GREMLIN Database
DUF2188 - Uncharacterized protein conserved in bacteria (DUF2188)
PFAM: PF09954 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 62 (60)
Sequences: 15528 (11247)
Seq/√Len: 1452.0
META: 0.926

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
25_F34_A2.4711.00
2_H50_H2.4561.00
35_A47_L2.0571.00
12_A24_V2.0451.00
48_V59_K1.9981.00
51_G57_R1.8791.00
23_S34_A1.8301.00
28_Q57_R1.7881.00
51_G55_R1.7241.00
25_F31_A1.6321.00
32_I49_I1.6061.00
6_R12_A1.5911.00
27_T30_E1.5101.00
3_V47_L1.4521.00
50_H56_I1.3651.00
10_G24_V1.3571.00
36_R60_D1.3521.00
34_A37_E1.3281.00
34_A38_I1.2801.00
12_A21_A1.2661.00
13_V35_A1.2581.00
21_A24_V1.2241.00
4_V12_A1.2201.00
7_H12_A1.2001.00
39_A45_G1.1731.00
4_V14_K1.1371.00
15_R42_Q1.1361.00
18_A22_S1.1211.00
15_R18_A1.1061.00
32_I47_L1.0971.00
5_P52_R1.0861.00
13_V38_I1.0641.00
3_V13_V1.0501.00
49_I58_E1.0421.00
46_E59_K1.0281.00
2_H16_E1.0241.00
10_G26_D1.0141.00
39_A47_L1.0011.00
29_A33_E0.9831.00
4_V50_H0.9611.00
13_V31_A0.9371.00
15_R22_S0.9251.00
2_H48_V0.9161.00
7_H10_G0.9131.00
38_I41_N0.9071.00
7_H21_A0.8971.00
5_P10_G0.8931.00
16_E48_V0.8791.00
7_H24_V0.8751.00
38_I42_Q0.8491.00
13_V47_L0.8401.00
35_A39_A0.8121.00
39_A62_Y0.7611.00
13_V25_F0.7551.00
36_R40_R0.7451.00
36_R62_Y0.7151.00
46_E61_S0.7131.00
32_I36_R0.6991.00
22_S38_I0.6931.00
28_Q32_I0.6871.00
14_K21_A0.6851.00
48_V56_I0.6781.00
6_R10_G0.6771.00
42_Q45_G0.6741.00
36_R47_L0.6701.00
39_A44_G0.6541.00
29_A32_I0.6531.00
26_D30_E0.6521.00
2_H56_I0.6321.00
13_V22_S0.6311.00
25_F30_E0.6301.00
3_V35_A0.6281.00
37_E40_R0.6041.00
6_R24_V0.5991.00
5_P8_D0.5911.00
40_R62_Y0.5791.00
32_I58_E0.5751.00
28_Q49_I0.5741.00
37_E41_N0.5581.00
31_A35_A0.5481.00
15_R38_I0.5421.00
58_E62_Y0.5391.00
13_V23_S0.5271.00
14_K18_A0.5241.00
46_E60_D0.5171.00
32_I60_D0.5131.00
28_Q51_G0.5101.00
13_V34_A0.5091.00
14_K19_S0.5061.00
22_S34_A0.5001.00
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  
2jyaA 1 0.8065 18 0.812 Contact Map
2ljuA 1 0.9194 16.1 0.816 Contact Map
4fypA 2 1 14.8 0.819 Contact Map
2db2A 1 0.9839 10.6 0.831 Contact Map
2dsyA 3 0.9194 10.3 0.832 Contact Map
4bpeW 1 1 8 0.84 Contact Map
1wv8A 2 0.9032 6.8 0.845 Contact Map
3k6qA 2 0.9516 5.9 0.849 Contact Map
1utaA 1 0.7258 5.8 0.849 Contact Map
3vsvA 4 0.7742 5.7 0.85 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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