GREMLIN Database
RFCL - Replication factor C large subunit
UniProt: Q9UXF6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 405 (318)
Sequences: 10649 (6771)
Seq/√Len: 379.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_D165_P3.9791.00
6_L10_P3.2241.00
162_G165_P3.1661.00
167_R187_N2.7761.00
205_Q210_G2.6431.00
171_K183_D2.5501.00
27_Q31_E2.5211.00
171_K186_L2.5201.00
277_I281_W2.5131.00
240_F272_I2.5021.00
326_P330_P2.3411.00
167_R171_K2.3291.00
205_Q209_E2.3171.00
180_I213_K2.2571.00
267_S271_P2.2191.00
282_R286_A2.1721.00
16_V59_A2.1581.00
206_G210_G2.1561.00
277_I280_I2.1371.00
259_Y262_L2.1091.00
80_Q84_S2.0881.00
215_T218_L2.0611.00
219_V223_A2.0241.00
294_L297_A2.0081.00
16_V56_L2.0021.00
261_M265_W1.9721.00
259_Y263_I1.9381.00
166_L190_I1.9231.00
301_D305_L1.9061.00
291_S295_K1.8971.00
84_S88_K1.8801.00
269_N272_I1.8611.00
167_R186_L1.8481.00
285_D289_R1.8321.00
84_S87_E1.8221.00
248_A251_A1.8131.00
12_S15_D1.8111.00
172_K176_A1.7991.00
306_S310_D1.7941.00
78_K81_D1.7721.00
67_E92_Y1.7681.00
216_L220_E1.7611.00
228_R231_D1.7391.00
250_N254_S1.7251.00
284_F288_S1.7201.00
287_L291_S1.7131.00
243_R246_W1.7071.00
20_D168_R1.6861.00
136_M139_N1.6841.00
67_E99_K1.6811.00
289_R293_F1.6801.00
259_Y265_W1.6761.00
308_A312_M1.6691.00
266_I270_I1.6671.00
182_D213_K1.6471.00
300_G303_D1.6461.00
327_N331_K1.6191.00
264_R268_E1.5961.00
235_T242_A1.5641.00
262_L266_I1.5491.00
169_I197_A1.5461.00
163_K191_D1.5401.00
288_S291_S1.5181.00
262_L270_I1.5151.00
286_A290_A1.4911.00
206_G209_E1.4891.00
233_F239_I1.4861.00
284_F287_L1.4831.00
286_A297_A1.4831.00
87_E90_A1.4701.00
231_D234_E1.4671.00
79_L83_K1.4661.00
163_K190_I1.4641.00
170_L186_L1.4631.00
248_A255_A1.4501.00
262_L265_W1.4381.00
267_S270_I1.4351.00
166_L200_A1.4331.00
290_A294_L1.4251.00
287_L290_A1.4221.00
291_S294_L1.4181.00
283_A286_A1.4161.00
58_E70_E1.4061.00
312_M316_V1.3881.00
273_Q277_I1.3711.00
268_E272_I1.3661.00
265_W269_N1.3521.00
282_R285_D1.3491.00
260_D264_R1.3481.00
216_L219_V1.3361.00
44_L108_V1.3321.00
289_R292_I1.3321.00
220_E223_A1.3301.00
74_S122_G1.3161.00
309_Y312_M1.3121.00
299_S302_W1.3061.00
325_K328_W1.3021.00
80_Q83_K1.2971.00
22_A156_I1.2931.00
292_I296_R1.2781.00
248_A252_A1.2761.00
22_A25_Q1.2741.00
186_L190_I1.2611.00
290_A295_K1.2551.00
171_K175_Q1.2501.00
283_A290_A1.2491.00
233_F237_R1.2291.00
259_Y272_I1.2251.00
293_F297_A1.2231.00
181_C186_L1.2181.00
329_K333_K1.2161.00
273_Q276_N1.2131.00
319_A323_K1.2081.00
45_L158_L1.2021.00
229_E242_A1.2001.00
46_H157_E1.1931.00
190_I200_A1.1921.00
