GREMLIN Database
CSIR - HTH-type transcriptional repressor CsiR
UniProt: P37338 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12386
Length: 220 (199)
Sequences: 23472 (17235)
Seq/√Len: 1221.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
105_L191_L3.6851.00
90_S199_S3.2811.00
194_D197_R2.8881.00
112_S184_Q2.7371.00
15_D20_N2.6961.00
22_Q25_E2.6461.00
15_D35_R2.3671.00
83_N87_M2.3061.00
29_M40_V2.2461.00
103_D137_A2.2301.00
76_D145_H2.1661.00
82_A207_L2.0851.00
9_Y49_Q2.0081.00
57_T67_A2.0041.00
8_G38_L1.9551.00
79_D91_L1.9521.00
13_K53_E1.9391.00
94_A195_T1.9361.00
58_V64_Y1.8141.00
8_G36_Y1.8101.00
140_A148_L1.7961.00
101_E191_L1.7781.00
189_A197_R1.7721.00
100_W143_G1.7521.00
137_A140_A1.7201.00
11_W15_D1.6911.00
97_G100_W1.6901.00
123_M126_E1.6761.00
86_A203_R1.6691.00
108_A187_T1.6591.00
90_S195_T1.6231.00
80_A150_M1.6091.00
182_Q208_T1.6031.00
197_R201_L1.5721.00
86_A199_S1.5511.00
14_N18_R1.5501.00
199_S203_R1.5501.00
87_M90_S1.5251.00
135_H183_H1.4951.00
185_T201_L1.4921.00
110_L130_R1.4501.00
146_Y157_L1.4191.00
149_Q153_R1.4151.00
139_V151_R1.4071.00
100_W141_G1.4051.00
82_A203_R1.4041.00
89_V198_A1.3851.00
9_Y53_E1.3841.00
136_T152_E1.3831.00
188_A192_A1.3671.00
105_L187_T1.3611.00
112_S180_H1.3561.00
59_V62_K1.3491.00
107_K130_R1.3381.00
30_S34_S1.3351.00
82_A210_I1.3341.00
192_A197_R1.3261.00
76_D146_Y1.3181.00
184_Q188_A1.2951.00
195_T199_S1.2791.00
96_G101_E1.2771.00
105_L109_H1.2651.00
106_A110_L1.2391.00
110_L133_A1.2301.00
31_L35_R1.2261.00
108_A184_Q1.2221.00
26_K65_R1.2141.00
28_R31_L1.1961.00
107_K137_A1.1871.00
32_L43_L1.1871.00
59_V65_R1.1781.00
82_A86_A1.1771.00
182_Q205_H1.1751.00
200_E204_Q1.1691.00
7_D11_W1.1671.00
11_W14_N1.1651.00
133_A137_A1.1481.00
11_W36_Y1.1441.00
203_R207_L1.1411.00
51_V58_V1.1381.00
136_T140_A1.1371.00
81_R85_E1.1341.00
197_R200_E1.1221.00
15_D36_Y1.1221.00
96_G193_R1.1211.00
126_E129_L1.1151.00
86_A90_S1.1101.00
89_V202_M1.1101.00
108_A111_L1.1091.00
96_G141_G1.1061.00
138_I190_V1.1021.00
89_V93_I1.0981.00
76_D144_S1.0921.00
107_K133_A1.0921.00
90_S196_A1.0861.00
131_H135_H1.0761.00
101_E187_T1.0681.00
137_A141_G1.0641.00
21_F66_V1.0611.00
187_T191_L1.0531.00
96_G100_W1.0511.00
188_A191_L1.0441.00
88_L139_V1.0401.00
108_A112_S1.0401.00
103_D140_A1.0351.00
79_D144_S1.0331.00
75_L210_I1.0281.00
105_L184_Q1.0221.00
130_R133_A1.0191.00
57_T65_R1.0171.00
101_E193_R1.0131.00
109_H112_S1.0041.00
103_D106_A0.9961.00
150_M153_R0.9921.00
51_V56_V0.9881.00
189_A194_D0.9801.00
93_I195_T0.9781.00
45_E48_S0.9781.00
91_L95_R0.9611.00
15_D21_F0.9591.00
47_L64_Y0.9551.00
70_S73_E0.9541.00
134_F187_T0.9501.00
16_I66_V0.9491.00
87_M199_S0.9471.00
129_L133_A0.9411.00
59_V63_G0.9411.00
185_T204_Q0.9391.00
181_D185_T0.9361.00
185_T197_R0.9341.00
103_D107_K0.9311.00
135_H205_H0.9291.00
102_A106_A0.9141.00
142_C148_L0.9141.00
183_H205_H0.9121.00
93_I190_V0.9061.00
26_K63_G0.9001.00
196_A200_E0.8981.00
185_T188_A0.8961.00
49_Q52_A0.8961.00
95_R143_G0.8951.00
85_E135_H0.8941.00
148_L152_E0.8941.00
186_L202_M0.8811.00
101_E105_L0.8811.00
9_Y13_K0.8751.00
5_S49_Q0.8721.00
29_M44_R0.8711.00
80_A146_Y0.8701.00
13_K55_L0.8651.00
56_V64_Y0.8641.00
62_K65_R0.8521.00
39_G42_P0.8521.00
107_K110_L0.8511.00
87_M91_L0.8481.00
96_G190_V0.8451.00
