GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Tubulin - TubulinFtsZ family GTPase domain
Pfam: PF00091 (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: CL0442
Length: 216
Sequences: 2586
Seq/Len: 11.97
HH_delta: -0.081 (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
99_Y183_E0.659353.394
60_I80_D0.605253.115
111_L147_E0.57892.980
139_S180_S0.539192.775
188_A191_V0.5252.702
111_L148_M0.518772.670
167_S197_D0.503962.594
7_I141_L0.492922.537
160_S188_A0.487882.511
147_E187_Y0.462112.378
171_V175_Y0.415462.138
115_R152_E0.402912.074
110_I113_Q0.389942.007
152_E156_K0.377321.942
164_L174_P0.371331.911
183_E186_E0.367451.891
63_D66_V0.367071.889
175_Y179_L0.356321.834
9_Q13_Q0.353291.818
116_K122_D0.350781.805
20_E71_R0.331041.704
17_A20_E0.325881.677
111_L115_R0.316611.630
147_E151_E0.31121.602
8_G11_G0.310221.597
203_C207_L0.309021.590
6_G12_N0.298681.537
176_N179_L0.296271.525
182_S186_E0.282551.454
172_V176_N0.27971.440
100_Y108_E0.278951.436
58_I74_P0.273241.406
160_S184_L0.270331.391
12_N66_V0.263321.355
129_I142_G0.262681.352
115_R151_E0.259291.335
212_P215_N0.252851.301
115_R122_D0.25261.300
160_S191_V0.252071.297
16_D71_R0.247351.273
86_S125_D0.246741.270
99_Y108_E0.245821.265
118_I127_F0.242921.250
112_E115_R0.241081.241
124_L127_F0.240121.236
208_G212_P0.23681.219
148_M152_E0.234551.207
110_I141_L0.234531.207
3_I124_L0.233871.204
207_L213_A0.233331.201
59_A67_L0.231891.194
198_A201_K0.230551.187
197_D200_Y0.229381.181
133_L181_L0.228091.174
136_G140_G0.227571.171
59_A70_I0.225441.160
6_G15_G0.225011.158
179_L182_S0.224811.157
201_K205_N0.224431.155
10_C163_I0.223461.150
16_D69_E0.220991.137
134_G177_A0.219421.129
207_L212_P0.219211.128
179_L183_E0.21891.127
164_L178_L0.217471.119
82_N113_Q0.217451.119
64_P68_D0.214921.106
129_I146_A0.214771.105
146_A158_I0.211641.089
14_I57_A0.210371.083
96_A100_Y0.209571.079
70_I75_K0.207611.069
115_R148_M0.206921.065
113_Q116_K0.206391.062
210_E214_F0.206011.060
200_Y207_L0.205821.059
150_R158_I0.202691.043
91_S97_V0.201971.040
78_L117_E0.200041.030
16_D70_I0.195531.006
175_Y178_L0.195271.005
164_L181_L0.194651.002
131_H162_S0.194010.999
131_H160_S0.192890.993
7_I145_L0.192580.991
208_G213_A0.192350.990
135_G138_G0.191520.986
11_G135_G0.191360.985
6_G9_Q0.191060.983
112_E116_K0.189890.977
17_A215_N0.188580.971
15_G59_A0.188430.970
209_I212_P0.188070.968
14_I18_F0.186930.962
129_I160_S0.186580.960
6_G10_C0.185020.952
5_I118_I0.184570.950
150_R189_D0.184280.948
55_P62_T0.183540.945
2_I6_G0.183520.945
146_A160_S0.181340.933
12_N59_A0.180880.931
176_N215_N0.179870.926
3_I58_I0.177160.912
118_I124_L0.177110.912
124_L156_K0.176930.911
159_I192_I0.1750.901
127_F156_K0.174930.900
19_W72_A0.174820.900
183_E187_Y0.174170.896
53_Y75_K0.173450.893
58_I72_A0.173280.892
125_D200_Y0.172290.887
97_V100_Y0.1720.885
94_N100_Y0.170840.879
142_G146_A0.169750.874
162_S191_V0.168050.865
171_V176_N0.166040.855
184_L190_S0.165870.854
203_C208_G0.165810.853
152_E179_L0.165690.853
206_Q209_I0.164170.845
133_L162_S0.164160.845
67_L86_S0.164030.844
3_I56_R0.16380.843
17_A203_C0.163770.843
174_P178_L0.162120.834
205_N210_E0.161320.830
17_A50_S0.161270.830
