GREMLIN Database
YDFE - Uncharacterized protein YdfE
UniProt: P96682 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 207 (170)
Sequences: 3523 (2540)
Seq/√Len: 194.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
119_T133_E3.8931.00
125_T162_L3.4511.00
72_C159_T3.3531.00
141_E160_Q3.3371.00
32_N36_T3.2551.00
79_P183_S2.9481.00
33_E68_R2.7701.00
141_E162_L2.6371.00
111_E114_E2.5551.00
143_K160_Q2.4271.00
106_F115_A2.3071.00
29_T73_V2.2781.00
121_L132_K2.2691.00
37_T120_P2.1601.00
79_P194_G2.1491.00
67_E145_I2.1441.00
77_P85_V2.0881.00
31_L37_T2.0611.00
71_E141_E1.9951.00
73_V126_V1.9631.00
39_I131_I1.9621.00
119_T132_K1.9581.00
31_L127_S1.8811.00
113_Y120_P1.8771.00
123_S130_R1.8031.00
130_R137_Q1.7761.00
106_F110_K1.6761.00
71_E127_S1.6431.00
52_I55_G1.6411.00
37_T129_T1.6201.00
123_S139_E1.6151.00
172_L178_N1.5071.00
123_S128_P1.4981.00
145_I155_A1.4771.00
66_L142_V1.4771.00
124_K163_H1.4761.00
27_L39_I1.4051.00
126_V139_E1.3911.00
186_I193_F1.3801.00
77_P185_L1.3741.00
27_L88_I1.3721.00
48_L55_G1.3681.00
123_S126_V1.3541.00
72_C140_A1.3531.00
178_N181_K1.3411.00
194_G197_R1.3351.00
78_G81_L1.3351.00
90_S106_F1.3321.00
16_P47_A1.3131.00
125_T163_H1.3121.00
111_E120_P1.2991.00
19_M136_I1.2921.00
48_L158_E1.2841.00
29_T39_I1.2711.00
40_S62_A1.2471.00
130_R165_H1.2401.00
66_L72_C1.2321.00
81_L133_E1.2221.00
30_T66_L1.2141.00
172_L181_K1.2041.00
138_I164_F1.1991.00
191_H198_E1.1971.00
121_L130_R1.1811.00
39_I113_Y1.1771.00
82_W185_L1.1591.00
77_P134_C1.1441.00
37_T111_E1.1121.00
71_E126_V1.1061.00
52_I56_V1.0971.00
64_D68_R1.0941.00
63_I157_V1.0851.00
142_V157_V1.0821.00
63_I67_E1.0721.00
75_N137_Q1.0691.00
140_A159_T1.0651.00
27_L81_L1.0641.00
146_R158_E1.0601.00
78_G135_P1.0561.00
26_F45_S1.0531.00
52_I74_I1.0491.00
170_I182_W1.0361.00
30_T65_N1.0251.00
142_V145_I1.0231.00
73_V130_R1.0161.00
69_H127_S1.0091.00
64_D108_Y0.9941.00
82_W199_V0.9931.00
31_L128_P0.9820.99
186_I195_L0.9800.99
183_S194_G0.9750.99
80_D183_S0.9730.99
79_P82_W0.9720.99
48_L53_I0.9710.99
36_T109_K0.9680.99
84_N118_L0.9630.99
73_V123_S0.9530.99
61_K64_D0.9490.99
166_A170_I0.9460.99
84_N116_A0.9390.99
63_I155_A0.9350.99
30_T62_A0.9230.99
49_G154_F0.9220.99
29_T128_P0.9050.99
110_K115_A0.9030.99
85_V185_L0.8970.99
191_H200_G0.8930.99
88_I116_A0.8870.99
145_I157_V0.8850.99
67_E70_K0.8810.99
170_I177_I0.8730.99
167_E170_I0.8720.99
179_P184_P0.8710.99
87_R115_A0.8680.99
53_I158_E0.8630.99
29_T131_I0.8620.99
138_I161_A0.8590.99
172_L176_H0.8420.98
76_L184_P0.8390.98
20_Y47_A0.8360.98
85_V134_C0.8320.98
29_T75_N0.8290.98
55_G156_I0.8230.98
36_T108_Y0.8200.98
58_L155_A0.8160.98
76_L182_W0.8090.98
37_T113_Y0.8070.98
32_N108_Y0.7920.98
32_N68_R0.7860.97
121_L137_Q0.7840.97
73_V137_Q0.7830.97
18_I188_N0.7800.97
31_L69_H0.7790.97
53_I143_K0.7770.97
29_T113_Y0.7770.97
143_K158_E0.7730.97
