GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Mg_chelatase - Magnesium chelatase subunit ChlI
Pfam: PF01078 (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: CL0023
Length: 206
Sequences: 5591
Seq/Len: 27.14
HH_delta: 0.311 (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
115_L154_A0.798863.505
134_E145_T0.791013.470
111_F155_A0.632712.776
4_D41_R0.583092.558
154_A193_I0.582652.556
133_G149_R0.550112.414
40_R132_D0.529772.324
24_H130_L0.528772.320
134_E143_S0.513772.254
61_Y64_A0.489072.146
39_A153_V0.462742.030
37_M41_R0.459622.017
116_N156_M0.433331.901
57_V107_R0.430271.888
114_E157_N0.428631.881
15_L42_L0.3851.689
15_L38_L0.377991.658
136_T145_T0.377081.654
10_E200_P0.369011.619
58_S73_I0.368671.617
11_A38_L0.364941.601
157_N192_R0.359241.576
4_D37_M0.338981.487
26_L156_M0.338071.483
72_L75_Q0.32831.440
55_L59_K0.325741.429
162_G165_G0.318751.398
36_T113_D0.317391.393
41_R44_S0.313281.374
11_A199_V0.312471.371
124_D127_R0.304951.338
26_L115_L0.304771.337
28_I156_M0.304351.335
29_G35_K0.302581.328
36_T114_E0.298991.312
26_L193_I0.298091.308
59_K64_A0.297821.307
32_G35_K0.294431.292
101_E104_L0.292621.284
53_E76_R0.291091.277
13_R16_E0.288581.266
27_L199_V0.287121.260
8_Q11_A0.285221.251
31_P191_D0.283471.244
119_D122_V0.279041.224
4_D44_S0.278921.224
14_A197_V0.27791.219
114_E192_R0.276141.212
124_D186_S0.272731.197
14_A195_I0.268831.179
100_G105_A0.264361.160
107_R149_R0.263951.158
16_E20_A0.262321.151
12_K38_L0.258081.132
161_C165_G0.25571.122
138_S143_S0.252191.106
25_L153_V0.25011.097
13_R17_I0.248541.090
28_I198_E0.247531.086
36_T40_R0.245511.077
17_I20_A0.244321.072
97_P146_Y0.243641.069
126_L129_P0.242061.062
17_I195_I0.2411.057
185_L188_P0.238831.048
27_L197_V0.238191.045
98_R102_I0.236571.038
5_I41_R0.23571.034
57_V62_S0.233911.026
12_K16_E0.231591.016
121_S124_D0.230851.013
11_A27_L0.230261.010
28_I196_H0.230041.009
57_V61_Y0.229961.009
105_A108_G0.22921.006
15_L25_L0.228421.002
100_G103_S0.226640.994
60_I65_G0.226330.993
14_A17_I0.22620.992
26_L196_H0.225210.988
9_E12_K0.222950.978
89_A93_G0.22270.977
60_I64_A0.222520.976
128_Q132_D0.221330.971
161_C164_Y0.220820.969
60_I121_S0.220730.968
54_A57_V0.220650.968
113_D157_N0.219570.963
58_S72_L0.21550.945
37_M40_R0.215490.945
51_E74_R0.215210.944
135_V138_S0.214570.941
18_A25_L0.213190.935
90_L122_V0.213030.935
142_G146_Y0.212550.933
9_E44_S0.21190.930
58_S61_Y0.210940.925
128_Q131_E0.209320.918
29_G32_G0.209210.918
62_S65_G0.209170.918
115_L118_F0.209140.918
112_L152_L0.207210.909
5_I38_L0.206990.908
39_A155_A0.206160.905
161_C186_S0.2060.904
129_P146_Y0.205690.902
65_G72_L0.205280.901
60_I63_V0.205030.900
188_P191_D0.204520.897
115_L189_L0.203920.895
185_L190_L0.203680.894
52_E107_R0.202590.889
9_E13_R0.20110.882
193_I196_H0.200860.881
129_P135_V0.200670.880
103_S106_H0.200620.880
188_P192_R0.20010.878
115_L193_I0.19970.876
96_P142_G0.196680.863
123_L189_L0.196260.861
188_P194_D0.196010.860
138_S142_G0.195820.859
