GREMLIN Database
SRP54 - Signal recognition particle 54 kDa protein
UniProt: Q9HMN5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 460 (431)
Sequences: 2868 (1322)
Seq/√Len: 63.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
148_A155_F5.1511.00
102_L114_A4.2681.00
200_E233_S3.9681.00
309_Q332_K3.8531.00
228_R232_A3.7811.00
328_H389_A3.7481.00
142_E145_A3.6901.00
335_Q377_E3.5361.00
190_A222_G3.3371.00
29_D57_T3.2861.00
197_A201_E3.0371.00
158_E170_D3.0261.00
231_D262_S2.9911.00
115_A273_V2.9621.00
338_D377_E2.9021.00
400_R404_R2.8971.00
270_G275_D2.7941.00
114_A182_I2.7911.00
331_R381_D2.7141.00
394_V417_L2.5811.00
409_P412_R2.5811.00
115_A147_M2.5781.00
51_D258_N2.5441.00
69_T298_T2.5171.00
156_Y170_D2.5091.00
183_V206_V2.4891.00
166_Q170_D2.4791.00
154_D178_A2.4641.00
168_A206_V2.4221.00
114_A130_I2.3881.00
52_L56_I2.3851.00
131_V171_G2.3841.00
82_E85_G2.3141.00
330_M420_H2.3121.00
403_A413_V2.2301.00
386_A393_S2.2091.00
145_A149_D2.2061.00
163_D201_E2.2061.00
123_K303_R2.1821.00
163_D166_Q2.1611.00
130_I148_A2.1571.00
317_P321_M2.1011.00
295_K298_T2.1001.00
121_F180_V2.0981.00
165_V205_V2.0891.00
327_L417_L2.0891.00
435_D438_M2.0811.00
133_T168_A2.0601.00
379_I413_V2.0511.00
122_S152_E2.0221.00
85_G89_D1.9891.00
122_S153_V1.9771.00
350_I353_M1.9731.00
307_E314_D1.9521.00
126_L180_V1.9371.00
77_R81_E1.9241.00
212_L240_A1.9071.00
309_Q315_W1.8991.00
210_R265_A1.8821.00
67_G308_T1.8781.00
59_R81_E1.8771.00
59_R82_E1.8741.00
314_D317_P1.8321.00
377_E381_D1.8261.00
130_I182_I1.8261.00
118_A153_V1.8131.00
20_K27_D1.8131.00
127_R178_A1.8031.00
394_V402_I1.7831.00
244_L267_L1.7811.00
375_G412_R1.7711.00
135_T167_I1.7300.99
54_E58_E1.7270.99
51_D55_S1.7230.99
236_I262_S1.7130.99
211_S234_I1.7010.99
91_T278_R1.6950.99
165_V201_E1.6950.99
55_S85_G1.6840.99
145_A157_G1.6320.99
212_L238_G1.6210.99
136_F167_I1.6200.99
80_Y84_V1.6190.99
203_E235_G1.6180.99
197_A200_E1.6150.99
244_L284_F1.6150.99
202_I206_V1.6000.99
386_A390_D1.5950.99
371_E374_R1.5870.99
172_L181_H1.5820.99
131_V181_H1.5800.99
375_G408_Q1.5790.99
328_H385_E1.5710.99
99_T183_V1.5670.99
128_P178_A1.5520.99
59_R85_G1.5480.99
420_H424_A1.5140.99
117_M240_A1.5140.99
326_T389_A1.5120.99
147_M151_A1.5100.99
80_Y286_S1.4980.98
94_P98_Q1.4950.98
399_I417_L1.4910.98
314_D318_E1.4890.98
151_A273_V1.4760.98
203_E211_S1.4590.98
241_I253_S1.4590.98
283_S299_E1.4570.98
437_D440_R1.4550.98
17_L31_V1.4460.98
32_V57_T1.4450.98
408_Q412_R1.4440.98
119_W274_Q1.4390.98
54_E57_T1.4330.98
128_P154_D1.4320.98
300_R349_M1.4280.98
120_W266_F1.4220.98
147_M273_V1.4200.98
149_D152_E1.4090.98
113_T268_G1.4080.98
28_V61_L1.3910.97
135_T164_P1.3890.97
306_E309_Q1.3750.97
436_G440_R1.3680.97
