GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
zf-DHHC - DHHC palmitoyltransferase
Pfam: PF01529 (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: CL0167
Length: 174
Sequences: 1968
Seq/Len: 11.31
HH_delta: 0.935 (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
68_C78_H0.768984.284
64_H71_C0.616773.436
78_H85_C0.598573.334
68_C85_C0.595053.315
54_C64_H0.574083.198
91_H157_Q0.549213.059
54_C71_C0.518582.889
95_L158_L0.460722.566
82_L86_I0.455422.537
73_L88_R0.431072.401
65_C68_C0.416712.321
14_Y70_R0.387242.157
156_F160_L0.381282.124
68_C71_C0.380492.119
61_R169_E0.374752.088
51_C54_C0.358811.999
65_C78_H0.349581.947
65_C85_C0.349121.945
87_G90_N0.348771.943
64_H68_C0.343871.915
157_Q160_L0.343231.912
63_H168_Y0.342671.909
5_F9_F0.336251.873
75_F168_Y0.329851.837
71_C78_H0.323731.803
7_T82_L0.321011.788
157_Q167_T0.316121.761
166_T169_E0.305851.704
64_H78_H0.302781.687
54_C68_C0.299691.669
76_D79_C0.289031.610
54_C78_H0.284971.587
74_R164_N0.276041.538
63_H75_F0.273041.521
51_C64_H0.271851.514
113_L117_V0.245361.367
51_C71_C0.241471.345
54_C65_C0.237661.324
58_K63_H0.23711.321
72_V87_G0.235471.312
58_K168_Y0.23371.302
95_L161_I0.229311.277
7_T86_I0.22151.234
149_F153_L0.220951.231
159_Y163_R0.220171.226
150_V153_L0.21421.193
168_Y172_K0.213861.191
53_T168_Y0.207571.156
59_P62_S0.205531.145
77_H94_F0.20431.138
158_L162_L0.203481.133
61_R74_R0.193431.077
110_I114_Y0.192261.071
92_R100_Y0.192251.071
79_C94_F0.191641.068
92_R96_L0.18811.048
99_L154_L0.188041.047
96_L100_Y0.187931.047
74_R91_H0.187781.046
64_H85_C0.185721.035
159_Y162_L0.185481.033
160_L167_T0.183741.024
61_R164_N0.183361.021
51_C65_C0.182011.014
91_H95_L0.177710.990
82_L91_H0.175570.978
151_G155_I0.174630.973
54_C85_C0.173640.967
65_C71_C0.173190.965
15_V62_S0.172190.959
4_Y8_I0.171250.954
58_K61_R0.168510.939
71_C85_C0.168180.937
105_C143_S0.166930.930
51_C85_C0.166240.926
15_V59_P0.165550.922
155_I159_Y0.165240.920
87_G91_H0.162320.904
3_S7_T0.162270.904
51_C68_C0.161430.899
3_S100_Y0.161110.897
124_S127_S0.160810.896
48_L60_P0.160240.893
3_S96_L0.158760.884
102_C151_G0.15830.882
3_S6_L0.157810.879
111_L141_I0.156680.873
76_D81_W0.156310.871
91_H167_T0.155270.865
60_P63_H0.154210.859
119_Y123_I0.153540.855
94_F167_T0.153350.854
59_P73_L0.151230.842
165_I172_K0.150810.840
86_I114_Y0.150240.837
106_L147_F0.149490.833
53_T63_H0.148510.827
49_K58_K0.148140.825
93_Y96_L0.147010.819
109_F144_I0.146130.814
74_R88_R0.145640.811
90_N94_F0.144950.807
101_L150_V0.144680.806
75_F80_P0.143670.800
146_F149_F0.14360.800
107_Y111_L0.142360.793
11_D14_Y0.141870.790
130_I133_N0.141080.786
6_L93_Y0.140920.785
76_D94_F0.140380.782
53_T56_I0.139590.778
53_T172_K0.139520.777
7_T93_Y0.13950.777
149_F161_I0.138680.773
91_H160_L0.138360.771
8_I18_S0.137810.768
63_H66_R0.137660.767
