GREMLIN Database
RPOA1 - DNA-directed RNA polymerase subunit A'
UniProt: P0CX02 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 971 (832)
Sequences: 850 (496)
Seq/√Len: 17.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
263_D267_L9.3331.00
263_D266_A9.1531.00
24_R80_E7.8481.00
149_C152_C7.2721.00
489_I501_I6.9151.00
488_I506_V6.4431.00
421_Q541_E5.1721.00
471_R474_P5.0051.00
411_V535_M4.8751.00
722_I768_A4.3901.00
559_S562_F4.0471.00
82_A318_N3.8821.00
607_A625_S3.8671.00
264_L267_L3.7061.00
758_M808_A3.7051.00
541_E544_R3.5631.00
258_D267_L3.4921.00
610_T619_T3.4391.00
199_P202_L3.4181.00
408_E485_G3.2520.99
561_R843_Y3.2500.99
724_S728_R3.2330.99
27_S78_H3.1630.99
425_V437_V3.0430.99
767_S770_D2.9460.98
31_V53_L2.9430.98
809_V813_R2.9390.98
128_L133_S2.9310.98
124_R128_L2.8300.98
262_E266_A2.7680.98
121_N137_T2.7540.98
592_A626_E2.6980.97
552_R555_E2.6910.97
198_S202_L2.6810.97
369_T372_Q2.6700.97
62_C65_C2.6090.97
763_K767_S2.5980.97
149_C160_K2.5720.96
72_C75_H2.5670.96
724_S767_S2.5370.96
501_I547_A2.5160.96
677_G681_A2.4650.95
160_K166_T2.4200.95
437_V478_V2.4070.95
769_G798_T2.4060.95
408_E507_V2.3860.94
172_Q180_E2.3800.94
396_T514_F2.3740.94
258_D263_D2.3450.94
116_D119_R2.3230.94
311_L348_F2.2920.93
810_R857_M2.2810.93
703_I782_A2.2730.93
544_R548_R2.2590.93
765_R798_T2.2560.93
503_A547_A2.2540.92
29_T52_R2.2120.92
117_E120_E2.2000.92
163_K166_T2.1960.91
809_V842_S2.1710.91
102_C105_C2.1650.91
785_M792_G2.1610.91
754_E836_H2.1600.91
149_C156_Q2.1380.90
421_Q544_R2.1360.90
166_T172_Q2.1160.90
154_E159_V2.0950.89
225_R228_R2.0530.88
199_P203_A2.0370.88
295_I408_E2.0310.88
258_D266_A2.0170.87
857_M868_V2.0080.87
716_E724_S1.9980.87
149_C157_Y1.9830.87
394_A535_M1.9820.87
152_C156_Q1.9780.86
545_A549_V1.9770.86
484_D507_V1.9670.86
721_A764_A1.9620.86
732_L760_T1.9560.86
162_E166_T1.9530.86
512_K788_S1.9510.86
811_G837_G1.9330.85
152_C160_K1.9280.85
571_Q662_G1.9030.84
87_H91_S1.9020.84
253_R257_E1.8950.84
378_E383_G1.8810.83
516_L561_R1.8610.83
79_I286_V1.8370.82
795_L842_S1.8080.81
671_T919_S1.8050.81
124_R132_V1.8030.81
24_R283_V1.7990.80
184_A191_D1.7710.79
804_V807_Q1.7680.79
498_R853_F1.7640.79
505_E548_R1.7600.79
176_S179_S1.7470.78
84_P87_H1.7390.78
403_T515_R1.7370.78
318_N321_F1.7270.78
195_A199_P1.7210.77
159_V168_Y1.7200.77
501_I768_A1.7130.77
252_I257_E1.6930.76
245_N251_D1.6890.76
729_V757_I1.6810.76
422_T538_L1.6770.75
167_Y172_Q1.6720.75
257_E266_A1.6680.75
413_D510_P1.6650.75
500_S523_P1.6650.75
406_L553_V1.6650.75
20_P282_T1.6600.75
257_E263_D1.6590.75
167_Y175_A1.6580.75
72_C102_C1.6550.74
151_H157_Y1.6450.74
167_Y170_V1.6450.74
116_D126_R1.6450.74
20_P24_R1.6440.74
116_D120_E1.6430.74
882_N885_S1.6390.74
149_C163_K1.6340.74
157_Y160_K1.6330.73
171_Q179_S1.6310.73
252_I258_D1.6300.73
196_G199_P1.6250.73
865_D870_T1.6230.73
