GREMLIN Database
INTA - Prophage CP4-57 integrase
UniProt: P32053 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11783
Length: 413 (334)
Sequences: 17781 (14989)
Seq/√Len: 820.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
344_S361_L4.6411.00
145_I154_T3.3441.00
257_W296_K3.1481.00
151_K154_T2.9501.00
335_V338_G2.8411.00
280_H362_A2.7561.00
242_Q336_S2.6641.00
265_S289_L2.6571.00
343_A360_A2.6181.00
249_P337_H2.5781.00
246_I343_A2.4851.00
237_C295_M2.4011.00
341_S375_R2.3011.00
256_R303_E2.3001.00
268_K281_T2.2721.00
162_V174_L2.2641.00
108_L139_F2.2241.00
74_L77_E2.1951.00
242_Q252_A2.1331.00
141_A161_P2.1191.00
111_A181_V2.0991.00
261_D264_A2.0781.00
46_R55_R2.0781.00
159_V175_C2.0641.00
68_L72_R2.0131.00
111_A134_L2.0091.00
354_P370_R1.9931.00
131_W135_E1.9861.00
169_E173_R1.9711.00
343_A347_L1.9491.00
184_Y188_T1.9341.00
112_E139_F1.9281.00
108_L112_E1.9151.00
266_E281_T1.9081.00
78_S81_L1.9021.00
348_N357_I1.8521.00
321_V325_L1.8501.00
289_L293_E1.8501.00
110_V185_A1.8331.00
146_S149_E1.8251.00
247_T252_A1.8241.00
257_W305_I1.8111.00
115_W131_W1.8041.00
110_V147_I1.7831.00
155_L196_S1.7511.00
237_C294_M1.7441.00
189_G193_A1.7311.00
183_I197_V1.7261.00
283_P360_A1.7051.00
48_Y55_R1.6911.00
278_R364_V1.6901.00
244_L285_S1.6801.00
108_L144_D1.6701.00
133_S177_R1.6591.00
348_N374_N1.6501.00
353_P356_V1.6461.00
46_R57_K1.6031.00
110_V184_Y1.5981.00
265_S286_D1.5941.00
215_R218_Q1.5751.00
150_I182_M1.5671.00
77_E81_L1.5491.00
67_S70_D1.5241.00
249_P253_A1.5111.00
219_L243_L1.4871.00
251_E280_H1.4731.00
259_E270_P1.4661.00
74_L78_S1.4651.00
236_R240_M1.4531.00
243_L339_L1.4531.00
255_A260_I1.4511.00
368_E372_A1.4511.00
80_V84_K1.4501.00
113_R117_V1.4441.00
218_Q221_Q1.4201.00
175_C179_N1.4081.00
156_V188_T1.4011.00
106_T109_L1.3991.00
256_R304_F1.3981.00
237_C291_I1.3931.00
365_D371_R1.3931.00
119_K127_A1.3911.00
286_D290_A1.3911.00
262_F293_E1.3751.00
347_L352_F1.3661.00
365_D368_E1.3631.00
187_N200_G1.3611.00
126_Y130_I1.3591.00
352_F388_W1.3411.00
214_I222_L1.3321.00
258_D303_E1.3251.00
221_Q225_T1.3231.00
344_S357_I1.3171.00
347_L357_I1.3111.00
115_W127_A1.3061.00
127_A131_W1.3031.00
132_R136_R1.2991.00
77_E80_V1.2911.00
284_L288_A1.2891.00
187_N198_N1.2881.00
152_A187_N1.2881.00
355_D358_E1.2861.00
238_L252_A1.2851.00
259_E273_R1.2841.00
219_L346_A1.2791.00
76_A83_A1.2781.00
214_I334_L1.2781.00
75_R79_K1.2681.00
286_D387_Q1.2661.00
156_V160_Q1.2641.00
227_R236_R1.2551.00
255_A267_W1.2511.00
179_N183_I1.2491.00
322_N326_K1.2441.00
241_W288_A1.2411.00
145_I149_E1.2351.00
181_V185_A1.2261.00
356_V385_M1.2101.00
284_L289_L1.1981.00
247_T269_I1.1961.00
134_L139_F1.1931.00
119_K131_W1.1831.00
