GREMLIN Database
Arabinose_bd - Arabinose-binding domain of AraC transcription regulator, N-term
PFAM: PF12625 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 186 (183)
Sequences: 30908 (24419)
Seq/√Len: 1805.1
META: 0.815

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
148_A173_N4.1841.00
146_E174_A3.8111.00
10_R36_A2.9311.00
144_R167_R2.8421.00
146_E167_R2.7991.00
43_D49_R2.6811.00
71_T74_E2.6671.00
73_G183_D2.6621.00
104_R174_A2.5481.00
104_R176_V2.4991.00
14_D17_L2.4561.00
122_E149_H2.4361.00
144_R176_V2.4091.00
150_P169_G2.4001.00
11_A36_A2.3511.00
178_D181_D2.3311.00
167_R170_A2.2991.00
102_E176_V2.2391.00
26_P29_Q2.2281.00
70_P74_E2.2131.00
146_E170_A2.1691.00
106_R172_R2.1051.00
73_G77_E2.0741.00
143_L178_D2.0141.00
36_A40_L2.0061.00
121_V173_N1.8841.00
65_A78_R1.8531.00
49_R157_E1.8041.00
93_R106_R1.7621.00
10_R40_L1.7501.00
151_A155_A1.7171.00
97_E106_R1.7111.00
103_A179_A1.6921.00
129_L133_R1.6771.00
155_A159_E1.6721.00
36_A39_E1.6691.00
98_E179_A1.6481.00
102_E143_L1.6441.00
157_E160_R1.6151.00
146_E176_V1.5821.00
94_L103_A1.5191.00
45_A49_R1.4961.00
158_Y168_F1.4961.00
69_S78_R1.4801.00
73_G98_E1.4321.00
32_R36_A1.4091.00
3_D6_A1.3941.00
106_R174_A1.3681.00
146_E172_R1.3561.00
6_A40_L1.3531.00
181_D184_L1.3361.00
98_E103_A1.3261.00
101_D179_A1.3151.00
93_R108_E1.2871.00
66_L79_L1.2831.00
45_A157_E1.2651.00
55_R134_W1.2401.00
130_R134_W1.2271.00
99_E104_R1.2071.00
17_L23_A1.2011.00
51_G126_A1.1931.00
55_R58_S1.1721.00
49_R52_R1.1661.00
45_A154_D1.1491.00
154_D157_E1.1431.00
31_A35_E1.1351.00
72_L132_L1.1311.00
122_E158_Y1.1291.00
103_A182_L1.1251.00
2_L41_T1.1121.00
6_A10_R1.1121.00
2_L40_L1.1091.00
145_V164_C1.1051.00
138_R184_L1.1021.00
29_Q32_R1.1001.00
77_E80_A1.0941.00
62_L79_L1.0751.00
5_A15_P1.0721.00
91_R108_E1.0591.00
80_A94_L1.0341.00
151_A169_G1.0201.00
51_G130_R1.0151.00
71_T183_D1.0141.00
144_R165_P0.9981.00
104_R172_R0.9941.00
99_E102_E0.9861.00
28_A32_R0.9851.00
35_E39_E0.9741.00
97_E104_R0.9731.00
47_G51_G0.9721.00
141_R163_G0.9631.00
37_A46_L0.9581.00
48_L161_F0.9581.00
151_A168_F0.9551.00
44_P153_A0.9441.00
129_L142_P0.9261.00
48_L158_Y0.9081.00
37_A40_L0.9071.00
15_P19_D0.9061.00
4_P15_P0.9031.00
5_A9_R0.8961.00
69_S75_A0.8941.00
62_L66_L0.8941.00
64_Y68_S0.8911.00
98_E101_D0.8891.00
156_A160_R0.8861.00
50_L123_L0.8861.00
152_P168_F0.8841.00
145_V175_L0.8831.00
179_A183_D0.8831.00
117_Q120_L0.8811.00
82_Y85_L0.8771.00
63_G131_L0.8621.00
52_R161_F0.8611.00
125_L173_N0.8611.00
52_R130_R0.8611.00
8_L15_P0.8531.00
38_A41_T0.8501.00
80_A93_R0.8421.00
74_E77_E0.8381.00
87_S90_L0.8331.00
63_G67_L0.8291.00
27_A31_A0.8291.00
113_P116_L0.8241.00
64_Y67_L0.8161.00
159_E165_P0.8151.00
133_R139_R0.8091.00
130_R133_R0.8061.00
73_G94_L0.8051.00
66_L75_A0.7971.00
145_V162_F0.7931.00
56_L63_G0.7921.00
59_L63_G0.7921.00
57_G63_G0.7921.00
59_L86_L0.7881.00
80_A92_L0.7851.00
27_A89_G0.7801.00
180_A184_L0.7801.00
47_G122_E0.7791.00
91_R110_A0.7721.00
30_Y34_L0.7711.00
69_S74_E0.7711.00
103_A107_L0.7621.00
83_L92_L0.7601.00
