GREMLIN Database
BIOD1 - ATP-dependent dethiobiotin synthetase BioD 1
UniProt: P13000 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10120
Length: 225 (205)
Sequences: 4673 (2878)
Seq/√Len: 201.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
71_T105_A3.2411.00
27_A112_W3.2131.00
144_L159_T3.0251.00
139_Q169_T2.7411.00
78_A90_E2.6111.00
136_T166_A2.4511.00
161_Q166_A2.4021.00
160_A170_L2.3141.00
88_A127_D2.2711.00
134_W138_E2.2701.00
19_A204_I2.2681.00
79_E89_Q2.2191.00
24_L34_T2.1811.00
11_D14_V2.1491.00
19_A174_V2.1221.00
146_V156_A2.1101.00
33_R110_A2.1031.00
33_R111_D2.0821.00
11_D155_H2.0651.00
186_A190_T2.0351.00
191_T195_M1.9461.00
20_S114_L1.9391.00
4_R140_L1.9141.00
142_V163_I1.9041.00
126_S129_F1.8441.00
44_S76_T1.8121.00
104_R107_E1.7851.00
95_E98_V1.6691.00
100_S137_Q1.6651.00
146_V152_C1.6261.00
115_V140_L1.6171.00
154_N158_L1.6141.00
79_E90_E1.6051.00
71_T109_Q1.5981.00
8_T142_V1.5311.00
103_L107_E1.5311.00
46_K78_A1.5301.00
190_T194_R1.5041.00
156_A173_W1.4941.00
77_F92_R1.4941.00
73_N76_T1.4731.00
161_Q165_H1.4621.00
148_V175_A1.4621.00
123_T191_T1.4611.00
160_A198_A1.4571.00
96_S137_Q1.4491.00
28_K65_L1.4471.00
7_V23_L1.4461.00
146_V153_I1.4191.00
37_Y102_G1.4171.00
187_E190_T1.4121.00
5_Y171_A1.4101.00
29_A65_L1.4081.00
143_I201_L1.3721.00
98_V101_A1.3711.00
142_V168_L1.3631.00
173_W200_L1.3601.00
5_Y143_I1.3581.00
53_N58_A1.3431.00
35_A110_A1.3361.00
157_M195_M1.3191.00
141_P171_A1.3151.00
100_S104_R1.3081.00
132_A166_A1.3061.00
136_T169_T1.3031.00
24_L114_L1.2951.00
183_K186_A1.2881.00
28_K34_T1.2831.00
147_G152_C1.2801.00
7_V20_S1.2591.00
37_Y103_L1.2561.00
7_V145_V1.2511.00
4_R103_L1.2481.00
121_W163_I1.2451.00
152_C156_A1.2391.00
191_T194_R1.2251.00
160_A173_W1.2231.00
153_I175_A1.2171.00
100_S138_E1.2021.00
32_Y112_W1.1821.00
193_T200_L1.1811.00
23_L27_A1.1811.00
80_P83_P1.1701.00
8_T132_A1.1591.00
22_A26_A1.1531.00
153_I192_L1.1501.00
146_V173_W1.1481.00
11_D149_K1.1361.00
11_D147_G1.1321.00
157_M161_Q1.1231.00
115_V134_W1.1191.00
39_P115_V1.1111.00
182_G185_H1.1071.00
35_A113_V1.1051.00
26_A30_A1.0921.00
101_A105_A1.0901.00
57_L60_Q1.0881.00
160_A196_I1.0871.00
96_S129_F1.0861.00
144_L170_L1.0831.00
36_G63_S1.0781.00
9_G14_V1.0741.00
75_Y98_V1.0491.00
122_F162_V1.0471.00
81_T84_H1.0431.00
6_F135_V1.0431.00
85_I187_E1.0361.00
8_T117_G1.0291.00
19_A145_V1.0271.00
102_G105_A1.0261.00
126_S166_A1.0211.00
182_G186_A1.0161.00
118_A131_F1.0161.00
4_R107_E1.0131.00
89_Q184_R1.0081.00
58_A62_N1.0071.00
200_L203_E1.0031.00
106_L113_V1.0031.00
209_E212_E0.9991.00
18_V207_L0.9931.00
104_R137_Q0.9901.00
190_T193_T0.9861.00
135_V168_L0.9640.99
129_F137_Q0.9570.99
105_A109_Q0.9570.99
80_P84_H0.9530.99
40_V99_M0.9510.99
90_E102_G0.9480.99
42_S77_F0.9450.99
154_N159_T0.9390.99
75_Y95_E0.9320.99
81_T85_I0.9240.99
82_S85_I0.9210.99
192_L196_I0.9200.99
122_F132_A0.9190.99
145_V176_N0.9180.99
21_C58_A0.9130.99
28_K64_S0.9050.99
14_V147_G0.9030.99
97_L137_Q0.9010.99
74_P102_G0.8960.99
97_L101_A0.8960.99
184_R187_E0.8950.99
148_V152_C0.8940.99
144_L160_A0.8820.99
98_V102_G0.8810.99
24_L36_G0.8720.99
107_E113_V0.8640.99
5_Y114_L0.8620.99
36_G59_L0.8520.99
105_A108_Q0.8510.99
126_S164_Q0.8510.99
21_C24_L0.8480.99
207_L210_N0.8430.99
34_T112_W0.8430.99
13_E54_S0.8420.99
37_Y74_P0.8400.99
26_A29_A0.8380.99
132_A162_V0.8380.99
42_S81_T0.8330.98
58_A61_R0.8210.98
