GREMLIN Database
RECF - DNA replication and repair protein RecF
UniProt: P05651 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 370 (340)
Sequences: 8040 (6814)
Seq/√Len: 369.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
46_L72_G4.5561.00
5_N18_E3.9551.00
4_Q75_M3.8181.00
7_E18_E3.0471.00
5_N73_R2.8111.00
4_Q80_A2.7051.00
5_N20_Q2.5681.00
255_E262_L2.5091.00
241_G245_Q2.4121.00
7_E71_E2.4081.00
10_S62_R2.3491.00
246_E250_K2.3401.00
339_Q342_V2.3061.00
195_K198_Q2.2881.00
9_T16_H2.2411.00
7_E16_H2.2221.00
322_L330_L2.1741.00
73_R80_A2.1381.00
62_R65_K2.1161.00
3_I72_G2.1151.00
183_D187_E2.0691.00
8_L14_Y2.0621.00
258_R262_L1.9781.00
161_N165_K1.9671.00
146_Y153_Y1.9461.00
237_L241_G1.9361.00
245_Q249_S1.9271.00
67_Y86_V1.9251.00
262_L266_H1.9171.00
350_I354_T1.9031.00
163_F167_L1.8911.00
159_Q163_F1.8731.00
327_Q346_S1.8541.00
158_S162_H1.8541.00
328_S332_H1.8281.00
184_Q187_E1.8231.00
71_E84_Q1.8221.00
177_M181_L1.8061.00
180_V184_Q1.7991.00
162_H166_Q1.7891.00
238_S242_D1.7761.00
10_S65_K1.7571.00
252_R256_I1.7391.00
111_L115_M1.7391.00
111_L114_I1.7081.00
15_D62_R1.6981.00
148_H152_L1.6881.00
350_I355_L1.6631.00
9_T69_K1.6521.00
266_H269_D1.6401.00
81_I97_N1.6291.00
247_A250_K1.5901.00
191_K195_K1.5711.00
263_S267_R1.5671.00
143_S147_L1.5631.00
255_E259_G1.5601.00
69_K84_Q1.5541.00
103_K106_Q1.5321.00
290_T326_R1.5301.00
202_Q206_W1.5291.00
176_T179_D1.5241.00
355_L358_A1.5211.00
14_Y17_A1.5111.00
236_D239_K1.5081.00
254_K258_R1.5081.00
21_F341_F1.5061.00
157_L161_N1.4951.00
256_I259_G1.4941.00
166_Q170_R1.4941.00
15_D65_K1.4931.00
185_L189_A1.4801.00
84_Q95_K1.4791.00
140_G143_S1.4491.00
239_K243_S1.4331.00
193_V197_L1.4331.00
26_N361_F1.4291.00
238_S241_G1.4231.00
40_M314_L1.4161.00
130_V133_R1.4041.00
355_L360_M1.4011.00
259_G263_S1.3901.00
4_Q73_R1.3861.00
165_K169_T1.3801.00
143_S195_K1.3701.00
192_V196_R1.3651.00
190_A194_V1.3591.00
154_Q158_S1.3591.00
146_Y150_L1.3561.00
329_H332_H1.3511.00
259_G274_V1.3461.00
165_K168_Q1.3441.00
244_Y248_F1.3441.00
194_V198_Q1.3401.00
285_Q321_E1.3271.00
112_N115_M1.3241.00
179_D182_T1.3241.00
204_E208_Q1.3061.00
183_D186_V1.3011.00
240_I243_S1.3001.00
96_V101_Q1.2961.00
253_E257_E1.2941.00
347_V351_D1.2911.00
147_L151_S1.2911.00
252_R259_G1.2891.00
243_S246_E1.2771.00
160_R164_L1.2761.00
44_Y49_A1.2711.00
17_A21_F1.2701.00
259_G262_L1.2681.00
150_L154_Q1.2641.00
179_D183_D1.2581.00
192_V195_K1.2551.00
206_W210_I1.2521.00
242_D246_E1.2511.00
252_R255_E1.2501.00
264_G268_D1.2491.00
203_L207_A1.2451.00
279_V291_T1.2431.00
181_L184_Q1.2421.00
274_V278_D1.2411.00
267_R278_D1.2331.00
254_K257_E1.2301.00
66_D89_K1.2291.00
191_K194_V1.2291.00
142_V146_Y1.2031.00
119_E125_K1.2001.00