215_L256_A1.3670.97
98_Q209_D1.3600.97
99_T172_L1.3520.97
433_M438_M1.3440.97
343_L347_M1.3420.97
129_A178_A1.3370.97
131_V168_A1.3270.97
229_Q233_S1.3230.97
100_I182_I1.3220.97
120_W124_K1.3100.96
345_Q348_D1.2920.96
55_S82_E1.2920.96
379_I416_L1.2920.96
51_D54_E1.2850.96
200_E204_G1.2810.96
222_G225_Q1.2790.96
130_I155_F1.2770.96
269_S276_I1.2730.96
308_T315_W1.2700.96
335_Q381_D1.2680.96
190_A229_Q1.2650.96
165_V202_I1.2520.95
435_D440_R1.2500.95
171_G181_H1.2500.95
369_T374_R1.2460.95
15_D19_G1.2450.95
113_T240_A1.2440.95
161_S166_Q1.2390.95
267_L284_F1.2350.95
168_A205_V1.2310.95
14_L17_L1.2270.95
338_D374_R1.2250.95
280_E296_Q1.2190.95
69_T295_K1.2040.94
342_P345_Q1.1970.94
169_R205_V1.1920.94
392_R421_K1.1730.93
396_A399_I1.1630.93
148_A151_A1.1590.93
10_L13_T1.1550.93
99_T181_H1.1500.93
148_A154_D1.1470.93
119_W122_S1.1460.92
27_D75_V1.1460.92
26_E30_K1.1410.92
330_M334_M1.1370.92
210_R237_D1.1350.92
32_V56_I1.1350.92
302_E307_E1.1320.92
331_R377_E1.1280.92
190_A226_Q1.1230.92
93_I124_K1.1160.91
32_V53_S1.1140.91
119_W273_V1.1140.91
9_S41_Q1.1020.91
331_R335_Q1.1020.91
129_A154_D1.0940.91
101_M199_I1.0930.91
396_A410_E1.0900.90
101_M183_V1.0860.90
102_L240_A1.0850.90
132_Q158_E1.0720.90
201_E205_V1.0710.90
335_Q338_D1.0690.90
208_P211_S1.0520.89
166_Q169_R1.0510.89
385_E389_A1.0510.89
12_G16_T1.0500.89
119_W276_I1.0490.89
59_R64_E1.0490.89
146_E149_D1.0450.89
63_E67_G1.0410.88
193_D197_A1.0390.88
172_L206_V1.0390.88
16_T30_K1.0280.88
136_F198_E1.0280.88
371_E375_G1.0280.88
222_G226_Q1.0270.88
406_S409_P1.0230.87
379_I408_Q1.0220.87
119_W151_A1.0220.87
282_D295_K1.0210.87
108_S114_A1.0200.87
113_T276_I1.0150.87
32_V75_V1.0100.87
15_D20_K1.0080.87
193_D233_S1.0040.86
162_D166_Q1.0030.86
119_W123_K0.9990.86
132_Q141_Y0.9960.86
392_R424_A0.9940.86
280_E283_S0.9860.85
372_R419_Q0.9750.85
217_A244_L0.9740.85
253_S264_I0.9700.84
235_G262_S0.9690.84
55_S258_N0.9690.84
195_L199_I0.9460.83
165_V172_L0.9450.83
379_I403_A0.9440.83
168_A172_L0.9400.83
315_W318_E0.9390.83
100_I180_V0.9320.82
33_K37_R0.9310.82
327_L393_S0.9290.82
321_M431_Q0.9250.82
122_S151_A0.9250.82
158_E162_D0.9250.82
422_M425_Q0.9230.81
342_P346_V0.9200.81
94_P209_D0.9180.81
95_L98_Q0.9150.81
26_E29_D0.9100.80
343_L346_V0.9090.80
203_E236_I0.9060.80
118_A151_A0.9050.80
126_L179_D0.9050.80
24_S27_D0.9050.80
305_M310_D0.9010.80
131_V183_V0.8950.79
55_S58_E0.8930.79
25_E61_L0.8910.79
31_V75_V0.8840.79
283_S296_Q0.8830.78
334_M423_M0.8810.78
226_Q229_Q0.8800.78
369_T372_R0.8770.78
318_E322_K0.8750.78
330_M376_F0.8710.77
298_T302_E0.8690.77
23_I75_V0.8670.77
300_R303_R0.8670.77
122_S149_D0.8640.77
159_P162_D0.8590.77
129_A181_H0.8590.77
91_T280_E0.8580.76
60_S78_I0.8510.76
