GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Peptidase_U32 - Peptidase family U32
Pfam: PF01136 (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: 233
Sequences: 2245
Seq/Len: 9.64
HH_delta: 0.916 (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
193_R197_D0.588453.654
41_A61_A0.575413.573
27_L61_A0.490083.043
53_A64_I0.405232.516
4_L26_L0.390692.426
57_K84_G0.3652.266
41_A45_L0.353612.196
79_A171_D0.347122.155
38_K62_S0.346492.151
160_D211_M0.343152.131
158_L161_E0.341032.118
79_A87_L0.33632.088
76_K167_D0.327082.031
63_R86_P0.32141.996
190_K194_E0.317461.971
165_L173_F0.314831.955
19_I37_L0.313521.947
161_E224_T0.308271.914
55_F59_L0.304831.893
76_K80_E0.299181.858
162_L199_P0.290861.806
54_R58_E0.289121.795
57_K85_V0.285181.771
166_K196_L0.283591.761
92_H192_Y0.282591.755
89_V165_L0.277091.721
213_E216_Q0.276631.718
161_E228_F0.268761.669
28_E32_E0.26651.655
30_L39_I0.256271.591
103_C119_C0.252951.571
76_K164_E0.252661.569
208_E212_D0.252041.565
164_E228_F0.252041.565
89_V170_V0.251551.562
8_L30_L0.250931.558
89_V227_Y0.250761.557
163_P167_D0.250341.554
12_K36_D0.248981.546
159_L195_A0.246411.530
166_K173_F0.244561.519
18_G40_I0.243741.513
72_L168_A0.241891.502
158_L227_Y0.238291.480
103_C123_C0.23551.462
54_R57_K0.230941.434
224_T228_F0.228171.417
66_L75_I0.228021.416
11_L16_V0.223941.391
10_K14_L0.223241.386
41_A56_L0.222661.383
157_C160_D0.222511.382
187_E217_I0.220531.369
50_S81_N0.217841.353
47_V52_S0.217771.352
24_P56_L0.216331.343
54_R81_N0.211551.314
75_I89_V0.210771.309
51_E54_R0.209381.300
63_R172_S0.208011.292
27_L41_A0.203081.261
69_E93_G0.2031.260
166_K199_P0.201481.251
88_E174_R0.200711.246
9_D34_G0.200351.244
66_L89_V0.197951.229
12_K37_L0.197111.224
161_E164_E0.19521.212
21_V39_I0.194531.208
39_I61_A0.192951.198
166_K200_E0.191481.189
5_E32_E0.191121.187
73_E76_K0.190551.183
29_L33_L0.190351.182
47_V56_L0.190231.181
159_L191_A0.189861.179
30_L34_G0.189731.178
95_L223_T0.189651.178
77_E81_N0.188461.170
4_L8_L0.187531.164
68_P90_I0.185941.155
75_I168_A0.185321.151
72_L158_L0.185091.149
129_L150_I0.185031.149
69_E100_S0.184411.145
10_K13_E0.184151.143
70_L74_E0.18361.140
71_S74_E0.182071.131
70_L78_I0.176651.097
47_V53_A0.176571.096
119_C123_C0.176071.093
160_D208_E0.175841.092
32_E54_R0.175091.087
22_S42_D0.174541.084
11_L14_L0.17421.082
21_V26_L0.173871.080
91_V175_I0.171931.068
163_P199_P0.170831.061
19_I30_L0.170061.056
50_S54_R0.169241.051
19_I39_I0.168741.048
53_A85_V0.168721.048
3_E6_K0.166221.032
86_P171_D0.16611.031
162_L196_L0.165551.028
15_G37_L0.164021.018
122_P127_Y0.163991.018
191_A210_L0.163611.016
38_K86_P0.163541.015
157_C192_Y0.163461.015
79_A170_V0.163391.015
42_D174_R0.161771.004
9_D33_L0.160880.999
7_Y11_L0.160190.995
96_P174_R0.158010.981
68_P174_R0.156990.975
158_L224_T0.156610.972
133_D139_F0.154710.961
198_N210_L0.154350.958
12_K34_G0.152770.949
9_D13_E0.15250.947
212_D216_Q0.151310.940
72_L227_Y0.14960.929
66_L78_I0.149050.925
34_G37_L0.1490.925
195_A198_N0.148670.923
21_V27_L0.148270.921
191_A214_L0.148060.919
45_L56_L0.145250.902
92_H155_D0.144930.900
68_P96_P0.144860.899
57_K82_S0.14450.897
53_A78_I0.142970.888
173_F200_E0.142660.886
175_I189_V0.142620.886
65_T174_R0.142480.885
43_Y67_S0.14230.884
46_N67_S0.142180.883
152_N223_T0.141810.881
158_L228_F0.141090.876
102_Y147_G0.140820.874
105_I122_P0.140010.869
24_P55_F0.139680.867
111_G122_P0.138870.862
30_L37_L0.138860.862
5_E29_L0.13770.855
156_L223_T0.137420.853
41_A47_V0.13650.848
195_A210_L0.136220.846
94_N155_D0.135940.844
131_D134_G0.135790.843
15_G36_D0.135620.842
76_K168_A0.134430.835
6_K9_D0.134190.833
139_F152_N0.133880.831
101_E174_R0.132570.823
96_P177_G0.132340.822
58_E81_N0.132310.822
28_E31_K0.131840.819
185_I189_V0.131610.817
94_N121_K0.131540.817
99_V112_R0.130960.813
112_R120_S0.130440.810
82_S85_V0.130220.809
44_S115_N0.129690.805
163_P166_K0.129620.805
