GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aminotran_MocR - Alanine-glyoxylate amino-transferase
Pfam: PF12897 (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: CL0061
Length: 425
Sequences: 12140
Seq/Len: 28.56
HH_delta: 0.255 (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
368_A411_T1.356713.708
164_E205_A1.308373.576
322_A403_E1.137193.108
318_P399_L1.125063.075
43_N47_D1.061292.900
317_R321_E1.046542.860
404_T408_V1.031132.818
160_M197_R1.027082.807
192_D196_R0.986452.696
77_L299_K0.978482.674
398_S401_E0.925142.528
200_A205_A0.851912.328
197_R200_A0.849582.322
404_T407_D0.817592.234
164_E168_A0.810882.216
76_E80_E0.805952.203
126_K147_E0.800992.189
196_R200_A0.795792.175
339_S352_D0.793752.169
175_G211_F0.790882.161
162_M165_E0.789112.157
322_A399_L0.787372.152
199_A204_A0.783122.140
326_I406_M0.779432.130
296_R299_K0.779332.130
152_P162_M0.778232.127
87_E269_E0.773382.114
321_E325_E0.769932.104
363_E367_E0.759342.075
160_M201_M0.759112.075
76_E86_P0.753462.059
267_A272_L0.748042.044
326_I329_E0.722321.974
325_E329_E0.693361.895
407_D411_T0.685711.874
372_L390_I0.679321.856
203_T210_I0.674321.843
72_P76_E0.670731.833
109_L146_I0.65851.800
44_P296_R0.654091.788
126_K172_S0.649761.776
370_V408_V0.648461.772
167_V201_M0.645871.765
203_T208_F0.643311.758
161_D165_E0.642311.755
164_E206_P0.640311.750
126_K173_V0.631181.725
201_M206_P0.628681.718
211_F249_F0.616281.684
164_E201_M0.61621.684
154_T194_V0.612521.674
324_L328_E0.612261.673
164_E197_R0.610221.668
159_D162_M0.609181.665
193_E196_R0.607911.661
79_A86_P0.607621.661
329_E410_A0.603751.650
322_A326_I0.603341.649
161_D197_R0.59921.638
167_V208_F0.597781.634
314_A317_R0.596011.629
77_L80_E0.593621.622
399_L403_E0.590721.614
207_D245_R0.589761.612
125_V174_K0.58751.606
126_K149_I0.585881.601
364_L367_E0.580371.586
89_V266_A0.579781.584
73_E295_V0.576551.576
324_L349_I0.576351.575
215_A251_S0.572571.565
77_L295_V0.568141.553
178_C198_L0.566511.548
131_V152_P0.563821.541
326_I407_D0.560661.532
326_I410_A0.557891.525
326_I403_E0.553871.514
262_V294_H0.553031.511
44_P300_D0.549651.502
92_G98_N0.549171.501
191_S194_V0.54761.497
176_I208_F0.546621.494
200_A204_A0.542581.483
314_A318_P0.539441.474
73_E299_K0.537861.470
315_I399_L0.531781.453
49_P293_R0.519781.420
75_R79_A0.516211.411
79_A89_V0.508561.390
296_R300_D0.506471.384
269_E273_A0.505461.381
328_E340_W0.503871.377
287_D290_N0.5031.375
199_A210_I0.502181.372
78_F264_F0.501981.372
368_A408_V0.499211.364
80_E299_K0.498281.362
193_E197_R0.495771.355
127_F175_G0.491211.342
250_A264_F0.491021.342
71_I292_L0.489121.337
85_P269_E0.488891.336
141_T146_I0.488541.335
162_M166_L0.486081.328
214_N248_V0.482141.318
177_W211_F0.479241.310
43_N46_L0.473311.293
310_R314_A0.47151.289
330_E410_A0.469891.284
78_F91_V0.469161.282
88_N269_E0.468741.281
