GREMLIN Database
Rab5ip - Rab5-interacting protein (Rab5ip)
PFAM: PF07019 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 82 (80)
Sequences: 988 (755)
Seq/√Len: 84.5
META: 0.459

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_F71_L4.3251.00
75_V79_T3.6131.00
47_A51_P2.5451.00
17_A30_F2.2081.00
13_A34_S2.0721.00
17_A74_F2.0481.00
73_T77_F2.0201.00
33_L37_L1.8791.00
11_L77_F1.7961.00
50_K53_K1.7461.00
43_Y63_L1.7051.00
31_Y69_G1.6821.00
3_Y7_Q1.5821.00
32_L67_L1.5761.00
9_T38_V1.5611.00
23_T82_Y1.5080.99
77_F81_F1.5050.99
68_F71_L1.4950.99
12_L49_F1.4850.99
50_K54_Y1.4330.99
17_A80_L1.3950.99
17_A22_L1.3110.99
31_Y41_L1.2960.98
15_V19_I1.2800.98
78_W82_Y1.2790.98
32_L60_S1.2360.98
40_L44_A1.2310.98
50_K56_G1.2100.98
7_Q19_I1.1920.97
6_R28_F1.1360.96
26_L29_L1.1240.96
74_F78_W1.1200.96
6_R24_G1.1170.96
37_L41_L1.0480.94
71_L75_V1.0440.94
31_Y70_G1.0160.93
21_G76_L1.0000.93
5_I49_F0.9890.92
35_S68_F0.9820.92
32_L53_K0.9770.92
19_I81_F0.9640.91
65_E70_G0.9510.91
8_L77_F0.9360.90
44_A49_F0.9350.90
46_K70_G0.9270.90
10_A31_Y0.9200.89
47_A53_K0.9180.89
9_T41_L0.9180.89
7_Q76_L0.9170.89
2_L73_T0.9110.89
69_G73_T0.9030.89
23_T77_F0.8820.87
56_G64_T0.8750.87
18_G36_L0.8520.85
68_F75_V0.8440.85
50_K74_F0.8420.85
25_L36_L0.8350.84
9_T12_L0.8340.84
27_G30_F0.8210.83
7_Q62_L0.8150.83
30_F74_F0.8150.83
37_L52_E0.8080.82
20_L27_G0.8080.82
4_W12_L0.8050.82
73_T79_T0.8000.82
34_S38_V0.7940.81
41_L70_G0.7870.81
35_S67_L0.7820.80
32_L35_S0.7780.80
26_L33_L0.7740.79
30_F65_E0.7630.78
15_V81_F0.7480.77
36_L42_Y0.7480.77
6_R55_F0.7420.77
10_A70_G0.7280.75
28_F40_L0.7260.75
22_L76_L0.7240.75
19_I27_G0.7110.73
35_S72_M0.7070.73
76_L79_T0.7020.73
6_R47_A0.6990.72
15_V62_L0.6990.72
18_G21_G0.6920.71
45_L75_V0.6870.71
36_L40_L0.6860.71
13_A23_T0.6860.71
38_V52_E0.6850.71
75_V80_L0.6850.71
74_F80_L0.6730.69
27_G54_Y0.6730.69
32_L50_K0.6720.69
25_L82_Y0.6690.69
51_P62_L0.6490.67
22_L27_G0.6320.64
10_A73_T0.6290.64
33_L60_S0.6280.64
13_A55_F0.6250.64
15_V71_L0.6180.63
57_G63_L0.6160.63
39_S63_L0.6110.62
32_L42_Y0.6060.61
6_R72_M0.5980.60
10_A45_L0.5880.59
8_L81_F0.5810.58
31_Y38_V0.5730.57
19_I54_Y0.5680.56
57_G69_G0.5630.56
23_T79_T0.5580.55
17_A21_G0.5520.54
19_I42_Y0.5500.54
13_A73_T0.5440.53
15_V51_P0.5440.53
14_G73_T0.5340.52
8_L35_S0.5340.52
40_L54_Y0.5260.51
5_I43_Y0.5250.51
55_F60_S0.5140.49
17_A55_F0.5110.49
56_G60_S0.5020.48
62_L68_F0.5000.47
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  
3dh4A 3 0.9756 2.4 0.902 Contact Map
2l2tA 2 0.5244 2 0.906 Contact Map
3tx3A 2 0.6341 1.9 0.908 Contact Map
4c7rA 3 0.9878 1.7 0.91 Contact Map
2m20A 2 0.6951 1.5 0.914 Contact Map
4czbA 2 0.9878 1.4 0.915 Contact Map
4dw1A 3 0.2195 1.3 0.916 Contact Map
4p6vB 1 0.622 1.3 0.917 Contact Map
4bwzA 2 0.9756 1.2 0.919 Contact Map
1rh5A 1 0.622 1.1 0.919 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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