GREMLIN Database
RHO - Transcription termination factor Rho
UniProt: Q03222 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 427 (361)
Sequences: 7938 (2627)
Seq/√Len: 138.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
120_A124_D8.3511.00
169_F258_D5.7221.00
206_L245_V5.0241.00
345_D358_D4.9371.00
160_I357_I3.9771.00
117_H127_E3.3201.00
72_I84_S3.2101.00
112_Y255_H3.0411.00
167_V315_L3.0111.00
202_E257_K3.0091.00
246_L316_A2.9101.00
112_Y257_K2.7781.00
152_K169_F2.7091.00
104_R107_K2.6191.00
348_L353_I2.6101.00
371_V376_L2.5241.00
204_I249_A2.5011.00
216_T220_R2.4681.00
54_M84_S2.4021.00
381_S384_K2.3551.00
411_D415_Q2.3191.00
227_V248_R2.3121.00
390_P393_A2.2461.00
373_K377_D2.2221.00
56_G101_G2.2111.00
60_I74_Y2.2031.00
249_A312_L2.1861.00
164_M382_I2.1601.00
119_E248_R2.1241.00
416_E419_Q2.0781.00
250_M302_A2.0671.00
113_Y130_K2.0671.00
202_E225_D2.0581.00
326_M343_H2.0361.00
178_P181_A2.0301.00
155_F162_D2.0231.00
225_D248_R1.9841.00
381_S411_D1.9501.00
253_V306_I1.9091.00
147_M201_A1.8951.00
393_A397_M1.8941.00
173_G315_L1.8781.00
107_K132_R1.8531.00
403_T414_N1.8381.00
219_E226_V1.8321.00
251_R255_H1.7941.00
202_E252_L1.7631.00
352_R380_W1.7601.00
173_G340_M1.7471.00
161_M342_L1.7451.00
372_P375_H1.7351.00
133_V251_R1.7291.00
258_D311_S1.7271.00
167_V342_L1.7241.00
411_D414_N1.7141.00
242_A299_F1.6991.00
204_I248_R1.6611.00
152_K305_N1.6551.00
243_E273_Y1.6541.00
139_T142_Y1.6481.00
368_E376_L1.6381.00
166_P367_E1.6331.00
133_V137_A1.6271.00
376_L380_W1.6091.00
206_L263_M1.6001.00
139_T143_P1.5681.00
117_H125_D1.5661.00
331_Y343_H1.5651.00
133_V247_E1.5581.00
318_A334_F1.5571.00
174_L338_G1.5471.00
221_S369_L1.5351.00
145_R307_E1.5211.00
388_D409_F1.4991.00
154_N201_A1.4861.00
146_Q375_H1.4811.00
90_R93_L1.4741.00
109_N132_R1.4511.00
161_M190_I1.4511.00
273_Y295_R1.4331.00
351_R393_A1.4321.00
129_A132_R1.4211.00
367_E379_L1.4201.00
208_I241_V1.4161.00
300_F337_T1.4161.00
259_V312_L1.4091.00
384_K408_E1.4081.00
149_L168_G1.4011.00
233_E237_N1.3941.00
66_F84_S1.3911.00
388_D391_D1.3911.00
112_Y251_R1.3831.00
328_D331_Y1.3821.00
296_P334_F1.3721.00
59_E100_S1.3651.00
119_E227_V1.3571.00
106_P135_F1.3561.00
147_M308_E1.3531.00
145_R308_E1.3531.00
396_F413_L1.3341.00
361_R390_P1.3131.00
108_E248_R1.3011.00
138_L142_Y1.2891.00
156_L167_V1.2871.00
191_A262_L1.2851.00
220_R307_E1.2781.00
347_S350_E1.2781.00
207_L215_V1.2721.00
108_E244_L1.2701.00
266_I334_F1.2671.00
277_I284_L1.2671.00
246_L303_A1.2521.00
300_F334_F1.2501.00
155_F189_E1.2421.00
118_V219_E1.2381.00
381_S385_T1.2361.00
267_T271_R1.2321.00
165_A342_L1.2291.00
58_L99_V1.2281.00
407_Q411_D1.2271.00
104_R132_R1.2241.00
167_V313_T1.2221.00
153_P370_L1.2171.00
246_L312_L1.2161.00
208_I263_M1.2141.00
114_G248_R1.2111.00
366_K370_L1.1971.00
392_F409_F1.1951.00
358_D361_R1.1941.00
138_L143_P1.1921.00
371_V379_L1.1791.00
177_A181_A1.1600.99
