GREMLIN Database
INTR - Putative lambdoid prophage Rac integrase
UniProt: P76056 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13358
Length: 411 (339)
Sequences: 17680 (15017)
Seq/√Len: 815.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
362_A379_M4.8611.00
121_T130_D3.5021.00
240_W288_Y3.3301.00
353_N356_H3.0351.00
127_R130_D2.8741.00
272_R380_G2.7701.00
225_A354_P2.7371.00
361_F378_Q2.6261.00
229_G361_F2.5301.00
232_H355_Y2.5151.00
244_D247_K2.5081.00
248_G281_L2.4851.00
220_N287_Q2.3991.00
251_N273_T2.3861.00
359_H393_M2.3301.00
18_W25_R2.2861.00
249_I273_T2.2621.00
225_A235_L2.1951.00
87_C171_L2.1661.00
138_L164_Y2.1581.00
361_F365_L2.1381.00
107_K111_K2.1351.00
239_A315_H2.1131.00
87_C110_L2.1111.00
135_R165_I2.1021.00
117_I137_E2.0231.00
84_G88_D2.0091.00
366_L375_I1.9951.00
86_L175_A1.9261.00
240_W317_V1.9201.00
99_T264_P1.9111.00
371_N374_F1.9021.00
179_G183_T1.8891.00
84_G120_S1.8361.00
281_L285_K1.8361.00
174_F178_S1.8281.00
86_L123_I1.8221.00
220_N286_E1.7821.00
275_T378_Q1.7761.00
269_A382_E1.7621.00
159_R163_N1.7511.00
381_H387_V1.7431.00
230_L235_L1.7371.00
122_P125_H1.7351.00
203_S206_E1.7281.00
173_R187_E1.7231.00
385_Q389_E1.7171.00
126_I172_L1.7081.00
372_P388_Y1.6981.00
131_I186_F1.6961.00
109_Q167_L1.6881.00
86_L174_F1.6781.00
227_Y277_L1.6751.00
248_G278_Q1.6641.00
242_D253_R1.6541.00
91_T107_K1.6531.00
102_T106_T1.6271.00
84_G115_I1.5981.00
366_L392_G1.5891.00
230_L252_V1.5331.00
383_T389_E1.5121.00
207_F226_V1.5101.00
232_H236_A1.5011.00
386_M390_I1.4911.00
241_E315_H1.4851.00
278_Q282_E1.4841.00
202_L352_R1.4771.00
95_E103_M1.4591.00
276_L280_A1.4571.00
238_L243_V1.4561.00
374_F402_Q1.4561.00
220_N283_A1.4531.00
82_T85_E1.4521.00
91_T103_M1.4451.00
234_E272_R1.4411.00
46_L49_L1.4401.00
239_A316_F1.4081.00
238_L250_V1.4051.00
49_L53_E1.3951.00
206_E209_A1.3941.00
165_I169_C1.3681.00
52_H56_S1.3681.00
202_L210_L1.3651.00
20_M25_R1.3611.00
221_L235_L1.3601.00
50_I53_E1.3581.00
219_Q223_K1.3541.00
226_V357_T1.3521.00
365_L370_A1.3491.00
245_L285_K1.3481.00
373_A376_A1.3471.00
365_L375_I1.3451.00
337_G341_N1.3441.00
244_D249_I1.3351.00
108_S112_T1.3321.00
224_F280_A1.3301.00
103_M107_K1.3271.00
177_Q188_G1.3221.00
209_A213_S1.3201.00
276_L281_L1.3151.00
89_I93_I1.3121.00
278_Q404_A1.3111.00
57_G60_E1.3061.00
171_L175_A1.2851.00
379_M387_V1.2801.00
128_Y177_Q1.2721.00
110_L115_I1.2661.00
176_Y181_I1.2661.00
362_A375_I1.2631.00
277_L280_A1.2501.00
177_Q190_K1.2491.00
132_L178_S1.2431.00
18_W27_R1.2411.00
207_F364_W1.2411.00
376_A387_V1.2401.00
51_V55_N1.2351.00
221_L336_L1.2311.00
340_W344_V1.2231.00
370_A405_M1.2221.00
105_K108_S1.2191.00
132_L136_N1.2191.00
135_R139_L1.2181.00
121_T125_H1.2161.00
