GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Metalloenzyme - Metalloenzyme superfamily
Pfam: PF01676 (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. )
Clan: CL0088
Length: 252
Sequences: 4359
Seq/Len: 17.3
HH_delta: 0.261 (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
29_T175_G0.981625.052
27_T31_D0.65623.377
131_A134_E0.629333.239
137_K180_A0.62093.195
129_A148_V0.594013.057
130_E176_R0.544532.802
32_H36_A0.538252.770
133_I180_A0.536122.759
29_T32_H0.503462.591
134_E138_K0.4412.270
24_D160_P0.430922.218
179_E182_D0.426272.194
187_L214_I0.423272.178
175_G179_E0.4222.172
178_L188_L0.413292.127
179_E183_K0.411942.120
43_G228_G0.389272.003
129_A176_R0.37251.917
5_L191_T0.371231.911
160_P164_I0.368751.898
80_F84_Y0.355441.829
132_A146_V0.352361.813
30_L174_L0.352141.812
137_K183_K0.345611.779
36_A215_Y0.341741.759
239_E245_L0.335871.729
33_L213_L0.334851.723
6_I188_L0.332681.712
129_A133_I0.332181.710
26_G168_E0.327211.684
133_I176_R0.326251.679
6_I174_L0.324441.670
4_I188_L0.323441.665
133_I137_K0.322931.662
8_L11_L0.322731.661
13_D41_L0.321931.657
238_L243_L0.320491.649
82_E85_G0.318231.638
28_P171_D0.315871.626
3_V241_L0.31221.607
87_K140_K0.311191.602
81_T86_L0.310561.598
129_A173_F0.308261.586
81_T143_F0.308021.585
48_M229_E0.306111.575
181_L188_L0.30611.575
4_I186_D0.304191.566
126_K169_R0.301811.553
34_A39_H0.299651.542
24_D164_I0.293461.510
11_L190_I0.288511.485
55_Q58_G0.28781.481
129_A177_L0.286141.473
5_L189_I0.280971.446
3_V187_L0.277831.430
169_R172_R0.277651.429
180_A183_K0.275721.419
8_L170_I0.272631.403
82_E86_L0.27231.401
126_K176_R0.270371.391
126_K130_E0.27031.391
151_T166_A0.269031.385
27_T30_L0.268721.383
131_A135_A0.267311.376
8_L190_I0.264881.363
172_R176_R0.263831.358
7_V191_T0.260711.342
216_G219_V0.260221.339
151_T167_I0.25661.321
187_L216_G0.254831.311
176_R179_E0.254561.310
139_D184_E0.254491.310
10_G194_H0.253121.303
17_P31_D0.252581.300
32_H182_D0.252081.297
25_A31_D0.249381.283
126_K173_F0.247671.275
173_F176_R0.245221.262
40_A212_L0.24451.258
189_I214_I0.242761.249
36_A182_D0.238571.228
132_A144_V0.235371.211
41_L225_G0.234611.207
4_I181_L0.232791.198
76_L79_S0.231391.191
168_E172_R0.230671.187
6_I146_V0.226961.168
181_L186_D0.224791.157
17_P27_T0.224411.155
97_I101_A0.223671.151
128_I146_V0.223291.149
11_L167_I0.222471.145
148_V173_F0.22211.143
159_D162_A0.221371.139
49_V52_P0.220461.135
177_L188_L0.219611.130
43_G212_L0.218981.127
29_T179_E0.218131.123
43_G48_M0.216211.113
17_P23_E0.213181.097
25_A168_E0.212081.091
9_D195_G0.211321.088
5_L143_F0.210191.082
14_G17_P0.210161.082
187_L240_L0.210091.081
79_S83_K0.209871.080
164_I168_E0.208411.073
135_A138_K0.206031.060
232_D236_T0.204531.053
3_V237_I0.203391.047
52_P58_G0.202441.042
4_I144_V0.201651.038
28_P31_D0.201181.035
169_R173_F0.199411.026
73_Y76_L0.199371.026
148_V177_L0.199291.026
