GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Arabinose_bd - Arabinose-binding domain of AraC transcription regulator N-term
Pfam: PF12625 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Length: 188
Sequences: 1915
Seq/Len: 10.19
HH_delta: 0.936 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
150_S175_N0.619354.263
73_G185_D0.558753.846
148_E176_A0.48423.333
71_T74_E0.406222.796
70_P74_E0.39952.750
26_S29_Q0.38572.655
146_R169_R0.358842.470
124_E151_H0.344892.374
152_P171_G0.335462.309
73_G98_Q0.329362.267
148_E172_Q0.319472.199
169_R172_Q0.317252.184
11_A36_N0.316062.175
160_Y170_F0.314452.164
180_P183_D0.311332.143
10_R36_N0.310282.136
120_R124_E0.300912.071
14_S17_L0.294772.029
43_D49_K0.266541.835
65_A78_R0.263311.812
145_I180_P0.25941.785
60_G63_G0.25591.761
160_Y164_F0.251271.729
148_E169_R0.247681.705
3_D6_R0.241941.665
131_V135_R0.241021.659
72_L134_L0.232921.603
154_P170_F0.229051.577
10_R40_L0.228741.574
159_Q162_Q0.228221.571
153_A170_F0.216481.490
48_L160_Y0.215761.485
94_L103_V0.215381.482
98_Q181_R0.212411.462
123_I175_N0.212281.461
131_V144_P0.211321.454
51_G132_R0.211071.453
97_E106_R0.210791.451
153_A157_R0.208791.437
106_R176_A0.208521.435
124_E149_F0.20531.413
36_N40_L0.201991.390
102_Q178_V0.201471.387
104_R178_V0.19741.359
156_H160_Y0.196171.350
103_V184_L0.192761.327
165_G168_V0.187311.289
66_L79_L0.185121.274
73_G77_E0.183831.265
32_R36_N0.179571.236
54_L59_L0.178971.232
59_L86_I0.178751.230
64_Y68_S0.178021.225
148_E174_F0.176851.217
137_L188_L0.176041.212
98_Q103_V0.174951.204
51_G129_S0.171821.183
38_A121_Q0.170811.176
71_T185_D0.16941.166
157_R168_V0.168661.161
93_S106_R0.167681.154
104_R176_A0.16621.144
103_V179_F0.165091.136
151_H170_F0.160811.107
48_L128_A0.159841.100
146_R178_V0.1571.081
100_G181_R0.15591.073
30_Y126_S0.155431.070
24_R88_P0.154981.067
78_R82_Y0.15361.057
102_Q145_I0.15291.052
51_G128_A0.151811.045
158_S162_Q0.150891.039
61_P64_Y0.150041.033
154_P160_Y0.147881.018
142_W183_D0.146991.012
49_K159_Q0.145671.003
30_Y68_S0.14531.000
52_Q162_Q0.144930.998
64_Y69_S0.143190.986
47_G51_G0.142390.980
153_A171_G0.142370.980
65_A68_S0.140530.967
147_V168_V0.140510.967
7_L36_N0.140440.967
37_A46_F0.139340.959
156_H159_Q0.1390.957
147_V166_C0.138970.957
101_D105_L0.138780.955
140_Q186_L0.138010.950
80_A175_N0.1370.943
59_L136_W0.136570.940
6_R40_L0.135180.930
1_G5_D0.134410.925
124_E160_Y0.134030.922
106_R174_F0.133780.921
58_S67_L0.133540.919
47_G124_E0.133290.917
120_R151_H0.133140.916
149_F170_F0.132860.914
10_R39_E0.132590.913
147_V164_F0.132560.912
57_S136_W0.131390.904
65_A121_Q0.131390.904
103_V181_R0.130480.898
34_L60_G0.129890.894
93_S108_R0.129660.892
55_N136_W0.128610.885
29_Q36_N0.128280.883
7_L37_A0.127970.881
54_L125_F0.127780.879
93_S97_E0.127140.875
69_S75_A0.126570.871
80_A94_L0.126120.868
25_I57_S0.12570.865
144_P183_D0.125470.864
74_E77_E0.124570.857
17_L20_D0.123750.852
65_A82_Y0.122670.844
100_G103_V0.122520.843
161_E167_P0.122260.841
70_P73_G0.12180.838
138_L186_L0.121740.838
135_R144_P0.121610.837
99_E104_R0.121560.837
91_Q108_R0.121070.833
98_Q185_D0.120790.831
94_L97_E0.120160.827
75_A137_L0.119570.823
8_L13_I0.119390.822
83_Q92_F0.119050.819
94_L179_F0.118990.819
147_V177_L0.11840.815
30_Y54_L0.117980.812
128_A131_V0.117650.810
82_Y85_L0.117630.810
148_E173_P0.117270.807