316_V319_A1.1911.00
237_R241_W1.1891.00
163_K187_N1.1861.00
278_E281_W1.1861.00
276_N279_D1.1851.00
11_R15_D1.1841.00
211_Y215_T1.1811.00
325_K329_K1.1811.00
187_N191_D1.1811.00
182_D185_A1.1781.00
161_L197_A1.1721.00
239_I242_A1.1701.00
148_E152_K1.1561.00
298_K302_W1.1541.00
217_N221_S1.1501.00
218_L222_L1.1481.00
61_A102_L1.1481.00
318_F322_E1.1471.00
25_Q30_I1.1461.00
328_W332_W1.1381.00
137_T140_D1.1371.00
283_A287_L1.1361.00
299_S305_L1.1351.00
16_V23_K1.1341.00
234_E237_R1.1321.00
249_K253_T1.1301.00
220_E224_K1.1281.00
68_L104_L1.1281.00
251_A255_A1.1131.00
265_W268_E1.1091.00
112_N118_G1.1051.00
281_W285_D1.1041.00
217_N220_E1.0991.00
14_K27_Q1.0971.00
188_Y191_D1.0921.00
91_V96_F1.0911.00
87_E91_V1.0841.00
315_G318_F1.0801.00
169_I172_K1.0711.00
238_D241_W1.0631.00
306_S309_Y1.0621.00
288_S292_I1.0541.00
287_L297_A1.0541.00
77_R118_G1.0531.00
233_F236_L1.0511.00
21_D159_S1.0511.00
293_F296_R1.0491.00
88_K92_Y1.0491.00
302_W306_S1.0481.00
248_A256_Q1.0411.00
77_R112_N1.0371.00
173_I176_A1.0361.00
193_S200_A1.0311.00
292_I297_A1.0201.00
264_R271_P1.0121.00
316_V320_E1.0111.00
265_W271_P1.0061.00
69_L88_K0.9951.00
263_I267_S0.9921.00
305_L308_A0.9821.00
287_L292_I0.9791.00
302_W305_L0.9741.00
73_A76_S0.9711.00
79_L118_G0.9691.00
279_D283_A0.9681.00
219_V222_L0.9651.00
134_I139_N0.9651.00
274_Y277_I0.9641.00
284_F291_S0.9601.00
318_F324_K0.9591.00
227_E238_D0.9591.00
25_Q28_E0.9531.00
327_N330_P0.9521.00
227_E231_D0.9501.00
328_W331_K0.9461.00
299_S303_D0.9451.00
56_L158_L0.9431.00
188_Y216_L0.9431.00
241_W244_Y0.9401.00
236_L239_I0.9361.00
230_L233_F0.9361.00
327_N332_W0.9321.00
11_R62_H0.9291.00
278_E282_R0.9261.00
263_I266_I0.9161.00
132_Y139_N0.9141.00
249_K256_Q0.9141.00
311_M315_G0.9121.00
260_D263_I0.9051.00
80_Q85_I0.9031.00
82_I86_A0.9011.00
228_R232_P0.9001.00
274_Y306_S0.8971.00
232_P239_I0.8921.00
133_P140_D0.8921.00
258_D261_M0.8891.00
201_I205_Q0.8881.00
240_F243_R0.8841.00
248_A308_A0.8811.00
253_T257_I0.8791.00
54_T106_D0.8751.00
232_P236_L0.8751.00
291_S297_A0.8731.00
229_E233_F0.8681.00
7_K177_E0.8681.00
290_A293_F0.8661.00
324_K327_N0.8661.00
227_E233_F0.8651.00
317_A321_P0.8631.00
8_Y177_E0.8571.00
310_D313_S0.8571.00
200_A203_I0.8561.00
308_A316_V0.8541.00
309_Y320_E0.8521.00
75_D78_K0.8521.00
263_I269_N0.8511.00
262_L269_N0.8511.00
108_V134_I0.8431.00
284_F290_A0.8411.00
249_K252_A0.8401.00
265_W270_I0.8361.00
300_G305_L0.8351.00
319_A322_E0.8341.00
17_E169_I0.8331.00
293_F300_G0.8321.00
254_S257_I0.8291.00
316_V321_P0.8271.00
273_Q293_F0.8271.00
256_Q262_L0.8261.00
