GREMLIN Database
GREA - Transcription elongation factor GreA
UniProt: P0A6W5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10415
Length: 158 (151)
Sequences: 4142 (2170)
Seq/√Len: 176.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
12_E16_E3.0911.00
8_L12_E2.8071.00
17_E61_R2.6461.00
20_F24_V2.5581.00
93_T154_K2.5351.00
22_K66_E2.4701.00
114_D117_Q2.4181.00
95_L100_D2.4101.00
20_F25_R2.4091.00
93_T102_E2.3591.00
25_R54_Q2.1521.00
95_L151_E2.0851.00
26_R59_E2.0031.00
19_D23_S1.9911.00
140_V147_E1.9421.00
135_E154_K1.9241.00
129_G141_I1.9041.00
140_V149_E1.8991.00
93_T104_T1.8561.00
11_A15_R1.8351.00
138_V149_E1.8121.00
21_L58_C1.7711.00
29_I58_C1.7541.00
93_T156_E1.7441.00
12_E15_R1.7371.00
25_R28_E1.7361.00
81_P84_G1.7211.00
57_F60_G1.7141.00
67_A71_N1.7041.00
133_K139_V1.6811.00
95_L102_E1.6671.00
11_A69_L1.5991.00
16_E20_F1.5951.00
104_T156_E1.5711.00
68_K111_D1.5591.00
85_R134_E1.5521.00
133_K137_D1.5141.00
95_L153_I1.5061.00
18_L62_I1.5001.00
94_V150_F1.4731.00
142_K147_E1.4471.00
96_N99_S1.4061.00
11_A74_V1.3991.00
31_A34_A1.3741.00
94_V103_Q1.3721.00
110_D123_N1.3701.00
50_A53_E1.3291.00
15_R19_D1.3171.00
97_L149_E1.2921.00
138_V151_E1.2711.00
64_D68_K1.2681.00
35_E38_E1.2551.00
97_L151_E1.2511.00
10_G112_E1.2451.00
14_L65_I1.2211.00
107_I127_A1.2191.00
28_E31_A1.2081.00
37_R42_L1.2061.00
106_R119_L1.2061.00
136_D151_E1.1871.00
35_E39_H1.1871.00
94_V105_Y1.1761.00
143_T148_V1.1541.00
4_I71_N1.1431.00
93_T153_I1.1421.00
91_T106_R1.1371.00
108_V119_L1.1311.00
31_A35_E1.1141.00
25_R58_C1.0991.00
107_I122_V1.0931.00
43_K49_H1.0871.00
133_K152_V1.0771.00
39_H47_E1.0671.00
91_T156_E1.0651.00
91_T104_T1.0611.00
86_V152_V1.0501.00
33_I55_Q1.0481.00
94_V130_L1.0421.00
9_R13_K1.0360.99
32_A54_Q1.0350.99
8_L76_D1.0310.99
130_L139_V1.0290.99
9_R119_L1.0220.99
46_A50_A0.9840.99
5_P73_Q0.9840.99
56_G60_G0.9800.99
84_G134_E0.9530.99
16_E19_D0.9260.99
96_N148_V0.9180.99
18_L22_K0.9180.99
86_V92_V0.9000.99
102_E153_I0.8990.99
89_G109_G0.8820.98
54_Q57_F0.8810.98
135_E155_V0.8780.98
28_E32_A0.8780.98
32_A35_E0.8670.98
97_L138_V0.8640.98
76_D80_M0.8620.98
97_L100_D0.8620.98
13_K16_E0.8600.98
29_I54_Q0.8600.98
66_E70_S0.8580.98
61_R64_D0.8570.98
55_Q59_E0.8560.98
14_L69_L0.8470.98
120_I126_I0.8450.98
141_I150_F0.8280.98
9_R106_R0.8270.97
124_S127_A0.7910.97
85_R132_G0.7860.97
24_V28_E0.7850.97
7_T10_G0.7830.97
143_T147_E0.7750.96
40_G45_N0.7710.96
67_A70_S0.7710.96
30_I34_A0.7680.96
49_H53_E0.7560.96
39_H49_H0.7540.96
40_G48_Y0.7420.95
