GREMLIN Database
RFCS - Replication factor C small subunit
UniProt: Q9HN27 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 322 (281)
Sequences: 21623 (13172)
Seq/√Len: 785.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
171_A191_D4.0151.00
14_E18_P3.7521.00
28_P169_A3.2741.00
171_A175_R3.2451.00
166_G169_A3.0451.00
11_I75_N2.7991.00
175_R190_I2.4441.00
167_D195_Y2.2931.00
170_V194_V2.2851.00
171_A190_I2.2721.00
175_R187_D2.1781.00
209_Q213_A2.0811.00
167_D194_V2.0421.00
287_V291_D2.0301.00
288_R292_R1.9631.00
172_A175_R1.9541.00
273_H277_W1.9461.00
290_L294_G1.9181.00
291_D295_E1.9021.00
186_T189_G1.9021.00
59_S162_F1.8681.00
272_V276_V1.8571.00
220_E224_Y1.8331.00
176_E180_T1.8111.00
191_D195_Y1.8101.00
283_E287_V1.7981.00
240_T244_G1.7901.00
48_F162_F1.7461.00
252_A256_D1.7461.00
217_S220_E1.7111.00
282_E285_A1.7041.00
267_D271_Q1.7021.00
24_V59_S1.6871.00
249_A253_T1.6501.00
287_V290_L1.6351.00
164_Q201_M1.6251.00
137_T145_Y1.6131.00
216_D220_E1.6011.00
147_S150_I1.5991.00
266_G270_D1.5961.00
85_R88_D1.5951.00
84_E88_D1.5931.00
246_D249_A1.5911.00
24_V62_S1.5771.00
138_R145_Y1.5571.00
92_D96_D1.5491.00
223_V227_T1.5461.00
221_E225_A1.5441.00
264_A268_I1.5331.00
167_D191_D1.5221.00
221_E224_Y1.5091.00
222_T227_T1.5021.00
178_A190_I1.5021.00
82_S125_A1.4941.00
220_E223_V1.4891.00
224_Y227_T1.4871.00
185_H190_I1.4851.00
256_D260_N1.4801.00
210_A213_A1.4761.00
167_D171_A1.4711.00
292_R296_A1.4601.00
20_R23_D1.4561.00
265_G269_I1.4371.00
47_L115_A1.4271.00
269_I272_V1.4261.00
30_I160_F1.4211.00
222_T226_I1.4101.00
14_E17_R1.4081.00
262_G265_G1.4061.00
99_R103_G1.4031.00
95_K98_A1.4021.00
49_A159_V1.3981.00
289_L292_R1.3921.00
173_H201_M1.3911.00
210_A214_T1.3831.00
286_A290_L1.3811.00
173_H176_E1.3741.00
294_G297_D1.3731.00
28_P172_A1.3651.00
87_I91_R1.3551.00
234_E238_M1.3451.00
265_G268_I1.3421.00
22_E35_Q1.3171.00
241_E245_G1.3011.00
192_A195_Y1.2991.00
269_I273_H1.2981.00
222_T225_A1.2961.00
111_F142_S1.2931.00
216_D219_N1.2921.00
64_A109_V1.2871.00
84_E87_I1.2841.00
197_A204_A1.2801.00
165_L201_M1.2731.00
269_I276_V1.2601.00
174_L205_I1.2601.00
223_V226_I1.2581.00
277_W280_D1.2581.00
274_R278_E1.2561.00
27_H30_I1.2551.00
184_E217_S1.2511.00
281_V285_A1.2471.00
209_Q214_T1.2411.00
96_D99_R1.2321.00
268_I272_V1.2321.00
275_S278_E1.2271.00
253_T257_L1.2251.00
236_E240_T1.2171.00
49_A161_R1.2111.00
251_R255_D1.2101.00
174_L204_A1.2091.00
219_N222_T1.2031.00
76_F111_F1.2031.00
293_L296_A1.1961.00
254_L258_L1.1911.00
220_E226_I1.1891.00
286_A293_L1.1891.00
231_R234_E1.1821.00
95_K99_R1.1801.00
168_D171_A1.1791.00
172_A176_E1.1751.00
262_G266_G1.1721.00
189_G192_A1.1701.00
61_V78_E1.1641.00
24_V31_T1.1601.00
265_G272_V1.1571.00
169_A172_A1.1521.00
171_A194_V1.1481.00
288_R291_D1.1431.00
255_D258_L1.1371.00
293_L297_D1.1361.00
239_V243_L1.1331.00
253_T256_D1.1311.00
245_G249_A1.1301.00
220_E227_T1.1271.00
228_A231_R1.1251.00
285_A288_R1.1171.00
232_P236_E1.1161.00
168_D172_A1.1121.00
273_H276_V1.0991.00
190_I194_V1.0991.00
31_T35_Q1.0791.00
