GREMLIN Database
GREA - Transcription elongation factor GreA
UniProt: P80240 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 157 (150)
Sequences: 4089 (2209)
Seq/√Len: 180.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_Q19_Q3.1651.00
11_A15_Q2.8831.00
94_T155_K2.7501.00
20_E64_R2.6841.00
23_Y27_V2.6061.00
25_K69_E2.5511.00
115_D118_E2.5111.00
23_Y28_K2.4561.00
94_T103_E2.4111.00
96_V101_G2.3711.00
6_V76_K2.3621.00
96_V152_K2.1731.00
28_K57_E2.1681.00
29_R62_E2.1021.00
130_S142_V2.0571.00
22_E26_T2.0261.00
94_T105_S2.0041.00
141_T150_L1.9691.00
141_T148_E1.9411.00
14_K18_E1.9001.00
136_V155_K1.8831.00
24_L61_V1.8741.00
28_K31_E1.8121.00
15_Q18_E1.8091.00
139_E150_L1.7971.00
32_V61_V1.7891.00
60_F63_G1.7821.00
70_N74_N1.7701.00
134_K140_V1.7641.00
96_V103_E1.7061.00
14_K72_I1.6551.00
86_V135_K1.6351.00
19_Q23_Y1.6261.00
96_V154_V1.5891.00
71_M112_A1.5581.00
97_E100_D1.5471.00
134_K138_E1.5221.00
21_L65_V1.4881.00
143_Q148_E1.4811.00
14_K77_I1.4331.00
95_F151_V1.4311.00
111_S124_D1.3691.00
53_S56_E1.3661.00
34_E37_K1.3611.00
108_I128_A1.3391.00
18_E22_E1.3361.00
95_F104_E1.3201.00
38_I41_S1.2951.00
67_T71_M1.2901.00
139_E152_K1.2881.00
107_T120_K1.2471.00
13_G113_E1.2401.00
95_F106_Y1.2241.00
7_F74_N1.2231.00
31_E34_E1.2171.00
92_T107_T1.2151.00
40_R45_L1.2131.00
38_I42_F1.2121.00
17_L68_L1.1851.00
109_V120_K1.1791.00
34_E38_I1.1551.00
94_T154_V1.1531.00
144_T149_M1.1521.00
28_K61_V1.1431.00
87_V153_I1.1351.00
137_D152_K1.1231.00
46_S52_D1.1131.00
42_F50_E1.0971.00
36_I58_Q1.0941.00
95_F131_L1.0911.00
134_K153_I1.0911.00
12_E16_K1.0761.00
108_I123_N1.0591.00
35_R57_E1.0581.00
92_T105_S1.0531.00
11_A79_E1.0291.00
131_L140_V1.0281.00
49_S53_S1.0270.99
12_E120_K1.0110.99
59_A63_G1.0080.99
87_V93_V0.9670.99
8_P76_K0.9580.99
85_N135_K0.9530.99
35_R38_I0.9510.99
97_E149_M0.9480.99
19_Q22_E0.9180.99
21_L25_K0.9160.99
31_E35_R0.9120.99
103_E154_V0.9030.99
58_Q62_E0.8910.99
64_R67_T0.8800.98
57_E60_F0.8800.98
121_I127_I0.8730.98
17_L72_I0.8500.98
16_K19_Q0.8450.98
84_S91_K0.8430.98
136_V156_I0.8420.98
69_E73_R0.8390.98
32_V57_E0.8340.98
90_G110_G0.8330.98
125_S128_A0.8280.98
142_V151_V0.8120.97
12_E107_T0.8060.97
42_F52_D0.8020.97
43_G48_N0.7920.97
33_V37_K0.7840.97
27_V31_E0.7830.97
52_D56_E0.7820.97
32_V58_Q0.7760.97
36_I41_S0.7680.96
9_M72_I0.7670.96
10_T13_G0.7560.96
70_N73_R0.7550.96
7_F71_M0.7540.96
144_T148_E0.7520.96
122_S125_S0.7440.96
87_V108_I0.7410.96
13_G16_K0.7390.95
11_A14_K0.7370.95
9_M75_A0.7350.95
