GREMLIN Database
DUF4228 - Domain of unknown function (DUF4228)
PFAM: PF14009 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 169 (167)
Sequences: 1669 (1421)
Seq/√Len: 109.9
META: 0.027

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
142_E147_L2.7251.00
128_K132_S2.6431.00
93_A96_A2.4651.00
134_G137_R2.3851.00
136_S140_V2.2591.00
90_E93_A2.2171.00
99_A102_A2.2121.00
164_L169_E2.1351.00
39_V43_N2.1031.00
99_A103_L2.0571.00
146_Q149_E1.9831.00
114_S117_K1.9631.00
147_L150_R1.9561.00
22_H28_E1.9511.00
134_G139_R1.9351.00
30_F63_L1.7901.00
122_S126_V1.7741.00
123_P126_V1.7711.00
154_G157_S1.7621.00
137_R140_V1.6821.00
136_S139_R1.6681.00
121_S124_F1.6441.00
124_F129_G1.6341.00
125_E129_G1.6301.00
152_R155_S1.6161.00
135_R138_V1.6051.00
126_V129_G1.5961.00
116_A119_S1.5901.00
114_S118_K1.5861.00
120_R123_P1.5591.00
142_E149_E1.5141.00
132_S136_S1.5131.00
121_S129_G1.5011.00
47_F50_D1.4971.00
86_V89_A1.4941.00
151_V156_R1.4811.00
117_K124_F1.4791.00
145_K149_E1.4711.00
35_T73_Q1.4601.00
137_R141_V1.4581.00
49_C78_L1.4481.00
164_L167_I1.4471.00
101_S104_K1.4371.00
126_V130_S1.4321.00
64_S67_E1.4091.00
9_L13_A1.4051.00
125_E132_S1.3911.00
91_E94_A1.3501.00
123_P127_V1.3431.00
152_R156_R1.3381.00
151_V155_S1.3331.00
153_R157_S1.2830.99
133_S136_S1.2740.99
54_L57_G1.2660.99
35_T68_E1.2590.99
8_Q13_A1.2560.99
122_S128_K1.2410.99
126_V133_S1.2390.99
125_E130_S1.2370.99
122_S130_S1.2350.99
97_V100_S1.2150.99
132_S137_R1.1770.99
142_E145_K1.1670.99
128_K136_S1.1610.99
62_A67_E1.1420.99
97_V103_L1.1330.98
136_S141_V1.1300.98
119_S122_S1.1290.98
118_K124_F1.1290.98
117_K120_R1.1290.98
134_G140_V1.1210.98
125_E131_S1.1130.98
122_S129_G1.1110.98
119_S128_K1.1070.98
98_K103_L1.1060.98
129_G132_S1.1040.98
120_R128_K1.1030.98
100_S103_L1.0900.98
145_K150_R1.0860.98
156_R159_S1.0840.98
145_K148_S1.0840.98
121_S126_V1.0660.98
96_A100_S1.0590.98
121_S127_V1.0480.97
162_P169_E1.0440.97
28_E40_M1.0340.97
128_K140_V1.0330.97
83_L92_M1.0320.97
108_K111_K1.0280.97
83_L95_L1.0220.97
98_K104_K1.0210.97
123_P132_S1.0150.97
46_H77_L1.0130.97
100_S104_K1.0090.97
122_S125_E1.0070.97
40_M45_G1.0070.97
134_G138_V1.0030.97
128_K138_V1.0020.97
114_S119_S1.0000.97
21_V79_P0.9950.96
126_V131_S0.9920.96
104_K107_S0.9820.96
152_R157_S0.9820.96
9_L12_G0.9740.96
119_S127_V0.9710.96
118_K123_P0.9700.96
133_S137_R0.9690.96
45_G67_E0.9590.96
128_K134_G0.9590.96
63_L75_Y0.9590.96
47_F54_L0.9500.95
123_P133_S0.9490.95
119_S123_P0.9480.95
103_L107_S0.9460.95
132_S135_R0.9390.95
11_A14_A0.9370.95
133_S138_V0.9340.95
10_P13_A0.9300.95
27_V37_A0.9300.95
144_K147_L0.9200.95
151_V154_G0.9080.94
119_S133_S0.9020.94
91_E99_A0.8950.94
124_F130_S0.8900.93
124_F128_K0.8870.93
76_F79_P0.8870.93
133_S140_V0.8810.93
127_V130_S0.8760.93
46_H63_L0.8630.92
100_S107_S0.8610.92
