GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Col_cuticle_N - Nematode cuticle collagen N-terminal domain
Pfam: PF01484 (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: 53
Sequences: 634
Seq/Len: 11.96
HH_delta: 0.768 (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
49_A53_M0.377992.133
41_E45_I0.335661.894
6_A9_V0.299161.688
3_A7_I0.291251.643
24_I28_I0.282081.592
27_D42_F0.268461.515
10_S13_A0.225091.270
44_E48_D0.215451.216
7_I23_S0.205631.160
35_L39_M0.202241.141
31_F35_L0.200451.131
7_I20_T0.199661.127
32_Q36_D0.199011.123
25_Y32_Q0.198881.122
47_D53_M0.19641.108
41_E52_E0.195921.106
28_I36_D0.192631.087
26_N51_N0.190581.075
12_V27_D0.189961.072
22_P25_Y0.188511.064
12_V34_E0.188041.061
33_S40_E0.18751.058
20_T26_N0.187451.058
8_V12_V0.184891.043
38_E46_S0.184511.041
24_I27_D0.180981.021
46_S50_W0.180561.019
21_V29_Q0.179971.016
3_A32_Q0.17981.015
50_W53_M0.17841.007
31_F49_A0.178031.005
20_T24_I0.172670.974
19_I29_Q0.172580.974
5_G9_V0.171260.966
11_T22_P0.169530.957
45_I52_E0.169430.956
16_S20_T0.166810.941
22_P27_D0.166710.941
17_C31_F0.166380.939
6_A17_C0.165690.935
44_E51_N0.161890.913
11_T19_I0.161740.913
6_A11_T0.159150.898
8_V13_A0.159020.897
39_M50_W0.158690.895
31_F39_M0.158540.895
28_I37_D0.157730.890
9_V14_I0.157270.887
29_Q52_E0.155410.877
12_V15_L0.155190.876
32_Q43_K0.153740.868
40_E43_K0.152470.860
36_D39_M0.151930.857
4_Y21_V0.151770.856
29_Q33_S0.151370.854
11_T14_I0.149840.846
29_Q35_L0.148830.840
42_F47_D0.148560.838
22_P42_F0.148380.837
47_D50_W0.147340.831
37_D44_E0.14680.828
17_C43_K0.145910.823
5_G43_K0.145890.823
4_Y8_V0.145430.821
17_C34_E0.142380.803
43_K52_E0.140750.794
23_S46_S0.140620.793
19_I35_L0.13950.787
42_F45_I0.138480.781
21_V24_I0.138270.780
27_D41_E0.137830.778
8_V41_E0.137110.774
33_S49_A0.136960.773
7_I10_S0.135270.763
32_Q49_A0.134910.761
35_L40_E0.132460.747
25_Y39_M0.132330.747
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:
PDB Cov Prob HH_delta
2kncB0.924515.30.768
3p8qA0.547214.20.772
3mhsE0.622614.10.772
3ne5A0.69816.30.804
1bf5A0.47174.40.817
1vsy514.30.817
1y1uA0.66044.30.817
1slqA0.33963.10.828
4dx5A0.98113.10.829
3dktA0.35853.10.829
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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