GREMLIN Database
TraX - TraX protein
PFAM: PF05857 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 217 (215)
Sequences: 5391 (4525)
Seq/√Len: 308.6
META: 0.744

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_L205_F5.8571.00
94_G137_I3.9621.00
58_L92_A3.3641.00
36_A40_F2.7161.00
62_L92_A2.7041.00
48_F98_L2.6521.00
19_G30_R2.4061.00
48_F95_L2.3861.00
204_I208_A2.3111.00
48_F102_E2.2821.00
12_T36_A2.2661.00
5_L39_I2.2171.00
54_R99_Y2.1661.00
54_R102_E2.1611.00
69_E73_D2.0781.00
54_R95_L2.0221.00
19_G29_L2.0131.00
15_I29_L1.9941.00
191_N195_G1.9791.00
101_L138_L1.9771.00
191_N194_R1.9701.00
44_L95_L1.9421.00
91_L94_G1.8701.00
16_D34_R1.8561.00
74_L214_Y1.8241.00
48_F54_R1.8091.00
12_T32_I1.8081.00
58_L99_Y1.7961.00
41_A137_I1.7801.00
15_I32_I1.7501.00
97_A118_L1.7441.00
44_L91_L1.7431.00
69_E85_L1.7321.00
189_G192_G1.7291.00
64_F88_F1.7271.00
147_K150_R1.7271.00
8_I12_T1.7261.00
31_I176_F1.7261.00
10_I205_F1.7131.00
65_A89_F1.6871.00
61_L95_L1.6791.00
47_G57_Y1.6451.00
14_L18_I1.6341.00
18_I213_L1.5791.00
37_F41_A1.5651.00
10_I40_F1.5651.00
75_A210_L1.5531.00
49_A144_R1.5531.00
194_R197_G1.5401.00
99_Y103_K1.5291.00
59_L63_I1.5281.00
58_L95_L1.5261.00
10_I201_F1.5151.00
192_G195_G1.5051.00
42_F46_E1.4981.00
129_Y133_G1.4791.00
16_D30_R1.4721.00
73_D85_L1.4251.00
3_F7_I1.4091.00
55_K59_L1.4061.00
37_F133_G1.3631.00
20_Y30_R1.3531.00
56_K59_L1.3081.00
88_F91_L1.2991.00
98_L141_Y1.2841.00
211_L214_Y1.2791.00
68_S71_P1.2631.00
58_L96_L1.2421.00
182_P186_L1.2251.00
68_S72_Y1.2231.00
197_G201_F1.2201.00
190_K193_K1.2071.00
123_L130_G1.2051.00
41_A94_G1.2041.00
123_L131_W1.2021.00
97_A138_L1.1991.00
158_A162_L1.1991.00
11_I15_I1.1941.00
55_K99_Y1.1911.00
64_F68_S1.1821.00
187_Y190_K1.1711.00
2_G43_L1.1691.00
85_L89_F1.1661.00
62_L66_L1.1641.00
71_P211_L1.1341.00
179_L183_L1.1221.00
46_E49_A1.1021.00
200_Y204_I1.0971.00
43_L46_E1.0951.00
159_L163_A1.0901.00
154_F158_A1.0881.00
102_E141_Y1.0881.00
179_L182_P1.0821.00
161_L165_F1.0691.00
95_L99_Y1.0661.00
23_F26_L1.0611.00
46_E50_H1.0531.00
86_N89_F1.0531.00
97_A134_V1.0441.00
198_M201_F1.0301.00
195_G198_M1.0271.00
93_L97_A1.0221.00
172_L176_F1.0141.00
189_G193_K1.0101.00
180_A184_I1.0001.00
7_I198_M0.9981.00
90_T133_G0.9921.00
150_R153_L0.9891.00
10_I14_L0.9851.00
104_L107_K0.9801.00
119_L131_W0.9791.00
3_F197_G0.9691.00
30_R34_R0.9631.00
178_L181_L0.9601.00
191_N197_G0.9591.00
182_P185_L0.9531.00
65_A69_E0.9471.00
183_L187_Y0.9381.00
62_L89_F0.9361.00
57_Y95_L0.9341.00
212_I216_I0.9321.00
7_I11_I0.9231.00
180_A183_L0.9211.00
49_A141_Y0.9201.00
47_G51_T0.9191.00
190_K195_G0.9181.00
46_E144_R0.9171.00
3_F196_K0.9121.00
201_F205_F0.9081.00
59_L62_L0.9011.00
37_F87_V0.8881.00
64_F200_Y0.8851.00
203_Y207_P0.8841.00
95_L98_L0.8831.00
58_L62_L0.8821.00
93_L118_L0.8771.00
61_L88_F0.8771.00
119_L122_A0.8711.00
74_L211_L0.8681.00
45_A140_F0.8661.00
174_Q177_A0.8651.00
45_A49_A0.8591.00
157_L161_L0.8591.00
21_L213_L0.8581.00
94_G133_G0.8571.00
117_L121_L0.8561.00
9_A39_I0.8521.00
148_L151_L0.8471.00
123_L126_F0.8461.00
39_I43_L0.8391.00
51_T57_Y0.8381.00
54_R58_L0.8381.00
53_N56_K0.8361.00
13_M17_H0.8311.00
35_L38_P0.8311.00
23_F27_P0.8291.00
158_A161_L0.8271.00
101_L142_L0.8251.00
214_Y217_R0.8251.00
183_L186_L0.8191.00
41_A136_L0.8171.00
75_A214_Y0.8141.00
176_F187_Y0.8131.00
136_L140_F0.8091.00
106_K110_L0.8031.00
34_R129_Y0.7981.00
205_F213_L0.7981.00
151_L155_A0.7981.00
150_R161_L0.7961.00
12_T35_L0.7961.00
