GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Brix - Brix domain
Pfam: PF04427 (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: 191
Sequences: 984
Seq/Len: 5.15
HH_delta: 0.504 (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
142_R158_H0.300473.218
179_E183_R0.234912.516
116_L148_N0.212542.276
21_L156_F0.209952.249
105_F120_K0.206582.212
51_S69_R0.202432.168
18_L55_F0.196352.103
155_F185_T0.195582.095
53_F65_L0.188642.020
156_F184_F0.184481.976
78_F186_L0.181951.949
76_L122_L0.177681.903
19_R26_S0.177221.898
145_S159_Y0.176371.889
76_L188_L0.176171.887
119_I188_L0.169691.817
71_P74_P0.166631.785
11_L55_F0.156611.677
85_L88_D0.150311.610
1_I26_S0.149961.606
43_F46_Q0.145061.554
146_F154_I0.142971.531
123_L146_F0.14191.520
99_S141_D0.141371.514
43_F47_K0.133171.426
67_I126_L0.121671.303
179_E182_P0.120521.291
1_I53_F0.120311.289
84_K88_D0.119161.276
81_E187_K0.117331.257
84_K89_I0.117251.256
64_N77_E0.11721.255
14_L184_F0.116811.251
53_F67_I0.114721.229
66_W121_E0.114621.228
53_F94_K0.114191.223
80_I186_L0.113551.216
21_L139_G0.112461.204
140_I150_R0.111521.194
67_I122_L0.111241.191
103_L124_Q0.110491.183
53_F68_G0.110391.182
44_A52_L0.110341.182
41_L52_L0.109871.177
58_H63_N0.109081.168
79_S190_K0.108371.161
3_T15_M0.107921.156
93_S96_P0.10721.148
14_L80_I0.105891.134
17_D85_L0.105111.126
112_L151_D0.10331.106
7_P16_K0.102791.101
78_F188_L0.102611.099
162_K176_E0.102521.098
121_E125_D0.10241.097
145_S148_N0.101811.090
71_P75_T0.101631.088
44_A73_G0.101531.087
150_R155_F0.100711.079
17_D20_S0.099921.070
18_L48_N0.09981.069
136_P141_D0.099481.065
13_Q17_D0.09941.065
144_I158_H0.098751.058
89_I100_R0.09871.057
68_G146_F0.09811.051
146_F156_F0.097851.048
42_E90_K0.097231.041
82_N91_S0.096831.037
143_V157_R0.096661.035
54_V117_K0.096321.032
98_G129_G0.095581.024
31_R155_F0.095351.021
69_R122_L0.094821.016
17_D83_Y0.093371.000
5_R30_N0.093110.997
117_K160_I0.092740.993
65_L118_L0.092380.989
50_T73_G0.091570.981
91_S156_F0.091550.980
127_F157_R0.091150.976
69_R125_D0.090460.969
18_L164_G0.090380.968
77_E190_K0.089450.958
103_L118_L0.089440.958
4_S59_K0.089190.955
77_E100_R0.088870.952
67_I112_L0.088810.951
83_Y160_I0.088080.943
2_T116_L0.088060.943
17_D88_D0.087720.939
103_L157_R0.087490.937
4_S40_L0.087290.935
106_N147_S0.087180.934
24_P31_R0.087080.933
2_T7_P0.087040.932
5_R34_K0.087020.932
10_R61_N0.086920.931
9_K13_Q0.086870.930
76_L118_L0.086830.930
130_P137_L0.086590.927
129_G139_G0.086350.925
21_L105_F0.086280.924
10_R17_D0.085870.920
149_Q155_F0.085550.916
40_L43_F0.085320.914
149_Q152_F0.08510.911
70_L184_F0.085080.911
103_L128_P0.084520.905
104_I143_V0.084440.904
47_K101_P0.08430.903
21_L100_R0.084250.902
82_N185_T0.084140.901
10_R13_Q0.084070.900
29_L40_L0.084030.900
162_K190_K0.083680.896
43_F48_N0.083450.894
80_I190_K0.083310.892
143_V177_L0.083250.892
58_H89_I0.083240.891
124_Q128_P0.082970.889
51_S122_L0.082910.888
152_F185_T0.082880.888
21_L39_D0.082850.887
38_K190_K0.082550.884
16_K28_K0.082420.883
57_E148_N0.082250.881
95_R180_I0.082120.880
64_N189_R0.082110.879
156_F186_L0.081770.876
18_L53_F0.081470.873