360_R364_L0.459141.255
324_L342_K0.456981.249
131_V150_P0.45611.246
128_L173_V0.455071.244
325_E328_E0.443311.211
127_F141_T0.442281.209
95_S249_F0.441371.206
308_H311_K0.439181.200
82_L266_A0.43831.198
401_E404_T0.437171.195
357_T360_R0.435971.191
168_A206_P0.434951.189
149_I166_L0.432941.183
364_L368_A0.432511.182
93_G97_L0.430351.176
265_F275_I0.429761.174
48_L296_R0.428181.170
319_K399_L0.427591.169
126_K168_A0.425571.163
359_K363_E0.420891.150
201_M208_F0.41841.143
322_A325_E0.417061.140
403_E407_D0.413531.130
194_V197_R0.409911.120
209_R271_N0.407121.113
295_V299_K0.404821.106
364_L412_C0.403941.104
69_D75_R0.403491.103
124_K207_D0.400081.093
167_V173_V0.39991.093
323_V406_M0.396641.084
163_V198_L0.396381.083
352_D389_N0.3921.071
203_T206_P0.391711.070
328_E342_K0.384691.051
176_I203_T0.380261.039
102_D106_R0.379551.037
247_Y267_A0.379231.036
92_G263_A0.378581.035
329_E403_E0.377381.031
315_I319_K0.377121.031
75_R91_V0.374921.025
361_V372_L0.372051.017
204_A242_N0.370771.013
310_R313_A0.370571.013
357_T387_D0.369941.011
66_G288_K0.368721.008
351_L392_I0.367221.004
293_R296_R0.365090.998
76_E79_A0.364390.996
167_V206_P0.36430.996
252_T264_F0.364020.995
311_K314_A0.363640.994
315_I318_P0.363570.994
400_E403_E0.361950.989
252_T294_H0.359870.983
44_P306_R0.359080.981
323_V402_L0.357820.978
279_L283_T0.357760.978
74_A295_V0.357030.976
104_I247_Y0.355570.972
320_F324_L0.355390.971
323_V392_I0.354760.970
326_I330_E0.353790.967
161_D164_E0.353720.967
400_E404_T0.353020.965
361_V390_I0.35070.958
318_P322_A0.350340.957
191_S197_R0.347170.949
339_S354_L0.34680.948
273_A277_K0.346020.946
72_P86_P0.345130.943
193_E242_N0.3450.943
141_T148_M0.342950.937
321_E342_K0.342450.936
360_R363_E0.342050.935
405_A408_V0.341840.934
341_T352_D0.341460.933
368_A412_C0.341430.933
370_V405_A0.340570.931
82_L264_F0.340510.931
324_L340_W0.340090.929
104_I211_F0.339840.929
181_K217_A0.339590.928
77_L298_F0.335070.916
365_A409_F0.332010.907
94_N97_L0.331860.907
274_W277_K0.329750.901
73_E292_L0.329620.901
323_V349_I0.3280.896
44_P47_D0.327970.896
163_V201_M0.327650.895
99_L211_F0.325140.889
156_D194_V0.324230.886
69_D276_K0.32370.885
330_E407_D0.323330.884
247_Y265_F0.32250.881
350_S376_G0.322240.881
45_L293_R0.322160.880
128_L176_I0.318680.871
97_L279_L0.317790.868
178_C195_V0.317550.868
313_A317_R0.315580.862
92_G265_F0.315530.862
77_L296_R0.312640.854
252_T266_A0.312450.854
84_V266_A0.311880.852
308_H312_H0.311570.851
88_N243_P0.310280.848
74_A91_V0.309740.846
307_A310_R0.307110.839
245_R248_V0.307040.839
260_A289_V0.306480.838
108_M175_G0.304910.833
311_K315_I0.304410.832
397_P401_E0.302560.827
216_Y348_F0.30070.822
363_E412_C0.300340.821
151_V166_L0.299990.820
158_P194_V0.299230.818
192_D235_D0.298620.816
197_R201_M0.298210.815
362_V374_P0.298210.815
204_A244_D0.296960.812
