GREMLIN Database
RCLR - RCS-specific HTH-type transcriptional activator RclR
UniProt: P77379 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13581
Length: 284 (242)
Sequences: 35601 (29993)
Seq/√Len: 1928.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
235_A268_F3.3111.00
220_T228_K3.3021.00
187_L229_L3.0821.00
243_L251_S3.0751.00
231_L268_F2.9551.00
197_E207_R2.8651.00
185_Q189_M2.8011.00
233_I236_Q2.7811.00
228_K267_E2.6771.00
189_M192_H2.6141.00
264_F275_Y2.6101.00
237_M251_S2.4061.00
234_A260_F2.3591.00
182_V210_F2.3201.00
237_M252_V2.1471.00
214_F225_V2.1411.00
195_T198_S2.0671.00
243_L247_V2.0391.00
190_P229_L2.0311.00
185_Q202_I1.9531.00
50_K58_I1.9521.00
270_C278_R1.9201.00
237_M243_L1.8731.00
183_I218_S1.8531.00
223_L227_T1.8401.00
182_V203_A1.8111.00
231_L267_E1.8021.00
186_M226_L1.7971.00
179_L218_S1.7951.00
244_P247_V1.7901.00
50_K60_T1.7601.00
257_E261_H1.7491.00
263_A266_R1.7261.00
235_A275_Y1.7101.00
52_E58_I1.7101.00
199_L222_P1.6851.00
209_S213_L1.6741.00
196_V211_A1.6341.00
233_I237_M1.6111.00
207_R211_A1.6061.00
48_A60_T1.5981.00
229_L233_I1.5911.00
184_Q188_E1.5901.00
62_R65_N1.5811.00
220_T224_A1.5801.00
246_V257_E1.5751.00
92_L95_Q1.5551.00
270_C274_E1.5531.00
148_I151_T1.5471.00
187_L225_V1.5461.00
210_F222_P1.5011.00
247_V251_S1.5001.00
185_Q194_W1.4961.00
183_I187_L1.4841.00
236_Q240_R1.4721.00
222_P226_L1.4601.00
50_K78_S1.4571.00
190_P233_I1.4521.00
209_S212_Q1.4451.00
247_V250_E1.4431.00
176_H217_V1.4431.00
94_L97_S1.4411.00
259_S263_A1.4391.00
246_V250_E1.4391.00
238_F245_V1.4351.00
52_E76_R1.4341.00
254_Y263_A1.4321.00
233_I252_V1.4291.00
234_A252_V1.4281.00
186_M229_L1.4081.00
48_A62_R1.4001.00
273_G277_E1.3931.00
248_I252_V1.3901.00
205_M209_S1.3851.00
191_G251_S1.3831.00
151_T155_L1.3771.00
124_R128_P1.3721.00
258_S261_H1.3681.00
182_V199_L1.3571.00
39_I71_Q1.3431.00
208_A212_Q1.3181.00
211_A222_P1.3151.00
227_T263_A1.3111.00
46_Q86_C1.3051.00
229_L232_Q1.2921.00
228_K232_Q1.2911.00
198_S202_I1.2901.00
221_T224_A1.2721.00
197_E201_S1.2361.00
205_M210_F1.2291.00
55_T73_S1.2151.00
241_E276_R1.2131.00
261_H271_T1.2121.00
178_R205_M1.2081.00
206_S209_S1.1981.00
147_Q154_T1.1771.00
192_H198_S1.1641.00
70_P73_S1.1611.00
147_Q151_T1.1611.00
147_Q150_A1.1481.00
235_A239_S1.1341.00
262_K266_R1.1271.00
46_Q63_P1.1271.00
261_H273_G1.1171.00
232_Q235_A1.1021.00
200_A207_R1.0961.00
196_V222_P1.0891.00
243_L248_I1.0871.00
213_L216_D1.0721.00
177_P181_A1.0671.00
271_T274_E1.0621.00
125_E128_P1.0531.00
191_G233_I1.0521.00
185_Q203_A1.0501.00
274_E277_E1.0441.00
91_T95_Q1.0361.00
125_E129_F1.0331.00
45_T88_V1.0281.00
213_L217_V1.0261.00
180_G184_Q1.0201.00