14_Y29_T1.1991.00
169_C173_R1.1941.00
215_K219_Q1.1931.00
86_L178_S1.1861.00
320_P326_K1.1841.00
40_I44_G1.1741.00
118_C134_Y1.1741.00
88_D92_K1.1721.00
173_R184_K1.1711.00
383_T386_M1.1561.00
139_L161_V1.1551.00
370_A402_Q1.1421.00
99_T102_T1.1391.00
98_L106_T1.1381.00
239_A242_D1.1371.00
106_T167_L1.1321.00
39_N42_K1.1311.00
60_E64_R1.1311.00
202_L360_T1.1271.00
80_I124_S1.1271.00
134_Y164_Y1.1271.00
208_N212_E1.1151.00
221_L318_F1.1121.00
398_M401_E1.1111.00
35_I38_S1.1081.00
83_F171_L1.1071.00
218_S339_R1.1061.00
360_T364_W1.1051.00
129_S178_S1.1021.00
111_K115_I1.1001.00
83_F168_L1.0991.00
172_L186_F1.0961.00
83_F87_C1.0941.00
88_D115_I1.0941.00
265_P271_I1.0891.00
224_F250_V1.0851.00
376_A384_A1.0721.00
227_Y280_A1.0691.00
134_Y138_L1.0671.00
157_T160_T1.0671.00
367_T398_M1.0661.00
128_Y179_G1.0631.00
373_A377_S1.0601.00
341_N345_K1.0551.00
211_M223_K1.0531.00
242_D254_R1.0491.00
48_A57_G1.0441.00
401_E405_M1.0411.00
287_Q291_T1.0351.00
80_I122_P1.0331.00
223_K279_P1.0281.00
100_T104_K1.0261.00
172_L185_P1.0241.00
88_D107_K1.0231.00
213_S346_R1.0211.00
377_S399_N1.0191.00
232_H354_P1.0171.00
172_L181_I1.0141.00
242_D264_P1.0111.00
131_I168_L1.0091.00
223_K283_A1.0091.00
285_K288_Y1.0041.00
84_G119_E1.0041.00
364_W367_T0.9971.00
367_T395_I0.9861.00
363_C392_G0.9831.00
34_E37_N0.9811.00
81_K89_I0.9801.00
104_K108_S0.9801.00
92_K95_E0.9781.00
204_K208_N0.9731.00
176_Y183_T0.9721.00
204_K364_W0.9711.00
341_N351_R0.9681.00
89_I180_F0.9661.00
48_A54_I0.9621.00
165_I186_F0.9601.00
94_K170_S0.9571.00
47_R51_V0.9571.00
46_L50_I0.9561.00
339_R342_A0.9561.00
206_E350_R0.9501.00
160_T164_Y0.9481.00
169_C187_E0.9421.00
279_P282_E0.9421.00
241_E314_L0.9391.00
129_S133_N0.9391.00
245_L281_L0.9381.00
240_W284_L0.9251.00
224_F235_L0.9241.00
216_G219_Q0.9161.00
288_Y291_T0.9111.00
94_K97_E0.9111.00
87_C91_T0.9091.00
86_L171_L0.9081.00
400_D404_A0.9081.00
224_F318_F0.9051.00
162_D192_L0.9031.00
232_H333_V0.9021.00
213_S347_A0.9001.00
101_N104_K0.8961.00
81_K85_E0.8941.00
163_N166_A0.8941.00
89_I178_S0.8931.00
83_F126_I0.8911.00
370_A374_F0.8911.00
45_N48_A0.8891.00
52_H55_N0.8881.00
384_A388_Y0.8871.00
213_S343_A0.8831.00
201_P360_T0.8821.00
88_D114_R0.8761.00
238_L317_V0.8711.00
156_R161_V0.8701.00
368_A405_M0.8691.00
123_I172_L0.8671.00
169_C186_F0.8661.00
53_E58_E0.8621.00
362_A366_L0.8611.00
172_L176_Y0.8611.00
50_I54_I0.8601.00
98_L103_M0.8601.00
362_A387_V0.8591.00
227_Y279_P0.8581.00
280_A283_A0.8581.00
138_L161_V0.8571.00
139_L158_V0.8561.00
184_K187_E0.8531.00
126_I131_I0.8531.00
239_A254_R0.8511.00
240_W291_T0.8471.00
138_L156_R0.8451.00
54_I57_G0.8451.00
37_N40_I0.8421.00
117_I133_N0.8371.00
378_Q399_N0.8361.00
123_I175_A0.8321.00