244_D268_S0.296530.810
249_F265_F0.29540.807
72_P75_R0.294740.805
365_A372_L0.294630.805
365_A412_C0.294270.804
129_C141_T0.291870.798
307_A311_K0.291770.797
306_R309_M0.291410.796
204_A243_P0.289860.792
149_I173_V0.289770.792
320_F394_P0.289630.792
173_V208_F0.288980.790
164_E200_A0.287980.787
318_P321_E0.287750.786
363_E366_K0.286460.783
325_E403_E0.28570.781
201_M205_A0.285140.779
49_P289_V0.28480.778
98_N249_F0.284110.776
95_S215_A0.283310.774
361_V412_C0.282620.772
292_L295_V0.280280.766
78_F89_V0.280110.765
397_P402_L0.277090.757
199_A246_V0.277010.757
160_M198_L0.275960.754
214_N217_A0.275720.754
163_V167_V0.275240.752
362_V372_L0.275160.752
270_A273_A0.274020.749
160_M164_E0.273780.748
93_G286_P0.271560.742
272_L276_K0.270980.741
42_S300_D0.27040.739
128_L166_L0.270150.738
178_C210_I0.269580.737
370_V409_F0.269080.735
233_I246_V0.268240.733
128_L151_V0.267550.731
212_W233_I0.267420.731
106_R278_H0.266960.730
330_E406_M0.266740.729
74_A294_H0.265550.726
322_A402_L0.264520.723
352_D388_S0.264340.722
73_E77_L0.263970.721
209_R247_Y0.263760.721
159_D194_V0.263630.720
408_V412_C0.260550.712
109_L127_F0.257910.705
142_E148_M0.257740.704
176_I210_I0.257730.704
404_T411_T0.256230.700
168_A173_V0.254910.697
253_S284_I0.254550.696
402_L405_A0.254360.695
155_E339_S0.253410.693
109_L175_G0.252880.691
160_M194_V0.252330.690
195_V212_W0.251840.688
41_L46_L0.251730.688
273_A276_K0.251290.687
392_I409_F0.251030.686
66_G71_I0.249870.683
73_E76_E0.249850.683
132_P190_Y0.249450.682
350_S389_N0.249440.682
91_V262_V0.249340.681
158_P176_I0.248470.679
365_A370_V0.245630.671
327_L340_W0.245360.671
158_P190_Y0.245040.670
70_G75_R0.244650.669
199_A203_T0.244450.668
184_N187_G0.243810.666
224_E344_K0.243330.665
286_P290_N0.243010.664
270_A274_W0.242450.663
210_I233_I0.242350.662
407_D410_A0.240680.658
159_D201_M0.240220.656
154_T159_D0.238910.653
348_F393_A0.238720.652
85_P88_N0.238490.652
153_M183_S0.238440.652
253_S261_G0.236960.648
323_V326_I0.236760.647
194_V198_L0.236580.647
370_V412_C0.236150.645
79_A84_V0.236080.645
107_A278_H0.235830.644
96_S136_R0.233470.638
105_S141_T0.233430.638
244_D270_A0.232430.635
168_A205_A0.232380.635
198_L210_I0.232290.635
213_D254_K0.232070.634
257_F262_V0.231880.634
210_I242_N0.231760.633
178_C182_Y0.231720.633
137_H177_W0.231660.633
81_L218_V0.231520.633
361_V364_L0.231010.631
365_A408_V0.23050.630
151_V158_P0.229380.627
154_T162_M0.228130.623
95_S251_S0.227040.620
129_C148_M0.226650.619
137_H141_T0.226520.619
74_A77_L0.226360.619
90_I272_L0.225720.617
217_A250_A0.225130.615
316_L395_S0.224680.614
164_E167_V0.223210.610
152_P159_D0.22180.606
392_I405_A0.221650.606
126_K171_P0.22140.605
292_L296_R0.221220.605
365_A405_A0.220960.604
105_S144_F0.220780.603
181_K214_N0.220350.602
312_H315_I0.220050.601
322_A406_M0.220.601
138_F142_E0.21910.599