147_G155_H0.8080.98
77_F93_P0.8080.98
189_M203_E0.8060.98
121_W159_T0.8060.98
160_A164_Q0.8050.98
47_T52_R0.8000.98
27_A32_Y0.7950.98
27_A34_T0.7940.98
6_F117_G0.7940.98
185_H203_E0.7860.98
173_W198_A0.7850.98
8_T121_W0.7840.98
121_W132_A0.7810.98
163_I168_L0.7700.97
81_T188_Y0.7620.97
157_M196_I0.7620.97
172_G201_L0.7580.97
193_T199_P0.7540.97
77_F87_S0.7510.97
22_A25_Q0.7460.97
43_G80_P0.7440.97
162_V166_A0.7440.97
141_P169_T0.7440.97
170_L198_A0.7350.97
56_A70_A0.7300.96
87_S94_I0.7290.96
122_F161_Q0.7270.96
71_T102_G0.7200.96
28_K33_R0.7200.96
123_T188_Y0.7190.96
46_K52_R0.7170.96
20_S59_L0.7160.96
19_A176_N0.7150.96
161_Q164_Q0.7130.96
96_S134_W0.7090.96
133_D166_A0.7070.96
132_A135_V0.7060.96
131_F135_V0.7050.96
68_D71_T0.7030.96
122_F157_M0.6950.95
173_W196_I0.6940.95
163_I170_L0.6930.95
185_H189_M0.6920.95
175_A200_L0.6840.95
106_L110_A0.6840.95
20_S36_G0.6760.95
41_A53_N0.6760.95
17_T58_A0.6750.95
168_L198_A0.6730.94
158_L162_V0.6730.94
10_T152_C0.6720.94
32_Y111_D0.6710.94
37_Y106_L0.6680.94
69_Y109_Q0.6670.94
175_A189_M0.6620.94
130_T157_M0.6620.94
39_P134_W0.6590.94
199_P202_G0.6570.94
12_T150_L0.6560.94
23_L143_I0.6560.94
95_E129_F0.6530.94
130_T195_M0.6510.93
7_V174_V0.6510.93
103_L138_E0.6510.93
43_G83_P0.6480.93
39_P118_A0.6470.93
144_L173_W0.6470.93
27_A114_L0.6450.93
96_S133_D0.6440.93
103_L115_V0.6380.93
80_P150_L0.6360.93
99_M129_F0.6350.93
184_R188_Y0.6340.93
189_M200_L0.6230.92
44_S54_S0.6220.92
123_T185_H0.6200.92
40_V125_L0.6190.92
122_F166_A0.6190.92
136_T168_L0.6190.92
121_W135_V0.6190.92
56_A73_N0.6170.91
13_E18_V0.6160.91
119_G151_G0.6110.91
177_D206_W0.6100.91
117_G131_F0.6100.91
33_R109_Q0.6070.91
165_H168_L0.6060.91
177_D203_E0.6030.91
20_S23_L0.6000.90
99_M134_W0.5990.90
96_S100_S0.5970.90
157_M160_A0.5960.90
24_L64_S0.5920.90
6_F131_F0.5910.90
82_S150_L0.5900.90
18_V210_N0.5770.89
144_L163_I0.5750.88
4_R115_V0.5740.88
186_A189_M0.5710.88
85_I184_R0.5700.88
4_R138_E0.5690.88
41_A76_T0.5690.88
175_A203_E0.5670.88
34_T111_D0.5650.87
179_T185_H0.5630.87
21_C59_L0.5620.87
177_D185_H0.5620.87
136_T164_Q0.5610.87
116_E119_G0.5550.87
66_Q110_A0.5540.86
44_S52_R0.5530.86
132_A163_I0.5530.86
41_A73_N0.5520.86
153_I188_Y0.5510.86
127_D194_R0.5510.86
7_V143_I0.5500.86
103_L134_W0.5480.86
6_F115_V0.5470.86
123_T131_F0.5420.85
132_A161_Q0.5400.85
47_T55_D0.5400.85
35_A106_L0.5360.85
187_E191_T0.5350.85
96_S99_M0.5330.84
207_L211_P0.5320.84
162_V165_H0.5280.84
133_D137_Q0.5280.84
149_K152_C0.5270.84
18_V22_A0.5260.84
172_G202_G0.5260.84
146_V175_A0.5220.83
44_S73_N0.5180.83
103_L140_L0.5160.82
189_M193_T0.5150.82
60_Q72_V0.5150.82
100_S103_L0.5130.82
47_T54_S0.5110.82
161_Q167_G0.5100.82
45_E54_S0.5090.82
22_A202_G0.5090.82
161_Q195_M0.5070.81
10_T146_V0.5070.81
39_P99_M0.5040.81
7_V155_H0.5040.81
121_W144_L0.5000.80
56_A60_Q0.5000.80
164_Q197_P0.5000.80
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  
4a0gA 2 0.9867 100 0.3 Contact Map
2obnA 2 0.8089 100 0.516 Contact Map
3fgnA 2 0.9556 100 0.524 Contact Map
1s1mA 4 0.9733 100 0.542 Contact Map
3of5A 2 0.96 100 0.566 Contact Map
1byiA 2 0.9911 100 0.569 Contact Map
3zq6A 2 0.9422 100 0.593 Contact Map
3qxcA 2 0.9467 99.9 0.601 Contact Map
3ug7A 4 0.9867 99.9 0.617 Contact Map
4zdjA 4 0.9867 99.9 0.625 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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