109_E114_I0.160660.827
107_L141_L0.160340.825
111_L145_L0.160070.824
90_G169_E0.159620.822
190_S203_C0.158790.817
205_N209_I0.158480.816
176_N201_K0.158360.815
142_G184_L0.158010.813
20_E50_S0.157520.811
118_I152_E0.157120.809
133_L156_K0.155860.802
96_A99_Y0.155660.801
148_M151_E0.155240.799
167_S209_I0.154890.797
68_D71_R0.154570.796
98_G136_G0.154440.795
133_L160_S0.154370.795
8_G135_G0.153260.789
188_A192_I0.153260.789
60_I145_L0.153210.789
108_E111_L0.153140.788
129_I145_L0.15270.786
111_L122_D0.15160.780
90_G95_W0.15140.779
11_G138_G0.150270.773
143_P169_E0.150250.773
14_I163_I0.149940.772
69_E215_N0.149920.772
116_K171_V0.149560.770
15_G57_A0.149520.770
203_C212_P0.149280.768
179_L202_I0.149220.768
87_G136_G0.149050.767
15_G18_F0.148740.766
56_R74_P0.147660.760
79_F82_N0.147580.760
19_W57_A0.147050.757
65_K142_G0.146490.754
84_L100_Y0.146290.753
133_L184_L0.146080.752
180_S183_E0.146010.751
96_A179_L0.143170.737
158_I190_S0.142190.732
113_Q167_S0.142180.732
113_Q147_E0.141360.728
5_I213_A0.141330.727
16_D20_E0.140920.725
83_N117_E0.140160.721
187_Y204_K0.138950.715
66_V91_S0.138890.715
123_S143_P0.138240.712
13_Q63_D0.138180.711
178_L182_S0.138040.710
12_N17_A0.137930.710
178_L183_E0.137850.709
10_C14_I0.137690.709
146_A184_L0.137680.709
176_N198_A0.137160.706
67_L84_L0.136930.705
201_K210_E0.13670.704
162_S184_L0.136410.702
55_P61_D0.136160.701
164_L195_D0.135290.696
175_Y186_E0.135170.696
92_G97_V0.133910.689
132_S138_G0.133660.688
128_F157_P0.13340.687
142_G167_S0.13320.686
198_A209_I0.133150.685
164_L193_L0.133020.685
125_D203_C0.132910.684
181_L193_L0.132820.684
171_V174_P0.132770.683
17_A60_I0.132660.683
19_W73_S0.131680.678
108_E147_E0.13160.677
19_W55_P0.131390.676
114_I148_M0.131290.676
92_G95_W0.130960.674
206_Q210_E0.130950.674
172_V212_P0.13070.673
107_L144_V0.130470.672
149_L164_L0.130430.671
127_F149_L0.12990.669
5_I53_Y0.128480.661
159_I188_A0.128230.660
3_I6_G0.12810.659
122_D171_V0.128010.659
82_N110_I0.127930.658
93_N176_N0.126210.650
204_K208_G0.126210.650
94_N187_Y0.125810.648
157_P189_D0.125780.647
132_S135_G0.12540.645
200_Y203_C0.125340.645
5_I60_I0.125170.644
74_P210_E0.125120.644
93_N173_E0.124940.643
19_W71_R0.124830.642
4_V57_A0.124670.642
98_G140_G0.124350.640
3_I12_N0.124260.640
129_I157_P0.124210.639
189_D196_N0.123980.638
16_D19_W0.123890.638
50_S75_K0.123590.636
68_D175_Y0.123460.635
191_V194_F0.123460.635
100_Y175_Y0.123450.635
19_W207_L0.123130.634
12_N122_D0.122650.631
99_Y187_Y0.122280.629
201_K207_L0.122270.629
68_D82_N0.122190.629
133_L180_S0.122190.629
135_G196_N0.122090.628
172_V179_L0.122010.628
82_N186_E0.121830.627
99_Y186_E0.121830.627
200_Y214_F0.121480.625
94_N179_L0.121420.625
133_L177_A0.121380.625
203_C209_I0.121230.624
133_L164_L0.121150.624
145_L167_S0.120990.623
129_I159_I0.120680.621
169_E214_F0.120290.619
60_I110_I0.120240.619
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
4i4tA1100-0.081
4i4tB1100-0.069
3rycA1100-0.059
3rycB1100-0.057
2btoA0.99541000.005
3cb2A0.99541000.007
2btqB0.99541000.01
1rq2A0.80091000.335
2vxyA0.80091000.335
1w5fA0.80091000.337

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