GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Hydant_A_N - Hydantoinaseoxoprolinase N-terminal region
Pfam: PF05378 (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: CL0108
Length: 176
Sequences: 1653
Seq/Len: 9.39
HH_delta: 0.843 (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
155_L168_V0.904384.326
133_E167_R0.768913.678
119_G127_V0.699373.345
137_R174_E0.68813.292
122_D126_E0.64083.065
85_G118_D0.602862.884
136_V168_V0.581912.784
80_G143_L0.566232.709
118_D135_E0.556462.662
167_R170_E0.52552.514
30_T66_V0.515552.466
84_T119_G0.48332.312
169_A173_R0.468272.240
88_G116_E0.46732.235
78_R112_E0.457842.190
133_E171_I0.452992.167
140_L172_I0.44942.150
137_R175_E0.447332.140
80_G115_F0.442082.115
132_D135_E0.438092.096
141_R145_D0.433392.073
113_R146_K0.420882.013
141_R175_E0.411581.969
122_D128_I0.409051.957
13_A42_A0.398271.905
121_I127_V0.390651.869
41_E45_A0.365341.748
137_R171_I0.353061.689
134_D137_R0.351081.679
144_K149_E0.341071.632
118_D129_E0.33961.625
113_R148_V0.327541.567
153_V172_I0.322881.545
170_E174_E0.319081.526
141_R144_K0.314091.502
127_V130_P0.313041.497
167_R171_I0.309411.480
162_P166_Q0.305871.463
68_T73_E0.304361.456
77_A149_E0.303241.451
151_V172_I0.30011.436
33_D37_E0.296591.419
144_K175_E0.296571.419
18_E21_G0.295891.415
13_A26_A0.281051.344
153_V168_V0.278531.332
121_I164_H0.275771.319
26_A45_A0.274411.313
12_D27_K0.273291.307
135_E139_A0.270121.292
110_P113_R0.264111.263
121_I161_N0.262341.255
82_I117_V0.258341.236
78_R149_E0.253611.213
34_D37_E0.252171.206
80_G139_A0.247361.183
133_E137_R0.246731.180
118_D132_D0.245371.174
131_L164_H0.243781.166
142_E146_K0.24291.162
81_L154_S0.241791.157
70_A75_K0.240241.149
37_E41_E0.239911.148
163_E167_R0.238051.139
2_I43_L0.22721.087
137_R141_R0.226311.083
140_L168_V0.226061.081
166_Q170_E0.2261.081
38_G42_A0.225841.080
170_E173_R0.221831.061
28_V41_E0.219161.048
131_L168_V0.217331.040
80_G151_V0.216751.037
163_E166_Q0.211381.011
127_V164_H0.204840.980
31_T38_G0.204690.979
139_A172_I0.204590.979
6_V35_P0.20280.970
131_L167_R0.20170.965
83_T90_V0.201560.964
92_E114_V0.199480.954
35_P66_V0.199120.953
136_V139_A0.197460.945
142_E145_D0.195850.937
143_L151_V0.194630.931
155_L164_H0.194440.930
5_D8_G0.194050.928
17_D24_A0.1940.928
1_R16_L0.19310.924
17_D22_V0.192560.921
79_V150_A0.192080.919
30_T38_G0.189690.907
26_A42_A0.189310.906
7_G12_D0.188550.902
115_F143_L0.186870.894
85_G116_E0.186790.894
117_V136_V0.186680.893
115_F139_A0.183580.878
92_E106_D0.183580.878
78_R113_R0.182990.875
96_Q101_L0.182190.872
171_I174_E0.181810.870
54_P57_I0.180960.866
28_V42_A0.180240.862
134_D138_E0.180050.861
94_G99_P0.178030.852
171_I175_E0.177520.849
66_V96_Q0.177250.848
131_L136_V0.177220.848
136_V140_L0.177070.847
153_V169_A0.176110.842
1_R59_R0.175360.839
7_G11_T0.173170.828
56_D59_R0.172820.827
15_L24_A0.171860.822
93_I96_Q0.171290.819
5_D9_T0.168690.807
143_L146_K0.168290.805
47_L54_P0.167950.803
133_E170_E0.167650.802
84_T120_R0.167090.799
30_T35_P0.16650.796
29_P76_G0.16520.790
145_D175_E0.164090.785
13_A46_L0.163740.783
166_Q169_A0.163670.783
79_V152_A0.163470.782
94_G98_R0.163190.781