135_E139_F1.1691.00
142_I158_A1.1681.00
368_E371_R1.1641.00
130_I177_R1.1601.00
295_M299_S1.1591.00
352_F385_M1.1581.00
186_Q191_I1.1511.00
223_M240_M1.1451.00
72_R76_A1.1411.00
322_N325_L1.1311.00
118_K122_V1.1311.00
285_S288_A1.1261.00
152_A189_G1.1261.00
104_T148_T1.1261.00
183_I194_V1.1251.00
128_D132_R1.1251.00
238_L306_F1.1201.00
287_G390_A1.1201.00
369_V372_A1.1131.00
79_K83_A1.1081.00
104_T146_S1.1071.00
256_R259_E1.1071.00
249_P336_S1.1071.00
129_D132_R1.1051.00
42_L59_S1.0981.00
358_E366_K1.0961.00
220_P224_H1.0951.00
355_D359_A1.0901.00
44_Q59_S1.0901.00
365_D369_V1.0881.00
73_K77_E1.0851.00
308_S312_P1.0831.00
76_A79_K1.0831.00
182_M195_P1.0831.00
261_D266_E1.0821.00
384_P388_W1.0791.00
267_W271_A1.0781.00
240_M291_I1.0771.00
81_L86_I1.0761.00
214_I342_I1.0741.00
158_A174_L1.0741.00
60_F63_Y1.0701.00
320_T323_A1.0601.00
363_H369_V1.0601.00
349_E380_E1.0601.00
342_I346_A1.0531.00
69_S73_K1.0471.00
124_E128_D1.0471.00
122_V130_I1.0451.00
358_E370_R1.0441.00
216_P346_A1.0421.00
158_A162_V1.0371.00
155_L178_I1.0341.00
110_V188_T1.0311.00
123_T126_Y1.0241.00
216_P220_P1.0171.00
153_H157_K1.0161.00
287_G290_A1.0151.00
244_L288_A1.0131.00
45_F74_L1.0071.00
345_T374_N1.0061.00
213_S342_I1.0001.00
151_K189_G0.9971.00
112_E116_N0.9971.00
346_A349_E0.9871.00
108_L143_G0.9871.00
36_K44_Q0.9851.00
175_C196_S0.9851.00
167_A170_T0.9841.00
112_E131_W0.9841.00
147_I182_M0.9831.00
80_V83_A0.9821.00
107_F181_V0.9731.00
258_D302_R0.9721.00
241_W252_A0.9701.00
240_M287_G0.9621.00
293_E296_K0.9571.00
285_S390_A0.9571.00
153_H188_T0.9551.00
105_N109_L0.9531.00
182_M191_I0.9521.00
345_T375_R0.9461.00
179_N197_V0.9391.00
72_R75_R0.9361.00
241_W267_W0.9341.00
162_V171_V0.9331.00
70_D73_K0.9291.00
110_V181_V0.9281.00
255_A305_I0.9251.00
182_M196_S0.9221.00
173_R176_Q0.9191.00
349_E377_D0.9121.00
73_K76_A0.9101.00
244_L287_G0.9091.00
137_D165_R0.9041.00
76_A80_V0.9031.00
358_E371_R0.9001.00
352_F356_V0.9001.00
320_T324_A0.8971.00
321_V324_A0.8951.00
169_E172_R0.8921.00
154_T157_K0.8921.00
111_A115_W0.8901.00
77_E84_K0.8901.00
107_F111_A0.8871.00
69_S72_R0.8841.00
319_Q323_A0.8831.00
186_Q198_N0.8831.00
227_R240_M0.8791.00
107_F178_I0.8791.00
383_R387_Q0.8761.00
68_L71_A0.8741.00
73_K83_A0.8731.00
296_K299_S0.8711.00
170_T174_L0.8681.00
186_Q197_V0.8641.00
344_S348_N0.8621.00
370_R374_N0.8621.00
157_K161_P0.8591.00
343_A361_L0.8581.00
70_D74_L0.8571.00
105_N113_R0.8561.00
118_K121_S0.8561.00
129_D133_S0.8541.00
107_F150_I0.8501.00
241_W306_F0.8501.00
124_E127_A0.8431.00
350_E388_W0.8431.00
71_A75_R0.8421.00
250_A254_E0.8401.00
179_N196_S0.8391.00
122_V127_A0.8371.00
151_K192_D0.8361.00
259_E271_A0.8351.00
118_K180_E0.8331.00
105_N190_L0.8311.00