43_G51_Y0.7350.95
68_L72_I0.7340.95
127_I151_V0.7310.95
86_V133_G0.7300.95
13_G109_V0.7280.95
72_I75_A0.7240.95
26_T30_K0.7210.95
9_M71_M0.7200.95
56_E60_F0.7050.94
49_S52_D0.7040.94
97_E151_V0.7020.94
48_N51_Y0.7020.94
47_E51_Y0.6990.94
27_V30_K0.6980.94
30_K33_V0.6970.94
42_F49_S0.6930.94
12_E15_Q0.6920.94
43_G46_S0.6910.94
44_D51_Y0.6880.93
24_L28_K0.6860.93
83_G135_K0.6850.93
43_G47_E0.6850.93
8_P123_N0.6780.93
10_T109_V0.6770.93
57_E61_V0.6710.93
84_S156_I0.6710.93
127_I142_V0.6700.92
42_F46_S0.6690.92
37_K41_S0.6670.92
100_D104_E0.6600.92
144_T147_G0.6510.91
97_E104_E0.6490.91
106_Y121_I0.6490.91
32_V35_R0.6460.91
85_N136_V0.6450.91
36_I54_A0.6390.91
88_G91_K0.6360.90
83_G88_G0.6320.90
127_I144_T0.6310.90
87_V156_I0.6300.90
79_E82_G0.6290.90
52_D59_A0.6270.90
114_A120_K0.6270.90
89_L132_L0.6270.90
143_Q146_G0.6250.90
35_R49_S0.6240.90
40_R53_S0.6200.89
91_K156_I0.6170.89
8_P77_I0.6160.89
34_E41_S0.6160.89
45_L53_S0.6160.89
83_G91_K0.6150.89
43_G49_S0.6140.89
22_E25_K0.6120.89
137_D154_V0.6120.89
66_T70_N0.6100.89
21_L69_E0.6090.88
45_L48_N0.6030.88
83_G86_V0.6020.88
45_L54_A0.5990.88
45_L58_Q0.5900.87
23_Y31_E0.5780.86
35_R41_S0.5740.85
87_V131_L0.5720.85
67_T70_N0.5710.85
16_K120_K0.5670.85
63_G67_T0.5670.85
36_I59_A0.5620.84
99_P150_L0.5620.84
136_V154_V0.5610.84
121_I125_S0.5600.84
55_K58_Q0.5550.83
65_V69_E0.5550.83
33_V40_R0.5540.83
39_A43_G0.5540.83
123_N128_A0.5530.83
89_L110_G0.5510.83
36_I40_R0.5470.83
97_E102_D0.5460.82
6_V74_N0.5420.82
9_M14_K0.5410.82
7_F67_T0.5410.82
99_P102_D0.5390.82
93_V131_L0.5340.81
35_R42_F0.5330.81
25_K65_V0.5330.81
49_S56_E0.5300.81
109_V113_E0.5300.81
39_A47_E0.5260.80
37_K40_R0.5250.80
45_L51_Y0.5250.80
46_S50_E0.5240.80
9_M110_G0.5230.80
135_K138_E0.5220.80
85_N156_I0.5210.79
44_D47_E0.5190.79
7_F70_N0.5190.79
63_G66_T0.5110.78
93_V153_I0.5100.78
23_Y61_V0.5080.78
21_L72_I0.5060.77
37_K63_G0.5060.77
109_V115_D0.5020.77
39_A48_N0.5000.77
140_V151_V0.5000.77
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  
2p4vA 1 0.9745 100 0.123 Contact Map
1grjA 1 0.9363 100 0.134 Contact Map
2f23A 1 0.9618 100 0.155 Contact Map
2pn0A 2 0.7707 100 0.382 Contact Map
3bmbA 1 0.7771 100 0.399 Contact Map
4tkoB 1 0.8854 71.6 0.915 Contact Map
3gtyX 1 0.8662 64.1 0.92 Contact Map
3csxA 2 0.3758 51.1 0.926 Contact Map
2dq3A 2 0.9554 50.7 0.926 Contact Map
3lssA 2 0.949 50.5 0.926 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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