GREMLIN Database
VPS13 - Vacuolar sorting-associated protein 13, N-terminal
PFAM: PF16908 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 226 (225)
Sequences: 1185 (886)
Seq/√Len: 59.1
META: 0.291

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
79_N107_H6.1411.00
21_H77_Y5.7611.00
38_G77_Y5.0271.00
21_H38_G4.6841.00
50_D54_K4.0871.00
78_W153_D3.5081.00
211_K215_D3.3301.00
182_N185_A3.2151.00
41_L44_L3.0271.00
40_T75_A2.8411.00
209_Y213_R2.6641.00
49_T66_H2.6351.00
175_P186_W2.6001.00
214_R218_K2.5971.00
21_H25_E2.5031.00
9_I12_N2.4421.00
23_R77_Y2.3711.00
23_R36_A2.2911.00
53_W119_K2.2601.00
49_T53_W2.1121.00
53_W68_L2.0741.00
217_R221_I2.0671.00
8_K11_D2.0161.00
108_Q147_D2.0101.00
48_T67_K1.9901.00
111_L114_V1.9611.00
182_N186_W1.9161.00
25_E36_A1.9091.00
92_E96_S1.8841.00
39_I76_V1.8621.00
210_I214_R1.7920.99
188_K192_N1.7760.99
68_L119_K1.7680.99
23_R38_G1.7350.99
81_S84_D1.7150.99
179_V186_W1.7120.99
25_E38_G1.6350.99
71_L116_G1.6190.99
41_L74_L1.5880.99
47_V55_P1.5820.99
209_Y214_R1.5310.98
212_E216_D1.5160.98
219_R222_E1.4960.98
12_N48_T1.4830.98
90_L94_F1.4620.98
205_W210_I1.4600.98
203_R212_E1.4540.98
48_T53_W1.4500.97
117_S136_D1.4410.97
30_N34_P1.4390.97
217_R223_L1.4260.97
42_E72_D1.4190.97
20_I41_L1.4030.97
42_E73_S1.3850.97
178_P186_W1.3840.97
219_R223_L1.3720.96
50_D53_W1.3480.96
213_R216_D1.3410.96
110_I137_L1.3000.95
69_L193_A1.2990.95
25_E77_Y1.2850.95
75_A109_Y1.2800.95
167_R189_Y1.2480.94
213_R218_K1.2460.94
26_D29_S1.2450.94
26_D34_P1.2410.94
187_W191_I1.2150.93
198_I202_N1.2130.93
22_I39_I1.2070.93
204_R209_Y1.1860.92
200_E213_R1.1790.92
210_I215_D1.1700.92
94_F97_G1.1570.91
20_I165_I1.1510.91
43_E72_D1.1360.91
40_T98_I1.1340.90
44_L69_L1.1310.90
1_F4_S1.1270.90
186_W189_Y1.1140.90
50_D56_T1.1130.90
78_W154_I1.1110.90
87_P91_L1.0950.89
49_T119_K1.0940.89
151_Y155_L1.0930.89
19_N159_D1.0900.89
38_G79_N1.0850.88
51_E66_H1.0810.88
76_V110_I1.0740.88
123_N130_T1.0630.87
2_T6_V1.0510.87
88_E93_K1.0430.86
37_F177_V1.0350.86
177_V186_W1.0290.86
93_K96_S1.0280.86
82_L93_K1.0260.85
73_S115_S1.0240.85
4_S132_K1.0180.85
208_E212_E1.0170.85
195_L199_R1.0150.85
28_I157_L1.0130.85
169_K197_E1.0090.85
200_E216_D0.9960.84
210_I222_E0.9950.84
113_P131_P0.9870.83
52_N219_R0.9810.83
116_G139_L0.9690.82
125_S128_T0.9680.82
15_V127_E0.9670.82
29_S157_L0.9610.81
26_D78_W0.9570.81
29_S43_E0.9470.81
35_F153_D0.9470.81
86_S89_E0.9430.80
