GREMLIN Database
Q9HR66 - Integrase/recombinase
UniProt: Q9HR66 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 357 (281)
Sequences: 31925 (25518)
Seq/√Len: 1522.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
303_T320_R5.0831.00
63_G66_D3.3171.00
167_L239_L3.3031.00
223_T321_G3.2121.00
294_T297_Y2.8171.00
156_G302_F2.7491.00
159_V296_H2.6981.00
57_A66_D2.6461.00
302_F319_L2.6361.00
152_L295_P2.6011.00
166_D263_R2.4271.00
74_L86_Y2.4181.00
175_P232_K2.3341.00
152_L162_L2.2481.00
147_A238_W2.1771.00
166_D251_P2.1711.00
300_H333_H2.1471.00
44_V85_T2.0161.00
129_S132_A2.0101.00
322_D328_I2.0011.00
178_S224_L1.9861.00
166_D250_D1.9611.00
71_V87_A1.9191.00
312_D315_V1.9071.00
42_A46_R1.8801.00
154_K228_D1.8751.00
307_R316_V1.8641.00
232_K236_V1.8391.00
25_L42_A1.8271.00
21_I45_L1.8021.00
44_V89_Y1.8001.00
314_G317_K1.7761.00
171_N174_A1.7761.00
96_Y100_V1.7451.00
302_F306_L1.7291.00
157_L162_L1.7001.00
161_E223_T1.6961.00
67_C108_M1.6881.00
226_P319_L1.6811.00
47_S86_Y1.6801.00
221_R323_V1.6521.00
37_T41_Y1.6271.00
308_N338_R1.6041.00
176_A224_L1.6011.00
145_E272_M1.5951.00
148_V269_V1.5941.00
21_I93_F1.5911.00
62_A94_Y1.5861.00
167_L252_V1.5851.00
227_L232_K1.5671.00
218_K221_R1.5401.00
307_R332_T1.5201.00
320_R328_I1.5161.00
58_Q61_D1.5031.00
20_P97_M1.4851.00
159_V163_C1.4831.00
130_V305_H1.4761.00
326_D329_D1.4611.00
306_L311_G1.4391.00
166_D169_D1.4311.00
154_K231_L1.4211.00
81_S85_T1.4171.00
93_F97_M1.4111.00
153_L305_H1.4101.00
18_D22_G1.4001.00
128_I301_F1.3841.00
304_T333_H1.3831.00
216_S222_A1.3811.00
146_R150_V1.3751.00
327_I330_T1.3731.00
140_I276_H1.3721.00
317_K325_D1.3671.00
172_L236_V1.3571.00
35_K39_D1.3531.00
306_L316_V1.3531.00
147_A237_R1.3461.00
148_V162_L1.3461.00
132_A135_E1.3391.00
36_R39_D1.3391.00
133_M153_L1.3341.00
251_P263_R1.3211.00
20_P96_Y1.3201.00
314_G318_Y1.3021.00
168_R250_D1.2911.00
159_V266_P1.2881.00
160_G164_N1.2601.00
169_D180_A1.2561.00
171_N176_A1.2491.00
141_T146_R1.2451.00
70_W86_Y1.2451.00
95_S109_A1.2431.00
25_L38_R1.2411.00
317_K328_I1.2351.00
217_N221_R1.2301.00
150_V234_E1.2301.00
39_D43_R1.2301.00
341_E345_N1.2161.00
147_A234_E1.2141.00
70_W74_L1.2111.00
153_L298_F1.2091.00
303_T316_V1.1821.00
324_A329_D1.1781.00
137_I150_V1.1781.00
24_F92_R1.1761.00
48_F51_F1.1721.00
84_A114_E1.1671.00
98_Q103_V1.1611.00
87_A91_N1.1591.00
134_R138_A1.1561.00
216_S220_K1.1561.00
133_M305_H1.1461.00
308_N335_W1.1441.00
175_P229_R1.1401.00
266_P270_R1.1401.00
228_D231_L1.1371.00
130_V309_R1.1231.00
23_Y27_D1.1201.00
101_G105_G1.1151.00
268_M271_G1.1151.00
20_P59_P1.1151.00
128_I293_V1.1131.00
82_T86_Y1.1101.00
128_I136_F1.1091.00
159_V270_R1.1081.00
94_Y103_V1.1071.00
277_A293_V1.1071.00
272_M275_R1.0951.00
324_A327_I1.0941.00
51_F73_H1.0911.00
79_A82_T1.0871.00
274_R292_N1.0791.00
340_R344_L1.0791.00
301_F305_H1.0781.00
68_L72_H1.0641.00
302_F320_R1.0641.00
38_R42_A1.0641.00
338_R341_E1.0631.00
18_D50_A1.0551.00
148_V253_F1.0491.00
30_Y38_R1.0441.00
315_V342_V1.0431.00
