GREMLIN Database
CPSF73-100_C - Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term
PFAM: PF11718 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 217 (208)
Sequences: 508 (347)
Seq/√Len: 24.0
META: 0.173

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
178_I185_A4.9231.00
57_F110_S4.8611.00
79_V85_V4.6511.00
78_R84_T3.2771.00
202_K206_E2.9951.00
42_L49_L2.9161.00
111_V114_V2.7600.99
23_L155_L2.6830.99
7_V16_S2.2330.97
85_V197_E2.0820.95
98_W105_D2.0000.94
159_F204_R1.9590.94
4_V161_D1.9290.93
8_L20_P1.9030.93
102_P106_M1.8580.92
18_M27_T1.8350.91
203_E206_E1.8110.91
7_V14_K1.7780.90
49_L115_L1.7530.89
32_S116_L1.7490.89
88_E95_T1.7240.88
151_L209_V1.7230.88
52_H118_V1.7160.88
193_E206_E1.7020.88
180_V196_C1.7010.88
121_S124_S1.6920.87
115_L164_V1.6830.87
5_S142_L1.6560.86
20_P181_D1.6430.86
67_E79_V1.6390.86
12_D54_E1.6220.85
96_L111_V1.6220.85
177_E186_K1.5850.84
91_E96_L1.5700.83
27_T32_S1.5520.82
159_F208_V1.5510.82
61_E81_G1.5390.82
192_L209_V1.5370.82
85_V96_L1.5270.81
7_V19_A1.5250.81
83_V194_V1.5230.81
114_V163_E1.4950.80
38_Q112_L1.4850.79
57_F158_Q1.4640.78
23_L113_A1.4600.78
101_N126_K1.4540.78
76_T86_K1.4490.78
127_S130_H1.4160.76
4_V63_L1.4160.76
57_F107_I1.4120.76
27_T36_Q1.4090.76
176_L191_T1.3870.74
183_K201_L1.3770.74
7_V57_F1.3640.73
207_T211_R1.3530.72
67_E73_G1.3450.72
16_S42_L1.3440.72
20_P81_G1.3410.72
39_S93_E1.3390.72
10_K15_Y1.3360.72
185_A201_L1.3290.71
58_G80_M1.3170.70
31_T119_E1.3160.70
36_Q100_S1.3140.70
122_P126_K1.3140.70
85_V115_L1.3040.70
17_L121_S1.2880.69
143_D150_R1.2790.68
194_V201_L1.2750.68
28_G104_N1.2580.67
80_M204_R1.2490.66
6_G27_T1.2420.66
22_D37_R1.2220.64
84_T211_R1.2200.64
60_V182_G1.2080.64
85_V136_A1.2080.64
36_Q106_M1.1980.63
185_A205_V1.1930.63
48_L58_G1.1650.61
27_T106_M1.1630.61
197_E200_V1.1490.60
96_L180_V1.1410.59
173_V188_D1.1370.59
8_L17_L1.1370.59
101_N114_V1.1350.59
64_E74_V1.1280.58
101_N122_P1.1230.58
161_D185_A1.0900.56
20_P79_V1.0880.55
165_D168_E1.0580.53
154_F207_T1.0520.53
50_R54_E1.0490.53
204_R209_V1.0440.52
65_D86_K1.0440.52
127_S132_H1.0250.51
10_K16_S1.0240.51
23_L50_R1.0230.51
115_L176_L1.0210.51
60_V100_S1.0140.50
37_R97_E1.0080.50
50_R62_E1.0070.50
48_L126_K1.0070.50
49_L187_I1.0030.49
82_C110_S1.0020.49
48_L51_W1.0010.49
77_L87_Y0.9930.49
53_L111_V0.9930.49
22_D97_E0.9900.48
61_E78_R0.9900.48
149_E191_T0.9870.48
21_E46_F0.9860.48
136_A140_A0.9810.48
83_V109_D0.9770.47
175_G188_D0.9750.47
59_S198_D0.9470.45
5_S129_S0.9460.45
98_W108_A0.9400.45
22_D38_Q0.9360.45
85_V187_I0.9360.45
38_Q122_P0.9300.44
150_R154_F0.9290.44
146_E150_R0.9280.44
51_W55_Q0.9240.44
19_A75_P0.9220.44
183_K198_D0.9210.44
18_M84_T0.9210.44
21_E76_T0.9200.43
74_V79_V0.9140.43
53_L181_D0.9130.43
98_W109_D0.9070.43
100_S111_V0.9060.43
197_E208_V0.9030.42
57_F204_R0.9020.42
102_P215_A0.8930.42
26_Y157_A0.8860.41
13_F116_L0.8830.41
71_D87_Y0.8710.40
51_W113_A0.8710.40
131_S134_P0.8700.40
46_F77_L0.8660.40
49_L183_K0.8640.40
24_R35_T0.8580.39
56_M110_S0.8560.39
12_D57_F0.8530.39
102_P116_L0.8520.39
60_V158_Q0.8520.39
137_N153_M0.8490.39
50_R79_V0.8400.38
47_D101_N0.8360.38
71_D133_S0.8320.37
9_V17_L0.8290.37
60_V119_E0.8270.37
11_K31_T0.8230.37
17_L212_A0.8190.37
38_Q113_A0.8150.36
130_H133_S0.8140.36
34_V78_R0.8120.36
154_F208_V0.8070.36
55_Q59_S0.8040.36
6_G9_V0.8010.35
60_V139_H0.7920.35
111_V116_L0.7910.35
18_M21_E0.7910.35
