GREMLIN Database
GREB - Transcription elongation factor GreB
UniProt: P30128 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11578
Length: 158 (151)
Sequences: 4126 (2167)
Seq/√Len: 176.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
12_E16_Q3.2331.00
8_R12_E2.9291.00
17_E61_R2.7151.00
92_E152_A2.6691.00
20_Y24_E2.6011.00
22_W66_T2.5961.00
112_F115_K2.5081.00
94_E98_G2.4711.00
20_Y25_E2.4621.00
92_E100_T2.3891.00
25_E54_R2.1961.00
94_E149_Y2.1631.00
26_R59_D2.0591.00
19_N23_R2.0441.00
127_A139_V2.0251.00
138_V147_S1.9841.00
138_V145_E1.9651.00
92_E102_R1.9591.00
133_V152_A1.9271.00
11_Y15_K1.9151.00
21_L58_I1.8691.00
136_L147_S1.8571.00
92_E154_E1.8241.00
12_E15_K1.8201.00
57_E60_R1.8101.00
29_V58_I1.8011.00
25_E28_E1.8001.00
131_K137_A1.7941.00
67_K71_N1.7621.00
94_E100_T1.7161.00
16_Q20_Y1.6541.00
11_Y69_L1.6231.00
84_K132_E1.6061.00
102_R154_E1.5901.00
68_C109_D1.5811.00
94_E151_N1.5591.00
131_K135_D1.5511.00
18_L62_V1.5151.00
93_I148_W1.4891.00
11_Y74_I1.4311.00
93_I101_H1.4121.00
140_N145_E1.4051.00
108_Y121_D1.3881.00
50_Y53_K1.3721.00
31_K34_T1.3681.00
15_K19_N1.3581.00
105_I125_A1.3331.00
136_L149_Y1.3311.00
64_Y68_C1.3291.00
35_W38_S1.2931.00
104_R117_Y1.2431.00
37_A42_R1.2381.00
14_L65_L1.2251.00
10_G110_E1.2131.00
28_E31_K1.2121.00
35_W39_L1.2111.00
93_I103_F1.2041.00
134_G149_Y1.2011.00
106_V117_Y1.1811.00
4_P71_N1.1761.00
92_E151_N1.1661.00
90_W104_R1.1631.00
31_K35_W1.1441.00
43_S49_Q1.1401.00
131_K150_V1.1241.00
141_T146_A1.1231.00
33_V55_L1.1171.00
25_E58_I1.1051.00
90_W154_E1.0961.00
90_W102_R1.0931.00
105_I120_I1.0811.00
93_I128_L1.0791.00
39_L47_D1.0771.00
85_V150_V1.0531.00
32_K54_R1.0380.99
128_L137_A1.0320.99
46_A50_Y1.0290.99
9_E13_K1.0270.99
56_R60_R1.0200.99
5_L73_K1.0200.99
8_R76_D1.0110.99
9_E117_Y0.9760.99
85_V91_V0.9700.99
32_K35_W0.9540.99
16_Q19_N0.9470.99
100_T151_N0.9460.99
28_E32_K0.9400.99
83_G132_E0.9360.99
18_L22_W0.9270.99
95_N146_A0.9240.99
55_L59_D0.9080.99
54_R57_E0.8910.98
133_V153_I0.8750.98
14_L69_L0.8720.98
29_V54_R0.8680.98
13_K16_Q0.8660.98
118_I124_M0.8360.98
61_R64_Y0.8270.97
9_E104_R0.8180.97
122_S125_A0.8170.97
66_T70_E0.8030.97
119_S122_S0.8020.97
40_G45_N0.8010.97
88_G107_G0.7960.97
49_Q53_K0.7940.97
7_T10_G0.7860.97
39_L49_Q0.7850.97
24_E28_E0.7820.96
82_E89_A0.7710.96
84_K130_K0.7700.96
8_R11_Y0.7610.96
141_T145_E0.7600.96
67_K70_E0.7520.96
30_T34_T0.7490.96
76_D80_Q0.7480.95
124_M148_W0.7470.95
139_V148_W0.7430.95
29_V55_L0.7400.95
33_V38_S0.7390.95