134_H137_A1.1460.99
68_F71_P1.1440.99
147_M150_E1.1410.99
380_W383_R1.1360.99
111_R114_G1.1360.99
158_T161_M1.1200.99
113_Y128_S1.1160.99
256_K309_G1.1140.99
320_V331_Y1.1060.99
206_L261_I1.1060.99
86_S90_R1.1020.99
55_E58_L1.1010.99
121_V244_L1.0990.99
133_V254_E1.0930.99
367_E371_V1.0910.99
350_E361_R1.0910.99
323_G327_D1.0860.99
53_F56_G1.0860.99
203_L224_G1.0780.99
167_V173_G1.0780.99
117_H126_P1.0770.99
306_I309_G1.0740.99
243_E295_R1.0690.99
178_P346_R1.0670.99
94_R97_D1.0630.99
191_A224_G1.0570.99
60_I66_F1.0500.99
254_E306_I1.0480.99
246_L261_I1.0410.99
115_L202_E1.0380.99
120_A233_E1.0370.99
197_N258_D1.0370.99
161_M165_A1.0340.99
204_I227_V1.0340.99
210_E214_E1.0310.99
158_T186_L1.0280.99
212_P230_T1.0210.99
88_I237_N1.0200.99
271_R321_D1.0200.99
139_T308_E1.0130.98
415_Q418_K1.0090.98
296_P337_T1.0090.98
392_F396_F1.0080.98
351_R419_Q1.0060.98
294_H297_K1.0040.98
211_R214_E0.9980.98
205_V224_G0.9870.98
305_N311_S0.9800.98
156_L162_D0.9800.98
384_K388_D0.9770.98
210_E268_R0.9730.98
115_L225_D0.9720.98
255_H259_V0.9690.98
201_A260_I0.9670.98
260_I315_L0.9640.98
178_P332_E0.9630.98
251_R254_E0.9620.98
165_A363_G0.9620.98
270_A330_I0.9540.98
271_R333_E0.9510.98
62_Q66_F0.9490.98
204_I225_D0.9480.98
121_V126_P0.9480.98
323_G346_R0.9450.98
245_V261_I0.9420.98
147_M307_E0.9420.98
121_V237_N0.9260.97
67_G100_S0.9230.97
169_F311_S0.9220.97
303_A314_I0.9190.97
178_P323_G0.9160.97
191_A205_V0.9130.97
147_M305_N0.9060.97
166_P371_V0.9040.97
229_S238_H0.9030.97
404_K408_E0.9020.97
340_M365_R0.9010.97
138_L141_L0.9000.97
262_L317_T0.8950.97
266_I300_F0.8950.97
253_V312_L0.8900.97
197_N257_K0.8860.96
239_I273_Y0.8850.96
191_A203_L0.8830.96
137_A254_E0.8790.96
324_S332_E0.8780.96
351_R418_K0.8750.96
130_K135_F0.8730.96
296_P333_E0.8720.96
269_L299_F0.8700.96
238_H275_L0.8670.96
253_V259_V0.8660.96
161_M186_L0.8610.96
320_V328_D0.8590.96
121_V233_E0.8520.96
131_E134_H0.8500.96
66_F69_L0.8490.96
154_N194_I0.8480.95
194_I260_I0.8450.95
203_L206_L0.8440.95
343_H361_R0.8430.95
106_P244_L0.8420.95
173_G342_L0.8420.95
65_G68_F0.8400.95
208_I242_A0.8400.95
59_E71_P0.8340.95
347_S390_P0.8340.95
269_L295_R0.8240.95
59_E62_Q0.8230.95
61_I98_K0.8210.95
283_T288_I0.8210.95
217_D369_L0.8180.95
166_P375_H0.8150.94
397_M406_N0.8120.94
403_T413_L0.8070.94
88_I124_D0.8070.94
113_Y129_A0.8040.94
163_M166_P0.8020.94
371_V375_H0.8020.94
358_D390_P0.8010.94
326_M331_Y0.8010.94
185_M188_K0.7940.94
153_P166_P0.7930.94
56_G103_V0.7930.94
147_M309_G0.7910.93
408_E417_W0.7890.93
217_D221_S0.7850.93
53_F81_I0.7840.93
204_I245_V0.7820.93
61_I67_G0.7800.93
77_S83_I0.7760.93
248_R252_L0.7740.93
109_N129_A0.7710.93
292_A295_R0.7710.93
78_S83_I0.7700.93
102_K119_E0.7680.92
158_T189_E0.7680.92
202_E259_V0.7670.92
61_I100_S0.7670.92
124_D128_S0.7650.92
195_T258_D0.7650.92
187_L262_L0.7650.92
211_R268_R0.7650.92
62_Q69_L0.7640.92
149_L366_K0.7620.92
