GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TctC - Tripartite tricarboxylate transporter family receptor
Pfam: PF03401 (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: CL0177
Length: 274
Sequences: 5931
Seq/Len: 21.65
HH_delta: 0.056 (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
92_T95_E1.487883.295
91_K173_K1.381033.059
99_Y103_N1.354683.000
210_A214_T1.354463.000
12_E228_K1.287752.852
182_R194_E1.274482.823
207_G254_F1.231592.728
216_D220_D1.202982.664
103_N106_K1.201712.662
267_A271_E1.182682.619
110_G153_V1.168712.588
237_E241_K1.163722.577
90_Y99_Y1.15452.557
147_A152_H1.114082.467
266_K270_K1.083652.400
7_E11_K1.031952.286
111_S135_H0.974072.157
138_Y147_A0.959632.125
22_K33_Y0.946652.097
64_D67_D0.92492.048
123_A126_A0.924132.047
96_L155_A0.895451.983
223_A227_K0.886321.963
220_D224_D0.842561.866
224_D228_K0.833261.845
91_K95_E0.832941.845
32_N36_N0.82421.825
44_L222_L0.820071.816
126_A132_K0.813691.802
233_P237_E0.795231.761
71_P255_D0.792191.755
13_L225_A0.788741.747
70_T216_D0.783151.735
144_A156_A0.781531.731
208_L226_I0.780291.728
250_D253_E0.777821.723
164_L168_E0.754971.672
209_F258_L0.752871.667
12_E225_A0.748321.657
8_Y11_K0.748261.657
236_Q240_E0.743691.647
85_R88_S0.740091.639
214_T219_V0.737711.634
8_Y232_D0.733651.625
34_V45_L0.730371.618
94_E98_E0.730111.617
100_A107_L0.725681.607
256_A260_E0.724471.605
73_A226_I0.711691.576
127_K271_E0.702911.557
70_T214_T0.701731.554
89_P173_K0.695481.540
253_E256_A0.678731.503
193_K198_P0.675911.497
149_L166_Y0.672641.490
133_F155_A0.672081.489
8_Y234_E0.669741.483
44_L210_A0.668111.480
95_E98_E0.662231.467
76_A244_L0.660721.463
223_A251_G0.659141.460
167_V174_P0.653061.446
56_L266_K0.652951.446
263_A267_A0.645651.430
88_S99_Y0.644411.427
84_V173_K0.643531.425
28_A54_A0.639111.415
180_D201_V0.6361.409
227_K231_E0.635481.407
108_T154_D0.63331.403
31_A45_L0.633071.402
70_T219_V0.627571.390
99_Y107_L0.624671.384
72_V210_A0.622871.380
4_A235_F0.617941.369
231_E236_Q0.617261.367
182_R188_D0.615931.364
98_E102_A0.610551.352
83_V163_A0.610281.352
73_A249_M0.601771.333
255_D259_A0.599721.328
89_P99_Y0.599251.327
257_F261_E0.596831.322
105_G132_K0.596411.321
82_L93_L0.596011.320
141_G158_G0.591591.310
126_A133_F0.588061.302
221_K225_A0.58791.302
101_K130_G0.587531.301
9_L226_I0.584391.294
56_L262_Y0.582921.291
85_R154_D0.571781.266
100_A131_I0.566851.255
108_T134_T0.564961.251
81_V174_P0.559021.238
225_A228_K0.558221.236
186_L189_V0.555581.230
84_V155_A0.554141.227
260_E264_R0.551941.222
166_Y169_A0.551921.222
256_A259_A0.551251.221
70_T210_A0.549691.217
70_T213_G0.543261.203
42_Y218_I0.540471.197
32_N62_P0.539621.195
238_F241_K0.538151.192
176_A192_F0.535731.187
210_A222_L0.531161.176
176_A195_Q0.53071.175
261_E264_R0.527521.168
252_E256_A0.521411.155
259_A263_A0.520441.153
7_E10_E0.516971.145
73_A248_Y0.516861.145
9_L229_A0.516761.145
82_L96_L0.514661.140
46_M75_I0.511971.134
237_E240_E0.511681.133
12_E229_A0.511451.133
72_V219_V0.510661.131
110_G144_A0.510591.131
93_L192_F0.510451.131
140_G143_E0.502151.112
28_A58_Y0.499681.107
57_L269_I0.499081.105
66_L259_A0.491431.088
219_V251_G0.48891.083
15_Q42_Y0.488211.081
182_R191_T0.488211.081
84_V88_S0.486431.077
13_L17_V0.485911.076
100_A133_F0.484621.073