167_R171_R0.9420.80
120_L133_I0.9420.80
180_K183_P0.9410.80
122_L133_I0.9340.80
2_T5_L0.9340.80
183_P186_W0.9320.79
49_T161_F0.9240.79
100_S104_S0.9230.79
1_F14_Q0.9220.79
181_E186_W0.9200.79
90_L109_Y0.9180.78
174_R186_W0.9100.78
13_L101_G0.9060.78
70_E117_S0.9050.77
69_L170_Y0.8910.76
118_A137_L0.8810.76
174_R189_Y0.8790.75
67_K150_Q0.8720.75
213_R221_I0.8720.75
40_T109_Y0.8690.75
25_E34_P0.8590.74
3_E8_K0.8420.72
22_I75_A0.8410.72
14_Q17_I0.8370.72
198_I209_Y0.8290.71
174_R187_W0.8180.70
64_I124_K0.8140.70
80_K146_L0.8100.69
36_A79_N0.8070.69
128_T224_Y0.8040.69
6_V179_V0.8010.68
13_L153_D0.7990.68
55_P136_D0.7970.68
16_T19_N0.7960.68
210_I213_R0.7920.67
77_Y94_F0.7900.67
172_K195_L0.7850.67
177_V182_N0.7850.67
178_P181_E0.7800.66
22_I76_V0.7770.66
8_K13_L0.7770.66
192_N195_L0.7770.66
11_D24_Y0.7720.65
114_V168_Q0.7710.65
189_Y202_N0.7680.65
79_N122_L0.7670.65
21_H40_T0.7660.65
221_I225_K0.7630.65
177_V181_E0.7600.64
82_L85_L0.7530.64
175_P187_W0.7530.64
79_N98_I0.7500.63
81_S90_L0.7480.63
121_T134_D0.7440.63
41_L114_V0.7430.62
111_L149_D0.7430.62
16_T155_L0.7420.62
189_Y210_I0.7400.62
65_I78_W0.7380.62
12_N17_I0.7370.62
216_D219_R0.7340.62
85_L89_E0.7310.61
195_L198_I0.7300.61
17_I71_L0.7290.61
89_E92_E0.7280.61
82_L120_L0.7270.61
187_W220_Y0.7260.61
48_T193_A0.7180.60
163_R189_Y0.7170.60
154_I170_Y0.7170.60
116_G217_R0.7160.60
35_F38_G0.7150.60
178_P182_N0.7140.59
207_W211_K0.7100.59
17_I21_H0.7030.58
12_N57_F0.7020.58
1_F153_D0.6990.58
123_N131_P0.6950.57
8_K217_R0.6930.57
170_Y189_Y0.6890.57
44_L158_L0.6890.57
66_H121_T0.6880.57
191_I195_L0.6870.56
132_K150_Q0.6860.56
46_A116_G0.6850.56
5_L160_S0.6840.56
192_N199_R0.6810.56
11_D217_R0.6800.56
184_R187_W0.6800.56
14_Q43_E0.6780.55
49_T68_L0.6760.55
179_V182_N0.6760.55
63_K154_I0.6750.55
4_S214_R0.6750.55
163_R218_K0.6730.55
41_L194_V0.6710.55
76_V104_S0.6680.54
24_Y42_E0.6680.54
6_V88_E0.6650.54
170_Y197_E0.6640.54
173_Y192_N0.6620.54
149_D153_D0.6620.54
89_E93_K0.6610.54
65_I146_L0.6600.54
12_N131_P0.6590.53
76_V130_T0.6590.53
38_G150_Q0.6580.53
40_T77_Y0.6530.53
147_D201_R0.6520.53
64_I120_L0.6510.53
164_F189_Y0.6500.52
173_Y189_Y0.6500.52
53_W66_H0.6480.52
37_F78_W0.6470.52
85_L93_K0.6460.52
130_T203_R0.6450.52
8_K213_R0.6450.52
208_E211_K0.6440.52
33_H74_L0.6420.52
207_W210_I0.6420.52
112_K141_E0.6410.51
79_N115_S0.6410.51
93_K102_D0.6400.51
146_L188_K0.6390.51
14_Q44_L0.6380.51
8_K118_A0.6380.51
