GREMLIN Database
PINE - DNA-invertase from lambdoid prophage e14
UniProt: P03014 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10737
Length: 184 (177)
Sequences: 9418 (6999)
Seq/√Len: 526.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_G47_K3.3411.00
31_F51_T3.0531.00
154_L167_I2.9341.00
33_D44_G2.7231.00
48_L58_L2.5911.00
6_V19_R2.3601.00
19_R23_N2.2881.00
150_Q154_L2.2491.00
102_R117_E2.1891.00
4_G22_L2.1711.00
115_E122_R2.0581.00
129_T133_Q2.0271.00
19_R32_E2.0271.00
38_T116_R1.9551.00
130_A135_R1.9411.00
89_S92_D1.9211.00
162_Q166_I1.9071.00
154_L159_T1.8731.00
70_M106_H1.8671.00
71_R78_E1.8121.00
106_H110_A1.8051.00
20_N24_C1.8021.00
19_R30_I1.7841.00
103_F114_M1.7761.00
120_V124_K1.6761.00
71_R75_V1.6641.00
80_L85_I1.6521.00
113_E117_E1.6511.00
102_R113_E1.6261.00
81_R102_R1.5631.00
73_L109_G1.5581.00
155_I164_V1.5571.00
74_V106_H1.5571.00
52_L58_L1.5481.00
79_E83_R1.5481.00
98_T101_G1.5341.00
165_A175_L1.5271.00
161_R176_Y1.5211.00
77_V105_F1.5161.00
45_L76_L1.4881.00
155_I179_F1.4691.00
52_L85_I1.4391.00
3_I48_L1.4281.00
3_I51_T1.4261.00
159_T167_I1.4091.00
60_V89_S1.3881.00
4_G30_I1.3791.00
116_R119_I1.3771.00
29_L47_K1.3771.00
123_T127_L1.3741.00
103_F110_A1.3641.00
41_E46_K1.3631.00
172_V176_Y1.3571.00
23_N30_I1.3451.00
10_T13_Q1.3421.00
160_P163_K1.3391.00
128_E132_A1.3371.00
67_G73_L1.3231.00
162_Q172_V1.3151.00
153_R157_A1.3011.00
40_S72_H1.2761.00
170_V175_L1.2631.00
64_D112_A1.2531.00
150_Q167_I1.2481.00
116_R120_V1.2421.00
78_E82_E1.2391.00
70_M74_V1.2271.00
57_T88_R1.2211.00
60_V87_F1.2081.00
154_L164_V1.2001.00
129_T132_A1.1971.00
20_N129_T1.1841.00
144_T147_Q1.1811.00
152_G156_A1.1731.00
148_W152_G1.1521.00
159_T163_K1.1491.00
70_M109_G1.1301.00
127_L137_G1.1251.00
47_K51_T1.1251.00
145_P149_A1.1101.00
29_L51_T1.1091.00
151_A164_V1.1061.00
35_I43_P1.1041.00
31_F44_G1.1001.00
126_G130_A1.0991.00
35_I39_K1.0381.00
61_W125_A1.0381.00
6_V30_I1.0361.00
77_V87_F1.0341.00
150_Q153_R1.0221.00
45_L48_L1.0171.00
155_I161_R1.0121.00
154_L157_A1.0111.00
115_E119_I1.0091.00
170_V178_R1.0051.00
17_L61_W0.9921.00
6_V32_E0.9871.00
175_L178_R0.9751.00
21_A61_W0.9751.00
151_A175_L0.9751.00
31_F48_L0.9611.00
86_N97_S0.9571.00
22_L59_V0.9511.00
49_L79_E0.9501.00
57_T86_N0.9491.00
6_V22_L0.9461.00
49_L76_L0.9441.00
171_G174_T0.9321.00
127_L131_R0.9281.00
131_R137_G0.9201.00
64_D122_R0.9131.00
118_L122_R0.9021.00
124_K127_L0.9001.00
63_L112_A0.8971.00
147_Q150_Q0.8921.00
103_F111_L0.8911.00
143_L146_E0.8871.00
6_V15_T0.8781.00
61_W91_T0.8711.00
66_L76_L0.8701.00
119_I123_T0.8701.00
58_L80_L0.8671.00
107_V110_A0.8651.00
114_M118_L0.8621.00
163_K166_I0.8571.00
128_E131_R0.8371.00
53_S79_E0.8371.00
149_A153_R0.8351.00
8_V13_Q0.8321.00
107_V111_L0.8311.00
72_H75_V0.8301.00
165_A169_D0.8281.00
60_V66_L0.8221.00
145_P148_W0.8191.00
75_V79_E0.8171.00
114_M117_E0.8151.00
54_A84_G0.8151.00
17_L125_A0.8151.00
120_V123_T0.8151.00
175_L179_F0.8061.00
