GREMLIN Database
Phage_GPO - Phage capsid scaffolding protein (GPO) serine peptidase
PFAM: PF05929 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 272 (267)
Sequences: 1149 (855)
Seq/√Len: 52.4
META: 0.42

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_G99_Y4.2061.00
7_A102_I3.6561.00
61_A81_Q3.6181.00
21_Q25_Q3.5171.00
23_I64_A3.4571.00
9_E20_R3.3871.00
29_T113_K3.3071.00
26_M62_L3.1371.00
3_W63_K3.1341.00
107_N110_D3.1321.00
83_E95_G2.9161.00
25_Q113_K2.8861.00
20_R66_E2.8571.00
62_L80_A2.7391.00
240_D245_K2.6921.00
28_E113_K2.6181.00
38_R58_D2.6131.00
109_A128_L2.5191.00
45_R124_S2.4091.00
26_M104_I2.3811.00
25_Q29_T2.3161.00
36_G98_L2.2861.00
39_I82_I2.2731.00
6_V102_I2.2281.00
24_E28_E2.1761.00
67_V77_A2.1721.00
36_G58_D2.1601.00
54_G87_D2.1531.00
226_E231_K2.1531.00
3_W81_Q2.0961.00
40_N45_R2.0821.00
6_V80_A2.0811.00
24_E76_L2.0801.00
233_A238_Q2.0581.00
8_T77_A2.0351.00
23_I76_L1.9991.00
63_K81_Q1.9691.00
5_R77_A1.9611.00
22_W104_I1.9431.00
19_E22_W1.9341.00
58_D99_Y1.9100.99
88_L121_V1.9020.99
30_Y37_A1.9000.99
7_A18_I1.8380.99
85_T95_G1.8260.99
66_E76_L1.8160.99
236_A240_D1.7940.99
40_N120_A1.7930.99
90_A94_A1.7650.99
23_I26_M1.7430.99
69_D74_G1.7330.99
20_R76_L1.6960.99
38_R55_A1.6950.99
241_F245_K1.6710.99
105_D117_V1.6390.98
192_D195_R1.6280.98
98_L132_M1.6120.98
9_E76_L1.5880.98
234_L237_L1.5240.97
237_L241_F1.5000.97
11_A110_D1.5000.97
234_L241_F1.4890.97
188_K192_D1.4770.97
66_E74_G1.4590.96
90_A93_K1.4530.96
20_R24_E1.4450.96
161_T165_F1.4000.96
203_V206_L1.3870.95
121_V133_L1.3850.95
132_M144_L1.3670.95
68_D74_G1.3400.94
64_A76_L1.3350.94
67_V79_F1.3290.94
70_G74_G1.3220.94
209_E214_A1.2940.93
51_S54_G1.2920.93
227_L230_L1.2900.93
5_R8_T1.2870.93
48_L52_P1.2720.93
177_L181_V1.2560.92
58_D98_L1.2560.92
55_A124_S1.2430.92
240_D243_A1.2380.92
234_L238_Q1.2370.92
69_D73_E1.2090.91
8_T67_V1.1950.90
105_D150_S1.1920.90
64_A79_F1.1840.90
31_D34_T1.1800.89
3_W61_A1.1780.89
38_R99_Y1.1760.89
54_G94_A1.1740.89
192_D196_F1.1650.89
199_V206_L1.1610.89
238_Q242_A1.1540.88
100_T119_L1.1470.88
21_Q24_E1.1150.87
245_K249_E1.1150.87
84_P89_V1.1140.87
201_Q204_E1.1080.86
232_A236_A1.0850.85
236_A239_A1.0830.85
34_T128_L1.0810.85
108_F128_L1.0740.84
24_E64_A1.0690.84
107_N111_T1.0670.84
63_K79_F1.0660.84
38_R98_L1.0660.84
149_Q153_N1.0660.84
195_R200_H1.0520.83
235_A239_A1.0360.82
180_R183_A1.0260.82
41_L91_L1.0240.82
243_A246_T1.0170.81
105_D153_N1.0160.81
100_T161_T1.0110.81
55_A58_D1.0050.80
40_N92_N0.9940.80
199_V203_V0.9930.79
7_A135_F0.9920.79
40_N103_E0.9910.79
46_G53_F0.9910.79
100_T133_L0.9900.79
5_R79_F0.9850.79
81_Q166_E0.9830.79
144_L147_R0.9810.79
17_E107_N0.9760.78
18_I102_I0.9660.78
67_V74_G0.9650.78
213_L216_K0.9560.77
34_T109_A0.9500.76
231_K235_A0.9340.75
241_F249_E0.9340.75
48_L54_G0.9310.75
92_N121_V0.9290.75