81_E295_K0.8490.76
129_A176_A0.8470.75
35_I75_V0.8460.75
228_R231_D0.8450.75
132_Q157_G0.8410.75
99_T209_D0.8390.75
165_V206_V0.8370.75
212_L265_A0.8360.75
136_F164_P0.8360.75
224_K259_E0.8320.74
231_D236_I0.8310.74
128_P209_D0.8310.74
239_V256_A0.8260.74
23_I28_V0.8250.74
102_L113_T0.8220.73
229_Q232_A0.8210.73
102_L268_G0.8200.73
89_D257_V0.8200.73
244_L269_S0.8190.73
357_L361_L0.8180.73
399_I414_R0.8160.73
282_D286_S0.8150.73
408_Q411_D0.8140.73
323_G424_A0.8130.72
120_W278_R0.8120.72
145_A155_F0.8080.72
141_Y159_P0.8080.72
28_V75_V0.8070.72
308_T314_D0.8060.72
101_M211_S0.8040.72
141_Y158_E0.8040.72
317_P320_L0.8030.72
327_L420_H0.7990.71
215_L241_I0.7990.71
133_T183_V0.7960.71
201_E204_G0.7960.71
358_M361_L0.7960.71
88_G281_P0.7950.71
412_R415_E0.7950.71
22_R64_E0.7860.70
70_S73_D0.7850.70
165_V168_A0.7850.70
372_R375_G0.7810.69
35_I76_L0.7780.69
433_M436_G0.7760.69
374_R381_D0.7760.69
172_L205_V0.7720.69
132_Q155_F0.7710.68
142_E160_D0.7670.68
390_D393_S0.7650.68
145_A159_P0.7640.68
142_E159_P0.7640.68
90_S93_I0.7610.67
347_M361_L0.7610.67
108_S217_A0.7600.67
374_R377_E0.7590.67
36_Q49_V0.7590.67
294_L298_T0.7580.67
386_A389_A0.7580.67
15_D18_R0.7570.67
368_V374_R0.7570.67
115_A151_A0.7540.67
264_I267_L0.7500.66
330_M426_T0.7500.66
425_Q429_Q0.7500.66
73_D294_L0.7500.66
213_L239_V0.7480.66
77_R302_E0.7460.66
147_M150_R0.7450.66
12_G15_D0.7440.66
285_I288_L0.7440.66
182_I276_I0.7440.66
27_D30_K0.7380.65
135_T198_E0.7380.65
236_I268_G0.7350.65
183_V202_I0.7300.64
354_G357_L0.7300.64
164_P202_I0.7270.64
215_L391_P0.7270.64
300_R304_A0.7250.64
338_D370_Q0.7230.63
369_T375_G0.7230.63
421_K424_A0.7220.63
316_D320_L0.7220.63
150_R275_D0.7200.63
237_D262_S0.7180.63
415_E419_Q0.7160.63
115_A150_R0.7140.62
162_D170_D0.7120.62
142_E146_E0.7120.62
103_A153_V0.7120.62
346_V350_I0.7100.62
73_D291_M0.7100.62
14_L23_I0.7090.62
199_I211_S0.7070.62
81_E298_T0.7050.61
42_A249_K0.7030.61
66_P298_T0.7030.61
380_M388_M0.7010.61
98_Q126_L0.7010.61
168_A183_V0.6990.61
372_R423_M0.6940.60
372_R412_R0.6920.60
62_E65_P0.6890.60
135_T158_E0.6890.60
316_D319_D0.6870.59
14_L21_S0.6870.59
336_A340_M0.6860.59
354_G358_M0.6860.59
435_D439_Q0.6850.59
106_Q189_H0.6840.59
132_Q331_R0.6830.59
344_D367_D0.6820.59
433_M440_R0.6820.59
395_G399_I0.6820.59
11_R355_G0.6820.59
204_G207_E0.6820.59
396_A400_R0.6810.59
213_L226_Q0.6810.59
340_M346_V0.6800.59
66_P81_E0.6770.58
323_G431_Q0.6760.58
148_A153_V0.6760.58
196_I222_G0.6730.58
28_V32_V0.6730.58
319_D329_D0.6720.58
382_S405_G0.6690.57
121_F265_A0.6690.57
434_G437_D0.6690.57
406_S411_D0.6670.57
419_Q422_M0.6670.57
2_V159_P0.6660.57
269_S300_R0.6640.57
50_M54_E0.6640.57
207_E237_D0.6640.57
433_M437_D0.6630.57