161_F178_V0.08140.872
22_F25_N0.081210.870
1_I22_F0.081140.869
71_P148_N0.08110.869
49_C185_T0.081020.868
2_T30_N0.0810.868
93_S180_I0.080930.867
1_I190_K0.080870.866
130_P138_P0.080450.862
147_S155_F0.080270.860
90_K146_F0.080070.858
55_F65_L0.080030.857
5_R88_D0.079860.855
65_L78_F0.079720.854
79_S189_R0.079620.853
39_D48_N0.079610.853
70_L99_S0.079480.851
21_L122_L0.079340.850
83_Y184_F0.079320.850
56_G77_E0.079270.849
99_S140_I0.079020.846
15_M55_F0.078850.844
53_F70_L0.078710.843
180_I185_T0.078670.843
47_K190_K0.078430.840
55_F156_F0.078360.839
161_F175_V0.078310.839
138_P150_R0.078240.838
8_S58_H0.077880.834
34_K37_L0.077310.828
11_L76_L0.076790.822
93_S178_V0.076730.822
51_S56_G0.076670.821
129_G138_P0.076610.820
36_S39_D0.076570.820
7_P12_R0.076550.820
138_P141_D0.076520.820
76_L119_I0.076230.816
118_L146_F0.076050.814
148_N151_D0.076010.814
47_K125_D0.075990.814
152_F155_F0.075730.811
147_S185_T0.07570.811
29_L41_L0.075510.809
125_D138_P0.07550.809
43_F86_M0.07540.808
69_R137_L0.075370.807
26_S104_I0.075180.805
139_G189_R0.075060.804
107_G111_E0.074660.800
184_F187_K0.07430.796
22_F26_S0.074270.795
54_V149_Q0.073970.792
102_L140_I0.073960.792
61_N147_S0.073710.789
30_N60_K0.073550.788
22_F126_L0.073440.787
64_N84_K0.073390.786
99_S138_P0.073130.783
15_M90_K0.073060.782
111_E119_I0.0730.782
2_T14_L0.072940.781
102_L143_V0.072930.781
1_I27_K0.072830.780
85_L96_P0.07280.780
121_E149_Q0.072680.778
160_I189_R0.072220.773
21_L37_L0.07220.773
100_R128_P0.072140.773
9_K26_S0.072110.772
8_S17_D0.072040.772
111_E117_K0.071990.771
6_K84_K0.071860.770
4_S98_G0.071730.768
41_L45_K0.071540.766
161_F176_E0.071520.766
99_S146_F0.071020.761
108_F128_P0.070970.760
120_K188_L0.070910.759
3_T143_V0.070850.759
42_E47_K0.070820.758
116_L145_S0.070770.758
154_I160_I0.070720.757
21_L89_I0.070720.757
22_F152_F0.070650.757
8_S16_K0.070510.755
54_V160_I0.070510.755
85_L183_R0.070490.755
54_V61_N0.070370.754
154_I186_L0.070310.753
11_L63_N0.070260.752
140_I144_I0.070260.752
1_I38_K0.070220.752
110_F120_K0.070110.751
19_R83_Y0.070040.750
64_N79_S0.069520.745
27_K49_C0.069470.744
70_L75_T0.069420.743
91_S160_I0.069330.743
1_I5_R0.069310.742
60_K92_S0.069220.741
150_R186_L0.069180.741
1_I108_F0.069110.740
136_P158_H0.069080.740
36_S44_A0.069060.740
158_H179_E0.068940.738
110_F151_D0.068930.738
25_N31_R0.06890.738
90_K156_F0.068880.738
121_E130_P0.068790.737
86_M98_G0.068780.737
13_Q183_R0.068630.735
128_P143_V0.068490.734
8_S57_E0.068420.733
2_T52_L0.068330.732
58_H62_P0.068270.731
79_S93_S0.068270.731
80_I107_G0.06820.730
45_K189_R0.068130.730
111_E121_E0.068130.730
73_G112_L0.068010.728
182_P188_L0.067960.728
59_K87_K0.067930.728
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:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
2cxhA0.863999.90.504
1w94A0.790699.40.692
4g85A0.486913.30.947
4g84A0.486912.20.948
1ygsA0.60217.80.952
1httA0.47647.70.952
3lc0A0.47126.80.953
3rcoA0.36135.80.955
2b3tA0.36654.90.956
2kkcA0.45034.70.956
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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