174_L190_I1.0761.00
266_G269_I1.0661.00
248_A252_A1.0621.00
99_R104_G1.0621.00
242_A275_S1.0591.00
35_Q39_D1.0581.00
86_G89_V1.0551.00
271_Q275_S1.0521.00
291_D294_G1.0391.00
282_E286_A1.0381.00
96_D100_S1.0371.00
219_N225_A1.0301.00
85_R119_T1.0271.00
249_A252_A1.0201.00
276_V280_D1.0151.00
178_A185_H1.0121.00
278_E281_V1.0071.00
88_D92_D1.0061.00
230_A233_E1.0041.00
167_D198_D0.9961.00
216_D224_Y0.9851.00
57_T113_D0.9781.00
228_A232_P0.9771.00
19_E65_K0.9761.00
284_A288_R0.9751.00
184_E187_D0.9751.00
229_T232_P0.9701.00
250_A254_L0.9691.00
264_A267_D0.9691.00
175_R179_E0.9651.00
204_A207_A0.9621.00
193_L208_L0.9611.00
219_N223_V0.9611.00
250_A253_T0.9611.00
98_A129_T0.9591.00
251_R254_L0.9571.00
204_A208_L0.9571.00
63_I140_I0.9551.00
247_F251_R0.9531.00
271_Q274_R0.9531.00
247_F250_A0.9521.00
11_I14_E0.9511.00
140_I143_C0.9491.00
265_G276_V0.9491.00
256_D261_R0.9491.00
250_A258_L0.9481.00
47_L157_C0.9361.00
209_Q212_S0.9301.00
92_D95_K0.9271.00
270_D274_R0.9261.00
194_V204_A0.9221.00
139_F142_S0.9201.00
170_V204_A0.9161.00
168_D191_D0.9161.00
87_I121_D0.9161.00
254_L257_L0.9131.00
177_I205_I0.9071.00
233_E237_T0.9061.00
60_S140_I0.9031.00
268_I276_V0.9031.00
240_T243_L0.9021.00
276_V279_F0.9011.00
272_V275_S0.9001.00
93_R97_F0.8961.00
139_F145_Y0.8961.00
187_D191_D0.8941.00
219_N226_I0.8861.00
280_D283_E0.8811.00
263_L267_D0.8801.00
258_L262_G0.8791.00
185_H212_S0.8731.00
141_L144_N0.8721.00
238_M245_G0.8691.00
152_P156_R0.8691.00
251_R257_L0.8681.00
218_V224_Y0.8671.00
154_Q159_V0.8651.00
217_S222_T0.8601.00
115_A147_S0.8601.00
15_K20_R0.8571.00
286_A289_L0.8521.00
177_I180_T0.8461.00
192_A196_A0.8451.00
217_S223_V0.8411.00
220_E225_A0.8411.00
239_V242_A0.8371.00
146_S159_V0.8371.00
292_R295_E0.8291.00
34_L63_I0.8281.00
49_A146_S0.8251.00
262_G269_I0.8231.00
231_R238_M0.8231.00
290_L293_L0.8221.00
285_A289_L0.8151.00
28_P32_E0.8121.00
17_R75_N0.8041.00
29_D163_A0.8001.00
219_N227_T0.7971.00
170_V201_M0.7971.00
255_D260_N0.7961.00
237_T241_E0.7961.00
138_R141_L0.7941.00
248_A251_R0.7931.00
183_L212_S0.7881.00
251_R258_L0.7871.00
237_T240_T0.7861.00
218_V223_V0.7851.00
21_L65_K0.7831.00
264_A272_V0.7791.00
228_A235_I0.7751.00
287_V293_L0.7741.00
141_L145_Y0.7731.00
265_G273_H0.7711.00
81_A84_E0.7701.00
197_A200_D0.7691.00
80_N83_D0.7671.00
291_D296_A0.7671.00
146_S161_R0.7661.00
217_S221_E0.7661.00
233_E236_E0.7661.00
164_Q198_D0.7631.00
32_E35_Q0.7621.00
217_S225_A0.7601.00
236_E239_V0.7521.00
216_D221_E0.7461.00
218_V227_T0.7331.00
282_E290_L0.7311.00
15_K18_P0.7311.00
90_V94_I0.7281.00
67_L74_D0.7281.00
218_V222_T0.7241.00
75_N100_S0.7241.00
219_N224_Y0.7191.00
243_L247_F0.7181.00
46_L160_F0.7151.00
33_R36_S0.7141.00
235_I239_V0.7081.00
242_A245_G0.7051.00
258_L263_L0.7051.00
102_F134_S0.7031.00
261_R269_I0.7011.00
269_I282_E0.6961.00
174_L208_L0.6941.00
230_A234_E0.6931.00
136_N145_Y0.6891.00
211_A215_G0.6871.00
216_D222_T0.6861.00
15_K181_E0.6851.00
201_M204_A0.6851.00
221_E227_T0.6841.00
19_E23_D0.6831.00
125_A129_T0.6801.00
75_N82_S0.6791.00
77_L108_R0.6791.00
