GREMLIN Database
NTDR - NTD biosynthesis operon regulator NtdR
UniProt: O07567 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 329 (321)
Sequences: 36600 (26406)
Seq/√Len: 1473.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
160_F199_K3.3451.00
175_H238_S3.1041.00
10_L42_E3.0891.00
261_K264_E3.0661.00
166_G269_I2.6221.00
194_K198_L2.6101.00
118_G302_I2.5871.00
175_H267_A2.5131.00
273_N288_D2.4111.00
153_T305_S2.3811.00
164_Y203_D2.3281.00
30_K34_D2.2651.00
224_F257_K2.2331.00
38_K42_E2.2141.00
84_E87_F2.1761.00
34_D38_K2.1661.00
228_H258_N2.1521.00
84_E300_L2.1401.00
171_I204_Y2.0911.00
168_V200_A2.0841.00
164_Y200_A2.0761.00
164_Y199_K2.0591.00
161_E165_M2.0421.00
228_H254_Q2.0311.00
297_Q300_L2.0301.00
85_V299_V1.9631.00
21_V36_I1.9611.00
160_F195_E1.9041.00
33_R37_L1.8811.00
84_E296_Q1.8691.00
162_A271_F1.8671.00
22_L40_I1.8641.00
170_L239_A1.8441.00
5_D15_K1.8391.00
163_A167_V1.8381.00
168_V172_E1.8221.00
255_A266_L1.8161.00
80_G295_G1.8151.00
304_E309_N1.7931.00
232_D258_N1.7831.00
167_V197_Y1.7731.00
288_D322_K1.7721.00
163_A241_F1.7681.00
168_V204_Y1.7561.00
223_G250_G1.7491.00
83_H292_I1.7331.00
10_L39_A1.7231.00
11_C39_A1.7011.00
164_Y168_V1.6961.00
224_F254_Q1.6901.00
177_K209_R1.6861.00
290_P293_E1.6751.00
260_F265_D1.6491.00
179_G237_P1.6461.00
63_A116_V1.6351.00
84_E88_K1.6301.00
180_F243_G1.6271.00
227_F251_I1.6261.00
80_G292_I1.6151.00
242_T251_I1.6121.00
297_Q317_I1.6071.00
165_M321_T1.6031.00
254_Q258_N1.5941.00
261_K265_D1.5891.00
143_C298_A1.5681.00
37_L41_N1.5431.00
177_K236_R1.5391.00
161_E164_Y1.5271.00
169_H173_R1.5241.00
88_K303_I1.5181.00
256_M281_T1.5081.00
293_E297_Q1.4981.00
195_E199_K1.4931.00
169_H172_E1.4871.00
171_I200_A1.4821.00
214_F229_K1.4751.00
254_Q257_K1.4651.00
273_N326_R1.4441.00
21_V40_I1.4391.00
7_I39_A1.4381.00
158_D161_E1.4291.00
293_E296_Q1.4231.00
269_I285_T1.4231.00
37_L40_I1.4141.00
198_L202_Q1.4101.00
60_Q117_D1.4041.00
192_Q195_E1.4021.00
169_H325_I1.3961.00
200_A203_D1.3871.00
303_I307_S1.3751.00
224_F228_H1.3381.00
177_K238_S1.3381.00
255_A260_F1.3381.00
84_E299_V1.3371.00
224_F253_K1.3281.00
10_L43_L1.3271.00
209_R212_W1.3221.00
167_V171_I1.3201.00
179_G230_I1.3141.00
217_M222_D1.3091.00
228_H257_K1.3051.00
5_D9_K1.3031.00
30_K33_R1.2901.00
162_A321_T1.2851.00
227_F240_I1.2761.00
60_Q90_Y1.2761.00
167_V200_A1.2731.00
35_M39_A1.2731.00
62_I85_V1.2621.00
167_V196_G1.2551.00
6_E9_K1.2541.00
163_A196_G1.2541.00
300_L304_E1.2481.00
227_F255_A1.2431.00
228_H232_D1.2431.00
132_S136_K1.2421.00
160_F164_Y1.2391.00
165_M168_V1.2301.00
