GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Pterin_bind - Pterin binding enzyme
Pfam: PF00809 (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: CL0036
Length: 210
Sequences: 3542
Seq/Len: 16.87
HH_delta: 0.033 (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
89_L117_A1.072213.633
27_E31_A0.960223.253
187_N190_E0.900793.052
40_A59_L0.845172.863
53_E57_E0.838542.841
67_R94_D0.821752.784
86_E114_E0.814672.760
29_V73_V0.803222.721
52_E83_E0.743572.519
96_I112_A0.690592.340
89_L115_Y0.666842.259
143_E147_E0.64382.181
147_E151_E0.641162.172
24_R27_E0.635292.152
111_L115_Y0.624832.117
107_E110_P0.608862.063
56_M60_V0.593232.010
143_E194_L0.589861.998
86_E90_K0.572391.939
79_T85_A0.547011.853
15_K24_R0.530441.797
87_A90_K0.526971.785
2_L28_Q0.525851.782
51_S54_E0.510881.731
82_P105_D0.51061.730
192_K199_I0.505551.713
137_Y140_D0.503021.704
172_I203_G0.50261.703
85_A108_M0.49891.690
95_I120_V0.490681.662
77_I88_A0.487131.650
25_A66_I0.480531.628
106_P148_F0.4591.555
54_E57_E0.455921.545
41_E81_N0.45461.540
163_R197_Y0.449671.524
21_A62_V0.448511.520
53_E83_E0.438711.486
183_E187_N0.432031.464
135_A180_Q0.427611.449
86_E115_Y0.42721.447
103_E148_F0.425351.441
56_M84_V0.422131.430
22_V26_R0.420451.425
17_S20_E0.416791.412
178_P208_F0.412171.396
190_E193_E0.410621.391
177_D180_Q0.406971.379
89_L111_L0.406141.376
145_I184_L0.405761.375
190_E194_L0.40141.360
112_A119_V0.399531.354
170_P191_L0.388911.318
162_P165_R0.384771.304
118_P167_I0.378911.284
145_I149_L0.377931.280
105_D108_M0.37751.279
116_G165_R0.37731.278
25_A36_I0.372511.262
56_M87_A0.369511.252
23_K26_R0.369051.250
140_D143_E0.367561.245
35_I95_I0.365451.238
90_K115_Y0.353241.197
125_D175_G0.350191.186
26_R71_P0.349721.185
24_R28_Q0.349251.183
63_L91_A0.34781.178
54_E58_R0.346861.175
102_F119_V0.345741.171
172_I208_F0.342041.159
41_E80_F0.340321.153
52_E56_M0.339351.150
22_V65_A0.338061.145
110_P159_A0.335981.138
19_D23_K0.3351.135
168_L197_Y0.334581.134
26_R30_E0.334511.133
146_I191_L0.332011.125
86_E111_L0.325891.104
188_I201_V0.325691.103
146_I190_E0.323681.097
182_L185_L0.322341.092
48_T129_K0.320561.086
83_E87_A0.321.084
82_P111_L0.315371.068
22_V62_V0.314281.065
118_P165_R0.314111.064
64_Q68_E0.313171.061
20_E23_K0.312121.057
81_N84_V0.307931.043
125_D148_F0.304411.031
172_I201_V0.303511.028
87_A91_A0.303371.028
63_L88_A0.302821.026
82_P107_E0.295981.003
110_P114_E0.294260.997
148_F152_R0.293530.994
146_I168_L0.293420.994
80_F100_S0.292650.992
38_I75_L0.290340.984
182_L186_R0.290310.984
147_E150_E0.289390.980
102_F109_L0.289030.979
25_A71_P0.287340.974
83_E86_E0.285760.968
113_A161_I0.28470.965
11_D15_K0.282580.957
106_P152_R0.281520.954
14_R17_S0.281420.953
98_D102_F0.280990.952
121_L168_L0.279930.948
128_P132_P0.27930.946
125_D135_A0.278610.944
59_L77_I0.275260.933
22_V25_A0.271830.921
194_L197_Y0.271030.918
23_K27_E0.269510.913
65_A68_E0.269330.913
34_D74_P0.269320.912
95_I98_D0.267980.908
182_L208_F0.267540.906
183_E186_R0.266830.904
15_K20_E0.266050.901
18_E22_V0.265730.900
27_E30_E0.264860.897
71_P74_P0.263530.893
146_I193_E0.263040.891
135_A190_E0.262380.889
172_I204_S0.258510.876
101_G152_R0.257820.874
128_P131_M0.257730.873
98_D101_G0.257610.873
116_G162_P0.257120.871
60_V64_Q0.254590.863
64_Q90_K0.249010.844
28_Q36_I0.248510.842
11_D14_R0.247720.839
37_D76_S0.247020.837
60_V87_A0.246260.834
189_E193_E0.245350.831
57_E87_A0.244490.828
185_L208_F0.244470.828
97_N101_G0.243340.824
185_L203_G0.242940.823
