GREMLIN Database
REQ2 - Antitermination protein Q homolog from lambdoid prophage Qin
UniProt: P76161 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13832
Length: 250 (242)
Sequences: 135 (75)
Seq/√Len: 4.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
216_D220_Y7.5141.00
217_Y220_Y4.6570.95
23_A26_T3.1590.73
54_A92_I3.1580.73
175_R178_F2.8220.64
22_P25_G2.5140.54
128_V146_E2.4930.54
32_T35_M2.4360.52
121_F145_K2.3910.50
233_K237_E2.2300.45
22_P26_T2.2230.45
129_V132_Y2.2220.45
126_R146_E2.1740.44
123_N145_K2.1650.43
128_V132_Y2.1450.43
215_T220_Y2.1440.43
189_R203_A2.1320.42
125_L141_E2.0950.41
44_K54_A2.0410.39
41_V49_L1.9520.37
172_D185_K1.9360.36
83_L91_I1.9130.36
126_R141_E1.8860.35
125_L128_V1.8740.35
95_L176_T1.8660.34
201_T204_R1.8640.34
220_Y227_I1.8170.33
233_K236_Q1.7920.32
206_H227_I1.7860.32
6_L31_I1.7720.32
83_L88_R1.7700.32
2_N23_A1.7520.31
199_P219_W1.7260.30
72_A92_I1.6960.30
71_Y82_K1.6940.30
37_A59_Q1.6930.30
62_Q65_I1.6790.29
199_P203_A1.6250.28
41_V100_F1.6070.27
199_P221_K1.6050.27
8_K32_T1.5870.27
215_T218_Q1.5840.27
91_I160_A1.5790.27
217_Y223_Y1.5730.26
77_N85_E1.5460.26
124_V141_E1.5430.26
200_T219_W1.5100.25
98_F202_L1.5090.25
216_D221_K1.4880.24
87_I160_A1.4860.24
45_A71_Y1.4530.24
77_N214_L1.4420.23
100_F228_G1.4380.23
83_L160_A1.4160.23
200_T220_Y1.3970.22
126_R129_V1.3900.22
102_D245_L1.3810.22
201_T220_Y1.3720.22
217_Y227_I1.3640.22
207_V214_L1.3550.21
128_V131_H1.3520.21
7_P31_I1.3370.21
91_I223_Y1.3340.21
57_G158_S1.3310.21
203_A217_Y1.3210.21
91_I214_L1.3130.21
23_A28_C1.3010.20
118_G155_G1.2960.20
20_D43_S1.2870.20
31_I59_Q1.2850.20
5_A30_T1.2790.20
14_S29_L1.2780.20
37_A42_Q1.2670.20
54_A96_V1.2640.20
77_N91_I1.2490.19
44_K53_L1.2480.19
12_P15_P1.2450.19
201_T217_Y1.2340.19
69_L174_K1.2310.19
68_L99_A1.2300.19
10_Y38_Q1.2270.19
172_D234_C1.2100.18
108_A158_S1.2090.18
127_E141_E1.1980.18
162_R185_K1.1940.18
159_T170_V1.1920.18
132_Y144_V1.1790.18
216_D227_I1.1410.17
30_T34_V1.1300.17
85_E223_Y1.1230.17
133_R140_K1.1170.17
100_F184_Y1.1050.17
160_A245_L1.0940.16
143_W149_Q1.0930.16
199_P227_I1.0920.16
123_N126_R1.0870.16
211_V234_C1.0810.16
64_A152_H1.0790.16
47_L201_T1.0790.16
20_D23_A1.0740.16
31_I51_L1.0720.16
94_Y246_R1.0670.16
16_K21_A1.0610.16
2_N26_T1.0590.16
223_Y245_L1.0500.16
85_E214_L1.0500.16
102_D167_K1.0460.16
122_Y167_K1.0420.15
58_V73_M1.0410.15
128_V145_K1.0410.15
93_P96_V1.0380.15
129_V146_E1.0380.15
201_T216_D1.0370.15
177_R221_K1.0310.15
131_H144_V1.0260.15
5_A213_D1.0190.15
30_T35_M1.0180.15
170_V203_A1.0180.15
127_E146_E1.0080.15
239_A248_V1.0070.15