95_F107_L1.2301.00
29_S32_K1.2241.00
39_A42_E1.2241.00
20_R25_H1.2221.00
252_I268_V1.2191.00
120_I298_A1.2171.00
85_V92_V1.2061.00
63_A111_L1.2041.00
196_G200_A1.2031.00
175_H239_A1.2031.00
168_V203_D1.2031.00
229_K233_L1.1931.00
39_A43_L1.1911.00
32_K35_M1.1861.00
81_V299_V1.1791.00
95_F111_L1.1771.00
7_I11_C1.1751.00
4_I15_K1.1711.00
64_L81_V1.1601.00
81_V120_I1.1551.00
160_F192_Q1.1531.00
292_I296_Q1.1511.00
7_I43_L1.1411.00
200_A204_Y1.1411.00
176_K238_S1.1251.00
197_Y201_L1.1151.00
234_K237_P1.1071.00
221_E225_R1.1071.00
61_T91_K1.1051.00
181_C251_I1.1041.00
160_F196_G1.1011.00
109_E133_P1.0961.00
226_V229_K1.0941.00
34_D37_L1.0891.00
166_G241_F1.0881.00
199_K203_D1.0881.00
38_K41_N1.0851.00
61_T93_I1.0831.00
88_K300_L1.0821.00
297_Q301_K1.0811.00
180_F194_K1.0771.00
64_L92_V1.0711.00
82_S86_L1.0701.00
245_D286_T1.0691.00
219_N222_D1.0691.00
250_G254_Q1.0691.00
173_R325_I1.0661.00
178_I201_L1.0651.00
21_V28_V1.0621.00
240_I251_I1.0611.00
295_G299_V1.0581.00
4_I18_V1.0551.00
24_N33_R1.0451.00
201_L206_L1.0381.00
195_E198_L1.0351.00
105_L109_E1.0301.00
245_D270_G1.0181.00
177_K235_D1.0131.00
86_L103_T1.0121.00
169_H285_T1.0081.00
172_E204_Y1.0071.00
296_Q300_L1.0061.00
88_K307_S1.0051.00
171_I206_L1.0001.00
242_T247_V0.9991.00
90_Y303_I0.9981.00
225_R229_K0.9981.00
40_I43_L0.9961.00
161_E320_P0.9951.00
50_L53_N0.9941.00
242_T248_A0.9901.00
48_N54_F0.9881.00
222_D225_R0.9871.00
301_K317_I0.9871.00
197_Y241_F0.9851.00
103_T106_E0.9831.00
223_G227_F0.9811.00
191_C195_E0.9801.00
220_I253_K0.9781.00
214_F226_V0.9711.00
153_T301_K0.9711.00
297_Q319_L0.9681.00
302_I306_I0.9661.00
173_R267_A0.9591.00
227_F231_K0.9531.00
178_I239_A0.9481.00
11_C18_V0.9471.00
322_K325_I0.9341.00
252_I262_V0.9321.00
87_F296_Q0.9321.00
185_P215_G0.9281.00
166_G287_I0.9231.00
112_K137_Y0.9231.00
252_I280_V0.9171.00
188_E192_Q0.9151.00
79_K83_H0.9141.00
167_V201_L0.9061.00
120_I302_I0.9011.00
24_N37_L0.8991.00
171_I176_K0.8921.00
48_N51_A0.8911.00
288_D324_I0.8861.00
78_I82_S0.8831.00
157_Y290_P0.8801.00
155_I301_K0.8771.00
277_C280_V0.8751.00
83_H296_Q0.8751.00
301_K304_E0.8721.00
62_I120_I0.8701.00
198_L208_H0.8701.00
240_I266_L0.8681.00
208_H211_E0.8671.00
161_E321_T0.8621.00
290_P319_L0.8591.00
260_F266_L0.8591.00
47_P52_R0.8541.00
256_M283_T0.8521.00
255_A268_V0.8481.00
81_V295_G0.8481.00
51_A54_F0.8471.00
77_L143_C0.8421.00
177_K212_W0.8411.00
231_K254_Q0.8371.00
21_V37_L0.8351.00
179_G240_I0.8331.00
225_R228_H0.8321.00
157_Y321_T0.8291.00
118_G306_I0.8261.00
158_D318_K0.8261.00
64_L78_I0.8241.00
245_D273_N0.8221.00