86_L237_D0.6600.56
23_I31_V0.6590.56
157_G162_D0.6590.56
14_L72_R0.6580.56
424_A428_Q0.6580.56
309_Q339_N0.6570.56
89_D92_P0.6570.56
299_E302_E0.6570.56
72_R76_L0.6560.56
35_I87_V0.6560.56
342_P350_I0.6540.56
33_K50_M0.6530.56
347_M350_I0.6520.56
9_S36_Q0.6510.55
354_G360_E0.6500.55
419_Q423_M0.6480.55
300_R345_Q0.6480.55
266_F278_R0.6480.55
319_D326_T0.6460.55
318_E321_M0.6450.55
19_G24_S0.6430.55
28_V31_V0.6430.55
151_A155_F0.6430.55
315_W326_T0.6430.55
32_V35_I0.6420.54
334_M373_M0.6410.54
8_S12_G0.6410.54
27_D298_T0.6410.54
113_T269_S0.6400.54
103_A211_S0.6380.54
324_E392_R0.6380.54
401_R405_G0.6370.54
420_H427_M0.6370.54
99_T174_A0.6360.54
142_E149_D0.6360.54
280_E299_E0.6330.53
292_G351_P0.6310.53
268_G400_R0.6300.53
78_I306_E0.6290.53
76_L295_K0.6280.53
306_E310_D0.6270.53
132_Q209_D0.6260.53
130_I144_A0.6260.53
417_L420_H0.6260.53
130_I154_D0.6220.52
328_H381_D0.6210.52
196_I218_A0.6200.52
269_S277_E0.6190.52
125_G157_G0.6140.51
158_E161_S0.6140.51
302_E305_M0.6140.51
102_L117_M0.6130.51
163_D171_G0.6130.51
66_P74_H0.6120.51
57_T61_L0.6100.51
410_E414_R0.6090.51
421_K425_Q0.6080.50
159_P243_K0.6080.50
132_Q148_A0.6070.50
141_Y243_K0.6050.50
119_W150_R0.6040.50
305_M309_Q0.6030.50
300_R409_P0.6030.50
63_E308_T0.6020.50
128_P179_D0.6020.50
157_G160_D0.6000.50
66_P69_T0.5990.49
112_T268_G0.5990.49
295_K302_E0.5970.49
132_Q162_D0.5970.49
127_R177_D0.5970.49
393_S417_L0.5960.49
194_D197_A0.5960.49
378_V408_Q0.5950.49
158_E167_I0.5950.49
199_I226_Q0.5950.49
239_V262_S0.5950.49
304_A307_E0.5930.49
55_S346_V0.5910.49
113_T236_I0.5910.49
135_T141_Y0.5900.48
330_M345_Q0.5900.48
181_H206_V0.5890.48
158_E166_Q0.5880.48
199_I229_Q0.5870.48
190_A199_I0.5860.48
27_D72_R0.5860.48
37_R40_L0.5860.48
136_F195_L0.5840.48
193_D386_A0.5830.48
68_G260_T0.5820.47
98_Q132_Q0.5820.47
342_P348_D0.5810.47
15_D27_D0.5810.47
59_R65_P0.5810.47
216_D243_K0.5810.47
56_I60_S0.5790.47
330_M377_E0.5790.47
16_T21_S0.5780.47
122_S150_R0.5780.47
56_I79_V0.5780.47
151_A154_D0.5760.47
219_I223_A0.5760.47
368_V372_R0.5740.47
218_A247_T0.5740.47
124_K278_R0.5730.46
14_L31_V0.5730.46
38_S253_S0.5730.46
235_G354_G0.5720.46
350_I354_G0.5710.46
3_L322_K0.5710.46
436_G439_Q0.5700.46
165_V239_V0.5670.46
77_R219_I0.5650.46
195_L268_G0.5650.46
56_I319_D0.5650.46
165_V169_R0.5640.45
328_H331_R0.5640.45
145_A148_A0.5640.45
95_L174_A0.5630.45
87_V284_F0.5630.45
330_M424_A0.5620.45
366_M369_T0.5600.45
202_I205_V0.5590.45
212_L406_S0.5580.45
106_Q196_I0.5570.45
231_D234_I0.5570.45
275_D278_R0.5560.44
213_L236_I0.5560.44
150_R273_V0.5550.44
342_P376_F0.5550.44
347_M353_M0.5540.44
50_M55_S0.5540.44
27_D35_I0.5540.44
83_L294_L0.5530.44
174_A209_D0.5530.44
141_Y157_G0.5530.44
9_S14_L0.5520.44
