GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
RhoGAP - RhoGAP domain
Pfam: PF00620 (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: CL0409
Length: 151
Sequences: 2979
Seq/Len: 19.73
HH_delta: -0.027 (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
22_F117_L1.057634.285
12_E120_K0.808973.277
8_V113_Y0.685192.776
10_Y14_K0.661042.678
19_E129_K0.559342.266
104_P107_N0.546352.213
35_R62_R0.51182.073
122_S135_L0.508732.061
130_M134_N0.476131.929
28_S32_Q0.47331.917
121_V128_N0.47251.914
7_C56_V0.472271.913
20_G23_R0.460781.867
79_K102_S0.456771.850
17_E124_N0.439741.781
26_G31_V0.437281.772
4_L60_L0.428551.736
30_E55_D0.426321.727
17_E127_I0.411661.668
7_C38_I0.411371.667
125_S131_T0.394281.597
52_D55_D0.381491.545
12_E22_F0.381281.545
124_N127_I0.371791.506
35_R66_E0.366231.484
41_G44_P0.362551.469
18_T54_H0.35971.457
111_L115_I0.358681.453
10_Y56_V0.355911.442
77_Y144_F0.35091.422
23_R134_N0.349241.415
70_P74_S0.344631.396
60_L114_L0.342651.388
12_E117_L0.34111.382
64_L139_F0.336071.361
95_A98_S0.327941.329
4_L110_L0.326611.323
2_R6_D0.324141.313
5_N113_Y0.317021.284
108_R112_K0.313571.270
73_P76_L0.30991.255
62_R66_E0.309111.252
134_N138_I0.308861.251
138_I142_S0.304231.232
72_I111_L0.303351.229
26_G55_D0.303161.228
136_A140_A0.297021.203
119_S123_D0.294971.195
16_L121_V0.290221.176
34_L59_L0.288971.171
69_E107_N0.288481.169
47_N50_N0.287661.165
19_E24_I0.28011.135
113_Y117_L0.277351.124
105_P109_S0.277211.123
98_S102_S0.276311.119
35_R39_D0.274211.111
134_N142_S0.273811.109
3_I7_C0.271921.102
88_D91_E0.271191.099
139_F142_S0.271121.098
61_K65_R0.27061.096
76_L80_F0.265671.076
21_I57_A0.263051.066
101_Q108_R0.261381.059
130_M138_I0.260711.056
8_V60_L0.257431.043
110_L117_L0.255661.036
112_K116_E0.255511.035
125_S128_N0.254691.032
63_F67_L0.25311.025
4_L64_L0.250431.015
7_C60_L0.250071.013
6_D9_D0.248881.008
25_P138_I0.248381.006
9_D13_K0.245810.996
6_D43_P0.245790.996
77_Y81_I0.244370.990
36_N40_S0.241340.978
11_L22_F0.239120.969
122_S132_A0.23830.965
32_Q35_R0.236510.958
79_K82_A0.236080.956
20_G134_N0.236060.956
61_K130_M0.234210.949
20_G130_M0.234080.948
20_G24_I0.233330.945
118_L139_F0.231260.937
6_D38_I0.230180.933
67_L70_P0.229190.928
76_L102_S0.228230.925
21_I121_V0.228110.924
119_S122_S0.227090.920
23_R61_K0.226920.919
134_N137_I0.226910.919
86_S95_A0.226460.917
83_A86_S0.226370.917
130_M137_I0.225620.914
20_G26_G0.224630.910
129_K134_N0.222410.901
26_G34_L0.222040.900
5_N9_D0.219240.888
80_F100_L0.217940.883
89_E93_I0.215340.872
94_E98_S0.215270.872
100_L108_R0.214940.871
122_S125_S0.214620.869
4_L63_F0.212270.860
32_Q36_N0.211810.858