287_L293_F0.8261.00
20_D24_K0.8251.00
44_L153_A0.8181.00
43_V156_I0.8171.00
303_D306_S0.8151.00
73_A78_K0.8131.00
239_I244_Y0.8131.00
200_A204_L0.8111.00
315_G319_A0.8091.00
239_I243_R0.8081.00
83_K87_E0.8061.00
216_L223_A0.8021.00
261_M269_N0.8001.00
259_Y267_S0.7991.00
166_L197_A0.7961.00
167_R190_I0.7951.00
323_K327_N0.7951.00
221_S224_K0.7871.00
264_R267_S0.7851.00
312_M315_G0.7841.00
317_A320_E0.7821.00
313_S319_A0.7791.00
261_M264_R0.7731.00
260_D265_W0.7721.00
312_M319_A0.7711.00
136_M141_P0.7691.00
259_Y269_N0.7691.00
313_S317_A0.7671.00
233_F240_F0.7641.00
318_F321_P0.7641.00
305_L309_Y0.7631.00
173_I177_E0.7621.00
285_D288_S0.7621.00
174_C181_C0.7611.00
230_L234_E0.7591.00
231_D237_R0.7581.00
252_A308_A0.7571.00
25_Q32_S0.7571.00
287_L294_L0.7531.00
309_Y313_S0.7531.00
7_K10_P0.7531.00
269_N308_A0.7511.00
301_D304_L0.7501.00
237_R240_F0.7491.00
326_P329_K0.7491.00
164_Y167_R0.7461.00
25_Q156_I0.7421.00
182_D215_T0.7411.00
290_A297_A0.7401.00
312_M317_A0.7391.00
314_S318_F0.7351.00
218_L223_A0.7351.00
259_Y270_I0.7341.00
25_Q31_E0.7341.00
234_E244_Y0.7321.00
310_D314_S0.7311.00
235_T239_I0.7301.00
173_I201_I0.7271.00
262_L267_S0.7251.00
263_I271_P0.7241.00
242_A246_W0.7241.00
238_D242_A0.7241.00
236_L240_F0.7181.00
166_L170_L0.7151.00
253_T256_Q0.7141.00
54_T70_E0.7121.00
313_S316_V0.7111.00
283_A292_I0.7101.00
228_R236_L0.7081.00
258_D265_W0.7061.00
229_E239_I0.7051.00
231_D242_A0.7051.00
205_Q208_G0.7010.99
325_K332_W0.7000.99
241_W246_W0.7000.99
229_E232_P0.6970.99
73_A111_I0.6930.99
288_S297_A0.6930.99
227_E234_E0.6890.99
136_M140_D0.6880.99
71_M105_L0.6870.99
46_H155_M0.6870.99
148_E151_N0.6850.99
170_L204_L0.6830.99
258_D267_S0.6820.99
296_R303_D0.6800.99
281_W314_S0.6800.99
183_D187_N0.6790.99
274_Y281_W0.6770.99
277_I283_A0.6750.99
284_F295_K0.6740.99
82_I111_I0.6730.99
289_R295_K0.6720.99
306_S312_M0.6720.99
291_S296_R0.6720.99
292_I295_K0.6700.99
168_R171_K0.6700.99
86_A126_L0.6690.99
283_A297_A0.6680.99
242_A245_A0.6670.99
252_A256_Q0.6660.99
133_P139_N0.6650.99
165_P168_R0.6640.99
134_I140_D0.6630.99
104_L137_T0.6620.99
266_I269_N0.6620.99
20_D23_K0.6610.99
73_A77_R0.6560.99
281_W284_F0.6550.99
294_L298_K0.6550.99
200_A205_Q0.6540.99
192_S223_A0.6540.99
249_K255_A0.6500.99
15_D172_K0.6500.99
229_E244_Y0.6480.99
312_M318_F0.6470.99
325_K330_P0.6440.99
233_F242_A0.6440.99
295_K298_K0.6430.99
66_F102_L0.6400.99
238_D246_W0.6380.99
235_T244_Y0.6380.99
91_V94_S0.6340.99
67_E88_K0.6320.99
134_I137_T0.6290.99
289_R307_Y0.6290.99
8_Y176_A0.6280.99
282_R288_S0.6270.99
227_E242_A0.6250.99