8_L11_A0.7400.95
69_L72_A0.7380.95
6_M72_A0.7380.95
33_I38_E0.7370.95
23_S27_P0.7350.95
76_D79_K0.7340.95
46_A49_H0.7300.95
40_G43_K0.7270.95
121_S124_S0.7200.94
6_M69_L0.7190.94
45_N48_Y0.7170.94
4_I68_K0.7100.94
80_M83_N0.7090.94
24_V27_P0.7060.94
44_E48_Y0.7010.94
41_D48_Y0.7010.94
126_I150_F0.7010.94
10_G13_K0.7000.94
10_G108_V0.6990.94
29_I55_Q0.6970.93
143_T146_G0.6960.93
6_M68_K0.6940.93
9_R12_E0.6910.93
83_N90_A0.6880.93
21_L25_R0.6850.93
53_E57_F0.6850.93
96_N101_E0.6830.93
39_H46_A0.6820.93
27_P30_I0.6780.93
5_P122_V0.6730.92
126_I141_I0.6640.92
40_G46_A0.6630.92
86_V107_I0.6580.91
96_N103_Q0.6580.91
65_I69_L0.6570.91
40_G44_E0.6560.91
86_V155_V0.6530.91
33_I51_A0.6460.91
136_D153_I0.6450.91
5_P74_V0.6440.90
54_Q58_C0.6430.90
18_L66_E0.6370.90
39_H43_K0.6350.90
29_I32_A0.6320.90
80_M87_I0.6320.90
86_V130_L0.6290.89
42_L45_N0.6280.89
7_T108_V0.6260.89
84_G155_V0.6230.89
34_A38_E0.6220.89
96_N150_F0.6220.89
105_Y120_I0.6210.89
42_L55_Q0.6160.88
31_A38_E0.6150.88
113_A119_L0.6140.88
142_K145_G0.6100.88
87_I90_A0.6090.88
62_I66_E0.6090.88
63_K67_A0.6070.88
49_H56_G0.6040.87
4_I64_D0.6030.87
126_I143_T0.6020.87
36_A40_G0.6010.87
19_D22_K0.5990.87
42_L50_A0.5960.87
88_F131_I0.5920.86
30_I37_R0.5890.86
122_V127_A0.5860.86
64_D67_A0.5810.85
84_G135_E0.5760.85
99_S103_Q0.5730.85
52_R55_Q0.5720.85
42_L51_A0.5700.84
42_L48_Y0.5660.84
6_M109_G0.5640.84
41_D44_E0.5580.83
90_A155_V0.5570.83
120_I124_S0.5560.83
13_K119_L0.5550.83
60_G64_D0.5550.83
37_R50_A0.5540.83
22_K62_I0.5480.82
32_A38_E0.5460.82
73_Q79_K0.5410.81
4_I67_A0.5410.81
34_A37_R0.5410.81
20_F28_E0.5400.81
135_E153_I0.5390.81
83_N155_V0.5390.81
36_A44_E0.5310.80
32_A46_A0.5290.80
46_A53_E0.5250.79
43_K48_Y0.5240.79
60_G63_K0.5230.79
43_K47_E0.5200.79
134_E137_D0.5150.78
40_G47_E0.5140.78
92_V130_L0.5140.78
39_H51_A0.5090.77
37_R40_G0.5090.77
32_A39_H0.5070.77
108_V114_D0.5040.76
88_F112_E0.5040.76
88_F109_G0.5040.76
79_K83_N0.5010.76
34_A60_G0.5000.76
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  
2p4vA 1 0.9873 100 0.089 Contact Map
1grjA 1 0.9557 100 0.09 Contact Map
2f23A 1 0.9557 100 0.144 Contact Map
2pn0A 2 0.7785 100 0.375 Contact Map
3bmbA 1 0.7848 100 0.382 Contact Map
2dq3A 2 0.9367 70.9 0.916 Contact Map
1wleA 2 0.943 70.2 0.916 Contact Map
3lssA 2 0.9367 64.5 0.919 Contact Map
3gtyX 1 0.8481 54.8 0.924 Contact Map
2qdxA 1 0.6266 50.6 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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