196_F199_V0.9250.74
24_E66_E0.9210.74
246_T250_K0.9210.74
200_H206_L0.9180.74
103_E118_G0.9090.73
179_A183_A0.9060.73
204_E208_E0.9000.72
196_F203_V0.8980.72
258_R261_A0.8970.72
40_N55_A0.8950.72
223_L227_L0.8940.72
132_M143_P0.8940.72
6_V62_L0.8930.72
87_D90_A0.8910.72
67_V70_G0.8810.71
8_T75_K0.8800.71
202_A205_A0.8800.71
6_V39_I0.8740.70
91_L121_V0.8690.70
230_L234_L0.8680.70
176_S188_K0.8660.69
241_F244_L0.8590.69
183_A187_K0.8570.69
227_L237_L0.8490.68
200_H203_V0.8450.68
107_N112_G0.8450.68
195_R199_V0.8430.67
47_L50_D0.8360.67
104_I114_A0.8350.67
176_S180_R0.8330.66
142_N145_A0.8310.66
69_D84_P0.8270.66
202_A207_A0.8240.66
175_A180_R0.8230.66
6_V116_L0.8200.65
13_T148_K0.8170.65
235_A238_Q0.8120.64
58_D85_T0.8100.64
7_A55_A0.8100.64
30_Y115_Y0.8090.64
208_E212_E0.8080.64
256_T259_P0.8040.64
228_A231_K0.8040.64
229_E233_A0.8030.64
9_E75_K0.8030.64
252_P255_Q0.7980.63
252_P257_Q0.7950.63
59_V119_L0.7910.62
41_L44_I0.7910.62
201_Q205_A0.7890.62
202_A206_L0.7890.62
95_G132_M0.7880.62
41_L85_T0.7860.62
136_S142_N0.7840.62
206_L209_E0.7820.62
265_D268_V0.7810.61
255_Q259_P0.7780.61
253_A256_T0.7730.61
247_K250_K0.7720.61
244_L247_K0.7660.60
2_K164_E0.7650.60
40_N121_V0.7600.59
209_E213_L0.7560.59
82_I121_V0.7500.58
9_E24_E0.7490.58
4_F82_I0.7480.58
144_L148_K0.7470.58
11_A17_E0.7470.58
67_V73_E0.7460.58
42_E97_K0.7450.58
35_Y130_T0.7410.57
37_A115_Y0.7410.57
117_V153_N0.7410.57
92_N133_L0.7370.57
44_I47_L0.7360.57
237_L240_D0.7350.57
190_K194_A0.7300.56
87_D94_A0.7290.56
40_N117_V0.7270.56
256_T260_P0.7260.56
50_D54_G0.7250.56
27_A30_Y0.7240.56
189_Q192_D0.7230.56
198_D202_A0.7200.55
252_P256_T0.7150.55
188_K195_R0.7140.55
208_E213_L0.7130.54
243_A247_K0.7110.54
11_A107_N0.7050.54
5_R131_E0.7040.54
42_E124_S0.7040.54
242_A246_T0.7030.53
97_K123_D0.7030.53
6_V40_N0.7030.53
102_I106_P0.7010.53
249_E252_P0.7010.53
6_V81_Q0.7000.53
29_T111_T0.6990.53
206_L210_V0.6990.53
30_Y60_L0.6980.53
42_E45_R0.6970.53
56_Y91_L0.6960.53
267_A270_T0.6940.53
6_V100_T0.6930.52
70_G73_E0.6900.52
58_D95_G0.6880.52
48_L51_S0.6860.52
34_T69_D0.6860.52
82_I133_L0.6850.52
23_I27_A0.6820.51
195_R198_D0.6820.51
62_L102_I0.6810.51
41_L49_P0.6810.51
67_V75_K0.6790.51
225_A228_A0.6770.51
30_Y98_L0.6680.50
139_A142_N0.6660.50
58_D132_M0.6660.50
111_T128_L0.6650.49
223_L226_E0.6640.49
22_W25_Q0.6630.49
45_R55_A0.6610.49
4_F89_V0.6560.49
181_V188_K0.6550.48
25_Q114_A0.6540.48
19_E26_M0.6530.48
251_T255_Q0.6530.48
30_Y99_Y0.6520.48
196_F200_H0.6480.48
198_D201_Q0.6480.48
224_E228_A0.6470.48
13_T22_W0.6460.47
210_V214_A0.6440.47
4_F131_E0.6440.47
153_N157_A0.6430.47
229_E232_A0.6420.47
140_K145_A0.6410.47
205_A209_E0.6410.47
58_D83_E0.6400.47
174_G178_F0.6370.47
212_E216_K0.6360.46
199_V202_A0.6340.46
23_I102_I0.6330.46
260_P266_G0.6320.46
228_A232_A0.6310.46
80_A100_T0.6310.46
