GREMLIN Database
Plant_tran - Plant transposon protein
PFAM: PF04827 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 205 (182)
Sequences: 3034 (2380)
Seq/√Len: 176.4
META: 0.474

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_C157_V5.2721.00
69_L163_I3.9731.00
63_A161_F3.8631.00
64_V93_L3.4681.00
66_D70_R3.3071.00
37_P56_Y3.0391.00
71_F160_A2.8571.00
63_A71_F2.8221.00
74_V191_C2.7631.00
52_N58_S2.7551.00
69_L159_R2.5751.00
60_V87_V2.4751.00
62_Q125_Y2.4171.00
132_M146_F2.3771.00
34_T165_K2.3521.00
70_R199_E2.1781.00
155_K159_R2.1681.00
171_L190_C2.1521.00
45_W48_Q2.0751.00
134_P147_N2.0441.00
146_F150_L2.0411.00
158_E162_G1.8631.00
62_Q73_H1.8621.00
164_L190_C1.7521.00
167_R197_I1.7011.00
121_G131_L1.6901.00
64_V119_Y1.6111.00
22_R153_A1.5981.00
52_N56_Y1.5101.00
179_D182_K1.5091.00
31_I64_V1.4981.00
89_R94_F1.4931.00
140_T143_E1.4791.00
35_H58_S1.4761.00
88_L130_W1.4621.00
156_V159_R1.4071.00
103_P106_K1.4061.00
50_Y57_P1.4001.00
88_L94_F1.3531.00
24_F150_L1.3341.00
69_L156_V1.3271.00
84_D158_E1.3261.00
75_F78_W1.3211.00
145_L149_R1.2971.00
44_A48_Q1.2631.00
127_L132_M1.2561.00
30_A156_V1.2541.00
78_W87_V1.2541.00
110_N113_E1.2531.00
123_G133_K1.2451.00
154_R162_G1.2251.00
31_I121_G1.2251.00
108_L111_G1.2221.00
188_L191_C1.2121.00
30_A120_L1.2011.00
122_D125_Y1.1981.00
44_A47_G1.1971.00
164_L191_C1.1761.00
35_H60_V1.1681.00
65_C160_A1.1631.00
46_S50_Y1.1551.00
182_K186_I1.1541.00
102_A105_V1.1531.00
38_I41_C1.1381.00
47_G50_Y1.1371.00
78_W82_V1.1361.00
160_A164_L1.1231.00
45_W50_Y1.1171.00
166_A169_R1.0901.00
128_W131_L1.0761.00
96_D101_E1.0691.00
189_A192_I1.0651.00
63_A157_V1.0591.00
180_P183_I1.0541.00
157_V161_F1.0541.00
66_D72_W1.0461.00
136_R139_Q1.0401.00
110_N114_Y1.0380.99
27_C120_L1.0340.99
78_W90_N1.0220.99
127_L133_K1.0220.99
83_N86_N1.0190.99
126_P131_L1.0180.99
46_S49_Y1.0060.99
149_R152_R0.9960.99
32_D84_D0.9870.99
175_I183_I0.9850.99
148_Y151_S0.9830.99
29_G64_V0.9810.99
120_L150_L0.9740.99
184_P187_I0.9740.99
174_P177_L0.9580.99
170_I186_I0.9570.99
111_G114_Y0.9440.99
169_R172_K0.9440.99
178_W182_K0.9400.99
121_G124_A0.9360.99
173_R176_R0.9290.99
107_Y111_G0.9250.99
19_E22_R0.9240.99
139_Q143_E0.9220.99
132_M135_Y0.9180.99
34_T61_L0.9090.99
24_F27_C0.9080.99
63_A160_A0.9060.99
39_K172_K0.8950.98
184_P191_C0.8930.98
145_L148_Y0.8770.98
48_Q52_N0.8750.98
185_K188_L0.8750.98
148_Y152_R0.8670.98
94_F97_L0.8660.98
97_L130_W0.8640.98
112_R115_N0.8630.98
18_F22_R0.8620.98
83_N158_E0.8600.98
144_K148_Y0.8570.98
17_K20_E0.8570.98
170_I175_I0.8490.98
41_C45_W0.8470.98
184_P188_L0.8440.98
74_V188_L0.8430.98
41_C48_Q0.8420.98
94_F128_W0.8410.98
41_C44_A0.8400.98
187_I190_C0.8370.98
180_P184_P0.8330.98
42_P45_W0.8300.98
78_W86_N0.8260.97
43_T46_S0.8250.97
151_S155_K0.8210.97
35_H52_N0.8150.97
177_L186_I0.8110.97
76_V188_L0.8090.97
52_N57_P0.8080.97
33_G62_Q0.8050.97
100_G129_P0.8040.97
115_N118_Y0.8010.97
79_P168_F0.7980.97
98_E128_W0.7970.97
42_P49_Y0.7970.97
37_P55_G0.7890.97
79_P82_V0.7880.97
109_L112_R0.7770.96
