GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1572 - Protein of unknown function (DUF1572)
Pfam: PF07609 (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: CL0310
Length: 163
Sequences: 3427
Seq/Len: 21.02
HH_delta: 0.319 (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
29_S32_Q0.98954.247
107_T110_D0.724533.110
22_E93_E0.679372.916
44_I142_I0.652232.800
84_S87_E0.640342.748
110_D113_K0.621422.667
15_E100_F0.596132.559
34_W45_A0.531312.281
18_K135_Y0.493182.117
33_L85_K0.45771.965
97_Q101_D0.427631.835
15_E104_E0.402121.726
50_H138_H0.389771.673
55_M96_W0.388021.665
32_Q35_W0.366331.572
23_K26_A0.361431.551
56_N91_R0.360691.548
25_L48_V0.358251.538
86_E90_A0.353111.516
26_A89_L0.34211.468
133_A136_S0.331481.423
50_H134_H0.330791.420
112_L125_L0.325361.397
21_G139_V0.325141.396
47_L141_Q0.320711.377
93_E97_Q0.31631.358
90_A93_E0.313591.346
30_D85_K0.313011.344
42_N46_N0.30971.329
55_M99_L0.307381.319
35_W148_L0.306441.315
28_L44_I0.304051.305
27_Q146_R0.303741.304
30_D84_S0.30281.300
28_L32_Q0.302211.297
22_E89_L0.29751.277
100_F104_E0.296291.272
103_L128_I0.289791.244
52_S91_R0.289091.241
89_L93_E0.284881.223
136_S140_G0.284781.222
17_Y139_V0.281731.209
90_A94_K0.280811.205
21_G92_W0.280231.203
116_Y121_E0.279951.202
134_H138_H0.277411.191
114_T121_E0.273561.174
46_N49_L0.271861.167
30_D34_W0.270991.163
36_R46_N0.270741.162
36_R40_E0.267751.149
88_L92_W0.264491.135
123_S126_E0.255661.097
33_L45_A0.255631.097
96_W100_F0.253191.087
144_Y147_K0.252851.085
94_K97_Q0.251951.081
49_L88_L0.251351.079
92_W96_W0.250151.074
18_K55_M0.247861.064
24_A146_R0.247771.063
92_W135_Y0.245461.054
43_S46_N0.244781.051
49_L53_G0.244291.049
130_R133_A0.240721.033
102_A105_S0.240581.033
87_E90_A0.239231.027
21_G48_V0.236381.015
49_L83_V0.235811.012
58_R62_F0.235421.010
21_G135_Y0.234371.006
47_L142_I0.232760.999
56_N95_G0.231370.993
59_W130_R0.229530.985
51_L135_Y0.228640.981
15_E19_R0.227920.978
122_H126_E0.226770.973
64_T98_V0.225120.966
109_E112_L0.224490.964
14_F99_L0.224440.963
91_R94_K0.219190.941
113_K124_V0.218890.940
51_L92_W0.218220.937
85_K89_L0.217930.935
98_V102_A0.214310.920
114_T123_S0.214090.919
17_Y136_S0.21250.912
45_A49_L0.211930.910
54_N131_Q0.210830.905
42_N137_Y0.209880.901
29_S33_L0.207250.890
42_N47_L0.207160.889
19_R23_K0.206270.885
18_K92_W0.205510.882
137_Y143_V0.203920.875
45_A88_L0.203280.873
18_K22_E0.20310.872
96_W99_L0.202350.869
141_Q147_K0.200790.862
20_L23_K0.200760.862
37_P148_L0.200460.860
94_K98_V0.197330.847
99_L102_A0.196840.845
87_E91_R0.195920.841
104_E108_E0.194090.833
42_N140_G0.194060.833
16_Y19_R0.19350.831
14_F132_L0.192920.828
30_D86_E0.192740.827
126_E130_R0.192390.826
20_L139_V0.188630.810
36_R43_S0.187890.806
52_S92_W0.187150.803
52_S95_G0.18690.802
99_L131_Q0.185860.798
24_A139_V0.185070.794
31_E35_W0.184720.793
32_Q149_L0.182790.785
111_L128_I0.182510.783
145_L148_L0.181570.779
17_Y132_L0.179770.772
31_E34_W0.179260.769
17_Y135_Y0.17920.769
25_L28_L0.179090.769
143_V147_K0.177040.760
52_S88_L0.176960.760
56_N76_A0.176360.757
108_E112_L0.175590.754
90_A97_Q0.175480.753
37_P43_S0.174970.751
44_I146_R0.173130.743
144_Y148_L0.173130.743
17_Y21_G0.17230.740
39_E145_L0.172280.739
61_D65_T0.172170.739
26_A86_E0.170890.734
97_Q100_F0.170080.730
56_N98_V0.169790.729
86_E89_L0.169280.727
101_D105_S0.169140.726
91_R95_G0.168850.725
65_T90_A0.168540.723
28_L33_L0.168360.723
90_A101_D0.167380.718
17_Y20_L0.166730.716
66_D113_K0.165530.710
126_E133_A0.164760.707
76_A79_E0.163650.702
54_N130_R0.161640.694
139_V146_R0.161350.693
32_Q37_P0.160720.690
126_E131_Q0.160640.690
23_K104_E0.159850.686
24_A27_Q0.159590.685
18_K96_W0.158810.682
53_G88_L0.157770.677
45_A85_K0.154920.665
112_L123_S0.154890.665
137_Y140_G0.154670.664
35_W149_L0.152730.656
17_Y133_A0.152370.654
90_A109_E0.151650.651
20_L24_A0.151490.650
48_V142_I0.150660.647
63_L127_A0.150560.646
55_M59_W0.150190.645
61_D98_V0.15010.644
72_R76_A0.150020.644
21_G130_R0.149980.644
18_K28_L0.149780.643
69_K94_K0.149620.642
63_L102_A0.149140.640
49_L84_S0.149120.640
14_F17_Y0.1490.640
98_V101_D0.148220.636
42_N144_Y0.147950.635
37_P147_K0.146240.628
102_A106_L0.146180.627
127_A130_R0.146020.627
103_L113_K0.145660.625
39_E148_L0.145590.625
24_A47_L0.145190.623
83_V87_E0.145050.623
33_L44_I0.144650.621
42_N147_K0.144630.621
25_L33_L0.144290.619
53_G78_F0.143990.618
95_G99_L0.143650.617
22_E92_W0.143620.616
109_E113_K0.143590.616
18_K21_G0.143220.615
62_F133_A0.1430.614
32_Q145_L0.142880.613
33_L48_V0.142290.611
139_V143_V0.142190.610
58_R119_G0.141980.609
96_W135_Y0.14170.608
74_R77_E0.141220.606
117_I122_H0.139820.600
72_R77_E0.139070.597
55_M92_W0.138960.596
123_S129_N0.138940.596
46_N63_L0.138140.593
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
3gorA0.944899.80.319
3e4xA0.944899.80.319
3dkaA0.932599.80.322
3di5A0.957199.80.328
2rd9A0.993999.80.357
2p1aA0.920299.80.363
1rxqA0.932599.70.379
2hkvA0.883499.70.398
2f22A0.877399.70.411
2qe9A0.950999.70.415

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