267_E270_R1.0411.00
270_R274_R1.0401.00
68_L100_V1.0391.00
168_R249_A1.0361.00
41_Y89_Y1.0321.00
99_Q112_S1.0291.00
40_A43_R1.0241.00
34_A37_T1.0221.00
229_R233_T1.0201.00
139_D279_P1.0151.00
51_F69_T1.0131.00
139_D280_R1.0131.00
273_V277_A1.0071.00
94_Y107_P1.0061.00
51_F70_W1.0061.00
167_L242_R1.0021.00
135_E139_D0.9951.00
265_T268_M0.9871.00
304_T332_T0.9841.00
64_R99_Q0.9831.00
163_C266_P0.9811.00
303_T332_T0.9781.00
64_R68_L0.9701.00
16_A19_D0.9671.00
95_S106_N0.9651.00
154_K230_E0.9601.00
43_R47_S0.9581.00
150_V230_E0.9471.00
151_G231_L0.9461.00
132_A291_E0.9411.00
151_G253_F0.9411.00
255_S262_K0.9401.00
40_A44_V0.9381.00
74_L83_V0.9371.00
143_P237_R0.9371.00
33_K38_R0.9341.00
36_R40_A0.9301.00
146_R234_E0.9301.00
344_L347_I0.9281.00
238_W242_R0.9271.00
128_I132_A0.9261.00
127_D301_F0.9251.00
97_M102_V0.9231.00
130_V308_N0.9221.00
44_V86_Y0.9201.00
78_Y86_Y0.9131.00
147_A253_F0.9101.00
270_R295_P0.9061.00
303_T307_R0.9051.00
158_R296_H0.9031.00
57_A61_D0.9031.00
78_Y82_T0.8991.00
153_L301_F0.8971.00
230_E233_T0.8891.00
18_D56_G0.8841.00
274_R278_E0.8771.00
98_Q106_N0.8731.00
127_D333_H0.8691.00
300_H330_T0.8691.00
78_Y83_V0.8651.00
33_K41_Y0.8641.00
22_G42_A0.8591.00
165_L177_V0.8591.00
91_N95_S0.8581.00
165_L170_V0.8581.00
48_F94_Y0.8551.00
74_L78_Y0.8531.00
48_F53_S0.8521.00
157_L179_S0.8511.00
172_L232_K0.8431.00
85_T88_S0.8431.00
305_H308_N0.8411.00
319_L339_V0.8401.00
318_Y339_V0.8401.00
46_R50_A0.8391.00
99_Q110_L0.8381.00
94_Y108_M0.8371.00
227_L231_L0.8341.00
251_P254_V0.8341.00
140_I149_I0.8341.00
275_R279_P0.8321.00
130_V134_R0.8311.00
126_R297_Y0.8241.00
22_G26_E0.8241.00
151_G162_L0.8221.00
237_R241_I0.8211.00
311_G315_V0.8201.00
52_L73_H0.8191.00
23_Y102_V0.8171.00
40_A85_T0.8161.00
87_A108_M0.8131.00
231_L234_E0.8111.00
317_K329_D0.8071.00
18_D54_N0.7981.00
276_H279_P0.7961.00
156_G320_R0.7951.00
165_L252_V0.7881.00
163_C269_V0.7871.00
342_V345_N0.7871.00
311_G342_V0.7841.00
45_L50_A0.7811.00
303_T328_I0.7781.00
159_V295_P0.7771.00
155_T225_V0.7731.00
62_A67_C0.7691.00
337_D341_E0.7661.00
313_R329_D0.7631.00
106_N109_A0.7611.00
324_A328_I0.7591.00
28_M31_H0.7551.00
267_E274_R0.7521.00
69_T73_H0.7511.00
136_F149_I0.7501.00
64_R101_G0.7501.00
143_P146_R0.7461.00
236_V240_A0.7411.00
151_G177_V0.7401.00
236_V239_L0.7331.00
101_G110_L0.7311.00
268_M272_M0.7311.00
22_G50_A0.7281.00
65_R100_V0.7271.00
143_P241_I0.7271.00
20_P93_F0.7241.00
67_C90_V0.7231.00
84_A88_S0.7221.00
35_K38_R0.7211.00
229_R344_L0.7211.00
341_E344_L0.7201.00
308_N337_D0.7171.00
15_D23_Y0.7161.00
66_D69_T0.7141.00
97_M103_V0.7111.00
239_L242_R0.7101.00
20_P100_V0.7091.00
274_R277_A0.7091.00
178_S222_A0.7091.00
325_D328_I0.7061.00
171_N178_S0.7051.00
23_Y96_Y0.6951.00
141_T150_V0.6911.00
151_G157_L0.6861.00
43_R46_R0.6861.00
239_L243_P0.6851.00
272_M276_H0.6851.00
315_V319_L0.6841.00
152_L159_V0.6841.00
17_R93_F0.6831.00
98_Q105_G0.6821.00
139_D276_H0.6821.00
343_Y346_H0.6811.00
71_V83_V0.6791.00
271_G275_R0.6741.00
21_I25_L0.6741.00
49_E53_S0.6721.00