344_D348_D0.5520.44
70_S290_G0.5520.44
337_M350_I0.5510.44
114_A118_A0.5500.44
324_E424_A0.5490.44
3_L7_G0.5480.44
156_Y243_K0.5480.44
23_I65_P0.5470.43
13_T16_T0.5470.43
189_H222_G0.5470.43
76_L291_M0.5450.43
2_V7_G0.5440.43
5_D8_S0.5430.43
29_D231_D0.5420.43
339_N344_D0.5410.43
132_Q284_F0.5410.43
199_I228_R0.5410.43
174_A197_A0.5400.43
191_L196_I0.5400.43
65_P78_I0.5390.43
37_R41_Q0.5390.43
40_L56_I0.5380.42
322_K326_T0.5370.42
9_S391_P0.5360.42
375_G424_A0.5350.42
130_I206_V0.5350.42
18_R355_G0.5340.42
163_D205_V0.5340.42
102_L182_I0.5330.42
327_L410_E0.5330.42
181_H261_D0.5320.42
392_R395_G0.5320.42
4_D93_I0.5300.42
296_Q299_E0.5290.41
133_T381_D0.5290.41
46_V50_M0.5280.41
81_E302_E0.5280.41
91_T120_W0.5270.41
75_V277_E0.5270.41
257_V261_D0.5260.41
39_L49_V0.5250.41
185_T291_M0.5250.41
372_R415_E0.5250.41
145_A160_D0.5250.41
69_T74_H0.5250.41
92_P265_A0.5240.41
183_V205_V0.5240.41
160_D163_D0.5230.41
346_V375_G0.5230.41
23_I79_V0.5230.41
63_E78_I0.5220.41
348_D358_M0.5220.41
69_T147_M0.5210.41
156_Y159_P0.5210.41
213_L252_G0.5200.40
249_K285_I0.5200.40
395_G417_L0.5200.40
9_S179_D0.5200.40
171_G183_V0.5190.40
369_T378_V0.5190.40
174_A344_D0.5180.40
87_V217_A0.5180.40
267_L296_Q0.5180.40
194_D389_A0.5180.40
113_T260_T0.5170.40
150_R272_T0.5170.40
361_L366_M0.5170.40
69_T282_D0.5170.40
74_H298_T0.5170.40
69_T73_D0.5170.40
395_G402_I0.5160.40
141_Y164_P0.5150.40
192_E196_I0.5150.40
169_R406_S0.5150.40
135_T161_S0.5150.40
106_Q218_A0.5140.40
333_Q337_M0.5140.40
199_I213_L0.5140.40
344_D361_L0.5130.40
400_R411_D0.5130.40
343_L417_L0.5120.40
309_Q314_D0.5110.39
314_D321_M0.5110.39
175_T232_A0.5110.39
199_I268_G0.5110.39
5_D330_M0.5110.39
354_G359_D0.5110.39
372_R376_F0.5100.39
337_M376_F0.5100.39
266_F406_S0.5100.39
410_E428_Q0.5100.39
218_A288_L0.5090.39
305_M345_Q0.5080.39
428_Q432_G0.5070.39
125_G128_P0.5070.39
12_G64_E0.5060.39
121_F182_I0.5060.39
350_I357_L0.5050.39
56_I152_E0.5040.39
95_L209_D0.5040.39
74_H349_M0.5040.39
197_A232_A0.5030.39
256_A345_Q0.5030.39
197_A233_S0.5030.39
250_G260_T0.5030.39
291_M295_K0.5020.38
189_H199_I0.5020.38
141_Y161_S0.5010.38
35_I56_I0.5010.38
161_S170_D0.5010.38
76_L298_T0.5000.38
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  
2ffhA 4 0.8761 100 0.404 Contact Map
2v3cC 1 0.863 100 0.411 Contact Map
2xxaA 1 0.8804 100 0.414 Contact Map
2j37W 1 0.9652 100 0.422 Contact Map
3dm5A 4 0.8935 100 0.454 Contact Map
3kl4A 1 0.8783 100 0.462 Contact Map
4c7oA 1 0.6304 100 0.628 Contact Map
1ls1A 1 0.6196 100 0.642 Contact Map
2yhsA 1 0.6239 100 0.67 Contact Map
1vmaA 1 0.5957 100 0.67 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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