209_P213_G1.1991.00
174_D177_M1.1991.00
269_D273_Y1.1991.00
285_Q317_D1.1931.00
25_V342_V1.1911.00
145_V149_D1.1871.00
242_D245_Q1.1831.00
69_K86_V1.1771.00
149_D191_K1.1711.00
3_I43_I1.1651.00
210_I213_G1.1581.00
180_V183_D1.1551.00
61_I68_A1.1511.00
95_K100_E1.1501.00
33_A287_Q1.1491.00
271_L274_V1.1411.00
147_L150_L1.1361.00
45_V70_I1.1331.00
111_L312_I1.1291.00
182_T252_R1.1291.00
71_E82_P1.1281.00
147_L157_L1.1151.00
182_T186_V1.1121.00
211_H215_S1.1111.00
157_L160_R1.1081.00
235_L238_S1.1071.00
11_Y42_A1.1061.00
201_A204_E1.1041.00
267_R270_V1.1031.00
156_I159_Q1.1031.00
153_Y156_I1.0931.00
243_S247_A1.0921.00
8_L39_L1.0901.00
259_G266_H1.0891.00
260_V264_G1.0871.00
338_V342_V1.0831.00
271_L278_D1.0811.00
206_W209_P1.0811.00
96_V110_A1.0791.00
164_L168_Q1.0791.00
251_L254_K1.0741.00
339_Q345_T1.0711.00
31_E325_Y1.0691.00
201_A205_K1.0691.00
68_A87_I1.0671.00
147_L153_Y1.0611.00
279_V283_G1.0601.00
267_R275_N1.0591.00
275_N278_D1.0581.00
159_Q162_H1.0531.00
237_L240_I1.0531.00
11_Y68_A1.0531.00
252_R260_V1.0521.00
177_M180_V1.0481.00
175_R184_Q1.0471.00
265_P268_D1.0451.00
186_V189_A1.0431.00
175_R182_T1.0341.00
236_D240_I1.0331.00
180_V187_E1.0261.00
194_V197_L1.0261.00
140_G144_P1.0251.00
156_I160_R1.0201.00
228_A231_V1.0141.00
267_R271_L1.0121.00
198_Q202_Q1.0091.00
186_V245_Q1.0091.00
256_I267_R1.0081.00
179_D252_R1.0031.00
227_T231_V0.9991.00
224_K227_T0.9981.00
354_T358_A0.9851.00
253_E256_I0.9851.00
272_F275_N0.9801.00
226_H230_D0.9771.00
106_Q109_G0.9761.00
155_K159_Q0.9761.00
122_N126_G0.9751.00
13_N38_N0.9731.00
43_I314_L0.9701.00
264_G267_R0.9661.00
270_V274_V0.9631.00
191_K196_R0.9521.00
153_Y157_L0.9521.00
94_G107_Y0.9491.00
32_N326_R0.9471.00
94_G101_Q0.9471.00
256_I260_V0.9451.00
143_S146_Y0.9441.00
175_R194_V0.9421.00
185_L188_V0.9371.00
149_D152_L0.9371.00
200_T203_L0.9331.00
217_G220_E0.9331.00
75_M80_A0.9261.00
245_Q252_R0.9251.00
46_L70_I0.9151.00
319_L327_Q0.9151.00
274_V277_R0.9131.00
184_Q188_V0.9091.00
263_S266_H0.9091.00
228_A232_S0.9071.00
317_D343_T0.9061.00
8_L42_A0.9061.00
187_E241_G0.9061.00
187_E191_K0.9061.00
339_Q346_S0.9051.00
182_T189_A0.9031.00
314_L341_F0.9011.00
273_Y276_G0.8991.00
255_E258_R0.8991.00
210_I217_G0.8941.00
160_R261_T0.8941.00
193_V196_R0.8931.00
73_R82_P0.8931.00
215_S218_L0.8931.00
249_S252_R0.8871.00
12_R41_E0.8871.00
11_Y60_L0.8811.00
255_E266_H0.8731.00
6_L72_G0.8711.00
174_D181_L0.8691.00
287_Q290_T0.8691.00
292_A296_K0.8681.00
132_R136_D0.8681.00
166_Q169_T0.8641.00
261_T264_G0.8611.00
176_T180_V0.8611.00
241_G248_F0.8591.00
208_Q212_A0.8591.00
42_A70_I0.8571.00
225_Y228_A0.8551.00
267_R274_V0.8541.00
127_S130_V0.8511.00
271_L277_R0.8491.00
170_R173_T0.8431.00
181_L185_L0.8421.00