121_F126_R1.0050.15
76_D80_L1.0030.15
4_E241_A0.9940.15
162_R172_D0.9910.15
221_K234_C0.9900.15
19_D22_P0.9880.15
12_P61_P0.9840.15
85_E160_A0.9790.14
70_N74_A0.9740.14
11_S15_P0.9730.14
70_N89_L0.9720.14
3_L8_K0.9670.14
199_P206_H0.9670.14
147_L150_H0.9650.14
20_D25_G0.9600.14
8_K33_D0.9600.14
77_N223_Y0.9570.14
95_L241_A0.9550.14
6_L10_Y0.9550.14
79_T88_R0.9540.14
52_F73_M0.9520.14
84_S223_Y0.9510.14
2_N28_C0.9470.14
126_R145_K0.9440.14
42_Q65_I0.9400.14
130_K142_E0.9320.14
51_L54_A0.9310.14
171_L198_L0.9310.14
76_D85_E0.9300.14
19_D25_G0.9200.14
66_E195_F0.9160.14
98_F205_R0.9140.13
124_V128_V0.9130.13
177_R247_K0.9130.13
41_V81_N0.9120.13
185_K234_C0.9100.13
130_K195_F0.9030.13
85_E91_I0.9010.13
96_V194_R0.8990.13
212_P223_Y0.8930.13
123_N141_E0.8790.13
121_F146_E0.8670.13
160_A214_L0.8670.13
2_N25_G0.8650.13
72_A231_V0.8640.13
88_R91_I0.8600.13
69_L165_K0.8600.13
26_T29_L0.8600.13
115_H150_H0.8580.13
6_L59_Q0.8560.13
77_N212_P0.8550.13
108_A186_I0.8550.13
132_Y140_K0.8550.13
62_Q119_T0.8510.13
44_K51_L0.8510.13
160_A223_Y0.8490.13
95_L132_Y0.8460.12
39_G238_E0.8460.12
38_Q44_K0.8440.12
127_E143_W0.8420.12
36_A182_P0.8400.12
97_S203_A0.8390.12
214_L223_Y0.8340.12
21_A26_T0.8330.12
224_A227_I0.8320.12
199_P204_R0.8290.12
1_M8_K0.8250.12
19_D29_L0.8250.12
177_R207_V0.8220.12
201_T234_C0.8210.12
24_T39_G0.8110.12
193_N197_R0.8100.12
85_E185_K0.8090.12
94_Y175_R0.8090.12
10_Y225_D0.8050.12
8_K13_K0.8050.12
201_T205_R0.8030.12
218_Q222_G0.8000.12
126_R178_F0.7950.12
221_K224_A0.7920.12
219_W224_A0.7880.12
21_A104_S0.7860.12
6_L46_P0.7860.12
123_N128_V0.7780.12
205_R219_W0.7720.12
10_Y49_L0.7700.11
170_V185_K0.7680.11
204_R219_W0.7630.11
86_E126_R0.7630.11
91_I245_L0.7620.11
31_I144_V0.7620.11
179_H193_N0.7580.11
174_K209_K0.7550.11
140_K213_D0.7520.11
202_L227_I0.7510.11
23_A29_L0.7470.11
47_L110_K0.7450.11
112_R174_K0.7420.11
111_A167_K0.7390.11
170_V173_E0.7380.11
102_D177_R0.7380.11
1_M4_E0.7350.11
54_A104_S0.7330.11
200_T216_D0.7330.11
104_S231_V0.7320.11
216_D219_W0.7300.11
24_T33_D0.7290.11
206_H240_Y0.7240.11
131_H147_L0.7240.11
49_L121_F0.7230.11
8_K39_G0.7180.11
87_I214_L0.7150.11
124_V145_K0.7140.11
2_N18_S0.7130.11
77_N83_L0.7090.11
13_K193_N0.7080.11
195_F243_A0.7070.11
36_A143_W0.7070.11
1_M12_P0.7050.11
25_G225_D0.7000.11
7_P100_F0.6960.11
108_A231_V0.6960.11
19_D64_A0.6940.11
41_V200_T0.6940.11
156_E213_D0.6920.11
100_F144_V0.6890.10
232_T244_Q0.6850.10
106_S193_N0.6830.10
30_T114_E0.6830.10
1_M33_D0.6820.10
77_N160_A0.6770.10
71_Y100_F0.6750.10
82_K207_V0.6750.10
199_P231_V0.6720.10
171_L174_K0.6700.10