131_V164_F0.116920.805
124_E128_A0.116880.804
66_L75_A0.116320.801
54_L86_I0.116120.799
77_E182_E0.115410.794
13_I18_L0.115270.793
36_N39_E0.115030.792
11_A33_L0.114530.788
133_I136_W0.114380.787
20_D23_A0.114320.787
34_L46_F0.113980.784
107_F122_F0.112670.775
13_I36_N0.112510.774
29_Q32_R0.11230.773
83_Q86_I0.111580.768
146_R167_P0.111470.767
30_Y87_S0.111440.767
63_G68_S0.111310.766
72_L183_D0.111240.766
46_F83_Q0.110730.762
30_Y125_F0.110160.758
48_L164_F0.110160.758
52_Q164_F0.109990.757
25_I29_Q0.109690.755
87_S122_F0.109590.754
63_G66_L0.108860.749
76_L105_L0.108610.748
18_L21_P0.108530.747
90_L107_F0.107860.742
6_R171_G0.106880.736
34_L121_Q0.106850.735
28_A32_R0.106730.735
87_S123_I0.106730.735
183_D186_L0.106490.733
151_H160_Y0.106480.733
61_P183_D0.106260.731
72_L136_W0.106260.731
105_L130_L0.106180.731
42_G45_D0.105960.729
62_L66_L0.105720.728
13_I23_A0.10530.725
87_S126_S0.104990.723
108_R111_D0.104980.723
125_F128_A0.104790.721
98_Q104_R0.104570.720
49_K52_Q0.104550.720
101_D181_R0.104360.718
138_L183_D0.104350.718
119_L122_F0.104110.717
161_E166_C0.104090.716
5_D9_R0.104050.716
2_I41_T0.104010.716
37_A40_L0.103940.715
63_G129_S0.103860.715
87_S90_L0.103760.714
24_R86_I0.10370.714
102_Q169_R0.10340.712
25_I137_L0.103220.710
127_L175_N0.102730.707
64_Y82_Y0.102590.706
27_L79_L0.102510.706
61_P77_E0.102510.706
24_R126_S0.101640.700
55_N59_L0.101050.696
8_L15_P0.100770.694
90_L130_L0.10050.692
34_L38_A0.100210.690
27_L31_Y0.09970.686
15_P19_D0.099260.683
59_L133_I0.098780.680
73_G184_L0.09870.679
123_I151_H0.098610.679
94_L98_Q0.09850.678
62_L161_E0.098420.677
135_R141_R0.098370.677
34_L125_F0.098210.676
56_P72_L0.098030.675
125_F129_S0.097940.674
129_S132_R0.097820.673
73_G181_R0.097690.672
94_L101_D0.097670.672
66_L80_A0.09740.670
101_D182_E0.096870.667
72_L188_L0.096670.665
55_N58_S0.096590.665
29_Q46_F0.09650.664
102_Q146_R0.096380.663
17_L25_I0.09620.662
144_P166_C0.096050.661
147_V165_G0.095970.661
64_Y67_L0.095940.660
92_F179_F0.095540.658
46_F121_Q0.095380.656
38_A46_F0.095370.656
160_Y163_F0.095350.656
68_S87_S0.09510.655
127_L177_L0.094930.653
109_P121_Q0.094920.653
122_F126_S0.094920.653
56_P78_R0.094910.653
107_F130_L0.09480.652
26_S89_A0.094740.652
124_E170_F0.094720.652
152_P170_F0.094670.652
78_R88_P0.094570.651
5_D180_P0.094560.651
151_H175_N0.094290.649
86_I89_A0.093810.646
38_A67_L0.093770.645
80_A92_F0.093770.645
7_L10_R0.093720.645
155_D182_E0.093520.644
47_G62_L0.093440.643
71_T79_L0.09330.642
135_R165_G0.09310.641
87_S125_F0.093050.640
138_L142_W0.093040.640
18_L72_L0.092890.639
39_E158_S0.092860.639
38_A59_L0.092660.638
34_L87_S0.092290.635
2_I6_R0.09210.634
16_A71_T0.091830.632
28_A186_L0.091720.631
145_I164_F0.091330.629
29_Q180_P0.091060.627
72_L104_R0.0910.626
60_G78_R0.090620.624
30_Y50_L0.090560.623
169_R178_V0.090510.623
37_A41_T0.090420.622
109_P119_L0.09030.622
57_S60_G0.089880.619
161_E165_G0.089810.618
53_Q60_G0.089480.616
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
PDB Cov Prob HH_delta
3hrdA0.49475.60.936
2lnhA0.22345.20.937
1ofuX0.39894.90.938
2ebjA0.42024.40.939
3kw6A0.21284.40.939
1z67A0.254.30.939
4b6at0.393640.941
4hpsA0.47343.80.941
2krkA0.21283.60.941
3b09A0.20213.60.942
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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