GREMLIN Database
DUF2953 - Protein of unknown function (DUF2953)
PFAM: PF11167 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 53 (51)
Sequences: 2736 (2254)
Seq/√Len: 315.6
META: 0.793

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_Y19_W3.4251.00
2_R52_E2.7571.00
2_R45_D2.4541.00
2_R43_T2.3931.00
5_L14_L2.1761.00
30_S35_L1.9541.00
45_D48_E1.9401.00
5_L10_D1.9031.00
18_L42_V1.5931.00
12_G46_F1.4201.00
4_G51_F1.3621.00
20_A24_L1.3301.00
6_G49_E1.2571.00
19_W23_G1.1601.00
9_A13_I1.1291.00
28_L32_Y1.1241.00
24_L27_G1.1051.00
11_T44_P1.1031.00
20_A23_G1.0831.00
17_A20_A1.0441.00
3_I18_L1.0381.00
8_A47_N1.0341.00
13_I17_A1.0331.00
9_A12_G1.0101.00
5_L11_T0.9961.00
19_W38_P0.9901.00
3_I15_Y0.9781.00
8_A11_T0.9531.00
19_W22_K0.9321.00
22_K26_L0.9241.00
12_G15_Y0.8921.00
22_K42_V0.8841.00
6_G10_D0.8761.00
9_A16_G0.8681.00
45_D50_V0.8681.00
28_L31_R0.8661.00
13_I16_G0.8621.00
27_G30_S0.8511.00
23_G27_G0.8481.00
16_G19_W0.8331.00
16_G20_A0.8201.00
26_L30_S0.8181.00
48_E52_E0.8071.00
10_D14_L0.7871.00
14_L17_A0.7861.00
3_I11_T0.7831.00
38_P41_S0.7720.99
26_L40_I0.7680.99
2_R48_E0.7510.99
22_K25_L0.7500.99
22_K40_I0.7480.99
49_E52_E0.7470.99
2_R50_V0.7350.99
27_G31_R0.7350.99
31_R34_R0.7270.99
26_L43_T0.7220.99
7_D12_G0.6890.99
22_K38_P0.6640.98
30_S33_F0.6590.98
32_Y35_L0.6400.98
8_A45_D0.6270.98
22_K41_S0.6110.97
11_T14_L0.5900.97
4_G8_A0.5840.97
10_D17_A0.5820.97
15_Y44_P0.5710.96
15_Y23_G0.5700.96
34_R37_K0.5550.95
38_P42_V0.5470.95
10_D27_G0.5430.95
3_I42_V0.5290.94
40_I46_F0.5210.94
26_L37_K0.5090.93
6_G48_E0.5080.93
15_Y42_V0.5000.92
15_Y22_K0.5000.92
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  
1z5hA 3 0.3962 10.7 0.813 Contact Map
4b8rA 1 0.434 7.8 0.825 Contact Map
1ua4A 1 0.4151 7.3 0.827 Contact Map
1l2lA 1 0.3396 5.1 0.839 Contact Map
4twkA 2 0.7358 5 0.84 Contact Map
2yd0A 1 0.6226 4.8 0.841 Contact Map
2wswA 3 1 4.6 0.842 Contact Map
3u9wA 1 0.6226 3.6 0.851 Contact Map
3bjqA 4 0.9057 3 0.856 Contact Map
1x8pA 1 0.3396 2.9 0.857 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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