173_Y196_E0.6350.51
25_E94_F0.6320.50
2_T9_I0.6300.50
5_L12_N0.6250.50
116_G151_Y0.6200.49
51_E67_K0.6190.49
91_L95_K0.6180.49
212_E222_E0.6160.49
170_Y173_Y0.6130.48
185_A192_N0.6130.48
24_Y71_L0.6110.48
42_E176_K0.6110.48
218_K225_K0.6070.48
174_R179_V0.6060.47
99_A105_P0.6050.47
19_N138_E0.6040.47
2_T45_S0.6030.47
122_L214_R0.6010.47
68_L71_L0.6000.47
88_E104_S0.5990.47
179_V183_P0.5990.47
112_K145_V0.5960.46
115_S146_L0.5960.46
189_Y197_E0.5920.46
11_D124_K0.5910.46
213_R217_R0.5890.46
30_N43_E0.5860.45
200_E203_R0.5840.45
96_S101_G0.5810.45
102_D106_K0.5800.45
24_Y35_F0.5800.45
135_A149_D0.5770.44
101_G105_P0.5750.44
12_N53_W0.5730.44
28_I178_P0.5690.43
18_K135_A0.5690.43
107_H183_P0.5680.43
8_K57_F0.5640.43
36_A206_S0.5610.43
49_T57_F0.5590.42
183_P217_R0.5590.42
6_V10_I0.5550.42
17_I136_D0.5550.42
185_A212_E0.5550.42
214_R224_Y0.5550.42
69_L135_A0.5550.42
13_L95_K0.5550.42
142_I189_Y0.5540.42
6_V9_I0.5540.42
1_F194_V0.5530.42
84_D87_P0.5510.41
82_L97_G0.5510.41
65_I126_G0.5490.41
187_W198_I0.5490.41
89_E96_S0.5490.41
172_K196_E0.5480.41
59_D117_S0.5440.41
57_F221_I0.5430.41
206_S209_Y0.5430.41
51_E101_G0.5430.41
177_V185_A0.5420.40
35_F77_Y0.5420.40
59_D62_S0.5380.40
207_W217_R0.5370.40
30_N110_I0.5360.40
8_K12_N0.5360.40
32_G76_V0.5350.40
25_E79_N0.5350.40
94_F116_G0.5350.40
39_I84_D0.5340.40
18_K39_I0.5330.40
61_T157_L0.5320.39
121_T166_R0.5310.39
121_T136_D0.5310.39
111_L193_A0.5270.39
110_I165_I0.5260.39
40_T151_Y0.5260.39
100_S198_I0.5240.39
10_I184_R0.5240.39
124_K127_E0.5230.38
4_S118_A0.5210.38
70_E142_I0.5200.38
125_S129_D0.5170.38
118_A156_K0.5140.38
13_L151_Y0.5130.37
29_S75_A0.5110.37
20_I32_G0.5090.37
82_L184_R0.5090.37
26_D35_F0.5080.37
206_S214_R0.5070.37
49_T78_W0.5070.37
17_I20_I0.5070.37
209_Y212_E0.5060.37
39_I103_N0.5060.37
199_R202_N0.5050.37
122_L160_S0.5050.37
36_A117_S0.5030.36
123_N172_K0.5010.36
12_N49_T0.5000.36
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  
4x3iA 1 0.3186 13 0.945 Contact Map
2la3A 1 0.4248 6.5 0.952 Contact Map
1nh2D 1 0.1681 4.5 0.955 Contact Map
3c6vA 3 0.2611 4.5 0.955 Contact Map
1sz7A 2 0.1858 4.5 0.955 Contact Map
3kanA 3 0.1858 4.2 0.956 Contact Map
3jtzA 2 0.3363 3.2 0.959 Contact Map
3ju0A 1 0.3363 3 0.959 Contact Map
1hfoA 3 0.1726 2.5 0.961 Contact Map
1d4tA 1 0.4248 2.4 0.961 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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