7_V145_F0.198721.023
180_A184_E0.197751.018
85_G88_G0.197071.014
6_I177_L0.196791.013
84_Y87_K0.195931.008
3_V81_T0.195931.008
29_T33_L0.195921.008
165_E169_R0.195711.007
32_H35_A0.194731.002
177_L180_A0.192990.993
77_P143_F0.192790.992
146_V177_L0.191630.986
18_D39_H0.191010.983
161_E164_I0.190960.983
33_L178_L0.190570.981
189_I212_L0.190210.979
32_H175_G0.188980.973
127_E131_A0.188030.968
27_T167_I0.187330.964
125_A150_G0.186530.960
80_F243_L0.186460.960
122_D165_E0.186150.958
126_K172_R0.184930.952
136_L181_L0.184620.950
82_E87_K0.184320.949
12_G195_G0.182420.939
185_D217_P0.181770.935
31_D34_A0.180930.931
91_I128_I0.179650.925
142_D186_D0.179170.922
191_T233_I0.178910.921
190_I213_L0.178290.918
81_T241_L0.178210.917
3_V143_F0.177610.914
82_E101_A0.177270.912
192_A195_G0.176150.907
165_E168_E0.173310.892
133_I177_L0.173240.892
188_L215_Y0.173150.891
86_L241_L0.173070.891
161_E165_E0.172590.888
3_V86_L0.172340.887
44_A208_E0.171110.881
182_D215_Y0.171040.880
232_D235_P0.171010.880
178_L182_D0.170960.880
30_L34_A0.170330.877
11_L192_A0.169920.874
214_I236_T0.16980.874
14_G199_T0.168830.869
181_L184_E0.166460.857
137_K184_E0.165990.854
24_D161_E0.165440.851
125_A129_A0.165090.850
85_G91_I0.163650.842
33_L215_Y0.163250.840
13_D34_A0.162290.835
189_I237_I0.162270.835
233_I237_I0.161780.833
237_I241_L0.161520.831
26_G164_I0.161270.830
40_A227_F0.161120.829
203_T206_T0.160890.828
29_T171_D0.160570.826
29_T172_R0.159580.821
82_E105_G0.159360.820
80_F83_K0.15890.818
190_I215_Y0.157730.812
135_A141_Y0.157490.811
122_D125_A0.156950.808
235_P239_E0.15690.807
191_T230_L0.156860.807
28_P66_I0.156620.806
15_P164_I0.156260.804
174_L178_L0.155820.802
172_R175_G0.153390.789
37_Y182_D0.153350.789
228_G231_A0.15260.785
234_A238_L0.151970.782
45_S210_V0.151730.781
30_L213_L0.151570.780
163_Y197_D0.15050.775
187_L237_I0.150340.774
32_H179_E0.149140.768
127_E130_E0.149040.767
86_L142_D0.148690.765
89_A142_D0.148540.764
134_E137_K0.148050.762
130_E133_I0.147990.762
11_L22_L0.147380.758
136_L180_A0.147190.758
51_L57_G0.146890.756
89_A135_A0.146750.755
132_A177_L0.145640.750
184_E188_L0.145340.748
86_L91_I0.144920.746
54_G58_G0.14420.742
125_A169_R0.144020.741
75_N83_K0.143020.736
14_G23_E0.142870.735
236_T239_E0.142820.735
95_P101_A0.142230.732
231_A235_P0.14220.732
163_Y167_I0.142140.732
62_G65_A0.141070.726
11_L151_T0.141050.726
27_T171_D0.141010.726
46_G50_G0.140690.724
5_L233_I0.140350.722
7_V147_H0.139120.716
125_A173_F0.138820.714
77_P81_T0.13870.714
136_L177_L0.138460.713
33_L174_L0.138290.712
174_L190_I0.137910.710
130_E173_F0.137390.707
54_G61_V0.136150.701
185_D188_L0.135780.699
59_S63_H0.135610.698
135_A142_D0.135480.697
8_L30_L0.135380.697
4_I142_D0.134240.691
81_T84_Y0.133930.689
143_F237_I0.133090.685
97_I103_F0.13250.682
13_D209_P0.132220.680
192_A210_V0.131520.677
6_I190_I0.131390.676
48_M52_P0.131380.676