233_A236_A0.6300.46
136_S144_L0.6290.46
26_M83_E0.6280.46
69_D111_T0.6270.45
56_Y87_D0.6260.45
41_L48_L0.6220.45
82_I119_L0.6200.45
8_T11_A0.6160.44
234_L248_L0.6140.44
211_A214_A0.6140.44
236_A245_K0.6130.44
213_L217_F0.6120.44
203_V210_V0.6040.43
36_G85_T0.6040.43
54_G91_L0.6040.43
197_A262_T0.6030.43
54_G85_T0.6000.43
120_A156_S0.6000.43
191_K195_R0.5970.42
39_I84_P0.5960.42
260_P265_D0.5950.42
227_L234_L0.5950.42
55_A96_Q0.5950.42
35_Y108_F0.5950.42
181_V184_L0.5920.42
153_N160_E0.5910.42
26_M42_E0.5910.42
266_G269_L0.5900.42
21_Q113_K0.5900.42
39_I89_V0.5890.42
151_P154_L0.5890.42
246_T249_E0.5880.41
86_D90_A0.5870.41
173_P176_S0.5850.41
148_K158_A0.5840.41
165_F259_P0.5840.41
3_W22_W0.5830.41
8_T129_G0.5830.41
32_P60_L0.5830.41
4_F20_R0.5820.41
134_K138_Q0.5790.41
49_P53_F0.5790.41
5_R53_F0.5770.40
179_A182_K0.5730.40
207_A210_V0.5720.40
100_T120_A0.5680.39
89_V93_K0.5670.39
226_E234_L0.5640.39
178_F185_F0.5640.39
264_G268_V0.5620.39
46_G52_P0.5600.39
225_A247_K0.5600.39
60_L83_E0.5590.39
193_D200_H0.5580.38
177_L182_K0.5570.38
47_L51_S0.5570.38
131_E156_S0.5560.38
22_W105_D0.5540.38
108_F115_Y0.5530.38
89_V92_N0.5530.38
8_T33_K0.5530.38
203_V207_A0.5510.38
75_K128_L0.5500.38
62_L113_K0.5490.38
237_L244_L0.5470.37
62_L99_Y0.5460.37
5_R67_V0.5440.37
260_P268_V0.5420.37
41_L56_Y0.5390.37
148_K154_L0.5360.36
11_A22_W0.5360.36
7_A26_M0.5350.36
232_A235_A0.5340.36
98_L136_S0.5330.36
227_L231_K0.5330.36
255_Q269_L0.5320.36
85_T89_V0.5310.36
203_V211_A0.5310.36
226_E233_A0.5300.36
198_D203_V0.5290.36
105_D152_E0.5290.36
211_A217_F0.5280.36
75_K109_A0.5260.35
41_L55_A0.5250.35
147_R153_N0.5250.35
86_D93_K0.5240.35
37_A59_V0.5240.35
197_A200_H0.5220.35
231_K241_F0.5210.35
10_G14_D0.5210.35
205_A208_E0.5210.35
40_N124_S0.5200.35
256_T268_V0.5190.35
222_A227_L0.5180.35
45_R106_P0.5180.35
41_L121_V0.5180.35
145_A148_K0.5160.34
233_A246_T0.5150.34
15_G148_K0.5140.34
150_S153_N0.5140.34
50_D53_F0.5130.34
147_R151_P0.5130.34
239_A242_A0.5120.34
27_A62_L0.5120.34
180_R184_L0.5110.34
167_E173_P0.5090.34
210_V216_K0.5090.34
22_W26_M0.5090.34
87_D91_L0.5090.34
191_K202_A0.5070.34
22_W106_P0.5040.33
28_E64_A0.5040.33
13_T16_R0.5030.33
176_S179_A0.5020.33
190_K269_L0.5020.33
34_T108_F0.5020.33
249_E255_Q0.5010.33
9_E66_E0.5010.33
186_S190_K0.5000.33
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  
4r3zA 1 0.2574 39.5 0.96 Contact Map
1fzcC 2 0.2096 38.8 0.961 Contact Map
3qprA 8 0.0037 34.6 0.962 Contact Map
2yy0A 6 0.1949 32.9 0.962 Contact Map
4dznA 3 0.1176 22.7 0.965 Contact Map
1lwuC 1 0.2647 22.1 0.965 Contact Map
4rsiA 1 0.2537 19.3 0.966 Contact Map
1lwuB 1 0.2537 18.2 0.966 Contact Map
1fzcB 1 0.2169 15.9 0.967 Contact Map
4emcA 2 0.2794 15.6 0.967 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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