49_L76_R0.195440.857
6_V202_V0.194960.855
35_K113_D0.194670.854
40_R151_L0.192830.846
128_Q136_T0.192830.846
53_E72_L0.19260.845
110_L150_F0.192420.844
42_L153_V0.191540.840
136_T141_G0.190040.834
92_G100_G0.1890.829
13_R203_S0.188160.826
48_P75_Q0.187180.821
195_I198_E0.185290.813
116_N157_N0.184780.811
162_G184_R0.184440.809
65_G74_R0.183430.805
19_A22_G0.183310.804
35_K114_E0.182850.802
16_E19_A0.182360.800
5_I9_E0.182010.799
54_A72_L0.181680.797
141_G145_T0.181620.797
189_L192_R0.18030.791
13_R201_R0.18030.791
186_S190_L0.180260.791
65_G73_I0.179850.789
39_A111_F0.179670.788
17_I48_P0.17920.786
11_A34_G0.178320.782
117_E127_R0.178310.782
54_A59_K0.178240.782
20_A161_C0.178040.781
58_S64_A0.177810.780
98_R141_G0.177670.780
51_E63_V0.176830.776
110_L152_L0.176570.775
136_T143_S0.175360.769
10_E13_R0.174780.767
113_D155_A0.174090.764
112_L115_L0.173710.762
99_P102_I0.173330.760
139_R184_R0.173110.760
51_E59_K0.173090.759
47_P50_T0.171990.755
97_P137_I0.171960.754
99_P103_S0.171420.752
158_P185_L0.171180.751
56_E63_V0.171020.750
160_P184_R0.170670.749
61_Y73_I0.170180.747
46_L109_V0.169810.745
120_R124_D0.169130.742
5_I8_Q0.168570.740
38_L199_V0.167870.737
135_V146_Y0.167810.736
122_V125_A0.167620.735
118_F157_N0.167550.735
130_L193_I0.167430.735
6_V10_E0.166140.729
127_R131_E0.16590.728
103_S135_V0.165610.727
52_E165_G0.165280.725
101_E108_G0.165020.724
116_N125_A0.164730.723
102_I135_V0.164190.720
54_A58_S0.164060.720
27_L39_A0.163530.717
102_I105_A0.163510.717
93_G99_P0.16240.713
8_Q38_L0.161710.709
22_G151_L0.161430.708
138_S145_T0.160310.703
33_T199_V0.160260.703
6_V42_L0.160250.703
91_I125_A0.160240.703
142_G203_S0.160010.702
99_P104_L0.159990.702
129_P152_L0.159820.701
54_A73_I0.159660.700
56_E64_A0.159330.699
58_S63_V0.158420.695
61_Y65_G0.158060.693
117_E157_N0.157790.692
18_A151_L0.157380.690
148_A165_G0.156420.686
142_G145_T0.155730.683
30_P201_R0.154620.678
114_E117_E0.154550.678
137_I142_G0.153740.675
73_I76_R0.153610.674
55_L65_G0.15340.673
31_P157_N0.151360.664
64_A74_R0.151260.664
99_P106_H0.150390.660
18_A153_V0.150270.659
101_E105_A0.149940.658
116_N124_D0.149820.657
191_D195_I0.149750.657
57_V72_L0.149670.657
126_L135_V0.149670.657
57_V65_G0.149540.656
102_I150_F0.148990.654
59_K63_V0.14870.652
99_P108_G0.148250.650
49_L57_V0.148010.649
19_A42_L0.147780.648
184_R188_P0.147530.647
132_D135_V0.147160.646
13_R20_A0.146960.645
160_P163_Y0.146750.644
126_L130_L0.146560.643
102_I152_L0.145960.640
58_S124_D0.145860.640
141_G144_V0.14570.639
72_L76_R0.145590.639
34_G131_E0.14520.637
120_R123_L0.144840.635
64_A76_R0.144530.634
65_G76_R0.144510.634
28_I158_P0.144470.634
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
3f9vA0.854499.90.311
3f8tA0.805899.90.348
1g8pA0.893299.90.385
1r6bX0.907899.90.392
3pxiA0.810799.80.407
4fdgB0.854499.80.408
2r44A0.80199.80.412
1qvrA0.907899.80.416
3k1jA0.893299.80.426
3nbxX0.810799.80.446

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