GREMLIN Database
YABR - Uncharacterized protein YabR
UniProt: P37560 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 128 (107)
Sequences: 2282 (1848)
Seq/√Len: 178.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
10_Q57_E4.3071.00
10_Q55_Q4.3011.00
12_K55_Q3.2411.00
8_K59_K2.9981.00
11_G23_V2.7561.00
51_K54_D2.7111.00
25_L71_L2.6171.00
31_G71_L2.5821.00
4_E7_S2.3071.00
21_A50_L2.2031.00
61_I72_S2.1921.00
19_F32_L2.1141.00
37_E75_K2.0631.00
44_K48_D1.9951.00
45_D48_D1.8861.00
38_V50_L1.8081.00
8_K57_E1.7431.00
72_S77_K1.6881.00
106_E109_L1.6841.00
40_D76_A1.6791.00
38_V46_I1.6591.00
37_E77_K1.6311.00
56_V73_I1.4981.00
33_V73_I1.4241.00
85_R88_F1.4121.00
105_S108_R1.4121.00
98_M101_F1.3981.00
14_T24_E1.3591.00
3_I60_V1.3431.00
20_G32_L1.3241.00
59_K75_K1.3131.00
3_I26_P1.2631.00
93_S96_Q1.2321.00
24_E28_G1.2321.00
19_F34_H1.2281.00
11_G71_L1.2171.00
34_H70_G1.2141.00
22_F32_L1.1991.00
62_N70_G1.1611.00
104_D108_R1.1201.00
99_N102_L1.1201.00
33_V58_V1.1141.00
40_D80_P1.0981.00
9_L60_V1.0921.00
24_E30_T1.0861.00
18_N47_N1.0761.00
23_V33_V1.0751.00
37_E74_K1.0681.00
43_V49_H1.0441.00
88_F91_K1.0371.00
104_D107_D1.0070.99
37_E62_N1.0030.99
103_K109_L0.9760.99
102_L105_S0.9710.99
16_I46_I0.9620.99
94_F98_M0.9310.99
85_R91_K0.9150.99
38_V73_I0.9070.99
19_F22_F0.9020.99
103_K108_R0.8970.99
100_K106_E0.8820.98
61_I70_G0.8750.98
29_S67_G0.8670.98
58_V73_I0.8620.98
25_L69_I0.8540.98
97_K101_F0.8400.98
9_L58_V0.8160.97
13_I50_L0.8080.97
89_R92_E0.8060.97
92_E99_N0.7930.97
13_I33_V0.7790.97
47_N52_V0.7770.96
90_P93_S0.7750.96
27_G30_T0.7750.96
14_T30_T0.7620.96
41_N48_D0.7620.96
93_S101_F0.7590.96
86_N90_P0.7570.96
95_E101_F0.7480.96
12_K24_E0.7470.96
81_Q85_R0.7460.96
39_A43_V0.7440.96
16_I52_V0.7380.95
91_K95_E0.7330.95
105_S109_L0.7330.95
91_K96_Q0.7310.95
8_K76_A0.7300.95
5_V66_D0.7260.95
37_E61_I0.7140.94
94_F105_S0.7120.94
41_N49_H0.7060.94
5_V62_N0.7050.94
22_F34_H0.7000.94
14_T17_T0.6930.93
104_D109_L0.6920.93
26_P29_S0.6910.93
11_G31_G0.6880.93
99_N105_S0.6800.93
9_L25_L0.6740.93
29_S65_K0.6710.92
93_S100_K0.6680.92
29_S63_V0.6660.92
58_V63_V0.6650.92
102_L106_E0.6610.92
5_V63_V0.6510.91
94_F101_F0.6500.91
32_L70_G0.6460.91
32_L36_S0.6410.91
100_K104_D0.6400.90
85_R89_R0.6300.90
24_E27_G0.6290.90
101_F105_S0.6170.89
52_V55_Q0.6160.89
94_F108_R0.6150.89
3_I9_L0.6110.88
81_Q84_P0.6000.87
88_F92_E0.5970.87
16_I25_L0.5940.87
90_P96_Q0.5880.86
83_R90_P0.5860.86
92_E95_E0.5770.85
35_I43_V0.5760.85
89_R97_K0.5750.85
84_P89_R0.5750.85
83_R89_R0.5680.84
21_A38_V0.5660.84
84_P87_D0.5610.84
18_N35_I0.5590.84
95_E98_M0.5560.83
15_G30_T0.5540.83
76_A80_P0.5540.83
98_M107_D0.5510.83
60_V63_V0.5500.83
101_F106_E0.5470.82
98_M102_L0.5470.82
81_Q86_N0.5460.82
90_P94_F0.5440.82
11_G22_F0.5420.82
64_E68_K0.5400.81
100_K107_D0.5400.81
93_S108_R0.5360.81
95_E100_K0.5340.81
35_I38_V0.5330.81
97_K103_K0.5300.80
99_N108_R0.5180.79
94_F102_L0.5160.78
36_S74_K0.5140.78
16_I45_D0.5110.78
94_F97_K0.5080.77
17_T22_F0.5080.77
84_P88_F0.5070.77
93_S97_K0.5070.77
19_F39_A0.5070.77
95_E102_L0.5060.77
88_F98_M0.5050.77
82_A87_D0.5050.77
21_A49_H0.5050.77
83_R86_N0.5050.77
5_V61_I0.5000.76
89_R103_K0.5000.76
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  
3cdiA 3 0 99.7 0.286 Contact Map
4nbqA 3 0.5 99.7 0.288 Contact Map
4aidA 3 0 99.7 0.292 Contact Map
3psfA 1 0.2344 99.7 0.305 Contact Map
1e3pA 3 0.3047 99.7 0.311 Contact Map
3psiA 1 0.6172 99.7 0.331 Contact Map
2khjA 1 0.6406 99.6 0.362 Contact Map
2k4kA 1 0.9609 99.6 0.374 Contact Map
4q7jD 1 0 99.6 0.377 Contact Map
2khiA 1 0.6875 99.6 0.378 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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