GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MannoseP_isomer - Mannose-6-phosphate isomerase
Pfam: PF01050 (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: CL0029
Length: 151
Sequences: 852
Seq/Len: 5.64
HH_delta: 0.629 (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
3_V6_L0.821174.965
96_E123_E0.691964.184
100_D118_A0.545633.299
22_R25_D0.516113.121
96_E103_E0.504953.053
10_D15_I0.451692.731
25_D28_E0.449932.721
99_L102_E0.443522.682
46_R55_E0.424682.568
5_D19_D0.380092.298
104_F112_V0.379492.295
92_S131_E0.363722.199
80_Y149_L0.350742.121
78_L121_R0.33132.003
45_R55_E0.326881.977
80_Y147_V0.325711.969
28_E31_E0.311271.882
107_K110_D0.301161.821
46_R53_S0.29571.788
99_L112_V0.289051.748
32_Q36_K0.284261.719
2_G22_R0.283051.711
53_S69_T0.282311.707
4_E19_D0.278411.683
19_D22_R0.268031.621
56_V64_K0.26621.610
19_D23_S0.26241.587
75_R123_E0.257811.559
119_K149_L0.244591.479
99_L104_F0.234631.419
8_V17_V0.23311.409
7_I20_K0.232381.405
55_E58_D0.226651.370
56_V59_E0.223411.351
107_K116_R0.222991.348
109_G137_T0.217841.317
98_T123_E0.217151.313
76_L122_I0.214431.297
98_T103_E0.21381.293
66_K143_E0.211791.281
7_I23_S0.211511.279
48_Y53_S0.208971.264
99_L118_A0.208731.262
68_I132_I0.206211.247
94_T105_T0.205411.242
96_E125_P0.203761.232
140_Y144_D0.199291.205
136_Q146_I0.197581.195
27_K31_E0.196011.185
12_P46_R0.195121.180
6_L19_D0.191781.160
39_Y42_K0.188741.141
89_T135_V0.187311.133
98_T121_R0.184951.118
143_E148_R0.184761.117
77_S148_R0.184631.116
58_D65_V0.183921.112
77_S151_D0.179311.084
12_P55_E0.178691.080
105_T117_G0.1771.070
20_K27_K0.172041.040
82_H147_V0.170611.032
108_E139_E0.170451.031
54_Y66_K0.167361.012
12_P45_R0.166481.007
101_D104_F0.16621.005
54_Y68_I0.165270.999
69_T129_P0.163040.986
61_E92_S0.160340.970
32_Q35_Q0.157650.953
106_L110_D0.157510.952
47_V54_Y0.15450.934
137_T141_L0.154140.932
83_H128_T0.15370.929
29_V33_L0.153140.926
59_E64_K0.152930.925
134_E145_D0.152330.921
29_V80_Y0.151280.915
106_L112_V0.151180.914
64_K142_G0.150160.908
34_K41_A0.149520.904
80_Y119_K0.148930.901
5_D21_D0.148710.899
31_E35_Q0.148470.898
82_H128_T0.147790.894
71_N74_K0.147010.889
98_T101_D0.146190.884
136_Q142_G0.145870.882
82_H127_K0.145850.882
71_N129_P0.145440.879
115_P118_A0.144980.877
97_V106_L0.144220.872
55_E65_V0.144060.871
75_R121_R0.142990.865
77_S143_E0.142360.861
54_Y76_L0.142340.861
121_R150_E0.142220.860
67_R131_E0.140770.851
43_E47_V0.140320.848
82_H105_T0.140230.848
58_D68_I0.139850.846
89_T132_I0.139070.841
57_L131_E0.136850.827
108_E127_K0.136310.824
12_P48_Y0.13470.814
59_E139_E0.134380.813
75_R119_K0.134020.810
94_T107_K0.133310.806
97_V128_T0.133290.806
76_L136_Q0.131710.796
77_S136_Q0.131680.796
83_H125_P0.130460.789
73_G94_T0.129310.782
10_D63_Y0.129210.781
49_R66_K0.127790.773