196_A199_S0.8431.00
131_H183_H0.8421.00
180_H184_Q0.8371.00
48_S51_V0.8371.00
114_L126_E0.8251.00
73_E146_Y0.8251.00
33_T43_L0.8231.00
81_R206_L0.8231.00
105_L188_A0.8221.00
72_Q143_G0.8221.00
98_D102_A0.8171.00
110_L113_K0.8101.00
185_T189_A0.8051.00
31_L34_S0.8041.00
100_W103_D0.8011.00
6_L49_Q0.8001.00
13_K17_I0.7991.00
93_I198_A0.7911.00
186_L201_L0.7871.00
93_I193_R0.7871.00
146_Y150_M0.7871.00
189_A201_L0.7861.00
47_L56_V0.7831.00
38_L43_L0.7821.00
109_H184_Q0.7801.00
92_A141_G0.7801.00
48_S58_V0.7741.00
98_D193_R0.7741.00
109_H113_K0.7711.00
79_D210_I0.7701.00
90_S94_A0.7681.00
32_L47_L0.7671.00
104_V137_A0.7651.00
104_V187_T0.7561.00
201_L204_Q0.7491.00
177_E181_D0.7471.00
146_Y149_Q0.7461.00
91_L94_A0.7421.00
136_T155_F0.7391.00
80_A147_L0.7371.00
91_L144_S0.7301.00
72_Q76_D0.7271.00
92_A96_G0.7231.00
5_S9_Y0.7221.00
111_L127_W0.7201.00
207_L211_P0.7181.00
126_E130_R0.7161.00
79_D95_R0.7151.00
132_Q159_A0.7131.00
78_F209_P0.7131.00
103_D133_A0.7071.00
102_A105_L0.7031.00
186_L198_A0.6981.00
102_A191_L0.6951.00
132_Q155_F0.6951.00
200_E203_R0.6941.00
114_L130_R0.6891.00
136_T148_L0.6881.00
110_L114_L0.6841.00
110_L126_E0.6841.00
80_A88_L0.6841.00
207_L210_I0.6771.00
204_Q208_T0.6761.00
101_E190_V0.6711.00
20_N35_R0.6661.00
108_A180_H0.6641.00
49_Q53_E0.6641.00
100_W137_A0.6561.00
42_P46_A0.6481.00
182_Q185_T0.6481.00
106_A109_H0.6471.00
21_F25_E0.6461.00
133_A136_T0.6431.00
100_W140_A0.6391.00
79_D87_M0.6391.00
83_N147_L0.6371.00
92_A142_C0.6341.00
89_V195_T0.6301.00
186_L205_H0.6291.00
85_E183_H0.6241.00
208_T212_I0.6241.00
80_A84_M0.6131.00
88_L142_C0.6121.00
15_D19_G0.6111.00
82_A206_L0.6041.00
88_L147_L0.6031.00
114_L123_M0.6021.00
114_L122_K0.6021.00
99_E103_D0.5851.00
86_A202_M0.5821.00
24_D68_S0.5821.00
72_Q145_H0.5811.00
127_W179_K0.5811.00
61_Q64_Y0.5811.00
104_V141_G0.5761.00
36_Y43_L0.5711.00
149_Q157_L0.5701.00
115_E122_K0.5671.00
12_L32_L0.5661.00
23_P68_S0.5641.00
86_A195_T0.5641.00
92_A138_I0.5601.00
90_S203_R0.5581.00
98_D191_L0.5571.00
84_M151_R0.5521.00
30_S33_T0.5511.00
83_N86_A0.5491.00
27_L56_V0.5471.00
5_S45_E0.5431.00
73_E145_H0.5391.00
125_D163_F0.5391.00
111_L180_H0.5371.00
174_E177_E0.5341.00
145_H148_L0.5341.00
89_V138_I0.5341.00
79_D82_A0.5321.00
186_L189_A0.5321.00
160_R164_I0.5321.00
80_A83_N0.5311.00
48_S52_A0.5301.00
132_Q136_T0.5291.00
34_S37_A0.5271.00
65_R68_S0.5241.00
104_V108_A0.5231.00
182_Q204_Q0.5221.00
139_V155_F0.5191.00
178_D181_D0.5191.00
181_D184_Q0.5191.00
149_Q152_E0.5181.00
204_Q207_L0.5181.00
91_L142_C0.5161.00
17_I55_L0.5161.00
15_D18_R0.5151.00
87_M147_L0.5131.00
67_A160_R0.5121.00
202_M206_L0.5101.00
85_E206_L0.5091.00
175_M212_I0.5081.00
75_L79_D0.5041.00
30_S40_V0.5031.00
73_E157_L0.5021.00
21_F27_L0.5001.00
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  
3c7jA 4 0.95 100 0.125 Contact Map
2hs5A 1 0.9409 100 0.127 Contact Map
3sxyA 2 0.9091 100 0.132 Contact Map
3ihuA 1 0.9273 100 0.135 Contact Map
4p9fA 1 0.9591 100 0.138 Contact Map
4p96A 2 0.9818 100 0.159 Contact Map
2di3A 2 0.9591 100 0.168 Contact Map
1hw1A 2 0.9364 100 0.202 Contact Map
3ic7A 2 0.5 99.8 0.541 Contact Map
3by6A 2 0.5227 99.8 0.545 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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