31_V58_S0.211290.856
11_L15_G0.209610.849
131_T134_N0.20730.840
39_D68_P0.206630.837
69_E75_E0.205990.835
86_S92_Q0.205440.832
114_L143_L0.204840.830
16_L128_N0.203880.826
92_Q96_I0.203250.823
23_R130_M0.202780.821
126_E129_K0.202290.820
114_L118_L0.201760.817
63_F68_P0.201230.815
24_I54_H0.201010.814
23_R26_G0.200670.813
139_F145_R0.200110.811
95_A99_L0.196920.798
11_L56_V0.196160.795
23_R65_R0.19570.793
2_R5_N0.195010.790
64_L114_L0.194970.790
65_R142_S0.19390.786
25_P54_H0.193350.783
11_L53_V0.193020.782
82_A85_K0.191780.777
73_P80_F0.191580.776
124_N128_N0.190830.773
97_R101_Q0.190630.772
4_L8_V0.189870.769
3_I38_I0.189570.768
22_F57_A0.186820.757
20_G25_P0.185410.751
74_S77_Y0.184970.749
23_R138_I0.182740.740
130_M142_S0.182720.740
48_L56_V0.182550.740
20_G65_R0.182360.739
34_L55_D0.179710.728
32_Q62_R0.179570.727
91_E95_A0.177550.719
87_A95_A0.177010.717
10_Y38_I0.176420.715
117_L120_K0.175990.713
31_V62_R0.175980.713
23_R137_I0.175690.712
82_A102_S0.17430.706
11_L57_A0.174020.705
10_Y13_K0.173470.703
82_A95_A0.173140.701
25_P58_S0.172940.701
79_K99_L0.171890.696
106_S110_L0.170720.692
54_H58_S0.168360.682
73_P103_L0.167230.677
62_R65_R0.166640.675
120_K123_D0.165860.672
39_D43_P0.164930.668
69_E73_P0.164620.667
64_L67_L0.164260.665
89_E127_I0.163420.662
15_G53_V0.163320.662
128_N131_T0.162740.659
25_P31_V0.162590.659
26_G58_S0.162280.657
8_V12_E0.161690.655
74_S147_P0.161440.654
92_Q95_A0.16140.654
98_S101_Q0.160870.652
72_I143_L0.160250.649
121_V130_M0.159990.648
23_R141_P0.159820.647
39_D66_E0.159290.645
79_K98_S0.159290.645
113_Y121_V0.159230.645
28_S35_R0.15780.639
88_D93_I0.157350.637
133_E137_I0.157160.637
87_A90_E0.155450.630
22_F139_F0.155120.628
117_L121_V0.154970.628
8_V117_L0.154790.627
86_S90_E0.154290.625
80_F102_S0.154150.624
48_L51_Y0.15410.624
101_Q105_P0.154080.624
86_S91_E0.153690.623
71_L143_L0.152560.618
78_D82_A0.152340.617
132_A135_L0.152290.617
52_D58_S0.150720.611
68_P71_L0.150440.609
91_E94_E0.149480.606
83_A92_Q0.148670.602
10_Y53_V0.14850.602
36_N66_E0.148450.601
72_I115_I0.14840.601
78_D132_A0.147310.597
103_L111_L0.147260.597
137_I141_P0.144010.583
88_D105_P0.143530.581
20_G61_K0.143210.580
74_S78_D0.142890.579
79_K95_A0.14270.578
53_V57_A0.142250.576
119_S132_A0.140880.571
73_P104_P0.140470.569
71_L131_T0.139130.564
33_E50_N0.139080.563
78_D93_I0.138980.563
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
3msxB0.9868100-0.027
3kuqA0.9934100-0.025
3byiA1100-0.025
3fk2A1100-0.024
2ee4A1100-0.024
1pbwA0.9868100-0.014
3cxlA0.9934100-0.013
2osaA0.9934100-0.008
1f7cA1100-0.007
1ow3A0.9801100-0.003

Page generated in 0.0215 seconds.