GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glucosamine_iso - Glucosamine-6-phosphate isomerases6-phosphogluconolactonase
Pfam: PF01182 (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: CL0246
Length: 199
Sequences: 2480
Seq/Len: 12.46
HH_delta: 0.028 (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
73_R77_E0.769043.369
103_A106_R0.619582.714
39_E42_K0.596372.613
76_R81_D0.56332.468
132_E189_E0.555042.431
109_Q113_S0.551442.416
93_I168_I0.536892.352
77_E81_D0.502312.200
11_E15_E0.489822.146
91_H110_E0.464592.035
124_D179_R0.461842.023
105_E109_Q0.447911.962
192_E196_R0.44741.960
49_D84_P0.429751.883
65_P72_Y0.429231.880
54_H91_H0.425251.863
32_T184_L0.413531.812
55_F80_L0.409781.795
16_A23_A0.40721.784
126_V178_A0.404651.773
149_E152_R0.387461.697
12_A180_K0.38741.697
130_M185_A0.382291.675
102_E106_R0.376531.649
185_A194_V0.373861.638
28_S58_V0.364751.598
72_Y92_P0.362691.589
72_Y76_R0.362421.588
54_H89_N0.355571.558
36_L127_L0.354351.552
9_I36_L0.350061.534
106_R110_E0.346511.518
62_V100_P0.34541.513
57_N75_L0.344071.507
56_F114_L0.338841.484
17_I21_G0.334941.467
51_S84_P0.33351.461
34_K78_H0.33151.452
68_P73_R0.322571.413
170_L174_T0.320021.402
111_L123_F0.318971.397
22_R54_H0.316111.385
194_V197_A0.314841.379
137_A175_I0.313961.375
99_D102_E0.309581.356
26_A126_V0.309231.355
148_E151_E0.305381.338
130_M197_A0.302061.323
14_E18_A0.301841.322
7_E43_L0.300071.315
16_A20_R0.299551.312
5_V184_L0.297471.303
16_A21_G0.297231.302
159_D162_K0.293531.286
85_I89_N0.293431.285
3_Q39_E0.292531.281
76_R87_P0.289381.268
34_K38_Q0.28931.267
15_E19_E0.284751.247
191_A195_K0.28331.241
106_R109_Q0.283281.241
61_R71_N0.281041.231
9_I25_I0.278931.222
80_L90_I0.275891.209
39_E43_L0.274471.202
38_Q78_H0.273411.198
24_V56_F0.272191.192
26_A58_V0.270971.187
66_D73_R0.270951.187
112_A177_S0.265751.164
54_H86_P0.265411.163
23_A53_V0.26461.159
70_S73_R0.263621.155
101_E105_E0.261441.145
97_A100_P0.258311.132
24_V54_H0.253871.112
108_E174_T0.252511.106
6_A35_P0.252171.105
87_P90_I0.248451.088
109_Q112_A0.248421.088
13_I23_A0.248131.087
5_V186_T0.247581.085
35_P186_T0.246871.081
110_E113_S0.246121.078
33_P37_Y0.244841.073
76_R90_I0.244531.071
102_E105_E0.244481.071
94_D103_A0.243691.068
36_L184_L0.242561.063
148_E152_R0.242051.060
49_D52_R0.241561.058
86_P89_N0.240831.055
64_P67_D0.240081.052
74_M78_H0.238691.046
59_D135_H0.238241.044
17_I52_R0.23671.037
41_A82_P0.234431.027
187_G190_K0.231881.016
5_V36_L0.231611.015
3_Q7_E0.231151.013
175_I181_I0.229781.007
63_V66_D0.228681.002
125_L182_V0.227530.997
111_L116_G0.226040.990
28_S126_V0.225130.986
104_A108_E0.224340.983
26_A123_F0.224290.983
20_R179_R0.222030.973
155_V169_T0.22170.971
138_S167_R0.221280.969
97_A103_A0.220190.965
32_T186_T0.220110.964
25_I55_F0.218660.958
29_G71_N0.218630.958
38_Q82_P0.217550.953
108_E112_A0.216770.950
8_A11_E0.215840.946
123_F126_V0.215660.945
31_S34_K0.215480.944
61_R167_R0.214330.939
28_S136_T0.213540.935
155_V171_T0.212360.930
178_A181_I0.210940.924
35_P38_Q0.210840.924
31_S74_M0.210010.920
41_A78_H0.209740.919
13_I53_V0.209320.917
58_V137_A0.20890.915
29_G61_R0.208450.913
21_G52_R0.207780.910
71_N167_R0.207540.909
75_L80_L0.207470.909
48_I53_V0.204360.895
153_W156_A0.201680.883
22_R52_R0.201160.881
140_F167_R0.200970.880
145_A157_V0.199950.876
14_E43_L0.196830.862
12_A16_A0.196510.861
34_K74_M0.196220.860