347_S391_D0.7620.92
179_P271_R0.7620.92
271_R288_I0.7610.92
187_L218_I0.7580.92
162_D193_S0.7580.92
148_V369_L0.7570.92
115_L257_K0.7560.92
377_D380_W0.7560.92
386_M390_P0.7540.92
178_P324_S0.7520.92
129_A136_P0.7510.92
113_Y125_D0.7500.92
131_E251_R0.7490.92
168_G370_L0.7470.91
59_E69_L0.7470.91
176_V331_Y0.7470.91
332_E335_K0.7460.91
243_E269_L0.7450.91
229_S233_E0.7440.91
60_I97_D0.7440.91
83_I280_S0.7430.91
77_S95_N0.7430.91
56_G60_I0.7400.91
288_I324_S0.7400.91
114_G225_D0.7390.91
115_L118_V0.7370.91
282_R291_A0.7360.91
57_V61_I0.7350.91
145_R169_F0.7340.91
215_V228_S0.7320.91
343_H346_R0.7320.91
73_N87_Q0.7310.90
192_N219_E0.7310.90
128_S131_E0.7300.90
137_A142_Y0.7240.90
87_Q122_N0.7230.90
130_K134_H0.7230.90
112_Y252_L0.7200.90
106_P240_K0.7180.90
225_D252_L0.7180.90
56_G61_I0.7140.89
137_A143_P0.7120.89
164_M359_I0.7110.89
388_D392_F0.7110.89
239_I276_V0.7100.89
366_K371_V0.7090.89
239_I295_R0.7060.89
234_V237_N0.7030.89
130_K133_V0.7010.89
141_L145_R0.7010.89
353_I417_W0.7000.89
179_P337_T0.6990.88
146_Q149_L0.6980.88
261_I303_A0.6980.88
113_Y131_E0.6980.88
179_P335_K0.6970.88
326_M361_R0.6960.88
191_A223_A0.6950.88
279_P290_P0.6940.88
404_K407_Q0.6900.88
368_E383_R0.6900.88
265_S317_T0.6890.88
62_Q65_G0.6860.88
322_T328_D0.6820.87
164_M379_L0.6810.87
56_G68_F0.6790.87
114_G119_E0.6780.87
168_G366_K0.6780.87
182_G264_D0.6780.87
406_N409_F0.6770.87
275_L290_P0.6750.87
282_R304_R0.6750.87
277_I291_A0.6700.86
279_P283_T0.6690.86
88_I234_V0.6680.86
87_Q237_N0.6670.86
395_K399_K0.6650.86
52_L56_G0.6650.86
277_I290_P0.6640.86
209_D238_H0.6630.86
203_L262_L0.6620.86
395_K398_R0.6610.86
374_E378_R0.6610.86
56_G66_F0.6600.85
131_E255_H0.6590.85
345_D361_R0.6580.85
205_V215_V0.6550.85
270_A296_P0.6540.85
70_R97_D0.6530.85
375_H379_L0.6520.85
178_P287_G0.6500.85
120_A126_P0.6490.84
133_V136_P0.6480.84
53_F60_I0.6460.84
162_D194_I0.6450.84
108_E111_R0.6450.84
103_V106_P0.6440.84
51_L55_E0.6380.83
385_T388_D0.6360.83
280_S291_A0.6350.83
156_L315_L0.6350.83
367_E375_H0.6340.83
65_G69_L0.6340.83
179_P336_G0.6320.83
285_S289_D0.6310.83
273_Y276_V0.6280.83
175_I391_D0.6270.82
285_S333_E0.6260.82
246_L263_M0.6240.82
263_M299_F0.6240.82
69_L97_D0.6230.82
110_E247_E0.6230.82
161_M167_V0.6230.82
353_I419_Q0.6230.82
60_I80_D0.6200.82
188_K217_D0.6200.82
237_N240_K0.6170.81
102_K117_H0.6160.81
121_V124_D0.6150.81
146_Q351_R0.6110.81
269_L273_Y0.6080.80
52_L55_E0.6060.80
394_E400_M0.6050.80
256_K308_E0.6020.80
252_L257_K0.6010.80
152_K258_D0.5990.79
183_K264_D0.5970.79
180_K275_L0.5960.79
132_R373_K0.5960.79
176_V338_G0.5960.79
116_L127_E0.5960.79
285_S409_F0.5950.79
85_A280_S0.5920.79
55_E100_S0.5920.79
106_P162_D0.5920.79
76_P83_I0.5900.78
389_S393_A0.5900.78
175_I315_L0.5890.78
69_L81_I0.5890.78
118_V126_P0.5890.78
385_T411_D0.5890.78
119_E122_N0.5880.78
327_D334_F0.5870.78
59_E65_G0.5860.78
241_V245_V0.5860.78
239_I269_L0.5860.78