214_T218_I0.48371.071
263_A266_K0.48311.070
191_T194_E0.482861.069
70_T212_K0.481181.066
9_L225_A0.478631.060
35_A69_F0.477031.057
223_A250_D0.476431.055
73_A227_K0.476031.054
227_K248_Y0.47511.052
45_L209_F0.475051.052
202_F265_Y0.472271.046
82_L157_F0.46871.038
9_L17_V0.468421.037
7_E238_F0.468011.037
82_L192_F0.467871.036
109_F122_A0.466751.034
217_E220_D0.465721.031
210_A219_V0.465581.031
158_G163_A0.464391.029
74_R254_F0.464071.028
86_A171_D0.463741.027
191_T196_G0.463241.026
47_G209_F0.462021.023
28_A63_Y0.461671.022
269_I274_L0.459781.018
193_K199_D0.457531.013
66_L262_Y0.451641.000
115_G119_H0.448230.993
13_L221_K0.445540.987
97_I197_Y0.445170.986
143_E147_A0.440460.976
77_S203_G0.438430.971
4_A238_F0.436110.966
90_Y96_L0.431020.955
221_K224_D0.430790.954
72_V214_T0.430770.954
181_E245_E0.428810.950
147_A153_V0.42710.946
2_A46_M0.426970.946
73_A223_A0.426860.945
128_A200_I0.42630.944
146_T150_G0.424420.940
249_M253_E0.423960.939
192_F200_I0.422530.936
31_A69_F0.419050.928
216_D252_E0.418190.926
174_P189_V0.416140.922
139_D147_A0.415540.920
267_A270_K0.41530.920
230_L235_F0.4150.919
233_P236_Q0.413440.916
128_A199_D0.412570.914
129_A197_Y0.408940.906
93_L195_Q0.40780.903
13_L222_L0.402710.892
166_Y171_D0.401710.890
8_Y229_A0.401310.889
164_L186_L0.398790.883
8_Y12_E0.397280.880
74_R249_M0.396180.877
67_D212_K0.39550.876
93_L125_L0.395420.876
97_I101_K0.394280.873
148_L172_L0.393110.871
191_T195_Q0.392320.869
23_P139_D0.389920.864
141_G162_E0.389040.862
71_P258_L0.387670.859
28_A32_N0.386460.856
220_D223_A0.38450.852
3_R21_N0.382070.846
234_E237_E0.379780.841
33_Y36_N0.379590.841
83_V172_L0.377810.837
12_E232_D0.377530.836
270_K273_G0.375920.833
56_L269_I0.375560.832
81_V167_V0.375260.831
178_F192_F0.374530.829
235_F239_L0.373640.828
168_E188_D0.371910.824
74_R247_V0.370990.822
6_A17_V0.368170.815
44_L72_V0.367880.815
232_D235_F0.366860.813
238_F242_M0.365590.810
72_V208_L0.36550.810
83_V156_A0.364230.807
54_A58_Y0.363690.805
215_P218_I0.362540.803
218_I221_K0.36250.803
33_Y37_A0.361480.801
1_V76_A0.361240.800
88_S154_D0.360550.799
269_I272_L0.359090.795
71_P209_F0.358520.794
110_G156_A0.358020.793
252_E255_D0.357710.792
219_V223_A0.354750.786
83_V167_V0.354290.785
143_E146_T0.353940.784
109_F135_H0.351160.778
78_D206_R0.351130.778
35_A211_P0.348710.772
265_Y268_L0.348420.772
225_A229_A0.34730.769
96_L100_A0.345560.765
84_V175_L0.343630.761
268_L272_L0.342770.759
98_E101_K0.342280.758
93_L176_A0.340590.754
97_I125_L0.339240.751
99_Y102_A0.337010.746
223_A248_Y0.336740.746
44_L208_L0.335950.744
122_A157_F0.335840.744
90_Y95_E0.335480.743
81_V186_L0.334810.742
112_S116_S0.334010.740
262_Y266_K0.333330.738
122_A155_A0.332490.736
125_L129_A0.331810.735
79_P179_S0.330160.731
145_L163_A0.328270.727
86_A172_L0.328250.727
30_G45_L0.32790.726
148_L153_V0.326620.723
119_H123_A0.324340.718
227_K249_M0.322620.715
112_S118_D0.322460.714
46_M206_R0.320550.710
10_E16_P0.318680.706
192_F195_Q0.318110.705
88_S95_E0.31390.695
224_D227_K0.313380.694
148_L154_D0.313280.694
234_E238_F0.312940.693
124_L128_A0.31270.693
75_I208_L0.312240.692
87_D151_G0.311890.691
113_G135_H0.310940.689
180_D193_K0.310490.688
31_A35_A0.31010.687
220_D251_G0.309680.686
95_E99_Y0.307750.682
