GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CxxCxxCC - Putative zinc- or iron-chelating domain
Pfam: PF03692 (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. )
Length: 85
Sequences: 1767
Seq/Len: 20.79
HH_delta: 0.865 (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
59_Y62_R1.095784.406
58_I61_V0.64252.584
48_F58_I0.594512.391
6_G49_L0.517552.081
4_Q55_R0.447051.798
12_Y65_I0.444081.786
27_H61_V0.427091.717
17_T22_E0.40681.636
50_D57_S0.3961.592
24_I58_I0.391581.575
64_L68_T0.367431.477
45_P49_L0.352731.418
30_I35_F0.348241.400
66_C69_Y0.346371.393
58_I66_C0.339851.367
24_I61_V0.336361.353
33_E37_E0.325311.308
7_A10_R0.3241.303
15_P65_I0.305091.227
27_H60_E0.304851.226
20_E23_R0.300241.207
17_T20_E0.29821.199
66_C70_P0.291981.174
37_E41_R0.28731.155
14_V66_C0.280851.129
14_V25_A0.272161.094
28_L34_F0.267441.075
31_E34_F0.262581.056
29_G35_F0.258281.039
50_D55_R0.256011.029
10_R45_P0.249741.004
33_E36_L0.24850.999
51_E67_R0.248210.998
34_F38_R0.245510.987
67_R70_P0.245030.985
17_T65_I0.244470.983
32_E40_A0.242330.974
29_G34_F0.235830.948
27_H31_E0.234460.943
58_I67_R0.23390.941
34_F37_E0.233340.938
30_I39_Y0.232780.936
35_F38_R0.228690.920
58_I63_P0.225160.905
13_R68_T0.224780.904
30_I34_F0.221480.891
16_L20_E0.219410.882
13_R44_G0.21380.860
12_Y15_P0.210960.848
35_F40_A0.210890.848
25_A61_V0.210830.848
25_A66_C0.207360.834
51_E57_S0.207060.833
7_A66_C0.203490.818
36_L40_A0.198940.800
5_C59_Y0.198780.799
43_D51_E0.196480.790
60_E67_R0.194410.782
31_E35_F0.194110.781
35_F39_Y0.193650.779
63_P67_R0.192250.773
14_V47_P0.18880.759
3_R55_R0.188670.759
2_C46_C0.187470.754
26_E51_E0.18570.747
21_I70_P0.185440.746
20_E70_P0.185090.744
26_E43_D0.184990.744
21_I25_A0.18280.735
17_T71_F0.181270.729
26_E66_C0.180140.724
23_R70_P0.179980.724
18_P21_I0.17960.722
52_D60_E0.178970.720
23_R61_V0.178790.719
29_G32_E0.177910.715
17_T64_L0.177410.713
14_V58_I0.175180.704
24_I28_L0.172790.695
62_R67_R0.171930.691
10_R13_R0.17060.686
25_A28_L0.169070.680
63_P66_C0.166310.669
19_E70_P0.165420.665
65_I69_Y0.164590.662
47_P66_C0.163930.659
2_C6_G0.16310.656
23_R48_F0.159760.642
12_Y68_T0.159070.640
29_G33_E0.158610.638
6_G59_Y0.157450.633
67_R71_F0.156880.631
14_V49_L0.155450.625
10_R37_E0.155140.624
64_L69_Y0.154890.623
30_I33_E0.154690.622
18_P50_D0.154130.620
49_L55_R0.153020.615
38_R60_E0.152710.614
15_P45_P0.152680.614
33_E38_R0.152240.612
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
1h98A0.447128.20.865
1bc6A0.4353280.865
3bvrA0.858826.20.867
3c25A0.870614.10.882
1jb0C0.376512.10.885
1gteA0.435311.30.886
3i9v10.91765.80.899
1rgvA0.42355.60.9
1m4fA0.12944.80.903
2fgoA0.44714.50.904
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.0278 seconds.