55_V345_V1.6200.73
152_C166_T1.6170.73
152_C172_Q1.6060.72
490_F535_M1.5980.72
186_M189_D1.5810.71
119_R122_L1.5770.71
87_H90_F1.5730.71
163_K167_Y1.5730.71
29_T53_L1.5680.70
149_C161_H1.5630.70
72_C105_C1.5590.70
157_Y162_E1.5510.69
285_P320_R1.5510.69
195_A198_S1.5480.69
672_I684_F1.5480.69
124_R129_R1.5460.69
702_S793_S1.5450.69
348_F839_V1.5430.69
810_R814_I1.5220.68
201_E204_E1.5200.68
22_E489_I1.5080.67
74_G102_C1.5020.67
813_R910_D1.5020.67
458_V540_N1.4950.67
118_Y122_L1.4860.66
904_Q907_F1.4830.66
609_G614_G1.4760.65
489_I702_S1.4760.65
754_E813_R1.4710.65
524_Y533_M1.4690.65
160_K163_K1.4680.65
64_T72_C1.4640.65
915_V919_S1.4630.65
161_H172_Q1.4620.65
870_T875_Y1.4580.65
163_K172_Q1.4520.64
562_F566_I1.4490.64
171_Q180_E1.4470.64
130_Q133_S1.4450.64
259_I263_D1.4410.64
152_C157_Y1.4390.63
813_R837_G1.4340.63
754_E795_L1.4260.63
108_L263_D1.4250.63
414_R512_K1.4220.63
152_C161_H1.4200.62
108_L133_S1.4190.62
199_P204_E1.4170.62
786_A797_L1.4170.62
862_G865_D1.4060.62
632_L671_T1.3980.61
184_A187_Q1.3890.61
205_Q210_I1.3850.60
256_F263_D1.3840.60
807_Q843_Y1.3760.60
192_E202_L1.3730.60
145_K152_C1.3710.60
592_A607_A1.3710.60
18_M87_H1.3690.59
682_R793_S1.3630.59
495_S500_S1.3590.59
123_D130_Q1.3560.59
380_R879_R1.3490.58
257_E261_G1.3470.58
152_C163_K1.3470.58
561_R855_H1.3420.58
407_N682_R1.3410.58
310_K413_D1.3390.58
20_P278_W1.3290.57
577_T661_V1.3250.57
192_E196_G1.3250.57
593_S622_Q1.3230.57
862_G870_T1.3180.56
185_S201_E1.3160.56
74_G105_C1.3140.56
27_S48_L1.3120.56
64_T74_G1.3070.56
300_G303_S1.3030.56
185_S188_P1.3000.55
504_H524_Y1.3000.55
482_L540_N1.2980.55
694_R697_M1.2970.55
655_T695_S1.2950.55
124_R133_S1.2940.55
754_E800_M1.2900.55
185_S191_D1.2900.55
314_I409_V1.2890.55
317_I344_H1.2870.55
567_I708_E1.2870.55
656_I661_V1.2840.54
843_Y855_H1.2820.54
609_G621_H1.2820.54
713_E771_V1.2760.54
218_S222_R1.2740.54
157_Y172_Q1.2700.54
726_Y840_E1.2670.53
257_E267_L1.2620.53
727_D731_E1.2590.53
574_I774_E1.2570.53
490_F503_A1.2500.52
654_G662_G1.2490.52
619_T622_Q1.2450.52
785_M791_R1.2430.52
573_H693_M1.2420.52
584_N814_I1.2330.51
865_D875_Y1.2290.51
64_T75_H1.2290.51
117_E128_L1.2250.51
146_K150_P1.2240.51
786_A807_Q1.2230.51
75_H102_C1.2230.51
159_V163_K1.2210.51
172_Q175_A1.2210.51
166_T171_Q1.2200.51
207_D210_I1.2170.50
870_T878_R1.2110.50
568_G795_L1.2100.50
455_G460_V1.2060.50
459_R467_E1.2050.50
86_I280_I1.2000.49
874_G878_R1.2000.49
905_F910_D1.2000.49
317_I625_S1.1990.49
216_I220_E1.1970.49
157_Y163_K1.1970.49
208_I212_R1.1950.49
351_N368_K1.1940.49
254_D485_G1.1930.49
184_A189_D1.1930.49
807_Q855_H1.1850.49
315_I378_E1.1840.48
621_H869_R1.1830.48
208_I211_S1.1810.48
501_I627_L1.1780.48
197_V201_E1.1720.48
802_G847_L1.1720.48
313_D396_T1.1720.48
225_R233_T1.1710.48
725_A764_A1.1700.48
161_H166_T1.1690.48
174_L178_Y1.1680.48
188_P195_A1.1650.47
