GREMLIN Database
zf-C4pol - C4-type zinc-finger of DNA polymerase delta
PFAM: PF14260 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 71 (70)
Sequences: 1339 (1011)
Seq/√Len: 120.8
META: 0.385

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_P24_S4.9811.00
20_D23_E3.7751.00
38_R70_M3.2281.00
20_D24_S3.0561.00
37_R41_R2.3071.00
62_S66_P2.1641.00
46_C49_C2.0491.00
39_F47_Q1.8651.00
42_L67_I1.8181.00
28_L31_R1.7591.00
1_C4_C1.6841.00
60_C65_C1.6831.00
43_W47_Q1.6761.00
39_F43_W1.5161.00
34_E37_R1.4281.00
63_R69_Y1.4091.00
28_L32_L1.3271.00
49_C65_C1.2450.99
2_L5_K1.2100.99
68_F71_R1.2060.99
6_A17_H1.1900.99
26_L30_S1.1660.99
53_S56_E1.1520.99
58_V71_R1.0890.99
51_Q59_L1.0860.98
9_K16_K1.0680.98
8_L69_Y1.0620.98
19_R22_A1.0450.98
49_C60_C1.0000.97
35_L38_R0.9830.97
30_S33_R0.9770.97
44_T47_Q0.9680.97
52_G58_V0.9620.97
26_L29_L0.9580.97
4_C15_C0.9320.96
56_E61_T0.9270.96
65_C69_Y0.9240.96
33_R36_E0.9240.96
5_K8_L0.9060.95
63_R70_M0.9050.95
27_K31_R0.9010.95
36_E63_R0.9010.95
12_E27_K0.8930.95
8_L14_L0.8810.95
1_C18_C0.8790.95
14_L28_L0.8760.94
45_Q67_I0.8390.93
45_Q62_S0.8270.93
28_L37_R0.8090.92
12_E19_R0.7900.91
1_C15_C0.7640.89
6_A26_L0.7470.88
39_F58_V0.7470.88
20_D37_R0.7410.88
26_L31_R0.7380.88
9_K32_L0.7360.88
48_R56_E0.7310.87
43_W67_I0.7310.87
7_P34_E0.7300.87
47_Q58_V0.7210.86
45_Q48_R0.7200.86
33_R37_R0.7060.85
19_R26_L0.6980.85
52_G56_E0.6970.85
13_A66_P0.6960.84
34_E38_R0.6950.84
65_C71_R0.6890.84
25_Y29_L0.6850.84
7_P41_R0.6850.84
3_G12_E0.6840.83
35_L39_F0.6700.82
19_R38_R0.6650.82
6_A31_R0.6550.81
46_C60_C0.6520.80
11_S34_E0.6520.80
43_W52_G0.6480.80
26_L38_R0.6440.80
46_C62_S0.6430.80
16_K30_S0.6320.78
27_K41_R0.6320.78
51_Q54_L0.6270.78
3_G20_D0.6260.78
12_E30_S0.6230.77
43_W68_F0.6220.77
29_L33_R0.5990.75
10_K22_A0.5960.74
49_C62_S0.5810.72
15_C18_C0.5750.72
4_C46_C0.5720.71
58_V68_F0.5670.71
46_C64_D0.5640.70
63_R68_F0.5630.70
19_R23_E0.5620.70
17_H44_T0.5520.68
11_S30_S0.5500.68
4_C18_C0.5470.68
10_K31_R0.5410.67
28_L56_E0.5310.66
16_K19_R0.5270.65
18_C46_C0.5180.64
47_Q59_L0.5060.62
40_S43_W0.5050.62
36_E55_H0.5040.62
15_C46_C0.5000.61
14_L55_H0.5000.61
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  
4u7tA 2 0.8592 51.3 0.784 Contact Map
3a1bA 1 0.8451 48.3 0.788 Contact Map
2pv0B 1 0.8592 47.6 0.79 Contact Map
4qbsA 1 0.8592 45 0.793 Contact Map
1a6yA 2 0.4085 10.7 0.846 Contact Map
1yuzA 2 0.3944 10.6 0.847 Contact Map
3vrhA 2 0.5352 10.6 0.847 Contact Map
3mpxA 1 0 9.4 0.85 Contact Map
1dvpA 2 0.5775 8.5 0.853 Contact Map
3dzyD 1 0.6338 7.9 0.855 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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