GREMLIN Database
NADH_dehy_S2_C - NADH dehydrogenase subunit 2 C-terminus
PFAM: PF06444 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 55 (54)
Sequences: 6912 (2700)
Seq/√Len: 367.4
META: 0.001

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_T46_L3.3601.00
33_T36_L2.8111.00
9_Y14_T2.0521.00
38_A41_T2.0211.00
36_L39_I1.9181.00
20_T23_M1.7941.00
42_T45_I1.7471.00
38_A42_T1.7411.00
2_F21_N1.6681.00
22_S25_K1.6571.00
39_I42_T1.6471.00
10_A16_P1.5581.00
5_L8_A1.5251.00
20_T24_K1.4341.00
17_P26_W1.3011.00
3_F6_R1.2981.00
40_L43_L1.2891.00
43_L47_L1.2551.00
24_K28_L1.2201.00
21_N30_K1.2181.00
5_L23_M1.1991.00
11_T25_K1.1951.00
41_T45_I1.1931.00
20_T33_T1.1871.00
8_A15_L1.1751.00
20_T30_K1.1651.00
7_L19_T1.1631.00
40_L45_I1.0541.00
18_N22_S1.0391.00
15_L18_N1.0371.00
26_W49_P0.9801.00
48_L54_I0.9441.00
7_L37_L0.9071.00
39_I43_L0.9021.00
11_T22_S0.8941.00
7_L10_A0.8941.00
36_L40_L0.8881.00
8_A19_T0.8721.00
11_T15_L0.8661.00
8_A24_K0.8351.00
22_S27_R0.8311.00
13_L42_T0.8231.00
3_F21_N0.8221.00
7_L18_N0.8151.00
14_T41_T0.8091.00
10_A13_L0.8081.00
19_T26_W0.7961.00
19_T22_S0.7541.00
8_A27_R0.7511.00
13_L18_N0.7441.00
9_Y49_P0.7421.00
48_L51_T0.7361.00
20_T40_L0.7110.99
23_M53_M0.6630.99
7_L43_L0.6580.99
15_L21_N0.6570.99
42_T47_L0.6410.99
32_Q35_L0.6340.99
37_L52_P0.6310.99
8_A20_T0.6300.99
18_N23_M0.6060.98
9_Y28_L0.5980.98
3_F13_L0.5940.98
15_L35_L0.5850.98
10_A15_L0.5830.98
40_L46_L0.5790.98
9_Y21_N0.5710.98
10_A33_T0.5620.97
16_P27_R0.5510.97
12_T17_P0.5450.97
13_L16_P0.5400.97
32_Q39_I0.5280.96
34_T40_L0.5260.96
44_S50_L0.5230.96
12_T52_P0.5230.96
25_K28_L0.5100.95
5_L12_T0.5050.95
23_M54_I0.5040.95
12_T18_N0.5040.95
35_L39_I0.5020.95
38_A46_L0.5000.95
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  
4he8N 1 0.8727 3.6 0.861 Contact Map
3rkoN 1 0.8727 3.2 0.865 Contact Map
3rkoL 1 0.9091 2.5 0.873 Contact Map
2l2tA 2 0.2727 1.7 0.884 Contact Map
3wu2J 1 0.2545 1.4 0.889 Contact Map
4he8L 1 0.9273 1.3 0.891 Contact Map
4he8M 1 0.8727 1.2 0.893 Contact Map
4zwjA 1 0.9818 0.9 0.901 Contact Map
2wn4A 1 0 0.9 0.902 Contact Map
4c68A 1 0.4182 0.7 0.907 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.

Page generated in 0.0043 seconds.