86_A173_K0.307650.681
177_V183_S0.305870.677
77_S247_V0.304630.675
232_D236_Q0.304480.674
72_V223_A0.304260.674
260_E263_A0.303990.673
39_A213_G0.30350.672
121_A200_I0.303340.672
107_L155_A0.302050.669
216_D219_V0.301950.669
52_I56_L0.30080.666
259_A262_Y0.300570.666
85_R151_G0.299540.663
220_D252_E0.298180.660
76_A206_R0.297370.659
197_Y200_I0.296890.658
228_K231_E0.29350.650
209_F254_F0.293050.649
174_P186_L0.292940.649
23_P27_G0.291790.646
83_V174_P0.291510.646
119_H135_H0.291340.645
229_A235_F0.291160.645
77_S245_E0.290590.644
249_M257_F0.286050.634
5_L226_I0.285210.632
165_P168_E0.285030.631
40_D43_T0.284850.631
262_Y269_I0.284090.629
37_A43_T0.28190.624
28_A61_V0.27910.618
125_L157_F0.278990.618
1_V206_R0.278580.617
230_L248_Y0.278150.616
54_A61_V0.277140.614
25_G29_V0.27610.611
92_T96_L0.275250.610
182_R190_P0.274210.607
25_G28_A0.273830.606
205_W261_E0.272930.604
109_F133_F0.271690.602
55_P262_Y0.270790.600
74_R257_F0.269820.598
6_A19_V0.269710.597
239_L246_P0.26850.595
88_S107_L0.267650.593
84_V96_L0.267390.592
218_I222_L0.267240.592
190_P195_Q0.266430.590
80_N117_S0.266430.590
239_L244_L0.266070.589
160_P183_S0.265590.588
181_E184_P0.26520.587
231_E248_Y0.264770.586
145_L149_L0.264350.585
138_Y152_H0.264320.585
9_L12_E0.264160.585
97_I129_A0.262990.582
183_S245_E0.262230.581
6_A10_E0.26220.581
134_T137_P0.262090.580
249_M254_F0.261830.580
80_N159_S0.260320.577
121_A202_F0.260240.576
48_S51_L0.259360.574
97_I131_I0.259120.574
31_A34_V0.258680.573
30_G34_V0.25770.571
68_D212_K0.25720.570
20_V33_Y0.256950.569
80_N84_V0.256160.567
113_G116_S0.255590.566
192_F198_P0.255370.566
94_E195_Q0.254950.565
145_L172_L0.254710.564
223_A249_M0.254340.563
32_N35_A0.25330.561
72_V226_I0.252310.559
211_P214_T0.252070.558
188_D194_E0.251440.557
5_L230_L0.250170.554
166_Y172_L0.248130.550
120_L269_I0.247790.549
145_L166_Y0.245460.544
69_F209_F0.244050.541
56_L61_V0.243940.540
52_I262_Y0.243540.539
22_K29_V0.243470.539
157_F178_F0.243320.539
107_L154_D0.242740.538
127_K272_L0.241930.536
147_A150_G0.241710.535
9_L13_L0.241350.535
149_L171_D0.241330.534
82_L155_A0.241290.534
268_L271_E0.241030.534
184_P240_E0.240830.533
118_D159_S0.240640.533
240_E246_P0.240620.533
254_F257_F0.239340.530
160_P164_L0.238810.529
84_V90_Y0.238620.528
78_D244_L0.238540.528
148_L156_A0.238470.528
58_Y61_V0.238030.527
132_K136_V0.233770.518
49_S117_S0.233560.517
229_A232_D0.23160.513
88_S96_L0.23140.512
146_T152_H0.230990.512
126_A131_I0.230830.511
11_K14_G0.229960.509
77_S257_F0.229770.509
35_A68_D0.228530.506
257_F260_E0.228330.506
74_R77_S0.227640.504
93_L96_L0.227330.503
240_E245_E0.226730.502
11_K232_D0.226090.501
51_L69_F0.225660.500
184_P245_E0.225560.500
1_V239_L0.22550.499
64_D68_D0.223760.496
100_A126_A0.223090.494
118_D141_G0.222360.492
217_E221_K0.221520.491
227_K250_D0.220770.489
122_A126_A0.22040.488
167_V186_L0.217570.482
26_G58_Y0.216120.479
70_T255_D0.215890.478
90_Y175_L0.214240.474
149_L172_L0.213370.473
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
2f5xA11000.056
2dvzA11000.056
2qpqA11000.057
4dddA0.92341000.426
1us5A0.912499.90.525
3p7iA0.868699.80.61
3n5lA0.86599.80.617
2vhaA0.846799.40.72
3ksxA0.832199.40.73
3uifA0.861399.40.733

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