110_G120_S0.12950.804
66_L87_L0.129180.802
77_E80_E0.128790.800
8_L26_L0.128630.799
219_N222_L0.128170.796
31_K58_E0.128160.796
106_S117_G0.128070.795
96_P149_H0.127590.792
193_R196_L0.127210.790
42_D101_E0.126920.788
157_C222_L0.126520.786
72_L164_E0.126440.785
54_R84_G0.12640.785
9_D12_K0.126380.785
19_I26_L0.126350.785
92_H188_I0.126220.784
167_D199_P0.126160.783
73_E164_E0.125930.782
189_V215_K0.125430.779
43_Y180_E0.125320.778
112_R123_C0.12510.777
46_N158_L0.125060.777
57_K80_E0.124730.774
155_D180_E0.12430.772
20_L96_P0.124220.771
100_S152_N0.123960.770
18_G95_L0.123920.769
194_E198_N0.123730.768
9_D58_E0.123720.768
93_G100_S0.123560.767
177_G180_E0.122840.763
42_D96_P0.122560.761
33_L36_D0.122490.761
109_L122_P0.121950.757
174_R177_G0.121820.756
65_T88_E0.121620.755
87_L170_V0.121260.753
199_P203_K0.120060.745
28_E58_E0.119850.744
53_A87_L0.119780.744
92_H157_C0.119720.743
75_I78_I0.119090.739
53_A66_L0.119070.739
186_E190_K0.118770.737
131_D135_K0.118590.736
42_D178_R0.118060.733
194_E210_L0.118040.733
49_N225_G0.117910.732
91_V173_F0.117790.731
48_F67_S0.117690.731
20_L65_T0.117570.730
201_S209_E0.116880.726
157_C211_M0.116860.726
50_S77_E0.116820.725
171_D200_E0.116550.724
175_I185_I0.116410.723
46_N102_Y0.116310.722
91_V165_L0.116070.721
22_S41_A0.116010.720
130_L136_G0.115960.720
44_S68_P0.115930.720
9_D198_N0.11590.720
13_E36_D0.115850.719
169_G173_F0.115780.719
209_E212_D0.115390.716
90_I101_E0.115240.716
9_D73_E0.115020.714
143_E147_G0.114830.713
32_E201_S0.114680.712
128_F133_D0.114630.712
102_Y108_Y0.114520.711
127_Y178_R0.114370.710
68_P178_R0.11430.710
105_I127_Y0.114240.709
146_C149_H0.114210.709
5_E26_L0.114160.709
164_E167_D0.114150.709
25_G131_D0.114070.708
101_E148_T0.114060.708
12_K15_G0.113730.706
43_Y174_R0.113650.706
92_H175_I0.113530.705
198_N201_S0.113530.705
21_V25_G0.113190.703
211_M215_K0.113010.702
79_A82_S0.112890.701
44_S96_P0.112170.696
50_S87_L0.111950.695
217_I221_G0.111550.693
32_E36_D0.111530.693
155_D178_R0.111450.692
155_D220_R0.111410.692
158_L165_L0.111410.692
3_E7_Y0.111330.691
64_I82_S0.111230.691
117_G177_G0.111160.690
50_S82_S0.110960.689
5_E34_G0.110940.689
9_D51_E0.110940.689
46_N123_C0.110870.688
52_S56_L0.11080.688
92_H180_E0.110390.685
43_Y96_P0.110310.685
92_H176_D0.110280.685
96_P101_E0.110270.685
183_E187_E0.109810.682
209_E213_E0.109580.680
18_G92_H0.109540.680
81_N200_E0.109480.680
101_E106_S0.109410.679
191_A213_E0.109240.678
31_K62_S0.108970.677
166_K213_E0.108850.676
167_D202_G0.108850.676
144_D149_H0.108790.676
79_A84_G0.108580.674
89_V173_F0.108030.671
68_P176_D0.107940.670
97_M107_S0.107840.670
174_R178_R0.107470.667
18_G37_L0.107050.665
215_K221_G0.106690.662
5_E9_D0.106620.662
20_L42_D0.106350.660
42_D177_G0.106290.660
77_E201_S0.106010.658
40_I174_R0.105840.657
31_K39_I0.105740.657
117_G178_R0.105540.655
130_L138_P0.105530.655
42_D106_S0.10550.655
167_D209_E0.105330.654
187_E191_A0.105250.654
105_I219_N0.10510.653
67_S70_L0.105080.652
94_N178_R0.105060.652
90_I174_R0.105020.652
117_G124_R0.104730.650
89_V158_L0.104720.650
201_S208_E0.104320.648
23_N177_G0.104180.647
94_N184_Y0.104150.647
118_K122_P0.103990.646
70_L75_I0.10370.644
191_A217_I0.103420.642
64_I85_V0.103350.642
95_L156_L0.103320.642
97_M153_S0.103240.641
58_E77_E0.103220.641
68_P177_G0.10320.641
154_K221_G0.102990.639
194_E213_E0.102940.639
8_L29_L0.102710.638
96_P176_D0.102510.637
48_F102_Y0.10250.636
42_D90_I0.102220.635
160_D224_T0.10210.634
81_N129_L0.101970.633
125_K149_H0.101940.633
41_A46_N0.101920.633
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
1x7fA0.92788.90.916
3inpA0.772586.60.919
3ovpA0.802686.40.92
1jvnA0.373475.80.928
4drsA0.540872.90.93
2e28A0.360570.90.93
2ekcA0.815570.70.931
1e0tA0.356269.10.931
3qjaA0.781168.20.932
2b7nA0.339167.70.932
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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