87_R106_F0.7720.97
27_L131_I0.7680.97
71_E128_P0.7660.97
70_K142_V0.7620.97
48_L156_I0.7560.97
49_G151_E0.7520.97
90_S105_G0.7480.97
125_T139_E0.7440.97
135_P167_E0.7430.96
44_S47_A0.7390.96
80_D135_P0.7370.96
70_K141_E0.7350.96
84_N133_E0.7340.96
31_L122_Q0.7300.96
61_K65_N0.7260.96
45_S76_L0.7260.96
122_Q127_S0.7200.96
170_I179_P0.7120.96
73_V128_P0.7050.95
177_I182_W0.7020.95
121_L124_K0.7000.95
170_I181_K0.6990.95
87_R116_A0.6980.95
21_Y184_P0.6970.95
21_Y179_P0.6910.95
74_I140_A0.6810.94
37_T128_P0.6790.94
190_R193_F0.6780.94
65_N69_H0.6770.94
27_L118_L0.6740.94
137_Q165_H0.6730.94
27_L85_V0.6690.94
66_L157_V0.6690.94
120_P133_E0.6680.94
19_M138_I0.6590.93
42_M54_L0.6580.93
118_L131_I0.6580.93
76_L136_I0.6550.93
180_S198_E0.6550.93
136_I166_A0.6540.93
27_L134_C0.6510.93
81_L134_C0.6500.93
66_L159_T0.6490.93
61_K108_Y0.6430.92
26_F74_I0.6430.92
87_R90_S0.6430.92
81_L118_L0.6410.92
184_P195_L0.6370.92
75_N131_I0.6340.92
53_I156_I0.6320.92
107_T110_K0.6280.92
136_I182_W0.6190.91
54_L74_I0.6180.91
63_I145_I0.6180.91
16_P20_Y0.6140.91
83_E87_R0.6130.91
28_L42_M0.6080.90
61_K112_K0.6060.90
56_V157_V0.6020.90
28_L72_C0.6010.90
114_E117_G0.5950.89
32_N35_G0.5910.89
75_N128_P0.5880.89
66_L70_K0.5850.88
142_V159_T0.5840.88
52_I138_I0.5840.88
24_S46_W0.5840.88
169_S181_K0.5830.88
114_E120_P0.5830.88
180_S197_R0.5800.88
89_S105_G0.5790.88
71_E139_E0.5780.88
116_A131_I0.5770.88
120_P129_T0.5750.88
113_Y131_I0.5700.87
143_K146_R0.5650.87
31_L35_G0.5590.86
17_K50_H0.5570.86
129_T161_A0.5550.86
118_L133_E0.5550.86
31_L123_S0.5530.85
193_F198_E0.5530.85
32_N65_N0.5510.85
64_D67_E0.5480.85
62_A65_N0.5470.85
171_I177_I0.5440.85
42_M62_A0.5440.85
82_W85_V0.5430.84
75_N134_C0.5430.84
193_F199_V0.5410.84
27_L40_S0.5410.84
45_S53_I0.5390.84
25_T41_P0.5370.84
41_P77_P0.5370.84
68_R108_Y0.5360.84
60_G187_Y0.5360.84
136_I170_I0.5330.83
122_Q129_T0.5300.83
69_H128_P0.5300.83
124_K165_H0.5300.83
124_K139_E0.5290.83
119_T131_I0.5280.83
28_L40_S0.5270.83
30_T40_S0.5260.83
20_Y26_F0.5250.82
76_L134_C0.5240.82
50_H57_G0.5160.81
84_N87_R0.5160.81
190_R200_G0.5140.81
27_L41_P0.5120.81
54_L159_T0.5110.81
113_Y116_A0.5100.81
25_T45_S0.5090.80
89_S106_F0.5070.80
82_W86_E0.5060.80
39_I88_I0.5060.80
79_P197_R0.5050.80
14_I171_I0.5040.80
188_N191_H0.5030.80
70_K144_H0.5000.79
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  
2d5mA 2 0.8599 100 0.374 Contact Map
3bpkA 2 0.8841 100 0.379 Contact Map
3fgeA 2 0.9082 100 0.387 Contact Map
3bnkA 2 0.8599 100 0.408 Contact Map
1ejeA 2 0.8744 100 0.408 Contact Map
3hmzA 2 0.8502 100 0.419 Contact Map
2r6vA 2 0.8309 100 0.44 Contact Map
3e4vA 2 0.8357 100 0.465 Contact Map
1uscA 2 0.8406 100 0.476 Contact Map
4r82A 2 0.7585 100 0.511 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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