172_Q176_S1.1630.47
252_I256_F1.1630.47
467_E471_R1.1620.47
191_D199_P1.1590.47
596_L626_E1.1580.47
609_G616_Q1.1570.47
571_Q575_S1.1540.47
227_D230_A1.1520.47
305_D461_T1.1500.46
252_I263_D1.1480.46
572_D792_G1.1480.46
189_D196_G1.1470.46
392_F604_L1.1460.46
170_V177_D1.1450.46
904_Q908_G1.1450.46
205_Q208_I1.1430.46
330_P506_V1.1410.46
189_D194_D1.1390.46
506_V787_N1.1380.46
75_H105_C1.1380.46
506_V912_T1.1380.46
657_A787_N1.1360.46
109_L807_Q1.1350.46
795_L873_S1.1340.45
260_P263_D1.1330.45
313_D316_R1.1330.45
185_S192_E1.1320.45
398_I862_G1.1320.45
419_M658_D1.1310.45
562_F722_I1.1260.45
154_E167_Y1.1260.45
16_G176_S1.1250.45
581_T624_F1.1210.45
187_Q191_D1.1190.45
155_V179_S1.1190.45
117_E122_L1.1190.45
579_L784_V1.1160.44
585_P695_S1.1140.44
185_S202_L1.1110.44
55_V503_A1.1100.44
566_I843_Y1.1090.44
704_G781_P1.1070.44
206_T210_I1.1050.44
195_A203_A1.1040.44
163_K170_V1.1030.44
193_D198_S1.1020.44
406_L554_Q1.0980.43
251_D256_F1.0970.43
656_I668_I1.0950.43
344_H347_T1.0910.43
197_V202_L1.0910.43
837_G910_D1.0900.43
125_T128_L1.0900.43
860_R874_G1.0880.43
196_G200_Q1.0880.43
155_V167_Y1.0880.43
795_L836_H1.0860.43
168_Y172_Q1.0840.43
254_D257_E1.0840.43
362_R425_V1.0830.42
173_V177_D1.0810.42
811_G892_D1.0780.42
728_R763_K1.0750.42
11_G566_I1.0740.42
439_N478_V1.0740.42
32_I35_D1.0710.42
78_H81_L1.0690.42
152_C175_A1.0680.42
192_E201_E1.0660.41
904_Q910_D1.0650.41
160_K165_T1.0640.41
677_G680_R1.0600.41
739_G742_E1.0600.41
323_E327_A1.0590.41
803_C838_F1.0560.41
838_F894_T1.0480.40
131_D135_V1.0480.40
841_N847_L1.0470.40
14_S55_V1.0450.40
67_Q71_G1.0440.40
172_Q179_S1.0430.40
732_L763_K1.0430.40
185_S199_P1.0420.40
621_H796_N1.0400.40
82_A111_T1.0390.40
141_R145_K1.0380.40
47_G54_G1.0380.40
509_M809_V1.0370.40
197_V203_A1.0370.40
149_C166_T1.0360.40
869_R885_S1.0340.40
308_T477_E1.0330.40
149_C154_E1.0320.39
149_C180_E1.0320.39
586_R606_A1.0290.39
768_A802_G1.0280.39
85_V902_I1.0270.39
122_L128_L1.0240.39
661_V692_A1.0210.39
193_D196_G1.0200.39
187_Q192_E1.0180.39
662_G776_F1.0180.39
253_R282_T1.0170.39
48_L55_V1.0170.39
515_R614_G1.0160.39
189_D193_D1.0150.39
185_S203_A1.0150.39
559_S566_I1.0140.38
267_L604_L1.0130.38
269_V345_V1.0110.38
187_Q194_D1.0090.38
295_I368_K1.0090.38
857_M869_R1.0080.38
854_F907_F1.0060.38
661_V736_Y1.0040.38
19_D278_W1.0030.38
155_V170_V1.0030.38
587_F623_I1.0030.38
517_N597_R1.0020.38
655_T722_I1.0010.38
680_R684_F1.0000.38
123_D127_S1.0000.38
295_I305_D0.9990.38
320_R337_L0.9950.37
181_R186_M0.9940.37
439_N481_H0.9940.37
550_L556_Q0.9930.37
170_V712_T0.9920.37
365_R559_S0.9910.37
159_V164_P0.9870.37
773_E794_M0.9860.37
194_D203_A0.9860.37
179_S182_I0.9840.37
621_H653_E0.9830.37
260_P266_A0.9810.37
196_G203_A0.9760.36
804_V809_V0.9740.36
337_L340_L0.9720.36
804_V855_H0.9700.36
514_F574_I0.9700.36
184_A204_E0.9700.36
66_G316_R0.9680.36