227_T266_R1.0181.00
45_T86_C1.0181.00
199_L202_I1.0031.00
224_A227_T1.0011.00
46_Q84_S0.9971.00
186_M222_P0.9961.00
273_G276_R0.9941.00
146_S150_A0.9941.00
245_V248_I0.9881.00
33_A74_A0.9831.00
194_W199_L0.9811.00
128_P132_Q0.9811.00
137_A141_V0.9781.00
193_A255_A0.9761.00
178_R213_L0.9721.00
36_L75_H0.9711.00
208_A211_A0.9701.00
268_F275_Y0.9681.00
183_I225_V0.9621.00
40_R75_H0.9571.00
237_M248_I0.9531.00
256_S262_K0.9501.00
198_S201_S0.9471.00
144_L148_I0.9451.00
178_R203_A0.9431.00
261_H265_V0.9391.00
263_A267_E0.9341.00
196_V207_R0.9281.00
44_L49_A0.9181.00
235_A264_F0.9111.00
224_A228_K0.9101.00
185_Q199_L0.9061.00
181_A202_I0.8991.00
155_L159_E0.8981.00
52_E78_S0.8951.00
203_A210_F0.8911.00
88_V92_L0.8891.00
181_A184_Q0.8841.00
189_M202_I0.8791.00
259_S262_K0.8761.00
34_G75_H0.8711.00
154_T158_R0.8681.00
190_P194_W0.8651.00
122_W125_E0.8631.00
241_E248_I0.8611.00
214_F218_S0.8591.00
190_P226_L0.8551.00
50_K80_V0.8541.00
144_L151_T0.8541.00
225_V229_L0.8531.00
265_V271_T0.8531.00
48_A80_V0.8521.00
205_M213_L0.8491.00
230_R252_V0.8441.00
151_T154_T0.8431.00
39_I68_L0.8421.00
181_A203_A0.8411.00
231_L263_A0.8311.00
238_F248_I0.8291.00
224_A267_E0.8271.00
179_L213_L0.8271.00
122_W155_L0.8271.00
49_A61_L0.8261.00
52_E56_G0.8251.00
223_L226_L0.8221.00
86_C89_C0.8141.00
250_E255_A0.8131.00
227_T267_E0.8091.00
49_A85_T0.8081.00
223_L259_S0.8061.00
194_W198_S0.8041.00
214_F222_P0.8031.00
193_A198_S0.8031.00
274_E278_R0.8011.00
238_F276_R0.7951.00
234_A237_M0.7941.00
179_L182_V0.7931.00
189_M198_S0.7921.00
183_I214_F0.7861.00
231_L260_F0.7831.00
180_G183_I0.7801.00
117_S120_Y0.7801.00
121_N125_E0.7791.00
91_T94_L0.7771.00
190_P252_V0.7771.00
179_L217_V0.7761.00
42_H89_C0.7751.00
53_M57_E0.7661.00
239_S275_Y0.7621.00
212_Q216_D0.7601.00
270_C275_Y0.7601.00
129_F133_E0.7541.00
179_L183_I0.7531.00
49_A60_T0.7471.00
182_V185_Q0.7451.00
33_A76_R0.7391.00
249_A257_E0.7371.00
129_F148_I0.7341.00
85_T89_C0.7311.00
211_A215_R0.7301.00
265_V274_E0.7291.00
150_A154_T0.7251.00
176_H213_L0.7181.00
244_P248_I0.7141.00
36_L40_R0.7121.00
186_M225_V0.7121.00
105_L108_T0.7111.00
131_Q135_R0.7081.00
211_A223_L0.7071.00
178_R181_A0.7041.00
260_F264_F0.7041.00
86_C92_L0.7031.00
69_L75_H0.6971.00
88_V91_T0.6951.00
43_A66_V0.6941.00
182_V222_P0.6911.00
211_A221_T0.6881.00
142_D146_S0.6881.00
190_P230_R0.6861.00
255_A259_S0.6851.00
182_V214_F0.6811.00
227_T259_S0.6801.00
215_R221_T0.6801.00
51_L67_V0.6791.00
122_W129_F0.6741.00
61_L67_V0.6731.00
175_L216_D0.6711.00
155_L158_R0.6661.00
44_L47_G0.6641.00
199_L210_F0.6631.00
129_F132_Q0.6631.00
100_Y103_T0.6621.00
182_V186_M0.6611.00
175_L178_R0.6561.00
144_L154_T0.6551.00