107_E111_L0.242840.823
10_S13_G0.241720.819
56_M88_A0.241350.818
150_E163_R0.236670.802
119_V166_I0.236660.802
103_E152_R0.235190.797
52_E81_N0.234630.795
83_E107_E0.2330.789
168_L194_L0.232030.786
12_G15_K0.231410.784
101_G121_L0.230820.782
93_A98_D0.230450.781
146_I150_E0.230080.780
80_F124_S0.228660.775
13_G24_R0.227240.770
92_G98_D0.227170.770
86_E107_E0.226840.769
135_A175_G0.226630.768
140_D144_E0.224940.762
77_I93_A0.224470.761
186_R189_E0.222820.755
41_E49_P0.220870.748
176_K181_N0.220190.746
115_Y165_R0.217790.738
90_K111_L0.217510.737
95_I118_P0.217120.736
149_L168_L0.216040.732
111_L114_E0.215650.731
97_N100_S0.215340.730
92_G97_N0.215330.730
123_H142_A0.214840.728
106_P110_P0.214590.727
122_M171_G0.213930.725
76_S120_V0.213340.723
181_N202_G0.212250.719
141_I180_Q0.211890.718
103_E151_E0.211720.717
4_V40_A0.210370.713
100_S105_D0.210180.712
105_D109_L0.209490.710
64_Q91_A0.209170.709
63_L67_R0.208990.708
18_E65_A0.20790.704
80_F99_I0.207030.701
142_A191_L0.206110.698
142_A145_I0.205280.696
4_V62_V0.204980.694
132_P135_A0.204840.694
59_L63_L0.204270.692
94_D98_D0.203810.691
178_P181_N0.203180.688
10_S205_R0.202540.686
131_M137_Y0.200070.678
35_I200_L0.199880.677
93_A97_N0.199120.675
55_E58_R0.198870.674
26_R29_V0.198870.674
124_S131_M0.195940.664
2_L36_I0.195430.662
60_V88_A0.195360.662
168_L199_I0.195330.662
60_V91_A0.195120.661
61_P64_Q0.193940.657
62_V66_I0.193440.655
149_L161_I0.192890.654
97_N102_F0.192590.653
74_P94_D0.192470.652
103_E124_S0.192290.651
144_E147_E0.191660.649
203_G208_F0.191520.649
22_V66_I0.191280.648
75_L93_A0.189610.642
176_K180_Q0.189530.642
50_V55_E0.18910.641
67_R75_L0.188490.639
4_V201_V0.188370.638
85_A96_I0.188210.638
3_N8_S0.187570.635
108_M111_L0.187390.635
142_A184_L0.187370.635
185_L201_V0.187210.634
125_D134_T0.186970.633
113_A159_A0.186610.632
52_E84_V0.185150.627
109_L159_A0.184810.626
166_I197_Y0.184350.625
40_A63_L0.184340.625
148_F151_E0.183680.622
112_A161_I0.183670.622
18_E62_V0.182340.618
106_P159_A0.180960.613
38_I66_I0.18030.611
143_E190_E0.17960.608
142_A187_N0.179380.608
125_D180_Q0.179380.608
15_K21_A0.178430.605
92_G95_I0.177790.602
134_T138_R0.177750.602
178_P182_L0.17720.600
121_L166_I0.177040.600
75_L94_D0.176380.598
125_D132_P0.17580.596
3_N34_D0.175090.593
40_A204_S0.175080.593
172_I184_L0.174390.591
164_E197_Y0.174380.591
102_F108_M0.174330.591
109_L119_V0.173630.588
11_D42_S0.17270.585
102_F121_L0.172590.585
146_I194_L0.171630.581
119_V161_I0.171210.580
115_Y118_P0.171180.580
14_R18_E0.171040.579
2_L24_R0.170820.579
95_I167_I0.170210.577
66_I75_L0.170170.577
89_L96_I0.170080.576
56_M83_E0.169470.574
172_I188_I0.169350.574
124_S130_G0.169340.574
125_D131_M0.168130.570
100_S103_E0.167730.568
125_D144_E0.167180.566
137_Y180_Q0.167080.566
125_D137_Y0.166620.565
66_I71_P0.166590.564
182_L203_G0.166290.563
53_E87_A0.165620.561
173_G207_S0.165160.560
132_P207_S0.165070.559
50_V81_N0.16450.557
29_V71_P0.164340.557
68_E71_P0.164040.556
192_K197_Y0.163980.556
191_L202_G0.163980.556
6_P54_E0.163370.554
65_A71_P0.163160.553
95_I99_I0.162820.552
144_E148_F0.162780.552
134_T175_G0.16270.551
61_P91_A0.162650.551
123_H176_K0.161960.549
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
4hb7A0.94761000.033
2vp8A0.9811000.064
1eyeA0.9811000.067
3mcmA0.97621000.068
2y5sA0.9811000.068
2bmbA11000.071
2vefA0.98571000.077
2dqwA0.96671000.078
1aj0A0.9811000.08
3tr9A0.96671000.083

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