GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Mrr_N - Mrr N-terminal domain
Pfam: PF14338 (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: 92
Sequences: 2205
Seq/Len: 23.97
HH_delta: 0.508 (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
71_E79_R0.828332.872
22_R61_R0.574451.992
22_R50_Y0.560091.942
28_R32_R0.521111.807
87_A90_E0.475541.649
81_T84_G0.475321.648
82_E85_R0.471581.635
61_R78_W0.458821.591
12_A25_I0.444541.541
65_K72_R0.434641.507
69_L87_A0.434291.506
18_G24_E0.42391.470
20_A28_R0.420941.459
15_D20_A0.419021.453
19_S79_R0.418561.451
72_R76_G0.414961.439
14_K85_R0.404111.401
10_L80_I0.394031.366
82_E86_K0.392261.360
47_G51_S0.380721.320
13_L70_I0.373121.294
6_M63_Y0.369581.281
46_S51_S0.352661.223
62_S66_K0.349211.211
15_D32_R0.346351.201
15_D18_G0.327391.135
9_I60_A0.326491.132
11_E32_R0.324471.125
11_E88_L0.31541.094
6_M67_A0.312751.084
8_P29_V0.302231.048
21_S24_E0.302191.048
64_L69_L0.301041.044
83_K86_K0.299351.038
21_S77_I0.297111.030
63_Y67_A0.294641.022
85_R89_A0.285950.991
6_M60_A0.284740.987
14_K80_I0.276630.959
28_R31_E0.274710.952
23_K27_E0.272270.944
24_E27_E0.271050.940
14_K88_L0.270480.938
9_I25_I0.269520.934
73_P79_R0.269280.934
83_K87_A0.269040.933
15_D28_R0.267870.929
19_S77_I0.267740.928
11_E14_K0.258310.896
21_S76_G0.25690.891
47_G60_A0.255980.888
8_P48_Q0.25280.877
71_E81_T0.252370.875
29_V36_S0.25160.872
50_Y61_R0.251390.872
8_P33_F0.250850.870
12_A20_A0.249680.866
9_I49_G0.242740.842
62_S65_K0.241330.837
26_Y46_S0.2390.829
5_L51_S0.238820.828
64_L88_L0.238020.825
10_L88_L0.237280.823
66_K71_E0.237220.822
86_K89_A0.234990.815
13_L25_I0.234620.813
26_Y43_R0.234230.812
79_R85_R0.233620.810
19_S73_P0.227290.788
45_P75_R0.226650.786
82_E89_A0.225790.783
23_K75_R0.224710.779
13_L19_S0.222950.773
43_R46_S0.220210.764
21_S75_R0.219450.761
30_A43_R0.218650.758
7_P48_Q0.216590.751
31_E35_L0.21650.751
22_R78_W0.216160.749
86_K90_E0.215880.748
26_Y45_P0.214980.745
79_R82_E0.213670.741
20_A25_I0.213540.740
68_G83_K0.21320.739
5_L29_V0.210240.729
7_P43_R0.209240.725
68_G82_E0.207930.721
48_Q60_A0.205780.713
72_R78_W0.204540.709
29_V33_F0.203510.706
20_A24_E0.201740.699
20_A31_E0.201110.697
44_L51_S0.198350.688
27_E30_A0.197450.685
80_I85_R0.192050.666
5_L48_Q0.191390.664
35_L74_K0.188270.653
27_E51_S0.187650.651
23_K50_Y0.185690.644
5_L46_S0.180970.627
7_P11_E0.180750.627
44_L67_A0.180720.627
31_E90_E0.179910.624
66_K74_K0.179230.621
13_L22_R0.179070.621
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
3elkA0.815298.70.508
3hhhA0.815298.70.508
3l9fA0.83798.70.509
4esfA0.815298.70.51
4esbA0.815298.70.513
3f8bA0.83798.70.515
2zfwA0.826198.70.517
2co5A0.83798.70.519
2e1nA0.826198.60.525
3ri2A0.793598.70.525
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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