250_N257_I0.6240.99
251_A256_Q0.6170.99
263_I270_I0.6170.99
274_Y279_D0.6160.99
308_A315_G0.6140.99
286_A295_K0.6130.99
259_Y271_P0.6130.99
216_L224_K0.6110.99
27_Q30_I0.6100.99
309_Y321_P0.6100.99
261_M267_S0.6090.99
247_Q250_N0.6090.99
248_A257_I0.6090.99
284_F292_I0.6030.98
133_P136_M0.6010.98
79_L112_N0.6010.98
132_Y137_T0.6000.98
57_A135_I0.5990.98
24_K27_Q0.5970.98
308_A311_M0.5950.98
283_A293_F0.5940.98
275_D279_D0.5920.98
199_Y203_I0.5910.98
232_P235_T0.5910.98
22_A30_I0.5910.98
237_R242_A0.5900.98
77_R85_I0.5900.98
212_G215_T0.5880.98
329_K332_W0.5880.98
259_Y266_I0.5860.98
111_I120_I0.5830.98
220_E225_R0.5830.98
324_K332_W0.5820.98
163_K167_R0.5810.98
179_I208_G0.5810.98
311_M314_S0.5790.98
258_D262_L0.5770.98
255_A265_W0.5760.98
265_W272_I0.5740.98
286_A289_R0.5730.98
276_N287_L0.5720.98
234_E239_I0.5710.98
164_Y168_R0.5680.98
227_E235_T0.5680.98
110_G113_V0.5670.98
105_L123_I0.5660.98
306_S314_S0.5620.98
223_A226_K0.5620.98
232_P242_A0.5600.98
234_E238_D0.5600.98
51_V158_L0.5590.98
81_D85_I0.5590.98
250_N253_T0.5590.98
170_L200_A0.5580.97
64_Y133_P0.5570.97
180_I183_D0.5560.97
218_L221_S0.5560.97
32_S39_N0.5550.97
238_D244_Y0.5530.97
315_G320_E0.5530.97
279_D306_S0.5520.97
219_V225_R0.5510.97
236_L269_N0.5470.97
38_S64_Y0.5440.97
314_S317_A0.5410.97
330_P333_K0.5400.97
211_Y218_L0.5390.97
199_Y204_L0.5390.97
283_A288_S0.5380.97
230_L243_R0.5360.97
194_E198_R0.5360.97
90_A126_L0.5330.97
288_S293_F0.5320.97
184_E187_N0.5320.97
227_E232_P0.5300.97
72_N75_D0.5290.97
282_R294_L0.5270.96
310_D315_G0.5270.96
66_F100_G0.5240.96
237_R244_Y0.5220.96
189_I203_I0.5220.96
281_W293_F0.5220.96
229_E243_R0.5200.96
81_D86_A0.5200.96
218_L224_K0.5180.96
231_D236_L0.5150.96
229_E235_T0.5140.96
252_A255_A0.5130.96
132_Y140_D0.5120.96
128_E152_K0.5120.96
100_G133_P0.5100.96
128_E148_E0.5070.96
110_G121_Q0.5070.96
283_A291_S0.5060.96
227_E239_I0.5050.96
231_D235_T0.5040.95
189_I200_A0.5040.95
159_S162_G0.5040.95
260_D270_I0.5030.95
137_T141_P0.5030.95
188_Y192_S0.5010.95
266_I272_I0.5000.95
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  
4rh7A 1 0.9506 100 0.442 Contact Map
2chqA 3 0.7457 100 0.537 Contact Map
1sxjD 1 0.7407 100 0.539 Contact Map
1sxjA 1 0.879 100 0.54 Contact Map
1iqpA 5 0.7531 100 0.542 Contact Map
1sxjC 1 0.7531 100 0.547 Contact Map
1sxjE 1 0.721 100 0.565 Contact Map
3vkgA 2 0.9383 100 0.568 Contact Map
3u61B 3 0.7432 100 0.587 Contact Map
1sxjB 1 0.7457 100 0.587 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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