163_Q166_G0.8291.00
344_S370_R0.8281.00
194_V197_V0.8281.00
42_L62_A0.8261.00
226_M239_F0.8221.00
186_Q194_V0.8211.00
125_D128_D0.8211.00
366_K371_R0.8201.00
239_F339_L0.8201.00
156_V159_V0.8121.00
296_K300_G0.8121.00
141_A158_A0.8101.00
38_S41_K0.8061.00
150_I155_L0.8051.00
115_W119_K0.8051.00
254_E273_R0.8021.00
73_K80_V0.7991.00
334_L338_G0.7991.00
81_L84_K0.7981.00
132_R135_E0.7961.00
153_H189_G0.7951.00
387_Q390_A0.7941.00
147_I185_A0.7921.00
249_P318_S0.7921.00
262_F289_L0.7881.00
358_E369_V0.7861.00
137_D174_L0.7861.00
35_I38_S0.7841.00
222_L239_F0.7821.00
320_T325_L0.7781.00
257_W299_S0.7771.00
257_W292_L0.7761.00
288_A291_I0.7741.00
268_K279_D0.7701.00
111_A139_F0.7701.00
252_A336_S0.7681.00
360_A386_M0.7661.00
114_W184_Y0.7641.00
106_T146_S0.7611.00
344_S374_N0.7601.00
338_G341_S0.7601.00
43_W68_L0.7601.00
138_I178_I0.7591.00
225_T328_A0.7561.00
241_W292_L0.7551.00
109_L113_R0.7531.00
125_D129_D0.7521.00
189_G198_N0.7511.00
60_F74_L0.7511.00
186_Q193_A0.7501.00
87_D90_E0.7501.00
211_M335_V0.7461.00
290_A293_E0.7461.00
385_M388_W0.7431.00
225_T327_R0.7401.00
348_N354_P0.7401.00
323_A327_R0.7391.00
141_A157_K0.7371.00
117_V160_Q0.7361.00
366_K370_R0.7361.00
380_E384_P0.7341.00
182_M186_Q0.7331.00
344_S369_V0.7221.00
267_W284_L0.7211.00
185_A191_I0.7131.00
358_E365_D0.7121.00
159_V171_V0.7111.00
361_L370_R0.7091.00
363_H370_R0.7091.00
348_N377_D0.7091.00
113_R190_L0.7061.00
110_V190_L0.7061.00
341_S372_A0.7041.00
175_C199_I0.7021.00
137_D140_P0.7001.00
152_A156_V0.7001.00
138_I143_G0.6981.00
283_P383_R0.6981.00
308_S314_Q0.6981.00
114_W180_E0.6971.00
172_R176_Q0.6971.00
260_I292_L0.6971.00
116_N119_K0.6951.00
348_N355_D0.6951.00
233_M236_R0.6941.00
226_M236_R0.6941.00
355_D370_R0.6921.00
221_Q224_H0.6921.00
59_S62_A0.6901.00
241_W245_T0.6891.00
214_I218_Q0.6871.00
344_S358_E0.6841.00
247_T251_E0.6771.00
359_A381_Q0.6771.00
248_R337_H0.6741.00
182_M194_V0.6731.00
262_F265_S0.6721.00
270_P279_D0.6721.00
235_T320_T0.6681.00
286_D390_A0.6671.00
247_T267_W0.6661.00
45_F78_S0.6661.00
36_K40_S0.6651.00
112_E135_E0.6641.00
247_T255_A0.6641.00
45_F75_R0.6611.00
183_I187_N0.6601.00
365_D370_R0.6601.00
114_W118_K0.6581.00
218_Q331_G0.6581.00
109_L112_E0.6571.00
219_L342_I0.6561.00
122_V126_Y0.6561.00
358_E368_E0.6541.00
345_T376_S0.6491.00
35_I41_K0.6491.00
354_P371_R0.6411.00
180_E184_Y0.6381.00
158_A178_I0.6381.00
118_K130_I0.6381.00
256_R271_A0.6361.00
191_I195_P0.6361.00
113_R116_N0.6351.00
246_I361_L0.6341.00
58_Q78_S0.6341.00
113_R184_Y0.6341.00
82_L87_D0.6331.00
366_K369_V0.6291.00
45_F60_F0.6291.00
349_E376_S0.6281.00
36_K42_L0.6281.00
245_T288_A0.6271.00
134_L138_I0.6251.00
245_T282_V0.6251.00