8_V48_Y0.126640.766
58_D67_R0.126430.764
17_V32_Q0.1260.762
108_E126_G0.125110.756
39_Y43_E0.124540.753
49_R148_R0.124390.752
20_K48_Y0.124320.752
145_D148_R0.124120.751
54_Y151_D0.123880.749
90_V132_I0.122640.742
95_A109_G0.122310.740
54_Y58_D0.122090.738
85_S137_T0.121650.736
54_Y143_E0.121560.735
80_Y96_E0.121350.734
84_R88_W0.121180.733
65_V85_S0.12060.729
68_I76_L0.120540.729
23_S48_Y0.120.726
79_Q120_H0.119950.725
45_R117_G0.119760.724
31_E42_K0.11970.724
95_A130_L0.11960.723
50_P151_D0.119440.722
57_L65_V0.118470.716
107_K118_A0.118280.715
134_E138_G0.118110.714
34_K42_K0.117190.709
1_I118_A0.116630.705
46_R121_R0.116330.703
20_K40_E0.11590.701
91_V133_I0.115520.699
25_D36_K0.11550.698
82_H126_G0.115430.698
81_H86_E0.115380.698
122_I146_I0.115140.696
125_P128_T0.114380.692
66_K146_I0.114210.691
117_G128_T0.113650.687
66_K148_R0.113580.687
92_S121_R0.11330.685
111_S124_N0.113140.684
66_K76_L0.113050.684
8_V139_E0.112890.683
78_L150_E0.112750.682
23_S59_E0.112180.678
79_Q136_Q0.112140.678
1_I18_A0.112110.678
49_R146_I0.111950.677
1_I16_L0.111030.671
66_K77_S0.110810.670
53_S121_R0.110360.667
83_H91_V0.110020.665
84_R145_D0.10910.660
2_G19_D0.10910.660
110_D113_Y0.108680.657
34_K123_E0.108420.656
1_I29_V0.10820.654
70_V95_A0.107850.652
15_I18_A0.107820.652
86_E148_R0.107340.649
33_L41_A0.106970.647
55_E109_G0.106910.646
94_T127_K0.106810.646
143_E146_I0.106690.645
69_T109_G0.106570.644
78_L119_K0.106480.644
49_R133_I0.106430.644
105_T125_P0.105890.640
12_P53_S0.105370.637
68_I77_S0.105320.637
10_D112_V0.104680.633
7_I45_R0.104480.632
86_E120_H0.104260.630
75_R78_L0.102590.620
122_I142_G0.102390.619
121_R151_D0.102220.618
100_D119_K0.100810.610
77_S146_I0.100720.609
108_E125_P0.100710.609
81_H138_G0.100310.607
36_K39_Y0.100260.606
30_V65_V0.100120.605
94_T128_T0.099570.602
46_R69_T0.099520.602
83_H105_T0.099180.600
54_Y77_S0.098850.598
12_P43_E0.098270.594
53_S75_R0.098220.594
91_V113_Y0.097960.592
45_R116_R0.097720.591
140_Y148_R0.09740.589
37_G41_A0.097230.588
78_L98_T0.097020.587
38_R41_A0.096720.585
8_V15_I0.096330.582
23_S123_E0.095670.578
64_K77_S0.095570.578
122_I151_D0.095510.578
105_T128_T0.095490.577
8_V91_V0.095470.577
1_I26_V0.095290.576
5_D42_K0.095260.576
141_L145_D0.095180.576
54_Y80_Y0.095180.576
11_T14_A0.095120.575
10_D131_E0.095040.575
16_L20_K0.094930.574
7_I18_A0.094920.574
47_V58_D0.094850.574
65_V139_E0.09480.573
116_R139_E0.094690.573
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
3lagA0.615999.80.629
2y0oA0.834499.60.699
2fqpA0.629199.60.706
3h8uA0.821299.30.756
4h7lA0.847799.30.756
2oziA0.602699.30.757
2opkA0.708699.30.759
1uijA0.781599.30.76
3rnsA0.781599.30.76
3l2hA0.860999.30.763
If you are interested in a protein containing this domain,
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