35_E115_D0.7571.00
90_L107_L0.7551.00
93_R97_E0.7541.00
60_G63_G0.7531.00
11_A33_L0.7531.00
126_A161_F0.7501.00
52_R160_R0.7471.00
121_V148_A0.7441.00
83_L86_L0.7401.00
155_A166_V0.7391.00
155_A158_Y0.7381.00
73_G182_L0.7351.00
80_A83_L0.7311.00
154_D158_Y0.7261.00
102_E144_R0.7221.00
112_I115_D0.7191.00
38_A46_L0.7191.00
6_A9_R0.7131.00
77_E94_L0.7031.00
30_Y123_L0.7031.00
118_R122_E0.7021.00
152_P158_Y0.7001.00
129_L175_L0.7001.00
76_L132_L0.6911.00
54_L123_L0.6891.00
20_D23_A0.6891.00
16_A19_D0.6881.00
13_L25_I0.6881.00
11_A29_Q0.6861.00
139_R163_G0.6851.00
61_L64_Y0.6831.00
118_R149_H0.6791.00
24_R88_D0.6761.00
48_L126_A0.6721.00
125_L147_F0.6711.00
112_I116_L0.6701.00
136_T184_L0.6641.00
11_A32_R0.6641.00
133_R163_G0.6621.00
125_L145_V0.6591.00
17_L20_D0.6531.00
143_L146_E0.6521.00
37_A41_T0.6491.00
101_D104_R0.6481.00
125_L175_L0.6411.00
38_A119_F0.6391.00
156_A159_E0.6381.00
102_E178_D0.6331.00
102_E179_A0.6331.00
13_L33_L0.6281.00
158_Y162_F0.6271.00
98_E102_E0.6271.00
67_L134_W0.6261.00
17_L29_Q0.6251.00
55_R63_G0.6241.00
32_R35_E0.6231.00
106_R109_L0.6231.00
10_R39_E0.6221.00
7_L36_A0.6211.00
109_L117_Q0.6121.00
117_Q148_A0.6111.00
149_H173_N0.6111.00
2_L6_A0.6101.00
65_A82_Y0.6071.00
34_L38_A0.6061.00
34_L123_L0.6061.00
136_T181_D0.6041.00
159_E164_C0.6041.00
159_E166_V0.6031.00
143_L176_V0.6031.00
151_A159_E0.6031.00
75_A135_L0.5971.00
57_G64_Y0.5961.00
97_E100_G0.5931.00
149_H168_F0.5921.00
132_L140_L0.5881.00
4_P8_L0.5831.00
76_L182_L0.5821.00
56_L134_W0.5821.00
92_L107_L0.5821.00
100_G179_A0.5781.00
155_A168_F0.5771.00
57_G67_L0.5711.00
16_A20_D0.5701.00
115_D118_R0.5681.00
73_G103_A0.5671.00
54_L59_L0.5651.00
54_L58_S0.5641.00
7_L33_L0.5591.00
163_G166_V0.5591.00
143_L181_D0.5571.00
147_F166_V0.5551.00
7_L40_L0.5521.00
27_A87_S0.5511.00
7_L11_A0.5501.00
74_E78_R0.5491.00
57_G134_W0.5491.00
72_L136_T0.5491.00
12_G29_Q0.5481.00
41_T46_L0.5471.00
124_A127_A0.5461.00
133_R141_R0.5421.00
151_A154_D0.5421.00
140_L177_F0.5411.00
104_R108_E0.5401.00
2_L7_L0.5371.00
55_R130_R0.5371.00
45_A158_Y0.5361.00
129_L163_G0.5351.00
108_E172_R0.5341.00
25_I30_Y0.5321.00
121_V149_H0.5311.00
77_E81_R0.5301.00
35_E38_A0.5291.00
114_P117_Q0.5281.00
116_L119_F0.5281.00
77_E98_E0.5271.00
51_G127_A0.5231.00
122_E154_D0.5221.00
129_L162_F0.5201.00
159_E163_G0.5161.00
83_L87_S0.5161.00
97_E172_R0.5141.00
59_L127_A0.5111.00
128_L132_L0.5091.00
127_A130_R0.5071.00
65_A68_S0.5051.00
94_L98_E0.5011.00
90_L124_A0.5011.00
138_R141_R0.5001.00
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  
4u9bA 1 0.8118 12.8 0.912 Contact Map
3sj5A 1 0.8441 7.9 0.92 Contact Map
1iu8A 3 0.4839 7.6 0.921 Contact Map
3zukA 2 0.9462 6.5 0.923 Contact Map
1a2zA 4 0.4892 5 0.927 Contact Map
3w6kB 2 0.3656 4.2 0.93 Contact Map
4hpsA 3 0.4624 3.8 0.931 Contact Map
3giuA 2 0.5054 3.5 0.932 Contact Map
1zugA 1 0.2849 3.4 0.933 Contact Map
1vm6A 4 0.7258 3.4 0.933 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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