109_L112_A0.6511.00
258_S271_T0.6501.00
234_A248_I0.6501.00
256_S259_S0.6481.00
132_Q136_S0.6481.00
257_E260_F0.6421.00
120_Y124_R0.6411.00
220_T225_V0.6381.00
200_A203_A0.6271.00
231_L254_Y0.6231.00
129_F151_T0.6231.00
199_L203_A0.6221.00
89_C92_L0.6201.00
232_Q268_F0.6201.00
122_W126_A0.6181.00
42_H69_L0.6181.00
106_P109_L0.6141.00
196_V223_L0.6121.00
264_F270_C0.6091.00
35_E74_A0.6081.00
121_N124_R0.6061.00
144_L147_Q0.6061.00
45_T128_P0.6051.00
44_L61_L0.6051.00
235_A270_C0.6031.00
53_M56_G0.6011.00
175_L217_V0.6001.00
176_H180_G0.5971.00
108_T112_A0.5971.00
93_R96_H0.5941.00
232_Q267_E0.5941.00
218_S225_V0.5931.00
126_A148_I0.5931.00
185_Q198_S0.5931.00
187_L233_I0.5911.00
108_T111_L0.5871.00
237_M240_R0.5861.00
126_A129_F0.5861.00
240_R243_L0.5851.00
248_I276_R0.5791.00
196_V208_A0.5791.00
148_I155_L0.5721.00
258_S262_K0.5711.00
138_M141_V0.5701.00
179_L210_F0.5691.00
134_S137_A0.5691.00
107_E110_F0.5671.00
242_T248_I0.5671.00
194_W230_R0.5671.00
130_L133_E0.5601.00
113_P116_H0.5601.00
52_E55_T0.5591.00
143_A147_Q0.5581.00
260_F272_P0.5561.00
210_F218_S0.5551.00
42_H87_I0.5551.00
105_L109_L0.5541.00
43_A127_I0.5531.00
49_A77_L0.5531.00
92_L96_H0.5521.00
143_A146_S0.5491.00
193_A230_R0.5471.00
254_Y260_F0.5461.00
53_M69_L0.5451.00
149_C156_A0.5451.00
125_E132_Q0.5441.00
87_I91_T0.5431.00
238_F275_Y0.5421.00
245_V273_G0.5421.00
194_W226_L0.5411.00
182_V202_I0.5411.00
254_Y259_S0.5411.00
226_L230_R0.5411.00
224_A266_R0.5411.00
92_L97_S0.5391.00
41_W68_L0.5381.00
232_Q236_Q0.5381.00
119_E122_W0.5381.00
84_S92_L0.5381.00
184_Q187_L0.5371.00
141_V145_C0.5341.00
39_I42_H0.5311.00
203_A207_R0.5311.00
236_Q239_S0.5301.00
256_S266_R0.5281.00
42_H67_V0.5281.00
185_Q190_P0.5271.00
177_P217_V0.5261.00
186_M194_W0.5261.00
173_L176_H0.5261.00
93_R97_S0.5261.00
41_W66_V0.5251.00
182_V213_L0.5251.00
189_M194_W0.5211.00
43_A120_Y0.5201.00
144_L155_L0.5191.00
227_T231_L0.5181.00
42_H51_L0.5151.00
201_S204_H0.5131.00
103_T106_P0.5121.00
263_A268_F0.5111.00
226_L229_L0.5111.00
210_F213_L0.5101.00
55_T74_A0.5081.00
158_R162_A0.5061.00
144_L158_R0.5021.00
51_L77_L0.5021.00
145_C149_C0.5001.00
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  
3gbgA 1 0.8873 100 0.223 Contact Map
1bl0A 1 0.3873 100 0.446 Contact Map
3oioA 1 0.3944 100 0.449 Contact Map
3oouA 1 0.3697 100 0.45 Contact Map
3w6vA 1 0.3838 100 0.454 Contact Map
3mn2A 1 0.3732 100 0.457 Contact Map
3mklA 1 0.3908 100 0.46 Contact Map
2k9sA 1 0.3732 100 0.462 Contact Map
3lsgA 2 0.3592 100 0.472 Contact Map
1d5yA 1 0.3873 99.9 0.477 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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