61_R140_F0.196160.859
44_H48_I0.195620.857
54_H114_L0.194930.854
27_L37_Y0.19360.848
8_A182_V0.19260.844
4_A7_E0.191880.841
126_V137_A0.191540.839
104_A107_Y0.190110.833
158_T162_K0.189760.831
61_R138_S0.189280.829
28_S128_L0.18890.828
50_W83_L0.187540.822
193_A197_A0.186810.818
23_A125_L0.186570.817
71_N140_F0.186570.817
51_S86_P0.184890.810
10_A43_L0.184030.806
40_L50_W0.182450.799
27_L55_F0.182290.799
183_L197_A0.181680.796
56_F107_Y0.18150.795
93_I107_Y0.181030.793
10_A14_E0.180430.790
13_I36_L0.179990.788
94_D106_R0.179770.788
91_H114_L0.178520.782
193_A196_R0.178470.782
131_G135_H0.177520.778
7_E11_E0.175610.769
9_I125_L0.175570.769
142_G147_L0.175380.768
57_N72_Y0.174760.766
86_P90_I0.174760.766
191_A194_V0.172840.757
129_G135_H0.172140.754
33_P59_D0.171260.750
30_G135_H0.170680.748
71_N138_S0.170620.747
10_A40_L0.170450.747
30_G59_D0.169220.741
94_D97_A0.168640.739
160_S163_P0.167820.735
133_D137_A0.167480.734
56_F91_H0.167250.733
33_P74_M0.166570.730
59_D129_G0.166350.729
193_A198_L0.166020.727
27_L75_L0.163610.717
31_S156_A0.163510.716
72_Y90_I0.16310.714
32_T37_Y0.163010.714
63_V67_D0.16290.714
8_A180_K0.162770.713
64_P96_E0.162120.710
14_E48_I0.161840.709
130_M194_V0.161750.709
38_Q41_A0.160790.704
10_A48_I0.160670.704
13_I25_I0.16060.704
56_F111_L0.160210.702
63_V73_R0.160180.702
146_L169_T0.160170.702
56_F90_I0.159940.701
29_G140_F0.159350.698
55_F75_L0.158780.696
157_V163_P0.158580.695
16_A19_E0.158430.694
111_L115_G0.158210.693
153_W158_T0.158020.692
57_N92_P0.158010.692
7_E39_E0.157750.691
130_M193_A0.156650.686
33_P129_G0.156610.686
127_L184_L0.15660.686
17_I20_R0.156140.684
110_E114_L0.156080.684
95_G103_A0.156040.684
43_L48_I0.1560.683
129_G190_K0.15530.680
65_P92_P0.15490.679
5_V35_P0.154840.678
192_E195_K0.153780.674
30_G129_G0.153290.672
64_P69_D0.153280.671
162_K165_P0.153130.671
29_G167_R0.152770.669
3_Q66_D0.152680.669
134_G193_A0.151740.665
20_R124_D0.151330.663
17_I53_V0.151210.662
32_T137_A0.150280.658
44_H50_W0.14960.655
132_E193_A0.148640.651
100_P166_Q0.148340.650
58_V170_L0.147640.647
108_E153_W0.14730.645
116_G179_R0.147120.644
136_T183_L0.14640.641
5_V9_I0.145420.637
63_V70_S0.145120.636
55_F83_L0.144970.635
44_H83_L0.144840.634
8_A12_A0.144690.634
11_E18_A0.144640.634
157_V164_P0.144620.634
135_H141_P0.144610.633
55_F92_P0.14460.633
144_P147_L0.14460.633
65_P94_D0.144360.632
176_M181_I0.144290.632
30_G131_G0.143790.630
11_E19_E0.143490.629
81_D87_P0.143050.627
126_V175_I0.142690.625
149_E169_T0.142470.624
20_R23_A0.142050.622
194_V198_L0.141890.622
103_A168_I0.141720.621
15_E18_A0.14160.620
100_P168_I0.141480.620
8_A15_E0.141460.620
65_P76_R0.141060.618
173_P177_S0.140580.616
58_V138_S0.14050.615
65_P96_E0.139420.611
56_F110_E0.139140.610
7_E81_D0.138670.607
16_A180_K0.137710.603
76_R92_P0.136380.597
98_D105_E0.135570.594
28_S31_S0.135510.594
159_D164_P0.135470.593
95_G104_A0.135450.593
161_P165_P0.135180.592
171_T174_T0.135160.592
7_E15_E0.134860.591
67_D70_S0.13440.589
145_A155_V0.134310.588
175_I183_L0.134060.587
70_S95_G0.133590.585
29_G175_I0.133540.585
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
3icoA0.98991000.028
3oc6A0.98491000.028
3tx2A0.98991000.033
3eb9A0.98491000.054
3lwdA0.94971000.064
3hn6A0.95981000.084
3nwpA0.94971000.086
3lhiA0.94471000.091
3cssA0.98491000.1
3e15A0.97991000.107

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