GREMLIN Database
Q980K2 - DNA-directed RNA polymerase subunit
UniProt: Q980K2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 114 (104)
Sequences: 648 (443)
Seq/√Len: 43.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
80_N104_T4.9101.00
69_K82_E3.5021.00
87_I99_R3.3401.00
102_K109_V3.2411.00
5_K34_K2.7561.00
24_V33_E2.4931.00
87_I97_P2.4621.00
77_S108_K2.1731.00
90_T96_P2.1030.99
64_P67_A1.9250.99
18_K23_N1.9200.99
55_T59_E1.9080.99
72_G82_E1.8980.99
102_K107_G1.8780.99
74_L81_D1.7830.98
86_W109_V1.7450.98
67_A102_K1.6990.98
8_P32_Y1.6910.97
62_E65_S1.6290.97
72_G81_D1.6180.97
103_C106_C1.5800.96
106_C110_W1.5680.96
12_S29_K1.5650.96
95_E98_T1.5270.95
84_Y104_T1.4660.94
86_W102_K1.3990.93
7_C10_C1.3820.92
83_A110_W1.3800.92
81_D105_K1.3530.91
38_E50_S1.3460.91
91_R94_D1.3270.90
96_P101_Y1.3160.90
67_A85_F1.2770.89
21_G35_E1.2610.88
64_P68_Q1.2230.86
99_R112_E1.2140.86
17_K24_V1.1950.85
56_L60_E1.1790.84
55_T58_L1.1740.84
15_V28_T1.1620.83
70_I85_F1.1620.83
56_L59_E1.1520.83
85_F97_P1.1240.81
83_A101_Y1.0730.78
54_K58_L1.0640.78
83_A87_I1.0570.77
79_K105_K1.0560.77
80_N105_K1.0410.76
6_F10_C1.0380.76
105_K109_V1.0350.76
57_V60_E0.9860.72
73_V76_P0.9610.70
72_G108_K0.9560.70
103_C110_W0.9550.69
9_K79_K0.9440.69
93_A112_E0.9430.68
12_S31_G0.9340.68
53_E57_V0.9270.67
4_V25_Y0.9250.67
18_K22_K0.9150.66
51_I59_E0.9140.66
44_T47_V0.9130.66
66_G102_K0.9070.65
72_G79_K0.9020.65
9_K105_K0.8750.63
94_D98_T0.8490.60
73_V77_S0.8390.59
61_E68_Q0.8260.58
7_C78_C0.8240.58
28_T36_V0.8050.56
74_L79_K0.8020.56
25_Y29_K0.7970.55
46_K101_Y0.7950.55
52_K56_L0.7690.53
90_T98_T0.7570.52
43_V49_H0.7560.52
46_K49_H0.7490.51
42_V45_S0.7390.50
16_P34_K0.7360.50
12_S15_V0.7270.49
31_G97_P0.7260.49
8_P95_E0.7210.48
43_V48_K0.7200.48
76_P91_R0.7200.48
35_E42_V0.7190.48
60_E63_M0.7050.47
59_E64_P0.7040.47
9_K14_M0.6980.46
52_K55_T0.6980.46
9_K13_M0.6910.45
17_K36_V0.6890.45
16_P23_N0.6880.45
97_P112_E0.6840.45
88_L98_T0.6830.45
21_G79_K0.6770.44
63_M68_Q0.6670.43
61_E80_N0.6660.43
64_P70_I0.6620.43
79_K82_E0.6570.42
7_C30_C0.6570.42
73_V112_E0.6560.42
90_T112_E0.6550.42
22_K28_T0.6540.42
67_A84_Y0.6530.42
69_K104_T0.6520.42
54_K60_E0.6500.41
62_E93_A0.6390.40
95_E110_W0.6390.40
81_D101_Y0.6360.40
61_E65_S0.6310.40
87_I107_G0.6210.39
29_K86_W0.6160.38
8_P110_W0.6110.38
60_E64_P0.6090.38
37_P101_Y0.6090.38
30_C78_C0.6080.38
46_K81_D0.6050.37
4_V76_P0.6040.37
89_Q93_A0.5980.37
79_K109_V0.5970.37
29_K109_V0.5920.36
12_S87_I0.5810.35
92_R95_E0.5780.35
16_P36_V0.5760.35
70_I73_V0.5750.35
49_H52_K0.5730.35
68_Q83_A0.5670.34
54_K59_E0.5670.34
6_F80_N0.5650.34
100_F111_R0.5650.34
23_N80_N0.5610.34
32_Y35_E0.5560.33
18_K48_K0.5540.33
23_N27_C0.5530.33
88_L109_V0.5460.32
94_D100_F0.5440.32
21_G105_K0.5430.32
16_P35_E0.5420.32
14_M99_R0.5400.32
33_E38_E0.5390.32
53_E108_K0.5370.32
81_D104_T0.5320.31
31_G59_E0.5300.31
87_I91_R0.5300.31
24_V44_T0.5290.31
92_R97_P0.5270.31
17_K26_R0.5240.30
36_V43_V0.5220.30
59_E102_K0.5220.30
88_L97_P0.5190.30
89_Q95_E0.5180.30
5_K14_M0.5140.30
29_K101_Y0.5070.29
80_N83_A0.5010.29
37_P61_E0.5010.29
53_E70_I0.5000.29
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  
1twfI 1 0.9825 100 0.226 Contact Map
3h0gI 1 0.9561 100 0.232 Contact Map
4c2mI 1 0.9825 100 0.236 Contact Map
3qt1I 1 0.3947 100 0.254 Contact Map
1qypA 1 0.5 99.8 0.555 Contact Map
4cgyA 1 0 99.8 0.566 Contact Map
1tfiA 1 0.4386 99.7 0.587 Contact Map
1pqvS 1 0.9211 99.7 0.59 Contact Map
3po3S 1 0.9211 99.7 0.606 Contact Map
2fiyA 1 0.6842 97.3 0.83 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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