352_R384_K0.5820.78
70_R92_D0.5820.78
156_L161_M0.5820.78
197_N223_A0.5800.77
377_D381_S0.5800.77
156_L303_A0.5790.77
88_I122_N0.5790.77
110_E114_G0.5790.77
184_T264_D0.5770.77
56_G162_D0.5760.77
221_S247_E0.5740.77
168_G365_R0.5740.77
244_L247_E0.5740.77
75_S280_S0.5740.77
189_E193_S0.5740.77
321_D327_D0.5730.76
266_I316_A0.5730.76
346_R350_E0.5720.76
360_R386_M0.5720.76
105_P164_M0.5720.76
55_E59_E0.5720.76
122_N125_D0.5720.76
87_Q106_P0.5710.76
58_L84_S0.5710.76
378_R381_S0.5690.76
153_P366_K0.5690.76
258_D305_N0.5680.76
205_V222_V0.5670.76
62_Q67_G0.5670.76
183_K210_E0.5660.76
402_K405_T0.5650.75
375_H378_R0.5650.75
116_L119_E0.5650.75
137_A141_L0.5630.75
322_T332_E0.5630.75
54_M103_V0.5610.75
107_K112_Y0.5600.75
148_V162_D0.5600.75
112_Y125_D0.5600.75
150_E309_G0.5600.75
190_I193_S0.5590.75
157_S186_L0.5580.75
59_E70_R0.5580.75
207_L210_E0.5580.75
401_K404_K0.5570.74
368_E371_V0.5570.74
162_D166_P0.5560.74
183_K268_R0.5560.74
82_Y99_V0.5560.74
190_I260_I0.5520.74
262_L271_R0.5520.74
181_A346_R0.5520.74
215_V230_T0.5500.73
300_F314_I0.5490.73
129_A133_V0.5480.73
322_T330_I0.5480.73
124_D255_H0.5470.73
205_V218_I0.5470.73
91_F107_K0.5460.73
119_E123_G0.5450.73
56_G59_E0.5430.73
320_V327_D0.5430.73
266_I299_F0.5420.72
243_E280_S0.5400.72
250_M253_V0.5400.72
83_I175_I0.5390.72
196_A223_A0.5390.72
386_M416_E0.5390.72
110_E133_V0.5380.72
283_T290_P0.5370.72
274_N330_I0.5370.72
206_L209_D0.5360.72
179_P333_E0.5350.71
336_G363_G0.5350.71
162_D240_K0.5340.71
388_D410_F0.5340.71
185_M189_E0.5330.71
334_F338_G0.5330.71
51_L54_M0.5330.71
89_R92_D0.5310.71
73_N240_K0.5310.71
277_I289_D0.5310.71
242_A263_M0.5310.71
72_I77_S0.5300.71
74_Y77_S0.5300.71
67_G71_P0.5290.71
163_M410_F0.5280.70
333_E400_M0.5280.70
348_L356_A0.5270.70
404_K410_F0.5260.70
66_F70_R0.5260.70
229_S237_N0.5260.70
246_L250_M0.5250.70
247_E250_M0.5250.70
145_R150_E0.5240.70
389_S413_L0.5240.70
156_L176_V0.5220.70
171_Q365_R0.5220.70
286_G333_E0.5200.69
392_F397_M0.5200.69
53_F65_G0.5180.69
127_E157_S0.5180.69
116_L123_G0.5160.69
58_L121_V0.5160.69
80_D309_G0.5110.68
382_I417_W0.5110.68
275_L288_I0.5100.68
215_V226_V0.5090.68
214_E217_D0.5090.68
155_F195_T0.5090.68
205_V295_R0.5080.68
61_I68_F0.5080.68
203_L260_I0.5060.67
182_G210_E0.5050.67
158_T193_S0.5050.67
389_S396_F0.5050.67
163_M375_H0.5010.66
247_E251_R0.5000.66
169_F294_H0.5000.66
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  
3oaaA 2 0.897 100 0.189 Contact Map
2qe7A 1 0.8899 100 0.19 Contact Map
2c61A 2 0.8525 100 0.196 Contact Map
1fx0A 1 0.897 100 0.198 Contact Map
2ck3A 1 0.904 100 0.199 Contact Map
3j9tA 1 0.8876 100 0.199 Contact Map
3vr4D 1 0.9016 100 0.202 Contact Map
3mfyA 1 0.726 100 0.203 Contact Map
3gqbB 1 0.904 100 0.203 Contact Map
3gqbA 1 0.8923 100 0.208 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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