GREMLIN Database
RNHCP - RNHCP domain
PFAM: PF12647 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 90 (88)
Sequences: 4301 (2914)
Seq/√Len: 310.6
META: 0.907

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
7_E33_K3.6671.00
11_A28_Y3.4511.00
51_E70_T3.2401.00
24_N67_H3.0741.00
13_V27_P2.6621.00
31_W49_L2.4781.00
68_R75_L2.2791.00
8_H31_W2.2571.00
31_W51_E2.2231.00
48_G71_K2.1601.00
31_W52_P2.1251.00
56_E77_R2.1061.00
7_E49_L1.8411.00
3_D15_P1.6321.00
5_T12_E1.6301.00
64_V77_R1.6131.00
53_I68_R1.6041.00
66_I77_R1.5931.00
51_E68_R1.5301.00
80_I89_L1.4901.00
28_Y85_N1.4501.00
44_S74_K1.4151.00
55_V63_W1.3391.00
37_I44_S1.3001.00
36_D40_G1.2761.00
64_V79_R1.2711.00
3_D12_E1.2641.00
24_N32_S1.2491.00
63_W86_P1.2111.00
58_K61_G1.1911.00
65_I80_I1.1761.00
37_I43_A1.1641.00
8_H49_L1.1281.00
56_E64_V1.1121.00
66_I75_L1.0941.00
50_M67_H1.0871.00
86_P89_L1.0611.00
4_F13_V1.0501.00
44_S76_R1.0411.00
31_W70_T1.0331.00
67_H76_R1.0321.00
54_G66_I1.0201.00
57_V63_W1.0061.00
44_S47_G1.0031.00
3_D14_S0.9531.00
23_R83_D0.9431.00
24_N50_M0.9421.00
58_K64_V0.9381.00
36_D39_P0.9331.00
24_N78_N0.9291.00
32_S76_R0.9181.00
62_E79_R0.9031.00
33_K49_L0.9001.00
64_V80_I0.8931.00
24_N76_R0.8841.00
53_I75_L0.8821.00
33_K47_G0.8821.00
78_N81_A0.8721.00
20_T23_R0.8591.00
58_K62_E0.8521.00
16_L19_G0.8481.00
5_T10_G0.8471.00
36_D42_R0.8301.00
58_K77_R0.8281.00
48_G70_T0.8161.00
3_D23_R0.8141.00
18_Y82_A0.7951.00
56_E66_I0.7861.00
66_I78_N0.7600.99
49_L70_T0.7460.99
63_W80_I0.7310.99
8_H70_T0.7230.99
85_N88_L0.7170.99
37_I45_D0.7170.99
35_V47_G0.7100.99
80_I88_L0.7080.99
36_D41_D0.7030.99
15_P18_Y0.6990.99
8_H52_P0.6890.99
52_P65_I0.6810.99
55_V89_L0.6700.98
38_N43_A0.6690.98
37_I74_K0.6680.98
16_L20_T0.6680.98
19_G22_Y0.6600.98
35_V44_S0.6530.98
20_T81_A0.6460.98
6_C9_C0.6430.98
30_L85_N0.6400.98
34_H74_K0.6400.98
54_G75_L0.6270.98
63_W89_L0.6200.98
32_S50_M0.6120.97
2_E15_P0.6050.97
80_I86_P0.6030.97
21_G39_P0.6020.97
2_E16_L0.5900.97
55_V58_K0.5880.97
17_A21_G0.5860.97
14_S45_D0.5790.96
67_H78_N0.5790.96
57_V61_G0.5780.96
45_D71_K0.5710.96
57_V60_K0.5690.96
17_A84_D0.5610.96
62_E82_A0.5530.95
8_H51_E0.5520.95
38_N74_K0.5500.95
82_A86_P0.5500.95
61_G66_I0.5480.95
16_L21_G0.5480.95
62_E80_I0.5470.95
24_N66_I0.5440.95
14_S27_P0.5360.94
8_H88_L0.5360.94
83_D89_L0.5350.94
22_Y39_P0.5320.94
4_F23_R0.5310.94
14_S17_A0.5300.94
17_A82_A0.5300.94
61_G83_D0.5300.94
16_L22_Y0.5290.94
20_T82_A0.5260.94
39_P43_A0.5220.94
68_R73_G0.5210.93
15_P21_G0.5210.93
60_K64_V0.5200.93
55_V86_P0.5110.93
3_D21_G0.5080.93
29_C69_C0.5070.93
30_L79_R0.5010.92
26_C34_H0.5000.92
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  
3mhsC 1 0.3111 38.9 0.904 Contact Map
4un4B 1 0.7222 36.4 0.905 Contact Map
1k82A 1 0.3444 32.6 0.908 Contact Map
1k3xA 1 0.3444 32.3 0.908 Contact Map
3u6pA 1 0.3444 31.7 0.908 Contact Map
4cgyA 1 0 29.9 0.909 Contact Map
1vq8Z 1 0.5444 29.9 0.909 Contact Map
4ogeA 1 0.6778 29.3 0.91 Contact Map
1lkoA 3 0.4333 28.3 0.911 Contact Map
3w5kB 1 0.3444 27.1 0.911 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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