GREMLIN Database
CDD - Cytidine deaminase
UniProt: P19079 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 136 (127)
Sequences: 3318 (2252)
Seq/√Len: 199.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_M88_A3.7651.00
33_K69_E3.0851.00
61_K65_E2.7881.00
34_D67_D2.4671.00
59_L93_I2.3611.00
32_T38_Y2.2881.00
29_A37_V2.2321.00
19_A25_Q2.1761.00
61_K64_S2.1331.00
47_A50_M2.1191.00
94_S124_A2.0561.00
31_L72_M2.0001.00
33_K71_Q1.9351.00
9_E39_R1.9101.00
77_A83_V1.9031.00
9_E12_K1.9031.00
52_N60_F1.8301.00
36_K67_D1.7161.00
32_T67_D1.7081.00
60_F92_V1.6761.00
52_N57_T1.6761.00
97_C101_V1.6321.00
14_R78_D1.6261.00
57_T60_F1.6251.00
49_S88_A1.6061.00
38_Y67_D1.6041.00
104_V114_E1.5741.00
57_T61_K1.5391.00
38_Y65_E1.5361.00
63_V96_L1.5281.00
84_S105_L1.4981.00
27_G41_C1.4621.00
12_K15_D1.4521.00
105_L115_M1.4491.00
72_M102_I1.4341.00
72_M104_V1.4101.00
102_I114_E1.4071.00
7_I106_T1.3411.00
32_T36_K1.2961.00
47_A88_A1.2931.00
7_I74_A1.2791.00
5_E9_E1.2771.00
94_S126_S1.2521.00
115_M119_E1.2501.00
24_F83_V1.2411.00
115_M123_G1.2181.00
13_A39_R1.2171.00
99_K118_E1.2101.00
113_K123_G1.1871.00
31_L71_Q1.1861.00
127_S130_L1.1571.00
59_L92_V1.1551.00
59_L70_F1.1481.00
11_L76_A1.1401.00
116_T119_E1.1021.00
25_Q78_D1.0871.00
102_I116_T1.0691.00
59_L96_L1.0611.00
107_N111_Q1.0421.00
98_T101_V1.0371.00
52_N56_R1.0271.00
10_A29_A1.0231.00
94_S128_E1.0201.00
32_T70_F1.0191.00
30_L58_A1.0151.00
30_L73_L1.0121.00
13_A27_G1.0111.00
21_Y48_Y1.0021.00
56_R92_V1.0011.00
76_A106_T1.0001.00
43_I63_V0.9961.00
82_P107_N0.9841.00
13_A41_C0.9831.00
86_C89_C0.9801.00
73_L93_I0.9801.00
6_L29_A0.9660.99
103_V120_L0.9600.99
94_S127_S0.9500.99
30_L70_F0.9390.99
57_T64_S0.9320.99
117_V120_L0.9230.99
9_E37_V0.9190.99
70_F97_C0.9180.99
14_R76_A0.9180.99
18_Y45_N0.9080.99
11_L14_R0.9060.99
15_D25_Q0.8860.99
103_V117_V0.8860.99
14_R27_G0.8710.99
70_F101_V0.8680.99
16_M39_R0.8630.99
7_I11_L0.8560.99
35_G71_Q0.8550.99
62_A70_F0.8510.99
36_K65_E0.8460.99
12_K39_R0.8440.99
7_I112_I0.8280.98
4_Q8_T0.8130.98
6_L37_V0.8030.98
93_I97_C0.7810.98
41_C57_T0.7720.97
126_S130_L0.7710.97
105_L123_G0.7690.97
87_G121_L0.7660.97
5_E8_T0.7650.97
33_K68_T0.7620.97
14_R25_Q0.7610.97
93_I101_V0.7590.97
73_L101_V0.7570.97
8_T12_K0.7540.97
58_A73_L0.7490.97
52_N92_V0.7450.97
93_I117_V0.7380.97
11_L106_T0.7380.97
101_V117_V0.7380.97
47_A51_C0.7300.96
100_D118_E0.7300.96
63_V70_F0.7220.96
88_A92_V0.7130.96
43_I64_S0.7080.96
80_P109_Q0.6970.95
8_T11_L0.6950.95
56_R60_F0.6880.95
6_L74_A0.6860.95
82_P112_I0.6850.95
79_T82_P0.6710.94
43_I60_F0.6710.94
14_R17_A0.6630.94
12_K16_M0.6610.94
41_C64_S0.6560.94
81_G84_S0.6550.94
74_A104_V0.6510.93
45_N95_E0.6480.93
13_A64_S0.6460.93
18_Y21_Y0.6460.93
21_Y45_N0.6460.93
59_L97_C0.6390.93
6_L10_A0.6320.92
74_A106_T0.6300.92
55_E86_C0.6300.92
87_G90_R0.6230.92
56_R88_A0.6170.91
106_T112_I0.6150.91
78_D108_L0.6130.91
126_S129_D0.6010.90
34_D68_T0.5910.90
53_C89_C0.5870.89
87_G91_Q0.5840.89
30_L62_A0.5780.88
16_M64_S0.5770.88
14_R77_A0.5760.88
79_T108_L0.5760.88
24_F77_A0.5730.88
26_V54_A0.5700.88
10_A74_A0.5690.88
9_E13_A0.5680.88
80_P108_L0.5670.88
31_L37_V0.5650.87
28_A58_A0.5640.87
53_C56_R0.5610.87
50_M92_V0.5580.87
84_S90_R0.5530.86
48_Y130_L0.5490.86
45_N49_S0.5470.86
10_A76_A0.5470.86
48_Y51_C0.5450.85
84_S123_G0.5430.85
85_P91_Q0.5420.85
53_C86_C0.5400.85
121_L125_F0.5380.85
121_L124_A0.5360.84
84_S129_D0.5180.82
94_S117_V0.5160.82
4_Q112_I0.5160.82
82_P108_L0.5150.82
47_A53_C0.5150.82
55_E89_C0.5140.82
90_R120_L0.5130.82
42_N55_E0.5120.82
73_L103_V0.5110.82
85_P90_R0.5110.82
91_Q95_E0.5080.81
6_L31_L0.5070.81
56_R62_A0.5060.81
26_V42_N0.5060.81
5_E31_L0.5050.81
11_L108_L0.5050.81
79_T83_V0.5040.81
94_S99_K0.5010.80
29_A39_R0.5000.80
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  
2d30A 4 0.9118 100 0.056 Contact Map
3dmoA 4 0.9412 100 0.09 Contact Map
3b8fA 4 0.9779 100 0.177 Contact Map
1cttA 2 0.9265 100 0.178 Contact Map
1uwzA 4 0.9559 100 0.217 Contact Map
2fr5A 6 0.9779 100 0.242 Contact Map
1r5tA 4 0.9632 100 0.249 Contact Map
3mpzA 4 0.9044 100 0.263 Contact Map
3r2nA 4 0.8676 100 0.28 Contact Map
3oj6A 4 0.9412 100 0.303 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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