108_L113_E0.7730.96
84_D154_R0.7720.96
53_R60_V0.7720.96
66_D69_L0.7670.96
46_S57_P0.7660.96
82_V86_N0.7650.96
83_N155_K0.7620.96
102_A107_Y0.7610.96
124_A133_K0.7540.96
61_L77_G0.7540.96
94_F98_E0.7500.96
118_Y122_D0.7500.96
73_H93_L0.7490.96
85_A124_A0.7470.95
26_G107_Y0.7420.95
71_F74_V0.7420.95
149_R153_A0.7390.95
98_E130_W0.7390.95
179_D185_K0.7380.95
133_K136_R0.7380.95
159_R197_I0.7330.95
33_G158_E0.7320.95
89_R126_P0.7250.95
65_C71_F0.7240.95
62_Q91_S0.7230.95
124_A127_L0.7220.95
32_D158_E0.7180.94
61_L191_C0.7140.94
34_T161_F0.7130.94
115_N119_Y0.7130.94
109_L113_E0.7120.94
17_K68_D0.7110.94
183_I186_I0.7090.94
109_L114_Y0.7090.94
125_Y131_L0.7060.94
180_P187_I0.7040.94
52_N55_G0.7030.94
57_P62_Q0.7030.94
69_L160_A0.7020.94
131_L134_P0.6970.93
75_F92_P0.6960.93
177_L182_K0.6920.93
114_Y120_L0.6900.93
101_E104_P0.6840.93
39_K176_R0.6800.93
106_K109_L0.6760.92
26_G118_Y0.6710.92
36_I187_I0.6660.92
175_I178_W0.6620.92
85_A126_P0.6600.91
41_C50_Y0.6600.91
147_N151_S0.6590.91
108_L112_R0.6580.91
17_K21_K0.6580.91
94_F130_W0.6570.91
103_P107_Y0.6560.91
63_A191_C0.6520.91
182_K185_K0.6520.91
111_G115_N0.6490.91
73_H91_S0.6450.91
73_H79_P0.6390.90
33_G87_V0.6370.90
153_A168_F0.6320.90
116_L119_Y0.6300.89
37_P174_P0.6300.89
105_V108_L0.6290.89
88_L128_W0.6260.89
32_D154_R0.6250.89
148_Y155_K0.6200.89
125_Y132_M0.6140.88
82_V168_F0.6080.88
32_D162_G0.6030.87
159_R163_I0.6020.87
50_Y54_K0.6020.87
181_E188_L0.6020.87
125_Y128_W0.5910.86
100_G103_P0.5900.86
127_L130_W0.5860.86
38_I183_I0.5860.86
140_T144_K0.5850.86
62_Q65_C0.5810.85
84_D162_G0.5800.85
178_W183_I0.5770.85
58_S62_Q0.5760.85
78_W81_S0.5760.85
121_G133_K0.5750.85
110_N121_G0.5740.85
86_N90_N0.5720.84
91_S94_F0.5690.84
85_A89_R0.5670.84
169_R176_R0.5630.84
121_G127_L0.5630.84
183_I187_I0.5620.83
179_D183_I0.5600.83
33_G161_F0.5600.83
27_C153_A0.5590.83
122_D134_P0.5590.83
113_E116_L0.5590.83
167_R194_H0.5580.83
107_Y110_N0.5560.83
38_I57_P0.5560.83
21_K67_A0.5500.82
167_R198_I0.5490.82
168_F197_I0.5490.82
123_G128_W0.5490.82
17_K67_A0.5480.82
122_D132_M0.5480.82
40_N44_A0.5470.82
116_L129_P0.5380.81
164_L171_L0.5350.80
40_N57_P0.5300.80
88_L91_S0.5290.80
18_F21_K0.5280.80
53_R58_S0.5280.80
63_A74_V0.5220.79
54_K57_P0.5220.79
103_P108_L0.5220.79
82_V90_N0.5210.79
21_K153_A0.5180.78
119_Y122_D0.5180.78
96_D99_N0.5170.78
125_Y130_W0.5130.78
62_Q66_D0.5120.77
71_F161_F0.5070.77
104_P107_Y0.5050.76
147_N150_L0.5030.76
171_L187_I0.5020.76
182_K188_L0.5000.76
61_L187_I0.5000.76
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  
4mq3A 1 0.6244 13.1 0.958 Contact Map
3kksA 2 0.6585 9.9 0.96 Contact Map
1c6vA 4 0.6244 8 0.962 Contact Map
3l3uA 2 0.6634 6.8 0.963 Contact Map
1bcoA 1 0.8049 6.3 0.964 Contact Map
2pc1A 1 0.2195 6.2 0.964 Contact Map
4hqeA 2 0.2732 5.7 0.965 Contact Map
1cxqA 2 0.678 5.2 0.965 Contact Map
1ex4A 5 0.6585 4.9 0.966 Contact Map
5afua 1 0.2341 4.7 0.966 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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