304_F307_P0.6241.00
44_Q57_K0.6241.00
133_S174_L0.6241.00
142_I150_I0.6221.00
355_D371_R0.6201.00
276_M362_A0.6201.00
129_D173_R0.6191.00
163_Q171_V0.6171.00
113_R188_T0.6171.00
137_D162_V0.6161.00
47_Y56_T0.6141.00
108_L134_L0.6131.00
243_L346_A0.6121.00
247_T282_V0.6111.00
212_P218_Q0.6071.00
337_H361_L0.6051.00
213_S345_T0.6011.00
354_P358_E0.5991.00
233_M237_C0.5991.00
262_F284_L0.5981.00
348_N370_R0.5981.00
243_L342_I0.5971.00
85_D88_P0.5971.00
304_F315_P0.5951.00
216_P350_E0.5931.00
384_P387_Q0.5921.00
158_A161_P0.5901.00
179_N194_V0.5891.00
291_I294_M0.5881.00
290_A294_M0.5871.00
263_N266_E0.5871.00
225_T228_T0.5871.00
223_M244_L0.5861.00
253_A318_S0.5841.00
139_F143_G0.5841.00
354_P366_K0.5761.00
160_Q188_T0.5711.00
256_R273_R0.5701.00
183_I186_Q0.5681.00
344_S363_H0.5681.00
348_N376_S0.5651.00
130_I133_S0.5651.00
187_N197_V0.5651.00
260_I267_W0.5641.00
217_D221_Q0.5641.00
79_K82_L0.5641.00
152_A198_N0.5641.00
261_D268_K0.5641.00
216_P349_E0.5631.00
45_F79_K0.5621.00
142_I154_T0.5621.00
156_V187_N0.5621.00
323_A326_K0.5581.00
294_M298_L0.5571.00
358_E361_L0.5561.00
347_L360_A0.5541.00
181_V184_Y0.5541.00
176_Q180_E0.5541.00
159_V163_Q0.5531.00
113_R157_K0.5521.00
134_L181_V0.5521.00
60_F78_S0.5521.00
105_N146_S0.5501.00
212_P331_G0.5501.00
81_L85_D0.5481.00
245_T285_S0.5471.00
105_N148_T0.5471.00
262_F305_I0.5441.00
207_Q277_N0.5441.00
152_A188_T0.5441.00
172_R204_E0.5411.00
321_V336_S0.5401.00
112_E134_L0.5391.00
183_I198_N0.5371.00
261_D265_S0.5361.00
352_F357_I0.5341.00
380_E383_R0.5321.00
71_A74_L0.5311.00
133_S173_R0.5301.00
145_I150_I0.5301.00
262_F292_L0.5291.00
168_L172_R0.5281.00
212_P338_G0.5261.00
233_M294_M0.5251.00
223_M236_R0.5241.00
126_Y129_D0.5231.00
217_D220_P0.5211.00
245_T252_A0.5191.00
276_M364_V0.5191.00
322_N333_V0.5181.00
234_S237_C0.5161.00
223_M227_R0.5161.00
294_M297_P0.5131.00
63_Y74_L0.5131.00
156_V199_I0.5121.00
178_I196_S0.5111.00
134_L177_R0.5091.00
248_R271_A0.5071.00
137_D167_A0.5071.00
62_A67_S0.5071.00
263_N293_E0.5061.00
291_I295_M0.5051.00
324_A327_R0.5041.00
377_D380_E0.5041.00
78_S82_L0.5021.00
268_K271_A0.5021.00
40_S62_A0.5021.00
266_E383_R0.5011.00
67_S71_A0.5001.00
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 0.8111 100 0.367 Contact Map
1z19A 3 0.6513 100 0.415 Contact Map
1a0pA 1 0.615 100 0.42 Contact Map
2a3vA 3 0.661 100 0.424 Contact Map
4a8eA 2 0.6247 100 0.463 Contact Map
1xo0A 3 0.6731 100 0.465 Contact Map
3nkhA 2 0.4479 100 0.566 Contact Map
1ae9A 4 0.3826 100 0.624 Contact Map
1aihA 2 0.4068 100 0.629 Contact Map
4e0gA 2 0.6416 99.9 0.656 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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