94_K98_L0.8311.00
176_Y188_G0.8301.00
210_L222_W0.8231.00
130_D133_N0.8211.00
363_C393_M0.8191.00
215_K223_K0.8181.00
352_R356_H0.8181.00
230_L250_V0.8151.00
133_N137_E0.8131.00
159_R162_D0.8131.00
101_N105_K0.8121.00
222_W357_T0.8091.00
136_N139_L0.8071.00
199_P353_N0.8041.00
244_D248_G0.8041.00
105_K109_Q0.8011.00
38_S42_K0.7971.00
95_E107_K0.7951.00
361_F379_M0.7901.00
359_H390_I0.7891.00
179_G188_G0.7871.00
397_D401_E0.7871.00
250_V276_L0.7871.00
129_S179_G0.7851.00
251_N271_I0.7801.00
61_Y64_R0.7771.00
35_I40_I0.7771.00
40_I43_A0.7761.00
156_R160_T0.7751.00
100_T103_M0.7751.00
245_L248_G0.7721.00
376_A389_E0.7701.00
362_A392_G0.7691.00
275_T399_N0.7671.00
108_S111_K0.7671.00
165_I189_V0.7661.00
332_S335_S0.7651.00
176_Y184_K0.7631.00
235_L354_P0.7611.00
98_L102_T0.7581.00
233_G237_A0.7571.00
335_S338_A0.7561.00
42_K45_N0.7531.00
114_R119_E0.7521.00
320_P328_K0.7481.00
85_E88_D0.7471.00
366_L395_I0.7471.00
81_K180_F0.7461.00
16_R27_R0.7441.00
49_L52_H0.7441.00
51_V54_I0.7441.00
110_L114_R0.7431.00
210_L340_W0.7421.00
275_T400_D0.7421.00
378_Q403_I0.7411.00
42_K46_L0.7401.00
282_E285_K0.7381.00
255_N265_P0.7361.00
395_I398_M0.7361.00
236_A333_V0.7341.00
127_R179_G0.7341.00
224_F228_S0.7331.00
245_L276_L0.7291.00
127_R182_S0.7281.00
363_C394_W0.7271.00
214_E222_W0.7251.00
202_L206_E0.7231.00
200_D206_E0.7191.00
90_W170_S0.7181.00
366_L372_P0.7151.00
356_H359_H0.7111.00
113_L164_Y0.7111.00
200_D350_R0.7101.00
93_I136_N0.7091.00
337_G354_P0.7091.00
288_Y292_G0.7081.00
362_A376_A0.7071.00
39_N43_A0.7071.00
181_I185_P0.7071.00
48_A55_N0.7061.00
172_L184_K0.7061.00
340_W357_T0.7051.00
211_M227_Y0.7041.00
334_S338_A0.7031.00
21_F26_C0.7021.00
162_D166_A0.7021.00
226_V360_T0.6991.00
82_T122_P0.6961.00
402_Q405_M0.6921.00
41_K45_N0.6911.00
132_L135_R0.6881.00
401_E404_A0.6861.00
19_F26_C0.6841.00
84_G110_L0.6821.00
81_K124_S0.6801.00
121_T126_I0.6801.00
243_V250_V0.6791.00
250_V254_R0.6781.00
175_A181_I0.6771.00
14_Y34_E0.6751.00
373_A388_Y0.6731.00
216_G220_N0.6721.00
86_L180_F0.6701.00
48_A51_V0.6671.00
10_I13_R0.6641.00
230_L238_L0.6631.00
243_V284_L0.6631.00
224_F284_L0.6621.00
211_M219_Q0.6611.00
128_Y188_G0.6601.00
176_Y187_E0.6591.00
267_T380_G0.6581.00
16_R29_T0.6561.00
249_I400_D0.6541.00
376_A379_M0.6541.00
173_R176_Y0.6521.00
366_L373_A0.6511.00
90_W174_F0.6481.00
207_F360_T0.6461.00
135_R161_V0.6451.00
374_F398_M0.6431.00
53_E56_S0.6421.00
45_N49_L0.6401.00
230_L234_E0.6401.00
201_P363_C0.6401.00
48_A52_H0.6381.00
17_I46_L0.6371.00
35_I39_N0.6371.00
204_K367_T0.6351.00
228_S274_V0.6331.00
397_D400_D0.6321.00
110_L171_L0.6301.00
204_K368_A0.6291.00
232_H337_G0.6281.00
177_Q187_E0.6241.00
113_L155_G0.6191.00
118_C130_D0.6151.00
