GREMLIN Database
Toprim_Crpt - C-terminal repeat of topoisomerase
PFAM: PF13342 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 60 (60)
Sequences: 13743 (6974)
Seq/√Len: 900.3
META: 0.889

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
33_K44_S2.7761.00
50_D56_E2.5491.00
22_K30_G2.0541.00
48_V58_E2.0101.00
22_K26_K1.9301.00
6_I20_V1.8961.00
28_K46_Y1.8601.00
16_E19_Q1.8411.00
31_L46_Y1.6491.00
36_R42_P1.6011.00
28_K58_E1.5811.00
31_L44_S1.5621.00
48_V56_E1.5271.00
9_I14_E1.5161.00
17_R21_K1.5041.00
21_K25_T1.3761.00
13_R19_Q1.3681.00
11_A43_F1.3511.00
28_K48_V1.3311.00
50_D54_K1.3211.00
13_R34_G1.2861.00
11_A57_F1.2751.00
19_Q22_K1.2531.00
19_Q30_G1.2471.00
23_L29_T1.2111.00
13_R32_L1.2011.00
7_W10_I1.1811.00
49_L53_G1.1701.00
15_I47_L1.1071.00
46_Y58_E1.1001.00
15_I20_V1.0841.00
47_L55_V1.0761.00
50_D53_G1.0591.00
18_E21_K1.0521.00
18_E22_K1.0351.00
53_G56_E1.0101.00
36_R40_G1.0011.00
37_S41_R0.9911.00
9_I12_G0.9881.00
34_G42_P0.9591.00
12_G36_R0.9511.00
46_Y60_P0.9351.00
8_K14_E0.9201.00
35_F47_L0.8841.00
19_Q32_L0.8661.00
13_R16_E0.8331.00
20_V24_L0.8331.00
29_T46_Y0.8261.00
34_G44_S0.7861.00
13_R35_F0.7691.00
51_D54_K0.7631.00
37_S40_G0.7541.00
12_G40_G0.7461.00
31_L60_P0.7311.00
10_I47_L0.7251.00
37_S43_F0.7151.00
36_R39_T0.7101.00
4_F24_L0.7001.00
29_T32_L0.6971.00
8_K20_V0.6881.00
57_F60_P0.6791.00
18_E30_G0.6581.00
10_I55_V0.6531.00
11_A38_K0.6511.00
10_I15_I0.6381.00
6_I24_L0.6361.00
27_G53_G0.6311.00
10_I57_F0.6291.00
23_L49_L0.6141.00
43_F57_F0.6051.00
44_S60_P0.5961.00
15_I19_Q0.5921.00
27_G49_L0.5801.00
7_W55_V0.5671.00
6_I10_I0.5671.00
22_K25_T0.5601.00
28_K31_L0.5591.00
19_Q29_T0.5471.00
37_S42_P0.5451.00
6_I23_L0.5431.00
11_A35_F0.5411.00
4_F7_W0.5391.00
5_R8_K0.5341.00
49_L55_V0.5341.00
3_D7_W0.5301.00
38_K43_F0.5201.00
5_R9_I0.5171.00
8_K43_F0.5081.00
4_F55_V0.5051.00
7_W11_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  
1s94A 1 0.15 13.2 0.832 Contact Map
3j7aE 1 0.8833 6.2 0.855 Contact Map
2e5zA 1 0.8833 6.1 0.856 Contact Map
2m4iA 1 0.8333 6 0.856 Contact Map
4cgyA 1 0 5.8 0.856 Contact Map
4ovkA 1 0.5667 5 0.861 Contact Map
4bpeD 2 0.8833 4.7 0.863 Contact Map
4rnhA 2 0.4 4.7 0.863 Contact Map
4xesA 1 0.9833 4.5 0.864 Contact Map
4pagA 2 0.4333 4.3 0.865 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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