GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SprT-like - SprT-like family
Pfam: PF10263 (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: 157
Sequences: 768
Seq/Len: 4.89
HH_delta: 0.781 (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
15_G76_F0.329383.120
35_C71_A0.267962.538
9_N140_K0.198821.883
35_C74_Y0.194731.845
91_W94_R0.183241.736
10_E16_K0.181151.716
32_A110_H0.180871.713
52_L55_N0.176461.672
13_F17_L0.171441.624
40_R75_V0.167411.586
57_E61_I0.16341.548
61_I65_L0.162441.539
36_R44_E0.161171.527
45_I60_L0.156881.486
37_Y40_R0.153641.455
31_T34_R0.152871.448
125_R132_E0.146681.389
72_A91_W0.145741.381
73_A88_F0.142881.353
89_K93_R0.142861.353
9_N17_L0.139111.318
125_R154_V0.134991.279
9_N72_A0.134611.275
32_A63_T0.134011.269
14_G53_D0.130821.239
37_Y74_Y0.12961.228
35_C65_L0.128081.213
124_Y141_R0.126941.202
48_S124_Y0.126711.200
24_W51_L0.126431.198
145_R150_G0.126261.196
51_L55_N0.126221.196
123_V132_E0.12411.176
47_L64_L0.12341.169
51_L105_N0.123331.168
9_N96_G0.121571.152
69_A88_F0.121331.149
125_R130_G0.121211.148
88_F108_T0.12061.142
14_G128_S0.119751.134
51_L62_D0.119221.129
128_S145_R0.118881.126
131_R143_R0.118411.122
145_R152_P0.118211.120
122_Y137_R0.117751.115
27_R34_R0.117341.112
90_Q94_R0.117331.111
36_R46_R0.117041.109
66_H70_H0.115931.098
31_T69_A0.115921.098
21_P44_E0.115751.096
34_R46_R0.114821.088
59_E120_K0.114171.081
39_R44_E0.111721.058
135_R138_R0.111161.053
23_T44_E0.111021.052
94_R154_V0.110911.051
138_R147_G0.110161.044
58_E62_D0.110031.042
62_D107_T0.109941.041
134_K138_R0.109841.040
69_A91_W0.10961.038
135_R146_C0.109261.035
135_R153_L0.109261.035
25_S152_P0.1091.033
47_L60_L0.108571.028
9_N95_I0.108311.026
38_K89_K0.107771.021
9_N18_P0.107481.018
85_G110_H0.106851.012
144_Y153_L0.10681.012
24_W68_M0.106321.007
122_Y129_C0.106221.006
51_L54_R0.106181.006
49_P106_P0.106041.004
90_Q154_V0.106041.004
24_W28_M0.105741.002
10_E18_P0.105160.996
24_W50_K0.103620.982
80_R87_E0.103580.981
10_E15_G0.103230.978
73_A82_R0.101180.958
9_N97_A0.100830.955
9_N141_R0.098490.933
93_R97_A0.097490.923
47_L51_L0.097370.922
121_K125_R0.09730.922
34_R115_E0.097240.921
140_K143_R0.097180.921
63_T112_Y0.097080.920
32_A135_R0.096530.914
29_K83_G0.096120.911
11_E94_R0.095680.906
18_P148_R0.095620.906
17_L68_M0.095380.903
128_S151_G0.095130.901
123_V130_G0.094030.891
38_K120_K0.094020.891
55_N134_K0.093270.884
73_A87_E0.09290.880
14_G152_P0.092860.880
35_C59_E0.092690.878
73_A91_W0.092480.876
19_P22_I0.092420.875
9_N142_K0.091580.867
18_P143_R0.091580.867
25_S46_R0.091370.866
63_T108_T0.091120.863
92_A144_Y0.090770.860
11_E89_K0.090240.855
82_R87_E0.090120.854
55_N110_H0.090030.853
35_C75_V0.089840.851
61_I88_F0.089820.851
79_G87_E0.08970.850
51_L59_E0.089550.848
65_L71_A0.08930.846
25_S115_E0.089250.845
59_E63_T0.089190.845
24_W55_N0.089090.844
10_E98_S0.089060.844
50_K53_D0.088970.843
23_T38_K0.088560.839
81_R86_K0.088320.837
32_A67_E0.088150.835
139_S153_L0.087620.830
123_V139_S0.087550.829
14_G121_K0.087450.828
97_A154_V0.087310.827
11_E154_V0.087230.826
59_E62_D0.087090.825
44_E95_I0.086980.824
62_D88_F0.086240.817
55_N59_E0.08610.816
86_K153_L0.085770.812
143_R147_G0.085520.810
93_R98_S0.085460.810
48_S71_A0.085410.809
136_H144_Y0.085250.808
147_G152_P0.08510.806
35_C48_S0.084830.804
133_Y153_L0.084730.803
28_M31_T0.084450.800
51_L85_G0.08440.799
76_F130_G0.084130.797
123_V148_R0.083910.795
94_R128_S0.083430.790
48_S106_P0.082960.786
29_K48_S0.082890.785
30_R120_K0.082780.784
83_G153_L0.082710.783
31_T68_M0.082670.783
34_R73_A0.082630.783
63_T81_R0.082540.782
131_R148_R0.082540.782
107_T130_G0.082420.781
63_T144_Y0.082360.780
9_N13_F0.08230.780
93_R106_P0.082220.779
68_M88_F0.08220.779
125_R128_S0.08220.779
48_S92_A0.082070.777
72_A88_F0.0820.777
85_G89_K0.08170.774
149_C153_L0.081590.773
136_H139_S0.081550.772
65_L153_L0.081480.772
21_P75_V0.08120.769
11_E107_T0.080920.767
37_Y48_S0.080530.763
35_C40_R0.080520.763
130_G154_V0.080310.761
34_R109_C0.080160.759
37_Y124_Y0.079660.755
22_I47_L0.079640.754
146_C153_L0.07960.754
121_K134_K0.079580.754
27_R31_T0.079540.753
79_G83_G0.079540.753
76_F94_R0.079530.753
32_A136_H0.079350.752
34_R68_M0.07930.751
11_E98_S0.079180.750
88_F124_Y0.079170.750
98_S106_P0.079050.749
61_I131_R0.078990.748
34_R71_A0.078920.748
67_E70_H0.078850.747
108_T136_H0.078830.747
18_P21_P0.078810.747
133_Y139_S0.078760.746
92_A139_S0.078730.746
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
4jixA0.636998.20.781
4jiuA0.662497.90.805
3cqbA0.5032940.877
1twfL0.375888.90.893
4aybP0.235785.50.899
2gviA0.898185.40.899
3h0gL0.331284.30.9
2lcqA0.847182.60.902
4dv8A0.853575.80.908
1lkoA0.675275.30.908
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