GREMLIN Database
DUF2239 - Uncharacterized protein conserved in bacteria (DUF2239)
PFAM: PF09998 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 184 (182)
Sequences: 2513 (1888)
Seq/√Len: 139.9
META: 0.844

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_T40_D4.0601.00
110_V114_K3.3451.00
164_R168_L3.0491.00
139_F143_M3.0391.00
123_N127_D2.6241.00
150_F154_S2.4571.00
8_H147_L2.3751.00
137_Y158_F2.2331.00
140_M180_A2.2211.00
36_L45_Q2.1351.00
21_L54_A2.1141.00
141_S150_F2.0841.00
162_R166_E2.0561.00
161_D164_R2.0291.00
52_G60_R2.0231.00
133_Q160_G1.9941.00
15_P18_E1.9751.00
58_L61_L1.9561.00
118_E122_A1.9391.00
117_E120_R1.9351.00
24_K28_D1.9181.00
88_A92_T1.8771.00
52_G57_V1.8771.00
169_I181_L1.8641.00
43_G47_D1.8321.00
53_S56_D1.8291.00
96_R117_E1.8271.00
37_I48_L1.8181.00
4_A19_V1.8161.00
91_V112_L1.8041.00
103_A131_A1.7831.00
139_F179_H1.7481.00
16_L48_L1.7071.00
139_F180_A1.6871.00
165_F180_A1.6821.00
140_M153_A1.6731.00
40_D179_H1.6221.00
43_G179_H1.6161.00
43_G135_A1.6091.00
2_C16_L1.5581.00
165_F181_L1.5281.00
137_Y141_S1.4891.00
144_A176_V1.4811.00
137_Y154_S1.4751.00
40_D43_G1.4611.00
3_T13_S1.3931.00
178_D181_L1.3731.00
3_T179_H1.3711.00
44_R138_R1.3621.00
140_M154_S1.3621.00
56_D60_R1.3611.00
144_A147_L1.3521.00
20_A48_L1.3471.00
179_H183_L1.3451.00
154_S158_F1.3331.00
3_T10_R1.3181.00
152_E164_R1.2991.00
166_E181_L1.2961.00
106_G110_V1.2771.00
38_F142_A1.2711.00
52_G56_D1.2711.00
57_V60_R1.2671.00
11_I26_A1.2661.00
97_H117_E1.2251.00
10_R182_R1.2211.00
23_V26_A1.2161.00
147_L176_V1.2161.00
45_Q142_A1.2011.00
2_C46_V1.1901.00
134_E158_F1.1751.00
53_S60_R1.1741.00
154_S180_A1.1690.99
129_A133_Q1.1650.99
6_A33_A1.1600.99
144_A169_I1.1420.99
134_E137_Y1.1340.99
137_Y150_F1.1260.99
25_A54_A1.1250.99
4_A23_V1.1140.99
10_R13_S1.0980.99
164_R167_A1.0900.99
141_S154_S1.0780.99
116_V119_A1.0770.99
10_R178_D1.0640.99
45_Q146_N1.0610.99
149_G168_L1.0600.99
124_G127_D1.0420.99
39_D42_T1.0390.99
3_T43_G1.0380.99
27_L50_L1.0190.99
169_I177_R1.0150.99
6_A9_R1.0140.99
54_A58_L1.0110.99
23_V37_I1.0110.99
23_V35_V1.0100.99
114_K117_E1.0090.99
24_K54_A1.0050.98
170_A181_L1.0010.98
38_F139_F0.9980.98
136_A180_A0.9960.98
13_S40_D0.9900.98
117_E121_R0.9880.98
56_D59_A0.9850.98
23_V27_L0.9850.98
6_A30_G0.9730.98
105_P114_K0.9710.98
30_G33_A0.9600.98
156_A164_R0.9590.98
118_E121_R0.9560.98
152_E168_L0.9480.98
26_A30_G0.9390.98
40_D182_R0.9350.98
180_A184_A0.9230.97
27_L30_G0.9150.97
129_A160_G0.9030.97
24_K52_G0.9020.97
36_L142_A0.8860.97
31_P34_P0.8850.97
50_L57_V0.8690.96
107_G111_A0.8670.96
153_A169_I0.8650.96
17_A58_L0.8630.96
127_D130_R0.8580.96
165_F169_I0.8560.96
38_F143_M0.8550.96
39_D44_R0.8500.96
6_A29_R0.8500.96
130_R134_E0.8500.96
105_P130_R0.8450.96
37_I50_L0.8430.95
24_K57_V0.8380.95
27_L31_P0.8380.95
89_R107_G0.8310.95
21_L58_L0.8260.95
22_A26_A0.8210.95
20_A61_L0.8140.95
54_A57_V0.8110.94
87_V120_R0.8010.94
177_R181_L0.7960.94
62_A68_A0.7940.94
132_A136_A0.7890.94
8_H143_M0.7880.94
24_K58_L0.7810.93