4_I146_V0.131320.676
43_G229_E0.131280.676
235_P240_L0.13110.675
5_L55_Q0.131070.675
162_A166_A0.130790.673
212_L233_I0.130590.672
184_E220_R0.130560.672
107_M110_I0.130390.671
130_E180_A0.12990.669
12_G198_E0.129480.666
170_I190_I0.129430.666
95_P105_G0.128320.660
57_G61_V0.127480.656
52_P55_Q0.127480.656
178_L215_Y0.127350.655
34_A213_L0.127230.655
141_Y144_V0.127140.654
58_G65_A0.126820.653
223_S239_E0.126650.652
235_P238_L0.126530.651
12_G196_N0.126490.651
54_G57_G0.126430.651
61_V65_A0.126050.649
204_S208_E0.126010.649
9_D170_I0.125820.648
4_I177_L0.125650.647
214_I219_V0.125490.646
40_A43_G0.125450.646
52_P57_G0.124870.643
132_A136_L0.124670.642
54_G64_L0.124220.639
212_L228_G0.123750.637
203_T207_R0.123710.637
40_A224_V0.123680.637
11_L30_L0.123510.636
152_D156_H0.122750.632
217_P220_R0.122620.631
84_Y243_L0.122550.631
152_D193_D0.122470.630
147_H192_A0.121640.626
237_I240_L0.121590.626
14_G160_P0.121280.624
3_V240_L0.121220.624
77_P104_F0.121160.624
32_H225_G0.121020.623
170_I174_L0.120670.621
163_Y200_M0.119960.617
151_T170_I0.119840.617
95_P98_G0.119830.617
110_I113_E0.119530.615
86_L90_G0.119230.614
8_L151_T0.119080.613
16_M167_I0.119080.613
11_L170_I0.119060.613
71_G74_P0.118850.612
31_D35_A0.118830.612
167_I197_D0.118090.608
182_D217_P0.117810.606
173_F177_L0.117640.605
65_A229_E0.117620.605
38_P223_S0.117610.605
31_D168_E0.117210.603
96_K101_A0.117210.603
11_L27_T0.117140.603
178_L222_D0.116970.602
72_D76_L0.116860.601
9_D125_A0.116680.600
136_L184_E0.116480.599
88_G93_E0.116390.599
191_T212_L0.115670.595
13_D39_H0.115590.595
219_V222_D0.115220.593
32_H178_L0.1150.592
135_A144_V0.114950.592
189_I240_L0.114780.591
88_G92_A0.114730.590
8_L192_A0.11460.590
128_I210_V0.114490.589
22_L30_L0.114450.589
101_A153_E0.114030.587
147_H194_H0.113950.586
90_G104_F0.113590.585
163_Y170_I0.113150.582
130_E134_E0.113110.582
107_M131_A0.112950.581
155_G158_G0.112680.580
9_D151_T0.112680.580
50_G54_G0.112580.579
225_G244_E0.11250.579
52_P60_D0.112290.578
29_T174_L0.112220.578
95_P100_I0.112170.577
46_G51_L0.111120.572
13_D194_H0.11110.572
35_A39_H0.110990.571
37_Y213_L0.110890.571
143_F241_L0.11020.567
46_G52_P0.110030.566
82_E88_G0.110030.566
18_D201_G0.109940.566
128_I144_V0.109860.565
41_L227_F0.109820.565
97_I100_I0.109280.562
222_D244_E0.109020.561
5_L145_F0.108680.559
66_I233_I0.108480.558
226_E229_E0.108090.556
147_H150_G0.108060.556
128_I149_K0.107950.556
81_T88_G0.107910.555
216_G240_L0.107850.555
112_V116_T0.10780.555
226_E244_E0.107710.554
236_T240_L0.107310.552
90_G93_E0.106960.550
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
3b5qA0.98411000.261
2vqrA0.99211000.262
2qzuA0.99211000.263
3ed4A0.99211000.267
2w8dA0.98411000.268
2w5qA0.98411000.269
1aukA0.99211000.269
1p49A0.99211000.269
3lxqA0.97621000.273
1fsuA0.98411000.279

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