358_A361_F0.8401.00
57_D60_L0.8351.00
205_K209_P0.8351.00
252_R272_F0.8341.00
152_L156_I0.8341.00
151_S154_Q0.8281.00
265_P269_D0.8281.00
146_Y149_D0.8261.00
186_V190_A0.8231.00
289_R321_E0.8201.00
156_I188_V0.8201.00
203_L206_W0.8171.00
188_V191_K0.8151.00
259_G267_R0.8151.00
224_K228_A0.8121.00
283_G291_T0.8091.00
239_K242_D0.8081.00
28_I361_F0.8071.00
149_D153_Y0.8031.00
157_L164_L0.8031.00
271_L275_N0.8011.00
175_R183_D0.8011.00
340_T345_T0.7991.00
214_I217_G0.7931.00
266_H270_V0.7921.00
162_H165_K0.7911.00
207_A210_I0.7911.00
161_N261_T0.7901.00
141_Q144_P0.7881.00
83_M107_Y0.7841.00
19_L361_F0.7831.00
342_V346_S0.7831.00
31_E34_Q0.7821.00
270_V277_R0.7791.00
154_Q157_L0.7761.00
81_I85_L0.7751.00
160_R163_F0.7741.00
12_R38_N0.7731.00
267_R272_F0.7701.00
323_D326_R0.7701.00
203_L210_I0.7691.00
223_L228_A0.7651.00
61_I89_K0.7591.00
32_N317_D0.7591.00
272_F277_R0.7571.00
259_G272_F0.7571.00
247_A251_L0.7571.00
210_I220_E0.7521.00
255_E260_V0.7511.00
303_I310_Y0.7441.00
150_L153_Y0.7431.00
238_S249_S0.7421.00
240_I244_Y0.7421.00
264_G272_F0.7411.00
267_R277_R0.7391.00
229_L232_S0.7361.00
203_L217_G0.7351.00
262_L265_P0.7351.00
93_K100_E0.7351.00
252_R266_H0.7321.00
105_S108_V0.7301.00
175_R179_D0.7291.00
118_P121_L0.7261.00
148_H151_S0.7261.00
252_R267_R0.7251.00
300_I313_L0.7241.00
331_L354_T0.7241.00
40_M343_T0.7221.00
323_D327_Q0.7211.00
6_L21_F0.7211.00
339_Q343_T0.7191.00
257_E260_V0.7131.00
26_N359_G0.7131.00
76_K79_G0.7080.99
290_T322_L0.7060.99
260_V266_H0.7060.99
248_F263_S0.7050.99
178_L186_V0.7040.99
28_I39_L0.7030.99
47_S113_T0.7020.99
265_P272_F0.7020.99
256_I270_V0.7000.99
152_L155_K0.6980.99
245_Q248_F0.6980.99
61_I64_D0.6980.99
203_L211_H0.6980.99
261_T265_P0.6950.99
256_I263_S0.6920.99
58_K61_I0.6910.99
174_D184_Q0.6910.99
145_V148_H0.6890.99
188_V192_V0.6850.99
225_Y232_S0.6850.99
317_D320_S0.6830.99
158_S161_N0.6820.99
192_V198_Q0.6800.99
86_V93_K0.6800.99
157_L162_H0.6790.99
151_S155_K0.6760.99
202_Q205_K0.6730.99
325_Y328_S0.6700.99
265_P270_V0.6690.99
263_S274_V0.6670.99
101_Q106_Q0.6660.99
211_H217_G0.6630.99
101_Q107_Y0.6630.99
342_V345_T0.6630.99
171_K174_D0.6620.99
179_D186_V0.6620.99
140_G147_L0.6620.99
29_I360_M0.6600.99
117_A120_D0.6590.99
245_Q259_G0.6590.99
11_Y45_V0.6580.99
351_D355_L0.6580.99
273_Y277_R0.6550.99
133_R137_M0.6530.99
251_L262_L0.6460.99
157_L170_R0.6450.99
191_K197_L0.6430.99
317_D321_E0.6420.99
104_L108_V0.6410.99
12_R37_T0.6390.99
217_G221_L0.6390.99
290_T317_D0.6360.99
251_L255_E0.6350.99
204_E210_I0.6350.99
240_I247_A0.6350.99
123_L131_R0.6340.99
272_F276_G0.6320.99
252_R265_P0.6310.99
86_V95_K0.6280.99
235_L241_G0.6280.99
211_H216_R0.6270.99
266_H277_R0.6270.99
327_Q348_D0.6240.99
191_K198_Q0.6230.99