1_M13_K0.6690.10
37_A46_P0.6680.10
140_K229_K0.6670.10
149_Q155_G0.6660.10
108_A228_G0.6600.10
29_L42_Q0.6580.10
58_V76_D0.6530.10
141_E149_Q0.6520.10
180_G230_L0.6510.10
71_Y104_S0.6470.10
9_Y14_S0.6460.10
125_L143_W0.6460.10
88_R96_V0.6440.10
100_F145_K0.6430.10
30_T37_A0.6400.10
144_V189_R0.6390.10
7_P10_Y0.6380.10
20_D158_S0.6370.10
25_G181_V0.6360.10
54_A59_Q0.6350.10
63_F174_K0.6330.10
3_L176_T0.6330.10
228_G238_E0.6320.10
47_L78_P0.6320.10
14_S242_E0.6320.10
56_V76_D0.6310.10
13_K40_M0.6300.10
94_Y183_V0.6290.10
121_F128_V0.6260.10
37_A50_A0.6260.10
40_M46_P0.6240.10
173_E176_T0.6230.10
51_L92_I0.6230.10
88_R93_P0.6200.10
204_R217_Y0.6200.10
47_L67_G0.6190.10
37_A40_M0.6120.10
83_L245_L0.6110.10
51_L60_D0.6060.10
212_P217_Y0.6050.10
65_I159_T0.6040.10
5_A22_P0.6000.09
73_M110_K0.5960.09
173_E188_G0.5960.09
16_K20_D0.5960.09
39_G189_R0.5950.09
52_F71_Y0.5950.09
78_P226_V0.5940.09
157_A195_F0.5930.09
6_L11_S0.5880.09
120_G169_I0.5870.09
127_E132_Y0.5870.09
19_D23_A0.5870.09
128_V203_A0.5840.09
119_T207_V0.5830.09
95_L130_K0.5830.09
200_T227_I0.5820.09
171_L176_T0.5800.09
36_A146_E0.5790.09
61_P88_R0.5750.09
76_D91_I0.5740.09
44_K201_T0.5740.09
91_I217_Y0.5740.09
152_H155_G0.5730.09
14_S109_S0.5710.09
46_P50_A0.5660.09
142_E195_F0.5660.09
85_E212_P0.5660.09
69_L247_K0.5650.09
85_E245_L0.5650.09
220_Y223_Y0.5600.09
5_A20_D0.5580.09
38_Q49_L0.5550.09
132_Y146_E0.5510.09
11_S114_E0.5510.09
212_P233_K0.5490.09
199_P215_T0.5490.09
3_L33_D0.5480.09
204_R223_Y0.5480.09
86_E203_A0.5460.09
9_Y15_P0.5450.09
52_F152_H0.5440.09
122_Y229_K0.5400.09
185_K211_V0.5390.09
221_K241_A0.5370.09
40_M61_P0.5370.09
160_A212_P0.5370.09
7_P12_P0.5350.09
42_Q150_H0.5330.09
4_E206_H0.5320.09
89_L246_R0.5320.09
70_N191_N0.5270.09
154_K162_R0.5260.09
238_E249_T0.5230.09
40_M69_L0.5220.09
218_Q247_K0.5180.09
3_L128_V0.5180.09
205_R221_K0.5180.09
214_L233_K0.5150.09
53_L234_C0.5140.09
170_V211_V0.5140.09
174_K202_L0.5140.09
91_I212_P0.5110.09
69_L93_P0.5110.09
34_V145_K0.5080.09
2_N181_V0.5040.08
17_L38_Q0.5020.08
123_N131_H0.5000.08
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  
4mo1A 1 0.572 100 0.472 Contact Map
1exkA 1 0.28 98.1 0.923 Contact Map
2cttA 1 0.376 98.1 0.924 Contact Map
1nltA 1 0.504 97.1 0.937 Contact Map
3lczA 7 0.208 95.6 0.947 Contact Map
2bx9A 7 0.208 94.4 0.95 Contact Map
3pmqA 1 0.812 94.2 0.951 Contact Map
1qo8A 2 0.452 87 0.959 Contact Map
1ohuA 1 0.3 30.7 0.973 Contact Map
5aunA 1 0.492 29.2 0.973 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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