GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TPT - Triose-phosphate Transporter family
Pfam: PF03151 (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: CL0184
Length: 153
Sequences: 29248
Seq/Len: 191.16
HH_delta: 0.501 (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
100_L104_L2.252413.267
125_S131_E2.045492.967
19_I99_F1.5862.300
134_T137_Q1.567982.274
100_L103_K1.502172.179
34_N37_N1.453812.109
106_S109_T1.411732.048
116_V120_L1.405922.039
48_I52_P1.363761.978
77_D80_F1.238471.796
52_P55_F1.210371.756
49_I52_P1.14461.660
78_P82_F1.087011.577
77_D81_I1.075041.559
135_P139_I1.074421.558
3_I7_A1.064321.544
79_N82_F1.047121.519
102_I110_Y1.039971.508
53_L57_L1.013771.470
52_P56_L0.956991.388
82_F86_L0.954431.384
105_T109_T0.951111.380
85_I88_G0.943731.369
16_N98_S0.923491.339
9_S13_A0.921291.336
135_P138_I0.905381.313
124_L128_F0.902191.309
142_V146_V0.901451.308
105_T110_Y0.88841.289
40_Y44_P0.885071.284
120_L124_L0.877771.273
81_I85_I0.876951.272
20_K107_P0.870981.263
125_S129_F0.854481.239
137_Q141_I0.852741.237
138_I142_V0.849011.231
83_L86_L0.844711.225
20_K24_K0.827621.200
126_V133_I0.821151.191
96_L100_L0.812831.179
37_N41_Y0.811371.177
16_N111_S0.807321.171
82_F85_I0.804571.167
5_A9_S0.798341.158
21_K25_K0.797791.157
133_I138_I0.784811.138
41_Y45_I0.783311.136
122_I141_I0.780861.133
122_I126_V0.776871.127
45_I49_I0.77381.122
94_Y98_S0.772861.121
15_R99_F0.770441.117
55_F60_P0.76851.115
78_P81_I0.754311.094
79_N83_L0.74161.076
114_G117_K0.736291.068
47_F51_L0.730451.059
134_T138_I0.727441.055
46_S50_L0.72141.046
86_L90_L0.720361.045
13_A17_V0.718461.042
56_L60_P0.715221.037
101_L110_Y0.715111.037
15_R42_N0.701341.017
131_E137_Q0.69991.015
122_I125_S0.698921.014
51_L55_F0.685350.994
116_V119_I0.672380.975
106_S110_Y0.671970.975
20_K106_S0.671210.974
133_I137_Q0.665130.965
126_V132_P0.664280.964
21_K24_K0.662870.961
80_F84_L0.658420.955
119_I141_I0.656830.953
2_F5_A0.656070.952
39_L43_S0.656070.952
45_I48_I0.655420.951
121_V125_S0.651750.945
122_I137_Q0.651140.944
127_I130_G0.649020.941
83_L87_S0.644570.935
115_N148_V0.644420.935
4_L7_A0.643880.934
33_L38_L0.638050.925
6_L9_S0.637710.925
16_N107_P0.636030.923
16_N102_I0.634730.921
86_L89_L0.631450.916
19_I102_I0.629180.913
97_S100_L0.629130.913
136_L139_I0.626740.909
119_I144_A0.625880.908
124_L127_I0.625540.907
48_I51_L0.624660.906
101_L105_T0.620980.901
141_I145_L0.618830.898
10_L14_L0.617960.896
15_R19_I0.61680.895
19_I23_L0.613030.889
49_I53_L0.606610.880
57_L60_P0.604780.877
132_P136_L0.598170.868
35_P39_L0.594670.863
53_L56_L0.591240.858
98_S102_I0.588490.854
40_Y47_F0.587120.852
87_S91_A0.585680.849
39_L99_F0.582520.845
22_L38_L0.581450.843
146_V150_L0.578780.839
94_Y97_S0.577810.838
33_L37_N0.573770.832
12_S98_S0.572930.831
99_F103_K0.569510.826
17_V107_P0.567490.823
139_I142_V0.557290.808
7_A11_F0.554840.805
44_P48_I0.553370.803
58_E61_Q0.552050.801
19_I39_L0.549180.797
20_K102_I0.546840.793
14_L18_L0.545120.791
81_I84_L0.542060.786
123_L127_I0.53990.783
12_S114_G0.539440.782
36_L96_L0.539190.782
55_F58_E0.53840.781
139_I143_L0.534350.775
37_N40_Y0.533550.774
102_I106_S0.533420.774
115_N118_R0.530270.769
114_G118_R0.529390.768
138_I141_I0.526920.764
80_F83_L0.525770.763
88_G92_F0.52450.761
43_S95_N0.523350.759
126_V138_I0.51790.751
95_N98_S0.514150.746
56_L59_G0.510630.741
17_V20_K0.510080.740
57_L61_Q0.509480.739
98_S110_Y0.5080.737
9_S94_Y0.506890.735
54_A58_E0.504460.732
16_N114_G0.503690.731
122_I133_I0.502360.729
97_S101_L0.501740.728
2_F6_L0.500390.726
109_T113_L0.499050.724
109_T112_V0.494440.717
14_L17_V0.494040.717
39_L42_N0.487230.707
134_T139_I0.485250.704
125_S128_F0.483340.701
23_L38_L0.482520.700
139_I146_V0.480220.697
112_V115_N0.476520.691
15_R98_S0.476460.691
12_S16_N0.476240.691
15_R95_N0.475650.690
77_D82_F0.475590.690
84_L91_A0.475370.689
23_L103_K0.46770.678
117_K120_L0.465640.675
87_S90_L0.465120.675
85_I89_L0.463480.672
19_I38_L0.463320.672
10_L13_A0.458680.665
84_L88_G0.45830.665
36_L100_L0.454320.659
117_K121_V0.452310.656
101_L113_L0.451750.655
101_L104_L0.446040.647
91_A95_N0.445630.646
9_S12_S0.443040.643
38_L42_N0.442720.642
39_L96_L0.439980.638
93_L96_L0.439820.638
91_A94_Y0.439220.637
132_P137_Q0.438080.635
93_L97_S0.436490.633
8_S12_S0.435070.631
38_L41_Y0.433960.629
80_F88_G0.432960.628
126_V131_E0.431690.626
16_N99_F0.429530.623
126_V129_F0.429090.622
95_N99_F0.428950.622
121_V144_A0.428880.622
39_L95_N0.424430.616
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:
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
2i68A0.660198.40.501
3b5dA0.660198.10.545
3mktA0.96738.80.88
4he8J0.84317.50.883
4humA0.97397.40.884
4a2nB0.92815.10.892
3dh4A0.67973.60.899
2xq2A0.7323.40.9
3w4tA0.96082.80.904
3rkoJ0.85622.60.906
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