156_G318_K0.8181.00
158_D320_P0.8161.00
176_K206_L0.8141.00
73_F291_V0.8131.00
109_E113_H0.8121.00
273_N324_I0.8081.00
199_K202_Q0.8081.00
128_W132_S0.8061.00
290_P322_K0.8061.00
216_E247_V0.8041.00
13_V36_I0.8011.00
182_F194_K0.7991.00
186_Y191_C0.7981.00
49_Y52_R0.7951.00
31_E34_D0.7951.00
83_H87_F0.7941.00
236_R260_F0.7931.00
183_D218_F0.7901.00
299_V303_I0.7891.00
194_K213_I0.7891.00
222_D226_V0.7881.00
76_Q292_I0.7841.00
80_G84_E0.7831.00
157_Y289_I0.7821.00
31_E35_M0.7821.00
170_L269_I0.7821.00
276_I280_V0.7791.00
159_E193_R0.7781.00
227_F254_Q0.7781.00
181_C242_T0.7731.00
81_V92_V0.7681.00
227_F230_I0.7651.00
192_Q196_G0.7621.00
212_W233_L0.7611.00
78_I94_V0.7591.00
270_G286_T0.7591.00
61_T114_K0.7571.00
80_G296_Q0.7571.00
16_T20_R0.7521.00
100_D103_T0.7501.00
98_F103_T0.7491.00
106_E109_E0.7491.00
59_T117_D0.7471.00
180_F241_F0.7451.00
67_P74_F0.7441.00
46_T113_H0.7391.00
201_L208_H0.7391.00
17_T20_R0.7371.00
93_I116_V0.7371.00
231_K258_N0.7371.00
58_K117_D0.7311.00
62_I299_V0.7271.00
133_P136_K0.7271.00
165_M287_I0.7271.00
132_S135_L0.7251.00
248_A270_G0.7211.00
63_A119_I0.7191.00
253_K256_M0.7181.00
273_N277_C0.7161.00
255_A262_V0.7161.00
20_R27_Y0.7151.00
249_A280_V0.7091.00
238_S267_A0.7071.00
103_T107_L0.7071.00
214_F230_I0.7071.00
79_K82_S0.7041.00
241_F269_I0.7031.00
20_R26_P0.7011.00
82_S92_V0.6981.00
169_H323_L0.6971.00
272_D289_I0.6961.00
245_D248_A0.6911.00
253_K283_T0.6871.00
118_G141_L0.6841.00
58_K307_S0.6811.00
304_E308_G0.6791.00
142_L147_H0.6781.00
120_I143_C0.6771.00
102_Q106_E0.6761.00
135_L140_I0.6761.00
164_Y196_G0.6761.00
34_D41_N0.6761.00
65_S107_L0.6751.00
223_G226_V0.6741.00
229_K232_D0.6721.00
142_L152_I0.6711.00
21_V33_R0.6691.00
134_F140_I0.6661.00
165_M169_H0.6621.00
140_I152_I0.6621.00
308_G311_S0.6601.00
233_L237_P0.6571.00
178_I238_S0.6551.00
135_L152_I0.6551.00
135_L151_D0.6531.00
283_T326_R0.6521.00
253_K257_K0.6501.00
82_S96_Q0.6491.00
214_F233_L0.6481.00
233_L236_R0.6471.00
171_I201_L0.6461.00
216_E222_D0.6461.00
108_L119_I0.6461.00
190_Q218_F0.6421.00
105_L130_Q0.6421.00
46_T109_E0.6361.00
93_I114_K0.6351.00
135_L138_G0.6341.00
256_M282_P0.6341.00
35_M38_K0.6341.00
130_Q133_P0.6331.00
27_Y32_K0.6321.00
141_L155_I0.6301.00
180_F197_Y0.6291.00
198_L213_I0.6281.00
170_L241_F0.6271.00
41_N44_D0.6271.00
13_V32_K0.6261.00
5_D55_R0.6241.00
227_F250_G0.6201.00
141_L302_I0.6191.00
244_N272_D0.6181.00
252_I256_M0.6171.00
118_G298_A0.6171.00
76_Q291_V0.6141.00
79_K292_I0.6131.00
164_Y167_V0.6081.00
71_H246_Q0.6031.00
77_L291_V0.6031.00
159_E192_Q0.6011.00
