GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PMM - Eukaryotic phosphomannomutase
Pfam: PF03332 (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: CL0137
Length: 220
Sequences: 6379
Seq/Len: 29
HH_delta: 0.271 (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
195_F202_G1.184523.930
180_F198_P1.129583.748
171_E178_I1.013543.363
18_G25_I0.980593.253
162_D193_E0.837842.780
7_K10_K0.837082.777
168_R197_D0.809492.686
180_F194_I0.751952.495
175_F197_D0.747072.479
5_L14_V0.72962.421
66_G69_K0.653722.169
169_H172_D0.652852.166
189_G209_E0.63112.094
189_G211_T0.626892.080
165_Y168_R0.625352.075
42_F166_C0.623842.070
204_T208_P0.620512.059
168_R172_D0.607832.017
18_G43_P0.589611.956
180_F195_F0.569851.891
164_T197_D0.542561.800
12_V179_H0.542271.799
167_L194_I0.541371.796
8_L12_V0.535641.777
13_P174_G0.531881.765
3_E7_K0.531281.763
15_G170_L0.529311.756
198_P202_G0.525581.744
176_D199_R0.517821.718
61_I169_H0.516791.715
171_E175_F0.508521.687
63_E169_H0.496281.647
169_H173_E0.48631.613
192_Y196_E0.48381.605
175_F178_I0.47151.564
72_K138_E0.469111.556
132_V136_K0.466281.547
179_H203_H0.461091.530
15_G40_Y0.460431.528
8_L14_V0.456971.516
51_K54_E0.453221.504
6_Q10_K0.438741.456
47_L158_P0.438631.455
145_T193_E0.430231.427
178_I198_P0.42491.410
63_E158_P0.422361.401
12_V177_E0.415051.377
158_P161_W0.414461.375
171_E199_R0.412261.368
69_K72_K0.407671.353
162_D165_Y0.399741.326
170_L174_G0.399081.324
47_L161_W0.387931.287
141_D159_K0.384381.275
145_T160_G0.38091.264
9_R39_D0.380861.264
49_A166_C0.380611.263
203_H206_T0.380191.261
147_S157_F0.374571.243
49_A169_H0.373381.239
76_F80_Y0.367961.221
3_E6_Q0.364671.210
171_E197_D0.362991.204
189_G192_Y0.361161.198
134_A138_E0.359931.194
21_D44_E0.357921.188
75_N79_R0.35561.180
167_L180_F0.35171.167
117_E120_E0.349981.161
178_I199_R0.347371.153
6_Q9_R0.347041.151
4_L8_L0.345671.147
129_E133_E0.343231.139
69_K144_L0.342771.137
22_L43_P0.342391.136
40_Y174_G0.342151.135
167_L198_P0.339831.127
43_P48_V0.338411.123
164_T193_E0.337141.119
129_E148_I0.335611.113
76_F79_R0.33191.101
50_Y55_L0.329091.092
188_G209_E0.328921.091
157_F162_D0.325461.080
49_A170_L0.323971.075
183_D208_P0.322671.071
133_E137_K0.322481.070
178_I197_D0.318831.058
17_V194_I0.317431.053
134_A137_K0.316891.051
63_E160_G0.316251.049
52_N55_L0.31531.046
67_E71_Q0.314881.045
13_P40_Y0.314151.042
43_P50_Y0.312981.038
146_F156_V0.312511.037
16_V25_I0.309691.027
200_T203_H0.307611.021
205_V208_P0.303731.008
71_Q75_N0.302741.004
195_F204_T0.302411.003
44_E155_D0.299980.995
25_I41_V0.29750.987
168_R175_F0.293220.973
180_F202_G0.291890.968
175_F199_R0.290140.963
181_F203_H0.290110.963
183_D188_G0.285370.947
133_E136_K0.283730.941
42_F170_L0.282710.938
146_F154_I0.282010.936
177_E199_R0.281190.933
15_G167_L0.278830.925
14_V203_H0.273580.908
73_L156_V0.273090.906
70_L74_I0.27280.905
19_G22_L0.267950.889
147_S150_G0.267530.888
21_D24_K0.267510.888
74_I78_L0.265930.882
161_W165_Y0.264850.879
148_I153_S0.264150.876
130_K133_E0.264130.876
9_R14_V0.263360.874
68_E72_K0.263270.873
76_F134_A0.26250.871
72_K75_N0.262490.871
44_E153_S0.262380.871
45_N155_D0.26210.870
165_Y169_H0.262060.869
168_R171_E0.261160.866
76_F139_F0.260510.864
49_A61_I0.258310.857
44_E48_V0.257330.854
17_V42_F0.255990.849
153_S188_G0.25440.844
26_Q30_G0.253260.840
160_G165_Y0.25150.834
19_G164_T0.250550.831
17_V45_N0.248940.826
22_L50_Y0.246620.818
44_E47_L0.244480.811
72_K76_F0.243220.807
