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FAK_2

ID: 1501771376 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 293 (275)
Sequences: 8378 (5061.7)
Seq/Len: 30.465
Nf(neff/√len): 305.2

Jackhmmer Results: (2016_04)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 30.465).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

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] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
141_L154_I3.4801.00
134_A219_M3.4001.00
134_A222_I3.3671.00
45_Q57_A3.1071.00
267_A272_R3.1061.00
238_V241_R3.0091.00
140_A169_L2.9931.00
264_K282_Q2.7791.00
136_Q167_V2.7681.00
33_R45_Q2.6231.00
46_G60_I2.5571.00
107_E168_K2.5001.00
34_C42_D2.4541.00
238_V242_I2.3531.00
34_C37_E2.3171.00
141_L276_F2.3081.00
238_V243_E2.2771.00
160_L170_G2.2641.00
239_I242_I2.2101.00
269_D272_R2.1661.00
110_T163_A2.1321.00
154_I218_C2.1231.00
212_V276_F2.0621.00
86_D92_K2.0301.00
46_G58_V2.0051.00
250_M255_P1.9641.00
91_V109_C1.9501.00
136_Q166_C1.9471.00
261_L282_Q1.9271.00
261_L279_L1.9091.00
142_A277_T1.8641.00
135_Y280_K1.8591.00
197_A210_S1.8381.00
126_D129_S1.8121.00
132_L136_Q1.7661.00
138_S215_F1.7561.00
223_L258_L1.7111.00
137_L154_I1.7001.00
142_A146_S1.6931.00
45_Q108_L1.6831.00
250_M254_C1.6661.00
243_E246_E1.6651.00
113_E116_S1.6571.00
155_A192_P1.6501.00
159_V167_V1.6261.00
139_T284_S1.6211.00
276_F279_L1.5931.00
85_F149_F1.5571.00
47_I55_A1.5431.00
159_V218_C1.5381.00
47_I57_A1.5271.00
142_A280_K1.5191.00
248_L251_P1.5151.00
109_C162_S1.5071.00
127_L255_P1.4691.00
43_V59_A1.4561.00
158_N171_D1.4381.00
111_L165_D1.4301.00
215_F276_F1.4121.00
139_T280_K1.4010.99
153_D158_N1.3700.99
162_S166_C1.3660.99
135_Y139_T1.3650.99
23_E28_R1.3610.99
89_H139_T1.3590.99
87_H143_Y1.3510.99
32_G45_Q1.3490.99
247_R250_M1.3400.99
115_R119_Q1.3260.99
57_A108_L1.3200.99
62_T101_P1.3190.99
239_I243_E1.3080.99
62_T103_W1.3020.99
36_G43_V1.2960.99
212_V265_C1.2950.99
265_C279_L1.2860.99
156_A218_C1.2860.99
58_V105_I1.2850.99
30_E47_I1.2790.99
44_H62_T1.2730.99
191_L196_M1.2700.99
48_Y94_I1.2670.99
137_L159_V1.2660.99
137_L218_C1.2650.99
231_Q234_K1.2600.99
227_V231_Q1.2520.99
50_S56_M1.2340.98
275_R278_E1.2280.98
152_R206_F1.2250.98
241_R246_E1.2240.98
264_K278_E1.2140.98
34_C44_H1.2110.98
146_S277_T1.2060.98
247_R251_P1.2030.98
206_F210_S1.2020.98
247_R254_C1.1960.98
135_Y284_S1.1930.98
37_E64_K1.1930.98
137_L167_V1.1890.98
94_I107_E1.1880.98
138_S280_K1.1840.98
248_L254_C1.1840.98
240_G243_E1.1740.98
156_A195_W1.1720.98
48_Y58_V1.1700.97
131_I258_L1.1540.97
248_L255_P1.1510.97
112_G116_S1.1480.97
153_D171_D1.1430.97
141_L169_L1.1390.97
195_W221_E1.1320.97
262_M266_W1.0980.96
217_V266_W1.0970.96
238_V245_G1.0970.96
91_V107_E1.0960.96
197_A200_S1.0950.96
63_C75_F1.0930.96
219_M262_M1.0910.96
231_Q248_L1.0910.96
129_S165_D1.0900.96
132_L166_C1.0890.96
138_S279_L1.0850.96
145_E276_F1.0770.95
256_P260_S1.0700.95
251_P254_C1.0680.95
111_L162_S1.0630.95
133_Y167_V1.0520.95
149_F175_S1.0510.94
241_R244_N1.0500.94
220_W266_W1.0500.94
209_A275_R1.0450.94
78_E153_D1.0400.94
27_E30_E1.0390.94
161_V167_V1.0370.94
153_D192_P1.0360.94
129_S132_L1.0300.94
24_I48_Y1.0260.94
135_Y283_L1.0190.93
59_A171_D1.0170.93
245_G248_L1.0120.93
155_A158_N1.0120.93
247_R255_P1.0110.93
247_R252_P1.0040.93
110_T162_S1.0000.92
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
2j0jA10.96591000.205Contact Map
4fl3A10.95221000.232Contact Map
4i4eA10.86691000.24Contact Map
4rt7A101000.24Contact Map
4aseA10.96251000.241Contact Map
5a46A201000.243Contact Map
2ozoA10.92831000.248Contact Map
4gt4A20.90441000.252Contact Map
4fyoA10.89081000.256Contact Map
4aszA10.92831000.256Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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