141_L305_S0.6011.00
80_G291_V0.5991.00
218_F243_G0.5981.00
90_Y117_D0.5961.00
20_R28_V0.5941.00
59_T91_K0.5941.00
253_K281_T0.5931.00
197_Y208_H0.5931.00
18_V21_V0.5931.00
179_G212_W0.5921.00
7_I18_V0.5921.00
144_N159_E0.5911.00
129_D132_S0.5901.00
183_D190_Q0.5891.00
18_V40_I0.5871.00
220_I250_G0.5861.00
249_A274_Q0.5851.00
221_E224_F0.5841.00
255_A258_N0.5821.00
177_K207_H0.5811.00
244_N247_V0.5811.00
169_H269_I0.5801.00
178_I197_Y0.5791.00
241_F271_F0.5741.00
62_I306_I0.5711.00
62_I118_G0.5691.00
256_M261_K0.5691.00
305_S308_G0.5691.00
285_T323_L0.5671.00
146_Y154_I0.5651.00
144_N189_A0.5651.00
90_Y306_I0.5611.00
73_F77_L0.5611.00
141_L301_K0.5601.00
95_F110_L0.5591.00
301_K305_S0.5591.00
224_F250_G0.5581.00
166_G239_A0.5571.00
276_I279_V0.5551.00
242_T270_G0.5551.00
62_I90_Y0.5551.00
278_Q283_T0.5541.00
218_F247_V0.5511.00
25_H28_V0.5501.00
198_L210_S0.5501.00
52_R56_R0.5491.00
141_L298_A0.5491.00
85_V90_Y0.5481.00
181_C226_V0.5441.00
46_T50_L0.5431.00
187_S190_Q0.5431.00
292_I295_G0.5421.00
61_T117_D0.5421.00
101_K105_L0.5411.00
72_P246_Q0.5401.00
260_F263_P0.5391.00
177_K237_P0.5371.00
190_Q243_G0.5371.00
142_L154_I0.5341.00
133_P137_Y0.5341.00
226_V230_I0.5321.00
224_F227_F0.5301.00
155_I297_Q0.5301.00
194_K208_H0.5291.00
262_V265_D0.5291.00
271_F289_I0.5291.00
81_V85_V0.5291.00
112_K115_E0.5261.00
277_C284_I0.5261.00
245_D274_Q0.5251.00
111_L116_V0.5251.00
231_K255_A0.5241.00
28_V33_R0.5231.00
157_Y271_F0.5221.00
13_V18_V0.5211.00
287_I321_T0.5191.00
251_I255_A0.5181.00
118_G139_P0.5171.00
318_K321_T0.5171.00
249_A276_I0.5151.00
85_V303_I0.5151.00
109_E112_K0.5121.00
116_V119_I0.5111.00
297_Q304_E0.5101.00
18_V36_I0.5101.00
182_F215_G0.5081.00
16_T25_H0.5081.00
97_T104_E0.5081.00
236_R265_D0.5071.00
74_F122_G0.5071.00
208_H213_I0.5071.00
157_Y162_A0.5071.00
11_C21_V0.5071.00
216_E223_G0.5051.00
99_Y145_E0.5051.00
80_G83_H0.5041.00
177_K234_K0.5041.00
237_P240_I0.5041.00
173_R238_S0.5031.00
239_A267_A0.5011.00
159_E189_A0.5011.00
106_E110_L0.5011.00
280_V283_T0.5001.00
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  
3dbiA 2 0.8237 100 0.051 Contact Map
2hsgA 1 0.9878 100 0.056 Contact Map
2o20A 2 0.8298 100 0.062 Contact Map
1qpzA 2 0.9939 100 0.065 Contact Map
3bilA 2 0.769 100 0.073 Contact Map
3kjxA 2 0.997 100 0.074 Contact Map
4o5aA 2 0.8024 100 0.076 Contact Map
3e3mA 2 0.8024 100 0.077 Contact Map
3ctpA 2 0.7994 100 0.081 Contact Map
3h5oA 2 0.8116 100 0.083 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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