23_R27_P0.7360.95
40_G43_S0.7350.95
40_G48_Y0.7300.95
141_T144_G0.7250.95
53_K57_E0.7230.95
6_V68_C0.7220.95
6_V69_L0.7220.95
69_L72_L0.7160.94
9_E12_E0.7140.94
46_A49_Q0.7140.94
24_E27_P0.7050.94
27_P30_T0.7020.94
65_L69_L0.7010.94
6_V72_L0.7010.94
85_V153_I0.7010.94
39_L46_A0.7000.94
45_N48_Y0.6980.93
85_V105_I0.6980.93
4_P68_C0.6910.93
10_G106_V0.6900.93
10_G13_K0.6880.93
21_L25_E0.6840.93
76_D79_P0.6820.93
41_D48_Y0.6800.93
124_M139_V0.6780.92
44_E48_Y0.6760.92
34_T38_S0.6740.92
95_N101_H0.6660.92
39_L43_S0.6620.92
81_Q132_E0.6620.92
54_R58_I0.6600.91
40_G46_A0.6530.91
97_D101_H0.6520.91
5_L120_I0.6490.91
87_F129_L0.6470.91
49_Q56_R0.6470.91
7_T106_V0.6430.90
5_L74_I0.6410.90
40_G44_E0.6400.90
124_M141_T0.6400.90
31_K38_S0.6390.90
63_R67_K0.6380.90
33_V51_N0.6300.89
140_N143_A0.6300.89
95_N148_W0.6260.89
18_L66_T0.6250.89
37_A50_Y0.6220.89
143_A146_A0.6210.89
42_R51_N0.6190.89
103_F118_I0.6180.89
86_F89_A0.6180.89
82_E153_I0.6120.88
83_G153_I0.6110.88
42_R45_N0.6090.88
42_R50_Y0.6030.87
42_R55_L0.6030.87
111_I117_Y0.6000.87
29_V32_K0.5990.87
81_Q89_A0.5990.87
19_N22_W0.5980.87
80_Q86_F0.5940.87
134_G151_N0.5940.87
85_V128_L0.5930.86
118_I122_S0.5910.86
95_N99_V0.5880.86
81_Q84_K0.5780.85
32_K38_S0.5770.85
36_A44_E0.5770.85
81_Q86_F0.5760.85
60_R64_Y0.5750.85
4_P64_Y0.5730.85
30_T37_A0.5680.84
20_Y28_E0.5640.84
64_Y67_K0.5610.83
89_A153_I0.5600.83
62_V66_T0.5580.83
52_K55_L0.5520.82
83_G133_V0.5500.82
106_V112_F0.5470.82
32_K46_A0.5470.82
36_A40_G0.5460.82
46_A53_K0.5450.82
87_F107_G0.5450.82
120_I125_A0.5430.81
96_D99_V0.5410.81
13_K117_Y0.5410.81
33_V56_R0.5400.81
34_T37_A0.5360.80
6_V11_Y0.5340.80
6_V107_G0.5330.80
106_V110_E0.5320.80
42_R48_Y0.5310.80
22_W62_V0.5310.80
91_V150_V0.5300.80
4_P67_K0.5280.80
96_D147_S0.5270.79
43_S47_D0.5240.79
133_V151_N0.5230.79
34_T60_R0.5220.79
41_D44_E0.5220.79
52_K56_R0.5110.77
36_A45_N0.5060.77
33_V37_A0.5030.76
132_E135_D0.5030.76
91_V128_L0.5010.76
87_F110_E0.5010.76
25_E29_V0.5000.76
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 0.101 Contact Map
1grjA 1 0.943 100 0.123 Contact Map
2f23A 1 0.9494 100 0.171 Contact Map
2pn0A 2 0.7722 100 0.394 Contact Map
3bmbA 1 0.7848 100 0.404 Contact Map
3gtyX 1 0.8924 76.1 0.915 Contact Map
3lssA 2 0.9557 50.8 0.928 Contact Map
1w26A 1 0.9304 49.1 0.929 Contact Map
1wleA 2 0.9114 46.9 0.93 Contact Map
2piaA 1 0.6456 45.3 0.93 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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