71_P74_L0.7881.00
174_Q178_L0.7810.99
120_L124_L0.7800.99
15_I19_G0.7790.99
57_Y60_R0.7760.99
72_Y84_P0.7710.99
6_K202_F0.7690.99
146_R149_K0.7650.99
65_A88_F0.7560.99
205_F209_H0.7560.99
174_Q180_A0.7540.99
70_I74_L0.7520.99
109_K112_L0.7470.99
137_I141_Y0.7460.99
31_I173_I0.7460.99
92_A96_L0.7410.99
128_D133_G0.7410.99
9_A36_A0.7390.99
41_A133_G0.7350.99
172_L175_L0.7310.99
5_L183_L0.7250.99
166_L169_F0.7200.99
90_T128_D0.7200.99
46_E187_Y0.7190.99
3_F198_M0.7190.99
35_L39_I0.7170.99
61_L64_F0.7160.99
165_F169_F0.7140.99
209_H213_L0.7120.99
78_T82_F0.7110.99
177_A183_L0.7110.99
150_R154_F0.7110.99
140_F144_R0.7100.99
18_I29_L0.7030.99
14_L212_I0.7030.99
211_L215_L0.7020.99
206_Y209_H0.7010.99
150_R158_A0.6990.99
155_A159_L0.6990.99
102_E105_K0.6970.99
149_K152_L0.6970.99
113_L119_L0.6960.99
72_Y76_F0.6940.99
42_F187_Y0.6900.99
2_G46_E0.6840.99
140_F143_F0.6820.99
141_Y145_N0.6810.99
151_L154_F0.6780.99
108_K111_L0.6770.99
100_L103_K0.6750.99
163_A167_L0.6740.99
60_R199_K0.6710.98
118_L122_A0.6700.98
45_A48_F0.6670.98
143_F146_R0.6670.98
41_A91_L0.6640.98
176_F179_L0.6610.98
21_L75_A0.6570.98
193_K196_K0.6570.98
199_K202_F0.6560.98
61_L91_L0.6550.98
78_T81_D0.6510.98
153_L157_L0.6390.98
147_K151_L0.6390.98
107_K110_L0.6390.98
62_L65_A0.6380.98
22_F25_G0.6370.98
175_L178_L0.6370.98
105_K110_L0.6360.98
19_G33_G0.6310.98
47_G53_N0.6300.98
148_L152_L0.6280.98
148_L158_A0.6280.98
43_L47_G0.6280.98
20_Y25_G0.6170.97
20_Y23_F0.6150.97
156_V160_L0.6150.97
98_L137_I0.6110.97
69_E86_N0.6080.97
73_D82_F0.6060.97
36_A43_L0.6050.97
100_L104_L0.6010.97
73_D77_G0.6000.97
63_I67_I0.5980.97
149_K153_L0.5980.97
20_Y27_P0.5980.97
190_K194_R0.5970.97
160_L164_L0.5970.97
47_G50_H0.5960.97
107_K111_L0.5960.97
137_I140_F0.5950.97
14_L213_L0.5950.97
116_L123_L0.5910.97
33_G36_A0.5900.97
181_L185_L0.5880.97
45_A144_R0.5870.96
177_A180_A0.5860.96
87_V94_G0.5820.96
22_F26_L0.5810.96
93_L127_V0.5810.96
208_A212_I0.5800.96
40_F129_Y0.5790.96
25_G28_W0.5750.96
153_L156_V0.5730.96
16_D33_G0.5730.96
39_I42_F0.5700.96
155_A158_A0.5680.96
10_I36_A0.5650.96
142_L146_R0.5620.96
53_N60_R0.5590.95
152_L156_V0.5590.95
18_I22_F0.5560.95
104_L114_I0.5560.95
39_I184_I0.5540.95
2_G47_G0.5510.95
44_L98_L0.5490.95
161_L164_L0.5450.95
12_T40_F0.5440.95
52_R59_L0.5420.95
122_A127_V0.5420.95
174_Q183_L0.5420.95
193_K198_M0.5360.94
64_F87_V0.5350.94
52_R56_K0.5310.94
154_F157_L0.5300.94
37_F40_F0.5300.94
131_W135_L0.5260.94
44_L57_Y0.5250.94
162_L165_F0.5250.94
7_I197_G0.5250.94
130_G133_G0.5210.93
126_F130_G0.5190.93
23_F29_L0.5190.93
139_L143_F0.5190.93
12_T15_I0.5180.93
81_D85_L0.5170.93
37_F69_E0.5160.93
79_L82_F0.5150.93
99_Y102_E0.5140.93
22_F213_L0.5130.93
26_L29_L0.5120.93
20_Y24_P0.5120.93
196_K199_K0.5120.93
41_A87_V0.5070.92
64_F71_P0.5060.92
101_L141_Y0.5050.92
43_L50_H0.5030.92
17_H34_R0.5020.92
91_L95_L0.5010.92
3_F195_G0.5010.92
164_L168_L0.5010.92
122_A126_F0.5000.92
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3j01B 1 0.5115 9 0.942 Contact Map
3wajA 1 0.9585 3.6 0.952 Contact Map
3qmlC 1 0.1613 1.2 0.963 Contact Map
4cxfB 1 0 1.1 0.964 Contact Map
1sbxA 1 0.1659 0.9 0.966 Contact Map
4qncA 2 0.3502 0.9 0.967 Contact Map
2xesA 1 0.2535 0.8 0.967 Contact Map
3rceA 1 0.9171 0.8 0.967 Contact Map
1kf6C 1 0.5346 0.7 0.969 Contact Map
3t97B 1 0.0783 0.6 0.969 Contact Map

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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