338_A342_A0.6151.00
209_A212_E0.6141.00
334_S337_G0.6141.00
372_P376_A0.6131.00
283_A286_E0.6131.00
109_Q164_Y0.6101.00
117_I134_Y0.6101.00
333_V337_G0.6101.00
230_L274_V0.6091.00
231_R355_Y0.6081.00
89_I133_N0.6051.00
118_C126_I0.6041.00
128_Y132_L0.6041.00
367_T397_D0.6021.00
170_S174_F0.6021.00
336_L354_P0.6011.00
44_G48_A0.6001.00
343_A347_A0.5981.00
316_F319_M0.5981.00
373_A389_E0.5971.00
17_I47_R0.5961.00
214_E219_Q0.5951.00
85_E89_I0.5941.00
37_N46_L0.5921.00
88_D111_K0.5921.00
282_E286_E0.5901.00
89_I92_K0.5871.00
89_I174_F0.5871.00
371_N402_Q0.5851.00
316_F329_P0.5841.00
396_D399_N0.5821.00
372_P384_A0.5811.00
231_R254_R0.5801.00
383_T388_Y0.5791.00
341_N344_V0.5791.00
34_E38_S0.5791.00
253_R271_I0.5781.00
39_N47_R0.5771.00
209_A347_A0.5771.00
22_R25_R0.5761.00
113_L138_L0.5751.00
214_E343_A0.5751.00
173_R188_G0.5751.00
371_N398_M0.5741.00
217_Q220_N0.5721.00
226_V364_W0.5691.00
376_A386_M0.5671.00
112_T164_Y0.5671.00
340_W354_P0.5661.00
355_Y379_M0.5661.00
60_E63_R0.5661.00
335_S339_R0.5651.00
246_E285_K0.5651.00
128_Y178_S0.5641.00
136_N140_H0.5631.00
168_L186_F0.5631.00
26_C29_T0.5631.00
134_Y168_L0.5621.00
30_L37_N0.5621.00
344_V351_R0.5601.00
53_E57_G0.5601.00
40_I47_R0.5591.00
59_F62_L0.5581.00
228_S280_A0.5581.00
17_I50_I0.5581.00
58_E62_L0.5541.00
286_E289_K0.5531.00
229_G379_M0.5521.00
106_T109_Q0.5521.00
384_A389_E0.5521.00
173_R177_Q0.5511.00
102_T105_K0.5481.00
237_A264_P0.5471.00
388_Y392_G0.5461.00
156_R164_Y0.5461.00
43_A47_R0.5451.00
105_K163_N0.5421.00
195_N268_N0.5401.00
94_K106_T0.5391.00
228_S277_L0.5381.00
232_H336_L0.5381.00
136_N178_S0.5371.00
132_L177_Q0.5371.00
370_A375_I0.5361.00
394_W398_M0.5351.00
41_K44_G0.5341.00
22_R26_C0.5341.00
183_T188_G0.5331.00
25_R28_E0.5331.00
43_A57_G0.5311.00
37_N42_K0.5311.00
222_W340_W0.5311.00
287_Q290_L0.5261.00
171_L174_F0.5261.00
245_L317_V0.5241.00
217_Q287_Q0.5191.00
38_S47_R0.5191.00
56_S60_E0.5181.00
223_K227_Y0.5171.00
342_A346_R0.5161.00
275_T403_I0.5151.00
166_A170_S0.5131.00
367_T394_W0.5131.00
158_V162_D0.5121.00
134_Y137_E0.5121.00
169_C184_K0.5091.00
84_G114_R0.5091.00
205_T208_N0.5061.00
39_N46_L0.5041.00
49_L56_S0.5001.00
365_L378_Q0.5001.00
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  
1z1bA 3 0.8029 100 0.315 Contact Map
2a3vA 3 0.7299 100 0.348 Contact Map
1a0pA 1 0.6302 100 0.351 Contact Map
1z19A 3 0.6691 100 0.365 Contact Map
4a8eA 2 0.6423 100 0.393 Contact Map
1xo0A 3 0.6886 100 0.406 Contact Map
3nkhA 2 0.4891 100 0.476 Contact Map
1ae9A 4 0.3942 100 0.574 Contact Map
1aihA 2 0.3869 100 0.613 Contact Map
4e0gA 2 0.6326 99.9 0.622 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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