21_A125_A0.8041.00
16_D20_N0.7981.00
25_A59_V0.7951.00
15_T32_E0.7941.00
37_G68_R0.7911.00
88_R95_D0.7911.00
151_A178_R0.7861.00
25_A90_L0.7831.00
17_L129_T0.7811.00
148_W151_A0.7801.00
164_V168_Y0.7791.00
161_R172_V0.7781.00
21_A24_C0.7741.00
146_E150_Q0.7721.00
111_L114_M0.7701.00
8_V34_K0.7681.00
121_E125_A0.7631.00
53_S83_R0.7611.00
76_L80_L0.7561.00
106_H117_E0.7531.00
37_G67_G0.7531.00
21_A91_T0.7531.00
173_S176_Y0.7521.00
143_L147_Q0.7511.00
163_K167_I0.7461.00
99_P121_E0.7431.00
17_L21_A0.7411.00
48_L51_T0.7411.00
17_L62_K0.7391.00
32_E44_G0.7381.00
45_L66_L0.7381.00
148_W178_R0.7361.00
173_S177_K0.7341.00
123_T126_G0.7281.00
118_L121_E0.7271.00
48_L52_L0.7271.00
20_N23_N0.7261.00
38_T120_V0.7211.00
144_T148_W0.7211.00
47_K50_R0.7211.00
67_G76_L0.7161.00
25_A88_R0.7141.00
62_K91_T0.7131.00
161_R179_F0.7071.00
69_S78_E0.7031.00
136_I141_P0.7021.00
153_R156_A0.7011.00
147_Q151_A0.6961.00
100_M103_F0.6891.00
3_I31_F0.6891.00
124_K128_E0.6841.00
147_Q168_Y0.6801.00
104_F108_M0.6801.00
70_M113_E0.6771.00
119_I126_G0.6741.00
15_T34_K0.6701.00
103_F107_V0.6661.00
136_I139_R0.6531.00
164_V175_L0.6511.00
171_G176_Y0.6481.00
63_L89_S0.6451.00
86_N95_D0.6401.00
149_A152_G0.6391.00
115_E118_L0.6381.00
73_L105_F0.6371.00
88_R93_S0.6311.00
130_A137_G0.6301.00
103_F106_H0.6251.00
100_M114_M0.6241.00
92_D108_M0.6161.00
152_G155_I0.6151.00
5_Y33_D0.6131.00
151_A168_Y0.6111.00
104_F111_L0.6111.00
127_L130_A0.6111.00
108_M111_L0.6011.00
142_K146_E0.5971.00
170_V174_T0.5950.99
63_L105_F0.5930.99
161_R165_A0.5890.99
27_C59_V0.5860.99
46_K50_R0.5860.99
104_F107_V0.5860.99
69_S72_H0.5860.99
100_M104_F0.5850.99
160_P166_I0.5840.99
79_E82_E0.5830.99
174_T177_K0.5820.99
52_L80_L0.5800.99
3_I52_L0.5800.99
171_G177_K0.5800.99
161_R175_L0.5720.99
59_V90_L0.5700.99
158_G164_V0.5680.99
14_N34_K0.5630.99
71_R74_V0.5600.99
62_K122_R0.5550.99
170_V176_Y0.5490.99
62_K118_L0.5480.99
150_Q168_Y0.5460.99
45_L49_L0.5430.99
70_M110_A0.5380.99
146_E149_A0.5340.99
78_E81_R0.5340.99
75_V78_E0.5330.99
165_A172_V0.5310.99
122_R125_A0.5310.99
164_V167_I0.5310.99
62_K92_D0.5270.99
142_K147_Q0.5260.99
117_E120_V0.5240.99
65_R68_R0.5220.99
125_A128_E0.5200.99
20_N132_A0.5180.99
45_L72_H0.5170.99
125_A129_T0.5160.99
4_G27_C0.5150.99
120_V127_L0.5130.99
165_A170_V0.5100.98
22_L90_L0.5090.98
155_I175_L0.5070.98
99_P114_M0.5050.98
67_G72_H0.5050.98
40_S45_L0.5040.98
127_L136_I0.5020.98
142_K145_P0.5000.98
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  
3uj3X 2 0.6739 100 0.113 Contact Map
2r0qC 3 0.962 100 0.13 Contact Map
1gdtA 2 0.9783 100 0.147 Contact Map
4bqqA 2 0.9565 100 0.242 Contact Map
2gm5A 4 0.663 100 0.34 Contact Map
3g13A 2 0.7554 100 0.344 Contact Map
3guvA 2 0.712 100 0.355 Contact Map
3lhkA 2 0.7337 100 0.414 Contact Map
3pkzA 4 0.625 100 0.414 Contact Map
3ilxA 2 0.6902 100 0.442 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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