2_I57_I0.162520.777
90_V94_G0.161460.772
40_L43_L0.160580.768
84_T127_V0.15990.765
53_D56_D0.159480.763
119_G164_H0.158310.757
9_T12_D0.157590.754
172_I175_E0.156350.748
65_T69_N0.154330.738
1_R58_D0.153230.733
138_E141_R0.152490.729
96_Q99_P0.152210.728
64_T68_T0.152030.727
60_V147_G0.151740.726
115_F142_E0.151220.723
98_R101_L0.150890.722
157_F160_R0.150770.721
120_R156_L0.147980.708
1_R15_L0.147960.708
158_S162_P0.14780.707
82_I143_L0.147660.706
15_L50_S0.147180.704
62_H77_A0.147150.704
88_G111_R0.146810.702
30_T172_I0.146770.702
134_D141_R0.145830.698
68_T72_L0.145420.696
81_L114_V0.144830.693
5_D12_D0.14480.693
4_I97_W0.14380.688
89_D111_R0.142520.682
54_P79_V0.14240.681
123_A159_Y0.141990.679
131_L155_L0.141380.676
67_A73_E0.14130.676
89_D116_E0.141280.676
6_V62_H0.141060.675
53_D57_I0.140150.670
139_A143_L0.139510.667
86_G120_R0.139180.666
8_G11_T0.139160.666
4_I60_V0.138480.662
143_L148_V0.138090.661
16_L23_V0.13790.660
40_L44_D0.137360.657
6_V97_W0.136780.654
42_A46_L0.136430.653
78_R148_V0.13560.649
32_P66_V0.134810.645
140_L175_E0.13430.642
81_L152_A0.134170.642
82_I139_A0.133790.640
66_V99_P0.133490.639
83_T156_L0.132970.636
85_G135_E0.132280.633
130_P167_R0.132170.632
61_R72_L0.132110.632
148_V152_A0.131850.631
83_T155_L0.131350.628
8_G12_D0.130790.626
84_T168_V0.130370.624
116_E120_R0.129880.621
45_A49_E0.129470.619
138_E142_E0.129220.618
8_G69_N0.128720.616
82_I151_V0.128680.616
136_V171_I0.128550.615
15_L43_L0.128510.615
46_L160_R0.126760.606
3_G16_L0.12620.604
30_T96_Q0.126180.604
5_D11_T0.12590.602
4_I11_T0.125380.600
119_G129_E0.124960.598
139_A142_E0.124690.596
84_T164_H0.124030.593
43_L47_L0.12340.590
51_G166_Q0.123230.589
121_I163_E0.123020.588
112_E115_F0.122940.588
62_H95_R0.122540.586
145_D173_R0.122240.585
67_A72_L0.122170.584
135_E167_R0.122070.584
18_E58_D0.121820.583
68_T96_Q0.121760.582
38_G46_L0.121720.582
15_L46_L0.121440.581
127_V163_E0.121160.580
10_F29_P0.1210.579
3_G61_R0.120620.577
123_A160_R0.120370.576
107_P111_R0.11970.573
67_A96_Q0.119490.572
6_V66_V0.118860.569
82_I168_V0.118820.568
149_E175_E0.118750.568
112_E146_K0.118630.567
6_V61_R0.118580.567
67_A152_A0.118510.567
77_A108_L0.118390.566
77_A150_A0.118120.565
96_Q157_F0.117740.563
76_G81_L0.117350.561
89_D98_R0.117190.561
117_V168_V0.117070.560
48_E142_E0.117030.560
135_E138_E0.116780.559
86_G89_D0.116760.559
12_D63_G0.116410.557
83_T120_R0.116410.557
93_I98_R0.116360.557
64_T70_A0.116230.556
60_V68_T0.115870.554
41_E44_D0.115840.554
88_G114_V0.115760.554
125_G161_N0.114950.550
112_E148_V0.114820.549
126_E163_E0.113930.545
76_G150_A0.113910.545
47_L57_I0.113620.544
86_G116_E0.113280.542
32_P125_G0.11310.541
56_D134_D0.113070.541
48_E174_E0.112990.540
93_I101_L0.112970.540
133_E141_R0.112890.540
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
2zf5O0.75980.843
2itmA0.778497.60.858
3ifrA0.880797.40.865
3hz6A0.903497.20.871
3l0qA0.909197.10.873
3ll3A0.863697.10.874
3h3nX0.852397.10.874
3g25A0.73397.10.875
2p3rA0.727397.10.875
4e1jA0.7273970.877
If you are interested in a protein containing this domain,
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