21_E89_S0.7880.35
7_V44_A0.7860.34
19_A32_S0.7790.34
65_D73_G0.7780.34
23_L215_A0.7780.34
49_L107_I0.7770.34
50_R139_H0.7730.34
9_V37_R0.7710.33
116_L180_V0.7700.33
83_V146_E0.7610.33
105_D109_D0.7600.33
66_E73_G0.7590.33
35_T86_K0.7560.33
28_G58_G0.7550.32
10_K17_L0.7540.32
65_D91_E0.7540.32
37_R103_V0.7530.32
37_R113_A0.7530.32
108_A132_H0.7520.32
21_E74_V0.7520.32
118_V211_R0.7510.32
208_V212_A0.7470.32
144_P149_E0.7460.32
188_D198_D0.7450.32
35_T83_V0.7450.32
21_E96_L0.7430.32
105_D108_A0.7430.32
5_S75_P0.7400.32
11_K27_T0.7400.32
16_S57_F0.7400.32
95_T195_E0.7350.31
177_E188_D0.7310.31
65_D78_R0.7290.31
96_L131_S0.7270.31
60_V92_G0.7200.30
61_E181_D0.7180.30
143_D164_V0.7170.30
28_G44_A0.7140.30
17_L148_L0.7130.30
82_C205_V0.7080.30
27_T178_I0.7070.30
15_Y36_Q0.7040.29
164_V186_K0.7030.29
83_V167_I0.7030.29
4_V177_E0.7020.29
54_E87_Y0.6950.29
156_E189_L0.6950.29
110_S124_S0.6940.29
83_V169_K0.6940.29
7_V29_L0.6910.29
94_V128_S0.6910.29
49_L182_G0.6910.29
10_K30_S0.6900.29
179_T184_V0.6880.28
111_V145_E0.6880.28
118_V150_R0.6850.28
193_E210_E0.6830.28
20_P27_T0.6790.28
143_D166_P0.6750.28
180_V183_K0.6740.28
54_E157_A0.6740.28
14_K40_I0.6720.28
7_V106_M0.6720.28
190_E196_C0.6710.27
136_A143_D0.6700.27
121_S125_V0.6690.27
61_E129_S0.6670.27
139_H150_R0.6670.27
73_G199_E0.6660.27
72_D186_K0.6630.27
60_V133_S0.6620.27
17_L195_E0.6600.27
45_G48_L0.6580.27
80_M212_A0.6580.27
179_T205_V0.6540.27
104_N144_P0.6540.27
40_I157_A0.6510.26
15_Y32_S0.6490.26
204_R208_V0.6470.26
178_I195_E0.6470.26
143_D146_E0.6430.26
204_R212_A0.6410.26
5_S179_T0.6400.26
205_V216_V0.6370.26
52_H114_V0.6350.25
135_L187_I0.6350.25
4_V214_E0.6350.25
152_A162_V0.6320.25
147_R174_P0.6310.25
117_S123_A0.6290.25
67_E71_D0.6190.25
17_L42_L0.6180.25
117_S204_R0.6170.25
74_V96_L0.6160.24
158_Q204_R0.6160.24
81_G99_E0.6130.24
4_V64_E0.6110.24
139_H188_D0.6110.24
4_V11_K0.6080.24
147_R212_A0.6010.24
83_V131_S0.5970.23
40_I56_M0.5940.23
143_D196_C0.5940.23
186_K197_E0.5920.23
148_L152_A0.5890.23
11_K159_F0.5890.23
71_D205_V0.5860.23
40_I190_E0.5860.23
139_H210_E0.5800.23
34_V216_V0.5780.23
4_V169_K0.5740.22
34_V142_L0.5740.22
22_D205_V0.5720.22
86_K89_S0.5710.22
145_E194_V0.5710.22
129_S133_S0.5590.22
56_M124_S0.5590.22
101_N104_N0.5580.22
101_N115_L0.5580.22
67_E96_L0.5540.21
35_T61_E0.5520.21
44_A118_V0.5490.21
44_A80_M0.5480.21
58_G121_S0.5450.21
40_I60_V0.5410.21
169_K180_V0.5380.21
25_E123_A0.5350.20
66_E79_V0.5330.20
7_V26_Y0.5320.20
107_I151_L0.5310.20
95_T125_V0.5270.20
50_R159_F0.5270.20
145_E166_P0.5260.20
12_D154_F0.5250.20
73_G205_V0.5250.20
81_G169_K0.5230.20
83_V127_S0.5200.20
46_F101_N0.5180.20
175_G195_E0.5160.20
27_T156_E0.5150.20
25_E120_S0.5150.20
37_R112_L0.5120.19
140_A145_E0.5100.19
118_V122_P0.5070.19
64_E72_D0.5030.19
189_L192_L0.5020.19
121_S208_V0.5010.19
42_L51_W0.5010.19
116_L153_M0.5000.19
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  
4c5sA 4 0.2949 17.3 0.952 Contact Map
2m5oA 1 0.3871 14.4 0.953 Contact Map
2jysA 1 0.1429 11.1 0.956 Contact Map
3fajA 1 0.2627 8 0.958 Contact Map
3le1A 1 0.4009 6.3 0.96 Contact Map
4mxpA 1 0.3134 5.3 0.962 Contact Map
1vehA 1 0.3641 4.9 0.962 Contact Map
2dchX 3 0.2719 4.8 0.963 Contact Map
1y2mA 4 0.3687 4.4 0.963 Contact Map
2rrlA 1 0.6313 4.4 0.963 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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