140_I146_R0.6721.00
81_S84_A0.6721.00
235_L252_V0.6721.00
336_G339_V0.6661.00
143_P147_A0.6651.00
17_R21_I0.6631.00
65_R69_T0.6591.00
273_V298_F0.6591.00
293_V297_Y0.6591.00
159_V269_V0.6591.00
23_Y26_E0.6581.00
98_Q109_A0.6581.00
127_D304_T0.6571.00
335_W338_R0.6531.00
53_S70_W0.6521.00
135_E138_A0.6521.00
257_Q262_K0.6481.00
47_S70_W0.6471.00
172_L177_V0.6431.00
15_D19_D0.6431.00
48_F90_V0.6411.00
337_D340_R0.6391.00
51_F54_N0.6361.00
136_F273_V0.6361.00
150_V231_L0.6321.00
73_H77_Q0.6321.00
217_N220_K0.6311.00
273_V295_P0.6311.00
94_Y98_Q0.6301.00
149_I298_F0.6301.00
48_F70_W0.6301.00
91_N108_M0.6301.00
70_W73_H0.6251.00
226_P340_R0.6251.00
90_V108_M0.6241.00
131_A134_R0.6231.00
45_L93_F0.6231.00
307_R335_W0.6211.00
171_N177_V0.6201.00
230_E347_I0.6201.00
233_T237_R0.6131.00
75_R83_V0.6121.00
59_P97_M0.6111.00
95_S98_Q0.6111.00
125_R294_T0.6091.00
311_G345_N0.6061.00
144_L238_W0.6061.00
23_Y100_V0.6051.00
145_E276_H0.6041.00
233_T236_V0.6031.00
131_A135_E0.6031.00
19_D23_Y0.6021.00
147_A151_G0.6011.00
147_A231_L0.5991.00
216_S221_R0.5981.00
303_T322_D0.5981.00
45_L89_Y0.5981.00
307_R314_G0.5981.00
234_E237_R0.5971.00
70_W90_V0.5971.00
307_R312_D0.5961.00
325_D329_D0.5961.00
167_L235_L0.5951.00
98_Q110_L0.5931.00
317_K327_I0.5921.00
157_L161_E0.5921.00
311_G316_V0.5911.00
313_R325_D0.5911.00
93_F96_Y0.5911.00
142_H146_R0.5911.00
133_M301_F0.5901.00
87_A111_V0.5841.00
170_V235_L0.5811.00
155_T228_D0.5781.00
24_F96_Y0.5771.00
307_R313_R0.5761.00
74_L77_Q0.5741.00
269_V295_P0.5741.00
314_G329_D0.5731.00
147_A235_L0.5721.00
216_S219_R0.5691.00
164_N263_R0.5671.00
137_I146_R0.5601.00
297_Y300_H0.5601.00
128_I297_Y0.5581.00
167_L243_P0.5531.00
59_P94_Y0.5531.00
91_N113_Q0.5531.00
91_N109_A0.5511.00
50_A53_S0.5511.00
242_R254_V0.5481.00
133_M137_I0.5461.00
24_F28_M0.5461.00
144_L147_A0.5441.00
157_L165_L0.5391.00
136_F277_A0.5381.00
92_R95_S0.5371.00
20_P102_V0.5331.00
169_D216_S0.5311.00
152_L298_F0.5311.00
166_D249_A0.5291.00
68_L71_V0.5291.00
48_F52_L0.5281.00
19_D22_G0.5251.00
237_R240_A0.5221.00
180_A222_A0.5211.00
170_V252_V0.5171.00
15_D102_V0.5171.00
98_Q104_D0.5171.00
28_M33_K0.5161.00
161_E217_N0.5131.00
64_R100_V0.5131.00
96_Y102_V0.5121.00
150_V154_K0.5111.00
94_Y106_N0.5111.00
339_V343_Y0.5111.00
230_E234_E0.5101.00
172_L175_P0.5101.00
238_W241_I0.5071.00
130_V301_F0.5071.00
312_D342_V0.5051.00
276_H280_R0.5031.00
64_R110_L0.5031.00
125_R300_H0.5031.00
103_V107_P0.5001.00
303_T317_K0.5001.00
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  
1a0pA 1 0.7339 100 0.253 Contact Map
1z1bA 3 0.8179 100 0.257 Contact Map
1z19A 3 0.7815 100 0.268 Contact Map
2a3vA 3 0.7899 100 0.279 Contact Map
1xo0A 3 0.8291 100 0.297 Contact Map
4a8eA 2 0.7423 100 0.303 Contact Map
3nkhA 2 0.5686 100 0.44 Contact Map
1ae9A 4 0.4678 100 0.521 Contact Map
1aihA 2 0.4678 99.9 0.55 Contact Map
4e0gA 2 0.7479 99.9 0.592 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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