GREMLIN Database
YCAR - UPF0434 protein YcaR
UniProt: P0AAZ7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14287
Length: 60 (54)
Sequences: 709 (329)
Seq/√Len: 44.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
26_E51_R4.2901.00
29_C32_D4.0181.00
14_C32_D3.3151.00
14_C29_C2.9911.00
39_R49_E2.3151.00
21_N24_K2.1181.00
19_W30_K2.1051.00
16_G31_L2.0440.99
8_I48_T1.9850.99
9_I45_L1.5330.96
20_Y38_L1.5140.95
13_V47_E1.2840.90
21_N28_I1.2810.90
5_L8_I1.2450.88
25_Q38_L1.2140.87
46_L49_E1.1520.84
13_V34_L1.1160.82
5_L15_N1.0980.81
28_I53_L1.0750.79
8_I15_N1.0520.78
10_A16_G1.0350.77
2_D7_E1.0280.76
16_G29_C1.0240.76
32_D36_F1.0220.76
14_C31_L1.0040.74
52_V55_A0.9220.68
16_G40_D0.8980.66
13_V32_D0.8970.66
3_H7_E0.8970.66
15_N42_I0.8970.66
24_K42_I0.8850.65
13_V54_T0.8720.64
4_R15_N0.8200.59
41_G55_A0.7970.57
21_N53_L0.7930.56
35_A51_R0.7860.56
26_E35_A0.7830.55
16_G32_D0.7790.55
15_N33_N0.7720.54
20_Y25_Q0.7540.53
26_E45_L0.7510.52
3_H22_Q0.7330.50
36_F43_P0.7080.48
10_A44_V0.7010.47
22_Q42_I0.6840.46
30_K33_N0.6830.46
36_F45_L0.6690.44
40_D46_L0.6680.44
47_E52_V0.6640.44
49_E52_V0.6620.44
18_L34_L0.6580.43
34_L47_E0.6500.42
5_L44_V0.6450.42
4_R53_L0.6260.40
2_D42_I0.6250.40
4_R7_E0.6240.40
38_L55_A0.6190.40
13_V40_D0.6160.39
18_L45_L0.5970.38
22_Q30_K0.5920.37
21_N25_Q0.5900.37
9_I37_P0.5900.37
30_K52_V0.5820.36
5_L25_Q0.5660.35
8_I46_L0.5650.35
37_P51_R0.5650.35
36_F47_E0.5630.35
30_K54_T0.5520.34
10_A45_L0.5500.33
45_L49_E0.5440.33
23_E46_L0.5420.33
31_L38_L0.5410.33
17_K20_Y0.5350.32
19_W28_I0.5310.32
33_N55_A0.5310.32
9_I39_R0.5300.32
16_G33_N0.5190.31
14_C33_N0.5090.30
22_Q28_I0.5050.30
23_E28_I0.5010.29
21_N36_F0.5000.29
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  
2jr6A 1 1 99.9 0.248 Contact Map
2js4A 1 1 99.9 0.25 Contact Map
2hf1A 2 0.9833 99.9 0.25 Contact Map
2pk7A 2 0.9667 99.9 0.255 Contact Map
2jnyA 1 0.9833 99.9 0.27 Contact Map
2k5rA 1 0.9833 99.8 0.32 Contact Map
2kpiA 1 0.8667 99.8 0.344 Contact Map
3q87A 1 0.8 99 0.579 Contact Map
1dl6A 1 0.9 98.9 0.603 Contact Map
2j6aA 1 0.8167 98.8 0.618 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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