907_F910_D0.9680.36
149_C153_G0.9640.36
159_V178_Y0.9640.36
151_H155_V0.9640.36
702_S808_A0.9640.36
396_T458_V0.9630.36
173_V176_S0.9620.36
252_I255_W0.9610.35
891_Y896_R0.9610.35
362_R486_D0.9600.35
524_Y729_V0.9600.35
503_A864_V0.9600.35
783_V797_L0.9600.35
545_A716_E0.9600.35
38_D44_I0.9590.35
196_G202_L0.9590.35
156_Q171_Q0.9550.35
149_C172_Q0.9550.35
613_D892_D0.9540.35
522_P814_I0.9540.35
221_F225_R0.9540.35
495_S852_F0.9540.35
403_T694_R0.9530.35
713_E716_E0.9510.35
533_M536_H0.9490.35
210_I213_I0.9490.35
401_D534_N0.9460.35
50_D54_G0.9460.35
18_M26_M0.9430.35
866_T870_T0.9430.35
13_I691_L0.9430.35
799_Q805_G0.9420.34
156_Q160_K0.9410.34
759_Q763_K0.9410.34
125_T632_L0.9400.34
522_P570_I0.9360.34
553_V559_S0.9330.34
785_M800_M0.9330.34
154_E180_E0.9320.34
165_T172_Q0.9310.34
185_S189_D0.9300.34
134_D839_V0.9260.34
657_A660_E0.9240.33
217_L220_E0.9220.33
156_Q166_T0.9220.33
772_A802_G0.9210.33
48_L78_H0.9210.33
189_D199_P0.9210.33
35_D39_D0.9200.33
21_E25_D0.9200.33
192_E198_S0.9200.33
55_V495_S0.9190.33
69_S852_F0.9180.33
317_I320_R0.9180.33
408_E505_E0.9150.33
781_P791_R0.9140.33
258_D264_L0.9120.33
350_D863_L0.9120.33
887_L903_V0.9120.33
500_S871_S0.9110.33
814_I857_M0.9100.33
157_Y173_V0.9090.33
804_V810_R0.9090.33
18_M38_D0.9080.33
233_T271_S0.9070.33
860_R878_R0.9070.33
47_G81_L0.9070.33
311_L351_N0.9070.33
36_T76_F0.9060.33
66_G140_I0.9060.33
174_L177_D0.9050.32
123_D134_D0.9040.32
148_H151_H0.9040.32
308_T514_F0.9030.32
10_I378_E0.9030.32
571_Q869_R0.9030.32
308_T352_E0.9020.32
527_D530_G0.9000.32
20_P349_M0.9000.32
189_D202_L0.9000.32
152_C155_V0.8970.32
257_E277_E0.8970.32
198_S201_E0.8970.32
754_E814_I0.8960.32
776_F908_G0.8960.32
459_R503_A0.8960.32
118_Y128_L0.8960.32
478_V702_S0.8960.32
157_Y166_T0.8940.32
417_T512_K0.8930.32
166_T175_A0.8920.32
25_D214_N0.8920.32
440_G481_H0.8910.32
568_G776_F0.8900.32
256_F266_A0.8900.32
149_C168_Y0.8890.32
486_D842_S0.8890.32
810_R842_S0.8870.32
440_G896_R0.8870.32
156_Q162_E0.8850.31
810_R854_F0.8840.31
58_P348_F0.8830.31
152_C167_Y0.8800.31
390_V536_H0.8760.31
169_E181_R0.8760.31
845_S849_P0.8760.31
721_A725_A0.8730.31
862_G875_Y0.8720.31
478_V910_D0.8710.31
499_M523_P0.8690.31
336_D340_L0.8690.31
862_G867_A0.8670.31
170_V180_E0.8640.30
162_E171_Q0.8630.30
159_V182_I0.8620.30
808_A856_A0.8610.30
256_F260_P0.8610.30
704_G782_A0.8600.30
284_L349_M0.8590.30
213_I222_R0.8580.30
87_H98_L0.8580.30
183_A192_E0.8570.30
869_R882_N0.8560.30
220_E225_R0.8560.30
195_A202_L0.8550.30
181_R189_D0.8540.30
755_M839_V0.8540.30
586_R607_A0.8530.30
772_A798_T0.8520.30
714_A845_S0.8490.30
382_R525_N0.8490.30
55_V490_F0.8480.30
35_D44_I0.8470.29
212_R215_E0.8470.29
561_R708_E0.8450.29
122_L132_V0.8450.29
421_Q547_A0.8450.29
160_K164_P0.8440.29
300_G313_D0.8420.29
321_F348_F0.8400.29
857_M864_V0.8390.29
839_V890_Q0.8390.29
908_G913_S0.8390.29
