GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Reprolysin_3 - Metallo-peptidase family M12B Reprolysin-like
Pfam: PF13582 (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: CL0126
Length: 124
Sequences: 2011
Seq/Len: 16.22
HH_delta: -0.029 (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
113_H117_H0.473472.830
51_Y94_Y0.406922.432
113_H123_H0.402522.406
66_L115_I0.365532.185
117_H123_H0.360032.152
114_E117_H0.350182.093
116_G121_L0.328591.964
12_N22_R0.312661.869
74_D98_Y0.30021.794
11_A23_L0.298491.784
66_L118_N0.297071.775
114_E123_H0.293251.753
8_V11_A0.266561.593
15_Y112_A0.252491.509
50_F67_V0.250311.496
113_H116_G0.240761.439
42_D45_S0.240121.435
68_H95_G0.236191.412
68_H111_F0.234581.402
8_V12_N0.234341.401
50_F69_L0.230941.380
68_H97_N0.230251.376
50_F54_F0.224341.341
99_D110_T0.214091.280
82_A95_G0.212431.270
29_I61_Q0.208921.249
54_F64_A0.205711.229
45_S48_D0.205561.229
81_I84_I0.204721.224
8_V25_L0.201321.203
82_A114_E0.200811.200
33_Y36_D0.200011.195
11_A111_F0.199161.190
53_S64_A0.198651.187
87_V93_G0.198181.184
14_A112_A0.198011.183
79_G110_T0.197811.182
70_F111_F0.197731.182
7_L107_G0.196041.172
45_S52_A0.19461.163
39_S46_T0.193461.156
80_G114_E0.192371.150
50_F53_S0.191651.145
3_Y6_A0.191221.143
4_I70_F0.18971.134
78_A84_I0.18971.134
7_L10_R0.185021.106
57_R61_Q0.183221.095
4_I28_I0.182721.092
84_I122_N0.180771.080
3_Y99_D0.180731.080
76_N79_G0.179311.072
4_I8_V0.178391.066
5_N9_N0.178081.064
25_L29_I0.177841.063
26_V64_A0.177681.062
52_A56_A0.176641.056
100_S110_T0.176031.052
82_A94_Y0.175341.048
26_V65_D0.174021.040
50_F88_C0.173961.040
48_D52_A0.173371.036
31_T37_P0.172331.030
28_I88_C0.170781.021
83_Y92_S0.169471.013
33_Y56_A0.169281.012
14_A108_V0.16881.009
7_L70_F0.168421.007
81_I96_V0.167971.004
46_T49_N0.165130.987
78_A81_I0.164810.985
43_S81_I0.16340.977
112_A124_D0.159740.955
99_D107_G0.159470.953
64_A67_V0.15940.953
118_N121_L0.158490.947
45_S49_N0.154440.923
51_Y55_D0.154050.921
10_R14_A0.153590.918
41_S44_N0.152340.910
14_A109_D0.151950.908
47_L53_S0.15180.907
120_G123_H0.150790.901
83_Y86_G0.150470.899
39_S42_D0.150320.898
108_V112_A0.150310.898
32_D90_N0.149250.892
51_Y54_F0.148210.886
82_A118_N0.147770.883
118_N124_D0.14750.882
56_A63_G0.146290.874
36_D39_S0.145940.872
8_V23_L0.145330.869
10_R108_V0.144630.864
97_N111_F0.144380.863
82_A88_C0.143860.860
10_R109_D0.143440.857
81_I94_Y0.142840.854
44_N89_S0.142830.854
3_Y7_L0.141650.847
71_T99_D0.140920.842
88_C124_D0.140540.840
52_A57_R0.140250.838
9_N13_Q0.13970.835
66_L87_V0.139570.834
89_S122_N0.139320.833
6_A26_V0.138820.830
44_N48_D0.138670.829
18_N21_I0.137590.822
21_I119_L0.136860.818
33_Y59_R0.135920.812
35_D41_S0.13580.812
85_G88_C0.135320.809
11_A102_P0.134990.807
47_L50_F0.134690.805
65_D68_H0.13390.800
105_D109_D0.13330.797
60_D63_G0.132010.789
71_T78_A0.131960.789
86_G92_S0.131840.788
27_G62_Y0.131830.788
25_L65_D0.130720.781
45_S91_N0.130180.778
120_G124_D0.129930.777
57_R63_G0.129590.775
40_S45_S0.129150.772
35_D43_S0.128680.769
7_L111_F0.128650.769
10_R13_Q0.126430.756
3_Y10_R0.12630.755
35_D54_F0.126070.753
12_N66_L0.125830.752
106_S111_F0.125790.752
86_G90_N0.125330.749
12_N16_E0.12490.746
29_I32_D0.12490.746
46_T50_F0.124680.745
12_N23_L0.123730.739
89_S92_S0.123140.736
23_L115_I0.12240.732
29_I68_H0.122390.731
7_L108_V0.122370.731
38_S41_S0.122260.731
32_D35_D0.121760.728
5_N16_E0.121640.727
43_S47_L0.121280.725
52_A55_D0.12120.724
68_H118_N0.121180.724
36_D57_R0.120980.723
6_A60_D0.120890.723
116_G123_H0.120610.721
34_S76_N0.120550.720
39_S69_L0.11930.713
65_D119_L0.119270.713
40_S49_N0.119180.712
16_E83_Y0.118640.709
75_L87_V0.116980.699
53_S88_C0.116540.697
5_N24_R0.116130.694
19_S121_L0.116060.694
99_D108_V0.115780.692
15_Y105_D0.115510.690
5_N110_T0.11510.688
80_G117_H0.114530.685
56_A59_R0.114490.684
34_S67_V0.114110.682
83_Y120_G0.113930.681
106_S110_T0.113680.679
86_G118_N0.11320.677
72_G78_A0.112850.674
42_D57_R0.112710.674
83_Y95_G0.112550.673
5_N28_I0.11240.672
30_Y53_S0.11240.672
34_S44_N0.111090.664
96_V110_T0.110110.658
115_I118_N0.110050.658
59_R111_F0.110040.658
18_N23_L0.109790.656
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
2dw0A0.991999.9-0.029
2eroA0.991999.9-0.026
2e3xA0.991999.9-0.025
3k7lA0.991999.9-0.023
3k7nA0.991999.9-0.021
1atlA0.991999.9-0.01
1budA0.991999.9-0.007
2w15A0.991999.9-0.006
1kufA0.991999.9-0.004
1yp1A0.991999.90.002

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