245_Q256_I0.6230.99
252_R270_V0.6210.99
248_F252_R0.6200.99
146_Y157_L0.6180.99
178_L181_L0.6180.99
83_M94_G0.6150.99
10_S15_D0.6140.99
212_A216_R0.6120.98
190_A195_K0.6110.98
4_Q20_Q0.6090.98
210_I218_L0.6090.98
289_R319_L0.6080.98
296_K320_S0.6050.98
213_G217_G0.6030.98
140_G146_Y0.6000.98
315_L320_S0.5990.98
289_R320_S0.5980.98
176_T184_Q0.5980.98
285_Q289_R0.5970.98
320_S323_D0.5960.98
113_T117_A0.5960.98
23_N26_N0.5920.98
178_L182_T0.5910.98
163_F170_R0.5910.98
176_T181_L0.5900.98
146_Y154_Q0.5900.98
120_D123_L0.5840.98
212_A220_E0.5820.98
202_Q217_G0.5810.98
318_V346_S0.5810.98
115_M123_L0.5800.98
167_L170_R0.5780.98
121_L131_R0.5770.98
256_I265_P0.5750.98
264_G270_V0.5740.98
313_L340_T0.5730.98
216_R219_E0.5730.98
256_I274_V0.5720.98
332_H336_G0.5680.98
61_I65_K0.5660.97
238_S245_Q0.5640.97
339_Q347_V0.5630.97
289_R317_D0.5630.97
195_K199_F0.5620.97
27_V354_T0.5610.97
142_V147_L0.5610.97
150_L164_L0.5600.97
236_D241_G0.5600.97
26_N339_Q0.5580.97
223_L226_H0.5570.97
266_H273_Y0.5570.97
147_L170_R0.5560.97
154_Q164_L0.5540.97
252_R274_V0.5530.97
161_N164_L0.5530.97
85_L94_G0.5510.97
177_M182_T0.5450.97
184_Q192_V0.5440.97
350_I358_A0.5440.97
175_R178_L0.5430.97
104_L107_Y0.5420.97
121_L124_V0.5420.97
38_N41_E0.5400.97
159_Q166_Q0.5390.97
178_L185_L0.5330.96
57_D61_I0.5310.96
174_D189_A0.5310.96
211_H214_I0.5290.96
173_T176_T0.5290.96
256_I278_D0.5280.96
324_D348_D0.5270.96
203_L213_G0.5270.96
131_R139_I0.5260.96
202_Q218_L0.5250.96
3_I312_I0.5220.96
318_V322_L0.5210.96
215_S219_E0.5200.96
116_F119_E0.5190.96
264_G269_D0.5190.96
150_L157_L0.5190.96
27_V344_T0.5180.96
14_Y39_L0.5180.96
319_L346_S0.5180.96
163_F166_Q0.5170.96
200_T204_E0.5170.96
153_Y185_L0.5160.96
174_D178_L0.5160.96
179_D185_L0.5160.96
268_D271_L0.5140.96
242_D248_F0.5130.96
296_K299_E0.5130.96
10_S16_H0.5120.96
180_V185_L0.5110.95
160_R167_L0.5110.95
260_V267_R0.5110.95
42_A46_L0.5110.95
44_Y48_M0.5100.95
112_N117_A0.5100.95
315_L318_V0.5090.95
155_K158_S0.5090.95
213_G220_E0.5060.95
59_E63_W0.5050.95
22_E359_G0.5050.95
289_R318_V0.5050.95
257_E261_T0.5040.95
302_L309_E0.5040.95
181_L188_V0.5030.95
75_M78_N0.5020.95
292_A320_S0.5010.95
189_A265_P0.5000.95
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  
4ad8A 1 0.9189 100 0.37 Contact Map
3auyA 2 0.9135 100 0.373 Contact Map
4ux3A 1 0.9081 100 0.386 Contact Map
3zgxA 2 0.8378 100 0.388 Contact Map
1w1wA 2 0.7703 100 0.394 Contact Map
4abyA 1 0.8432 100 0.406 Contact Map
3qf7A 2 0.8811 100 0.438 Contact Map
2o5vA 1 0.9351 100 0.439 Contact Map
3qktA 2 0.827 100 0.456 Contact Map
4i99A 2 0.7622 100 0.482 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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