231_R235_I0.6771.00
178_A208_L0.6741.00
193_L204_A0.6721.00
25_V173_H0.6711.00
267_D270_D0.6691.00
174_L193_L0.6691.00
118_L122_A0.6671.00
241_E246_D0.6671.00
275_S279_F0.6661.00
188_D191_D0.6591.00
54_T162_F0.6561.00
232_P235_I0.6561.00
233_E240_T0.6551.00
36_S39_D0.6531.00
115_A141_L0.6531.00
115_A149_I0.6521.00
241_E249_A0.6521.00
75_N106_N0.6501.00
235_I238_M0.6461.00
40_R45_H0.6461.00
119_T122_A0.6441.00
142_S145_Y0.6431.00
218_V225_A0.6401.00
186_T217_S0.6401.00
170_V174_L0.6341.00
85_R121_D0.6321.00
171_A187_D0.6311.00
89_V92_D0.6301.00
193_L207_A0.6301.00
51_P54_T0.6231.00
128_R132_Q0.6231.00
165_L169_A0.6231.00
268_I271_Q0.6221.00
85_R93_R0.6221.00
274_R277_W0.6221.00
216_D223_V0.6201.00
185_H189_G0.6161.00
75_N79_L0.6161.00
94_I98_A0.6141.00
229_T233_E0.6121.00
261_R265_G0.6101.00
93_R98_A0.6081.00
178_A183_L0.6021.00
216_D227_T0.6021.00
242_A247_F0.6011.00
290_L297_D0.6001.00
260_N263_L0.5991.00
139_F143_C0.5971.00
232_P238_M0.5961.00
31_T59_S0.5931.00
279_F283_E0.5921.00
246_D250_A0.5861.00
250_A257_L0.5861.00
231_R263_L0.5821.00
216_D226_I0.5801.00
94_I97_F0.5801.00
238_M242_A0.5791.00
282_E287_V0.5771.00
268_I273_H0.5771.00
277_W281_V0.5771.00
261_R268_I0.5761.00
140_I144_N0.5751.00
231_R242_A0.5741.00
281_V286_A0.5741.00
217_S226_I0.5721.00
91_R95_K0.5701.00
138_R142_S0.5701.00
272_V279_F0.5681.00
229_T236_E0.5681.00
261_R264_A0.5681.00
241_E247_F0.5671.00
23_D176_E0.5661.00
286_A297_D0.5641.00
115_A139_F0.5631.00
235_I267_D0.5631.00
79_L82_S0.5621.00
263_L266_G0.5601.00
16_Y181_E0.5581.00
270_D273_H0.5551.00
99_R102_F0.5541.00
79_L112_L0.5501.00
84_E97_F0.5501.00
264_A276_V0.5501.00
243_L246_D0.5471.00
20_R66_E0.5461.00
252_A255_D0.5441.00
245_G248_A0.5431.00
107_Y138_R0.5431.00
77_L93_R0.5431.00
235_I240_T0.5421.00
138_R144_N0.5401.00
25_V176_E0.5401.00
240_T246_D0.5391.00
262_G276_V0.5361.00
32_E36_S0.5361.00
131_E155_S0.5351.00
124_S127_R0.5351.00
139_F144_N0.5341.00
202_R205_I0.5331.00
58_A202_R0.5321.00
140_I145_Y0.5311.00
173_H177_I0.5311.00
76_F82_S0.5301.00
289_L297_D0.5301.00
38_V63_I0.5291.00
234_E237_T0.5281.00
16_Y180_T0.5281.00
283_E286_A0.5271.00
234_E243_L0.5261.00
279_F282_E0.5261.00
74_D107_Y0.5231.00
260_N264_A0.5181.00
239_V274_R0.5171.00
272_V280_D0.5161.00
101_S104_G0.5151.00
282_E289_L0.5141.00
211_A214_T0.5141.00
175_R178_A0.5121.00
47_L146_S0.5121.00
192_A220_E0.5101.00
264_A269_I0.5091.00
215_G220_E0.5061.00
131_E152_P0.5051.00
67_L138_R0.5051.00
280_D284_A0.5031.00
200_D208_L0.5021.00
269_I275_S0.5001.00
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  
2chqA 3 0.9689 100 0.357 Contact Map
1iqpA 5 0.9969 100 0.358 Contact Map
1sxjC 1 0.9752 100 0.366 Contact Map
1sxjD 1 0.9596 100 0.366 Contact Map
1sxjB 1 0.9658 100 0.425 Contact Map
1sxjE 1 0.9348 100 0.435 Contact Map
3u61B 3 0.9565 100 0.454 Contact Map
3pvsA 4 0.941 100 0.456 Contact Map
3vkgA 2 0.972 100 0.465 Contact Map
1jr3A 3 0.9689 100 0.465 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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