81_L306_R0.218580.597
48_L293_R0.217960.596
88_N272_L0.217310.594
272_L275_I0.21720.594
359_K362_V0.216640.592
320_F342_K0.216630.592
106_R144_F0.216380.591
182_Y185_P0.216160.591
309_M312_H0.215820.590
320_F343_P0.215770.590
163_V176_I0.215670.589
409_F413_V0.21550.589
362_V366_K0.215390.589
134_Y284_I0.215380.589
360_R390_I0.214330.586
74_A78_F0.213690.584
212_W248_V0.212240.580
260_A290_N0.211870.579
327_L406_M0.21180.579
181_K345_G0.211060.577
139_A142_E0.210590.576
93_G287_D0.210520.575
190_Y194_V0.210380.575
327_L330_E0.209380.572
358_A377_A0.209210.572
408_V411_T0.208720.570
406_M410_A0.20850.570
157_G194_V0.20840.570
216_Y391_R0.20780.568
257_F297_F0.207670.568
309_M313_A0.207020.566
130_P178_C0.205290.561
361_V413_V0.205070.560
267_A271_N0.204810.560
252_T262_V0.204420.559
99_L251_S0.203660.557
82_L250_A0.203490.556
319_K397_P0.203120.555
279_L286_P0.202890.554
134_Y137_H0.202670.554
130_P194_V0.202250.553
268_S271_N0.202220.553
79_A85_P0.2020.552
90_I275_I0.201830.552
70_G74_A0.201140.550
129_C177_W0.20050.548
149_I168_A0.200480.548
376_G389_N0.200010.547
45_L297_F0.199920.546
88_N268_S0.19950.545
217_A248_V0.199360.545
306_R310_R0.19880.543
370_V404_T0.198760.543
372_L392_I0.198460.542
108_M211_F0.198280.542
60_D292_L0.197530.540
154_T157_G0.197450.540
204_A245_R0.197090.539
339_S355_D0.196790.538
288_K291_Q0.196710.538
190_Y195_V0.196450.537
182_Y345_G0.196430.537
338_A351_L0.195780.535
106_R280_S0.195570.534
78_F252_T0.195290.534
316_L319_K0.195170.533
168_A171_P0.194920.533
301_A307_A0.194890.533
81_L217_A0.194580.532
110_H174_K0.194470.531
330_E403_E0.194440.531
81_L298_F0.19440.531
317_R320_F0.19440.531
312_H316_L0.194350.531
316_L347_Y0.194180.531
253_S263_A0.193760.530
133_G138_F0.193670.529
104_I265_F0.193540.529
178_C212_W0.193490.529
124_K147_E0.193380.528
195_V233_I0.193330.528
188_I344_K0.193040.528
44_P299_K0.192940.527
329_E407_D0.192520.526
153_M158_P0.192020.525
64_Y70_G0.191910.524
96_S134_Y0.191580.524
41_L44_P0.191050.522
193_E200_A0.190960.522
136_R281_V0.190750.521
328_E339_S0.190230.520
320_F323_V0.190010.519
83_G234_L0.18960.518
45_L296_R0.189010.517
358_A362_V0.188930.516
209_R245_R0.188680.516
410_A413_V0.188640.516
45_L48_L0.188060.514
199_A242_N0.187130.511
255_I258_P0.186460.510
280_S284_I0.186060.508
71_I295_V0.186020.508
286_P291_Q0.185730.508
200_A203_T0.185560.507
87_E273_A0.185060.506
184_N216_Y0.184820.505
91_V291_Q0.184770.505
242_N268_S0.184570.504
175_G209_R0.184070.503
262_V286_P0.184010.503
66_G285_G0.183980.503
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
3ez1A0.98591000.255
3pplA0.97651000.257
3d6kA0.96711000.268
3aowA0.90591000.286
2r2nA0.91291000.309
1vp4A0.921000.331
4fl0A0.89411000.334
2zyjA0.90351000.345
2zc0A0.90351000.354
3ihjA0.92711000.355

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