42_D46_G0.137280.765
5_F10_I0.136250.759
69_N161_I0.135930.757
81_W150_V0.135550.755
57_I63_H0.13550.755
8_I84_N0.135070.752
137_I141_I0.13410.747
150_V156_F0.133540.744
99_L103_L0.133170.742
12_P87_G0.132620.739
156_F170_R0.131770.734
131_F134_F0.131560.733
125_F130_I0.13120.731
120_I123_I0.130410.726
160_L170_R0.130390.726
98_L154_L0.129710.723
98_L150_V0.129550.722
11_D70_R0.129470.721
118_R122_S0.129210.720
17_R70_R0.128960.718
109_F147_F0.12850.716
106_L110_I0.128380.715
125_F129_W0.12820.714
53_T156_F0.128050.713
58_K80_P0.127470.710
75_F81_W0.127430.710
156_F167_T0.126680.706
110_I113_L0.125540.699
52_S75_F0.125520.699
63_H100_Y0.125080.697
95_L154_L0.124850.695
109_F140_L0.124770.695
168_Y171_I0.123820.690
3_S9_F0.123680.689
97_F149_F0.123360.687
72_V81_W0.123030.685
156_F159_Y0.122720.684
153_L157_Q0.122440.682
153_L167_T0.122310.681
51_C58_K0.1210.674
113_L147_F0.120870.673
49_K63_H0.12040.671
106_L114_Y0.120190.670
61_R166_T0.120040.669
62_S66_R0.118410.660
11_D84_N0.118270.659
46_G60_P0.118090.658
113_L140_L0.117330.654
114_Y118_R0.116790.651
40_P44_E0.116470.649
65_C167_T0.116230.647
116_L140_L0.115890.646
7_T95_L0.115770.645
6_L10_I0.115660.644
47_E164_N0.115220.642
57_I150_V0.115120.641
62_S89_R0.114290.637
77_H80_P0.113710.633
60_P104_Y0.113530.632
105_C154_L0.113470.632
100_Y138_F0.113330.631
13_G89_R0.113280.631
95_L102_C0.112780.628
16_P57_I0.112740.628
10_I89_R0.11250.627
121_P127_S0.112460.626
128_F132_S0.112410.626
105_C126_S0.112360.626
142_I164_N0.112320.626
126_S129_W0.11210.624
137_I161_I0.112030.624
119_Y131_F0.111910.623
164_N171_I0.111910.623
43_D50_Y0.111910.623
102_C154_L0.111410.621
157_Q161_I0.111410.621
149_F170_R0.111130.619
11_D15_V0.111060.619
164_N169_E0.110950.618
7_T12_P0.110690.617
128_F133_N0.11010.613
110_I118_R0.109660.611
140_L144_I0.109640.611
121_P124_S0.10940.609
45_N57_I0.109130.608
101_L164_N0.10830.603
40_P116_L0.108170.603
98_L102_C0.108090.602
145_F149_F0.107310.598
69_N152_F0.107020.596
14_Y17_R0.106890.595
96_L106_L0.106680.594
107_Y113_L0.106540.593
44_E48_L0.10630.592
84_N87_G0.106230.592
43_D47_E0.106210.592
35_Q39_S0.105270.586
108_F143_S0.105060.585
105_C151_G0.104410.582
37_I40_P0.104360.581
106_L155_I0.104260.581
36_S39_S0.10380.578
91_H156_F0.103770.578
150_V171_I0.103710.578
52_S162_L0.103560.577
151_G163_R0.103530.577
152_F160_L0.103320.576
114_Y124_S0.103270.575
85_C90_N0.103230.575
103_L110_I0.102870.573
122_S127_S0.102590.571
127_S132_S0.102530.571
73_L100_Y0.102390.570
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
3j21g0.2931240.935
1dvpA0.603421.30.936
2ayjA0.321817.10.939
3ky9A0.5517120.943
2vrwB0.540211.20.944
1ffyA0.4319.90.945
1wflA0.396680.947
3u5em0.459880.947
3t6pA0.53457.50.948
2db6A0.4087.30.948
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