27_L35_V0.7790.93
123_N126_R0.7780.93
57_V61_L0.7760.93
21_L24_K0.7760.93
23_V50_L0.7750.93
111_A127_D0.7720.93
140_M169_I0.7680.93
20_A52_G0.7600.92
45_Q48_L0.7560.92
8_H146_N0.7440.91
24_K50_L0.7370.91
88_A102_A0.7360.91
66_A70_A0.7350.91
136_A140_M0.7340.91
30_G34_P0.7310.91
125_G128_R0.7270.91
4_A37_I0.7260.90
76_P79_P0.7210.90
21_L61_L0.7180.90
28_D54_A0.7180.90
163_A181_L0.7140.90
11_I23_V0.7120.90
163_A166_E0.7090.89
174_A178_D0.7070.89
132_A135_A0.7010.89
44_R146_N0.6970.89
47_D51_R0.6950.88
134_E138_R0.6930.88
179_H182_R0.6930.88
11_I19_V0.6920.88
17_A57_V0.6890.88
38_F43_G0.6890.88
2_C47_D0.6870.88
54_A62_A0.6860.88
99_E102_A0.6800.87
62_A65_A0.6800.87
162_R165_F0.6780.87
10_R175_D0.6770.87
168_L171_A0.6770.87
143_M176_V0.6770.87
149_G152_E0.6710.87
8_H176_V0.6670.86
111_A123_N0.6650.86
52_G61_L0.6650.86
103_A127_D0.6620.86
149_G171_A0.6600.86
136_A157_L0.6590.86
77_R92_T0.6580.86
49_D60_R0.6470.85
6_A26_A0.6430.84
9_R33_A0.6420.84
48_L61_L0.6400.84
80_G86_V0.6400.84
2_C15_P0.6390.84
171_A174_A0.6300.83
6_A31_P0.6290.83
2_C43_G0.6260.83
150_F153_A0.6250.83
24_K27_L0.6240.82
102_A106_G0.6200.82
163_A167_A0.6190.82
126_R133_Q0.6110.81
80_G85_G0.6100.81
22_A25_A0.6100.81
64_P70_A0.6090.81
81_R86_V0.6060.81
82_P86_V0.6050.81
112_L116_V0.6040.80
25_A29_R0.6020.80
2_C19_V0.6020.80
132_A142_A0.5990.80
55_A88_A0.5960.80
139_F176_V0.5960.80
6_A35_V0.5900.79
169_I180_A0.5890.79
166_E170_A0.5860.78
39_D45_Q0.5860.78
41_A135_A0.5850.78
133_Q154_S0.5830.78
79_P147_L0.5770.77
67_A70_A0.5750.77
38_F47_D0.5750.77
105_P117_E0.5730.77
80_G84_L0.5720.77
45_Q138_R0.5700.76
16_L52_G0.5700.76
36_L46_V0.5700.76
4_A35_V0.5690.76
38_F45_Q0.5650.76
21_L55_A0.5600.75
41_A131_A0.5590.75
21_L57_V0.5580.75
129_A132_A0.5570.75
141_S153_A0.5560.75
165_F184_A0.5560.75
131_A167_A0.5540.74
18_E25_A0.5510.74
170_A174_A0.5510.74
20_A57_V0.5500.74
69_A72_A0.5500.74
128_R135_A0.5490.74
70_A74_P0.5480.74
62_A69_A0.5440.73
91_V111_A0.5420.73
56_D61_L0.5420.73
62_A70_A0.5410.73
39_D138_R0.5390.72
66_A69_A0.5390.72
135_A138_R0.5350.72
142_A147_L0.5340.72
16_L39_D0.5320.71
133_Q158_F0.5320.71
19_V37_I0.5300.71
102_A108_A0.5260.71
111_A120_R0.5240.70
4_A24_K0.5230.70
78_G128_R0.5200.70
147_L174_A0.5180.69
13_S182_R0.5170.69
143_M169_I0.5160.69
118_E126_R0.5140.69
153_A165_F0.5130.69
67_A72_A0.5100.68
89_R102_A0.5070.68
150_F168_L0.5050.68
17_A180_A0.5020.67
6_A11_I0.5020.67
2_C40_D0.5000.67
54_A71_A0.5000.67
89_R111_A0.5000.67
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  
2jokA 1 0.3913 53 0.952 Contact Map
3ff0A 2 0.3696 11.1 0.966 Contact Map
2o7gA 2 0.2337 11.1 0.966 Contact Map
2ov9A 2 0.5543 10.2 0.966 Contact Map
4uzzA 1 0.2935 9 0.967 Contact Map
4xc8A 2 0.9022 8.3 0.968 Contact Map
1wekA 5 0.3261 7.4 0.968 Contact Map
3sbxA 2 0.3207 7.4 0.968 Contact Map
4us5A 3 0.4674 7.2 0.969 Contact Map
3quaA 2 0.3261 7 0.969 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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