8_K741_L0.8380.29
627_L691_L0.8370.29
62_C72_C0.8350.29
537_A807_Q0.8340.29
329_A629_P0.8340.29
781_P883_A0.8320.29
567_I685_I0.8320.29
392_F512_K0.8320.29
171_Q177_D0.8310.29
559_S575_S0.8310.29
254_D267_L0.8300.29
865_D878_R0.8300.29
476_W495_S0.8300.29
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297_L300_G0.5280.16
621_H842_S0.5280.16
163_K178_Y0.5280.16
211_S216_I0.5280.16
786_A859_G0.5270.16
16_G20_P0.5270.16
809_V861_E0.5270.16
571_Q772_A0.5260.16
178_Y186_M0.5260.16
297_L574_I0.5260.16
521_C528_F0.5250.16
68_R362_R0.5250.16
288_P805_G0.5250.16
279_M282_T0.5250.16
849_P857_M0.5250.16
712_T727_D0.5250.16
229_E232_E0.5250.16
324_N329_A0.5250.16
86_I91_S0.5250.16
694_R700_G0.5240.16
155_V163_K0.5240.16
196_G201_E0.5240.16
188_P196_G0.5230.16
76_F120_E0.5230.16
563_G587_F0.5230.16
87_H303_S0.5220.16
303_S311_L0.5210.16
181_R716_E0.5210.16
781_P784_V0.5210.16
62_C77_G0.5210.16
174_L181_R0.5210.16
411_V481_H0.5210.16
614_G622_Q0.5210.16
157_Y168_Y0.5200.16
561_R567_I0.5200.16
261_G323_E0.5200.16
208_I213_I0.5190.16
612_E881_I0.5190.16
89_G103_R0.5180.16
144_R147_D0.5180.16
169_E731_E0.5180.16
35_D55_V0.5180.16
512_K658_D0.5170.16
612_E623_I0.5170.16
558_L562_F0.5160.16
308_T606_A0.5160.16
36_T384_S0.5160.16
148_H159_V0.5150.16
837_G904_Q0.5150.16
668_I676_H0.5150.16
557_I669_V0.5140.16
233_T236_G0.5140.16
380_R393_S0.5140.16
439_N614_G0.5130.16
584_N605_P0.5130.16
303_S488_I0.5130.16
192_E195_A0.5130.16
532_E885_S0.5130.16
392_F490_F0.5120.16
777_D795_L0.5110.16
532_E539_Q0.5100.16
516_L757_I0.5100.16
557_I674_K0.5100.16
320_R329_A0.5090.16
119_R130_Q0.5090.16
668_I684_F0.5090.16
168_Y252_I0.5080.16
211_S869_R0.5080.16
212_R221_F0.5080.16
318_N540_N0.5080.16
30_K581_T0.5080.16
228_R232_E0.5080.16
173_V182_I0.5070.16
167_Y196_G0.5070.16
162_E165_T0.5060.16
348_F368_K0.5060.16
482_L537_A0.5050.16
120_E128_L0.5050.16
864_V868_V0.5050.16
27_S32_I0.5040.15
341_L595_L0.5040.15
855_H894_T0.5040.15
507_V713_E0.5040.15
776_F795_L0.5040.15
89_G576_G0.5040.15
502_M523_P0.5040.15
606_A669_V0.5030.15
158_D170_V0.5030.15
178_Y181_R0.5030.15
629_P880_L0.5030.15
239_L301_Q0.5020.15
192_E197_V0.5020.15
409_V800_M0.5020.15
280_I757_I0.5010.15
485_G523_P0.5010.15
674_K795_L0.5010.15
723_Q734_E0.5010.15
316_R466_E0.5000.15
36_T483_I0.5000.15
806_Q855_H0.5000.15
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  
4c2mA 1 0.9382 100 0.159 Contact Map
4aybA 1 0.8805 100 0.16 Contact Map
4qiwA 2 0.8682 100 0.164 Contact Map
3h0gA 2 0.9495 100 0.171 Contact Map
1twfA 1 0.9475 100 0.171 Contact Map
4yfkD 1 0.8363 100 0.322 Contact Map
1hqmD 1 0.793 100 0.325 Contact Map
2a6hD 1 0.8816 100 0.341 Contact Map
3qqcA 1 0.3296 100 0.716 Contact Map
2kkeA 2 0.0319 30.8 0.991 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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