92_M95_L0.8590.92
125_E140_V0.8560.92
11_A15_A0.8500.92
131_S139_R0.8440.92
99_A107_S0.8440.92
89_A92_M0.8430.92
129_G135_R0.8410.91
122_S131_S0.8380.91
139_R150_R0.8320.91
98_K102_A0.8290.91
112_R115_V0.8260.91
48_V77_L0.8250.91
98_K105_K0.8200.90
7_C11_A0.8190.90
129_G136_S0.8180.90
40_M48_V0.8080.90
11_A16_A0.8040.89
33_P54_L0.8010.89
50_D73_Q0.7990.89
99_A104_K0.7990.89
3_N7_C0.7980.89
60_I71_P0.7960.89
21_V42_E0.7940.89
100_S105_K0.7900.89
8_Q11_A0.7890.89
39_V48_V0.7890.89
97_V102_A0.7840.88
24_D40_M0.7800.88
34_V37_A0.7600.87
119_S124_F0.7440.85
38_E59_R0.7370.85
95_L98_K0.7350.85
6_S19_K0.7330.85
155_S161_R0.7230.84
100_S106_S0.7190.84
124_F132_S0.7160.83
70_Q73_Q0.7160.83
36_A48_V0.7120.83
20_V104_K0.7100.83
19_K53_S0.7070.82
49_C62_A0.7030.82
25_G69_L0.7010.82
71_P76_F0.6990.82
121_S125_E0.6980.82
130_S137_R0.6920.81
87_L94_A0.6900.81
82_R90_E0.6890.81
91_E96_A0.6870.81
119_S126_V0.6850.80
109_R126_V0.6840.80
97_V101_S0.6830.80
117_K122_S0.6740.79
18_V22_H0.6690.79
49_C76_F0.6640.78
130_S133_S0.6620.78
30_F73_Q0.6610.78
146_Q150_R0.6600.78
35_T80_L0.6560.78
54_L60_I0.6540.77
82_R86_V0.6520.77
128_K135_R0.6490.77
135_R141_V0.6470.77
87_L92_M0.6440.76
27_V161_R0.6430.76
94_A98_K0.6420.76
123_P128_K0.6410.76
87_L95_L0.6360.75
123_P129_G0.6320.75
134_G147_L0.6240.74
131_S138_V0.6210.74
93_A97_V0.6170.73
124_F133_S0.6170.73
130_S136_S0.6140.73
142_E146_Q0.6120.73
20_V52_D0.6120.73
120_R125_E0.6110.72
17_V29_E0.6110.72
102_A105_K0.6110.72
103_L106_S0.6110.72
136_S150_R0.6090.72
47_F76_F0.6040.72
52_D76_F0.6010.71
23_P40_M0.5990.71
102_A106_S0.5970.71
89_A93_A0.5960.71
93_A98_K0.5920.70
113_S117_K0.5880.70
14_A71_P0.5840.69
64_S78_L0.5830.69
132_S138_V0.5810.69
152_R158_R0.5780.68
82_R91_E0.5760.68
4_L10_P0.5740.68
122_S135_R0.5630.66
123_P137_R0.5620.66
29_E79_P0.5620.66
130_S134_G0.5540.65
3_N42_E0.5530.65
125_E128_K0.5460.64
126_V135_R0.5410.63
21_V50_D0.5380.63
113_S116_A0.5370.63
3_N44_P0.5370.63
16_A67_E0.5340.62
123_P150_R0.5300.62
121_S132_S0.5290.61
131_S145_K0.5290.61
98_K106_S0.5280.61
32_R38_E0.5280.61
20_V85_S0.5230.61
45_G64_S0.5200.60
114_S131_S0.5190.60
56_F73_Q0.5170.60
47_F80_L0.5140.59
101_S105_K0.5090.59
104_K109_R0.5090.59
151_V158_R0.5060.58
51_S76_F0.5040.58
30_F78_L0.5030.58
101_S106_S0.5000.57
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  
2kmmA 1 0.4083 14.8 0.929 Contact Map
1wwtA 1 0.4852 13 0.931 Contact Map
3hvzA 2 0.355 12.2 0.931 Contact Map
2auvA 1 0.1893 8.8 0.936 Contact Map
2cu3A 2 0.355 6.8 0.939 Contact Map
1m2dA 2 0.284 4.6 0.944 Contact Map
1i27A 1 0.4142 4.3 0.945 Contact Map
1f0zA 1 0.3669 4.1 0.945 Contact Map
4gaiA 1 0.432 3.3 0.947 Contact Map
1l2hA 1 0.4142 3 0.948 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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