4_L181_F0.241950.803
115_R120_E0.241330.801
145_T159_K0.240740.799
108_R111_S0.24010.797
130_K134_A0.239180.794
13_P39_D0.238690.792
107_G110_A0.238420.791
150_G188_G0.235620.782
72_K139_F0.235370.781
48_V55_L0.235270.781
150_G153_S0.234160.777
157_F161_W0.231740.769
88_V91_G0.231530.768
14_V38_F0.230940.766
15_G171_E0.23050.765
164_T168_R0.229870.763
80_Y134_A0.229440.761
7_K11_K0.229360.761
16_V29_L0.227420.755
76_F138_E0.227340.754
97_R100_M0.225280.747
204_T207_S0.224370.744
25_I28_Q0.223450.741
42_F46_G0.222610.739
183_D190_N0.218770.726
197_D202_G0.218460.725
5_L181_F0.216380.718
78_L95_E0.216130.717
183_D205_V0.215120.714
195_F198_P0.213980.710
148_I152_I0.213460.708
29_L41_V0.212130.704
24_K44_E0.212010.703
165_Y193_E0.21150.702
192_Y195_F0.211390.701
25_I43_P0.210710.699
49_A173_E0.210690.699
149_G153_S0.210630.699
132_V148_I0.210490.698
19_G190_N0.210490.698
63_E161_W0.210240.698
20_S24_K0.209560.695
45_N190_N0.209540.695
21_D25_I0.208640.692
17_V181_F0.208450.692
40_Y170_L0.207490.688
170_L173_E0.207120.687
20_S155_D0.206660.686
136_K140_P0.206370.685
9_R38_F0.206220.684
137_K140_P0.206190.684
17_V193_E0.205330.681
15_G180_F0.205110.681
17_V180_F0.204220.678
126_K130_K0.202410.672
199_R202_G0.202070.670
112_Q115_R0.201590.669
24_K153_S0.201530.669
25_I29_L0.200610.666
157_F193_E0.20010.664
40_Y51_K0.199840.663
156_V159_K0.19970.663
75_N78_L0.199170.661
145_T162_D0.199040.660
91_G107_G0.198360.658
163_K191_D0.196590.652
4_L7_K0.196150.651
51_K173_E0.195490.649
65_L158_P0.194870.647
177_E200_T0.194670.646
139_F144_L0.194290.645
8_L181_F0.19380.643
129_E132_V0.193530.642
206_T210_D0.192740.639
175_F195_F0.190960.634
123_K127_I0.190470.632
112_Q116_D0.189950.630
42_F49_A0.188860.627
179_H200_T0.187850.623
104_S107_G0.187710.623
85_D88_V0.187260.621
99_G102_N0.187170.621
105_P108_R0.186180.618
171_E174_G0.185990.617
110_A114_E0.184940.614
18_G24_K0.184740.613
171_E177_E0.184430.612
3_E10_K0.184290.611
68_E71_Q0.183790.610
77_C156_V0.183150.608
70_L73_L0.18310.607
17_V43_P0.182340.605
110_A113_E0.182280.605
127_I130_K0.182050.604
54_E173_E0.181520.602
17_V190_N0.178010.591
87_P118_F0.177280.588
195_F200_T0.176780.587
79_R134_A0.176510.586
24_K28_Q0.176390.585
181_F200_T0.175490.582
88_V117_E0.175330.582
175_F198_P0.175270.582
27_E30_G0.174430.579
55_L62_A0.17230.572
30_G33_D0.172130.571
181_F195_F0.171010.567
15_G42_F0.170810.567
25_I40_Y0.168870.560
26_Q29_L0.168750.560
89_K92_T0.168730.560
101_I105_P0.168470.559
4_L11_K0.168430.559
20_S44_E0.168310.558
16_V41_V0.167960.557
145_T157_F0.167930.557
65_L144_L0.167710.556
171_E198_P0.167590.556
148_I154_I0.166820.553
15_G178_I0.165470.549
136_K139_F0.165410.549
181_F188_G0.165310.548
77_C146_F0.165250.548
80_Y133_E0.164920.547
116_D119_D0.164680.546
138_E144_L0.164120.545
81_I84_L0.163290.542
102_N106_I0.163230.542
126_K129_E0.162730.540
42_F164_T0.161960.537
193_E196_E0.161560.536
135_L139_F0.161140.535
65_L159_K0.160370.532
22_L48_V0.160090.531
147_S193_E0.159920.531
179_H199_R0.159840.530
5_L9_R0.159770.530
140_P159_K0.159170.528
11_K120_E0.158790.527
73_L77_C0.158380.525
81_I87_P0.158260.525
113_E116_D0.158210.525
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
2amyA0.97731000.271
3f9rA0.96821000.289
2fueA0.98181000.292
3daoA0.93641000.301
3pgvA0.94091000.313
2b30A0.93641000.321
3l7yA0.94091000.327
1rkqA0.951000.328
3mpoA0.95451000.329
4dw8A0.94551000.332

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