99
79_L82_S0.7370.99
41_L57_L0.7300.99
126_D138_R0.7290.99
115_S149_L0.7290.99
9_I14_I0.7260.99
115_S169_A0.7260.99
70_Y74_T0.7230.98
166_N169_A0.7230.98
80_I84_L0.7220.98
29_I82_S0.7220.98
23_Y60_F0.7210.98
112_L115_S0.7210.98
125_V179_Q0.7190.98
133_S136_E0.7150.98
11_N14_I0.7090.98
85_I174_L0.7060.98
37_I41_L0.7040.98
88_L92_L0.7040.98
142_K145_S0.6990.98
20_R23_Y0.6990.98
36_K40_I0.6940.98
29_I33_T0.6900.98
42_L46_L0.6900.98
52_E163_I0.6890.98
28_E31_L0.6890.98
94_K97_P0.6870.98
146_I149_L0.6850.98
60_F86_F0.6840.98
32_S79_L0.6810.98
77_R81_I0.6790.98
172_I175_V0.6790.98
167_A175_V0.6750.98
47_L50_L0.6740.98
29_I83_I0.6740.98
66_F140_K0.6690.97
91_L95_Y0.6650.97
25_Y129_N0.6620.97
60_F130_K0.6600.97
133_S137_K0.6590.97
44_G50_L0.6580.97
125_V129_N0.6570.97
60_F64_R0.6510.97
144_L147_I0.6430.97
163_I166_N0.6390.97
67_A124_P0.6380.97
35_L75_Y0.6380.97
109_I113_I0.6350.97
115_S172_I0.6330.97
33_T40_I0.6310.96
32_S82_S0.6290.96
30_L34_L0.6270.96
10_K13_N0.6230.96
72_A75_Y0.6190.96
153_L157_L0.6180.96
108_L166_N0.6160.96
54_L58_L0.6140.96
5_A8_L0.6130.96
22_I26_G0.6110.96
152_L155_I0.6090.96
25_Y67_A0.6090.96
3_K10_K0.6050.96
63_L172_I0.6030.95
34_L38_I0.6000.95
156_S159_L0.6000.95
167_A170_L0.5990.95
40_I44_G0.5980.95
168_I172_I0.5980.95
112_L169_A0.5970.95
149_L152_L0.5930.95
166_N170_L0.5900.95
172_I176_A0.5890.95
8_L14_I0.5880.95
70_Y81_I0.5860.95
60_F82_S0.5850.95
145_S149_L0.5810.94
14_I23_Y0.5770.94
18_E21_E0.5770.94
112_L172_I0.5750.94
29_I86_F0.5730.94
3_K6_N0.5670.94
175_V179_Q0.5670.94
60_F125_V0.5640.94
57_L61_I0.5640.94
4_I7_Y0.5610.93
108_L165_S0.5580.93
132_L136_E0.5570.93
62_P152_L0.5570.93
95_Y98_I0.5520.93
64_R82_S0.5510.93
143_I147_I0.5510.93
5_A15_I0.5470.92
134_S150_I0.5450.92
176_A180_I0.5450.92
26_G72_A0.5450.92
90_L125_V0.5450.92
38_I42_L0.5400.92
108_L112_L0.5380.92
14_I19_D0.5350.92
3_K7_Y0.5290.91
111_L173_L0.5270.91
150_I154_I0.5270.91
151_I155_I0.5270.91
61_I100_L0.5230.91
164_I167_A0.5220.91
115_S180_I0.5220.91
25_Y29_I0.5170.90
94_K98_I0.5160.90
59_S175_V0.5130.90
33_T82_S0.5120.90
49_I93_S0.5110.90
5_A64_R0.5110.90
52_E56_F0.5030.89
6_N88_L0.5000.89
138_R142_K0.5000.89
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  
2xq2A 2 0.9617 8.5 0.927 Contact Map
2cfqA 1 0.6776 3 0.941 Contact Map
2k1eA 3 0.5628 1.8 0.948 Contact Map
1ji8A 1 0.3388 1.7 0.949 Contact Map
2okrC 1 0.1311 1.7 0.949 Contact Map
2dj6A 3 0.2131 1.6 0.949 Contact Map
4q2eA 2 0.224 1.6 0.949 Contact Map
4aq5B 1 0.3388 1.6 0.949 Contact Map
4wfeA 2 0.6339 1.5 0.95 Contact Map
2i9nA 1 0.0601 1.5 0.95 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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