GREMLIN Database
POTD - Spermidine/putrescine-binding periplasmic protein
UniProt: P0AFK9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10752
Length: 348 (307)
Sequences: 37728 (30197)
Seq/√Len: 1723.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_T55_I3.7961.00
140_G244_D3.5451.00
30_Y55_I3.2701.00
97_Q268_K3.1991.00
28_T53_K2.8611.00
141_D242_P2.8261.00
98_K123_N2.8051.00
155_W201_K2.7681.00
52_I270_G2.5721.00
200_K204_P2.5251.00
47_T53_K2.4791.00
45_Q277_F2.4151.00
50_T273_K2.4001.00
280_R283_V2.3541.00
150_S153_D2.2491.00
197_N201_K2.1861.00
273_K276_N2.1761.00
45_Q48_K2.1761.00
190_K194_A2.1361.00
138_V244_D2.1261.00
30_Y57_S2.1161.00
64_T68_K2.1021.00
140_G144_D2.0651.00
45_Q49_E2.0471.00
285_K289_E2.0011.00
142_A224_N1.9991.00
100_D123_N1.9911.00
44_E48_K1.9831.00
27_N270_G1.9681.00
96_I260_A1.9641.00
78_D267_N1.9631.00
45_Q286_Q1.9611.00
194_A197_N1.9581.00
267_N270_G1.9061.00
198_E201_K1.8961.00
47_T50_T1.8611.00
143_V225_L1.8501.00
126_S258_S1.8441.00
193_E197_N1.8281.00
119_F124_D1.8211.00
206_V209_F1.8121.00
46_F50_T1.8121.00
109_N299_A1.8111.00
210_N213_N1.8001.00
43_L47_T1.7981.00
46_F273_K1.7941.00
141_D145_P1.7771.00
43_L274_L1.7601.00
281_P285_K1.7531.00
116_N119_F1.7501.00
26_N53_K1.7341.00
153_D156_K1.7111.00
80_V262_P1.6821.00
97_Q263_A1.6761.00
269_E273_K1.6661.00
217_P222_E1.6651.00
283_V286_Q1.6641.00
157_P161_G1.6141.00
112_P116_N1.6061.00
268_K272_L1.6061.00
270_G273_K1.6041.00
149_T153_D1.5891.00
286_Q290_T1.5701.00
159_Y163_L1.5671.00
265_A268_K1.5671.00
49_E280_R1.5561.00
139_N142_A1.5461.00
44_E47_T1.5251.00
152_A155_W1.4991.00
306_P310_N1.4761.00
65_M68_K1.4701.00
27_N267_N1.4681.00
33_N56_Y1.4651.00
197_N200_K1.4641.00
140_G242_P1.4541.00
286_Q289_E1.4521.00
155_W202_L1.4491.00
46_F274_L1.4351.00
13_A16_L1.4331.00
138_V246_V1.4331.00
216_N220_E1.4321.00
261_I275_I1.4291.00
191_E194_A1.4241.00
64_T67_A1.4131.00
155_W198_E1.4131.00
65_M70_K1.4131.00
118_P258_S1.4101.00
68_K72_Y1.4101.00
79_L271_A1.3951.00
198_E202_L1.3941.00
152_A156_K1.3781.00
306_P309_A1.3521.00
91_R125_Y1.3511.00
148_V153_D1.3441.00
46_F277_F1.3441.00
18_M21_A1.3221.00
136_I246_V1.3171.00
46_F52_I1.3081.00
217_P223_V1.3041.00
190_K193_E1.2961.00
299_A302_K1.2851.00
104_L107_F1.2741.00
160_K163_L1.2741.00
269_E272_L1.2661.00
201_K204_P1.2441.00
14_L17_G1.2441.00
135_A245_V1.2341.00
213_N216_N1.2271.00
43_L56_Y1.2261.00
272_L276_N1.2171.00
265_A271_A1.2161.00
201_K205_N1.2051.00
281_P299_A1.2011.00
98_K101_K1.1951.00
52_I273_K1.1921.00
218_Y243_I1.1851.00
106_N276_N1.1841.00
109_N297_N1.1811.00
261_I271_A1.1791.00
157_P205_N1.1791.00
67_A70_K1.1721.00
79_L274_L1.1631.00
112_P115_L1.1581.00
98_K124_D1.1551.00
178_R183_S1.1441.00
137_G228_I1.1441.00
159_Y162_S1.1421.00
82_P260_A1.1371.00
155_W205_N1.1361.00
149_T249_K1.1351.00
282_D285_K1.1251.00
105_T108_S1.1171.00
158_E162_S1.1091.00
141_D241_T1.1051.00
43_L54_V1.1001.00
102_S272_L1.0991.00
194_A198_E1.0981.00
139_N242_P1.0951.00
136_I225_L1.0921.00
139_N241_T1.0881.00
297_N300_A1.0861.00
46_F270_G1.0771.00
94_G263_A1.0691.00
261_I272_L1.0651.00
45_Q282_D1.0621.00
31_F259_L1.0601.00
259_L275_I1.0551.00
111_D298_L1.0541.00
78_D265_A1.0511.00
49_E277_F1.0471.00
11_A15_A1.0461.00
29_L274_L1.0451.00
89_K93_E1.0441.00
26_N51_G1.0431.00
157_P160_K1.0411.00
142_A146_K1.0381.00
88_D92_K1.0351.00
205_N209_F1.0341.00
49_E282_D1.0301.00
76_A262_P1.0251.00
186_T189_P1.0251.00
205_N208_A1.0241.00
80_V260_A1.0231.00
10_A14_L1.0181.00
90_M96_I1.0181.00
103_K106_N1.0151.00
282_D286_Q1.0121.00
274_L278_L1.0111.00
281_P297_N1.0101.00
277_F283_V1.0091.00
60_E64_T0.9991.00
142_A145_P0.9931.00
235_V238_Q0.9901.00
91_R120_D0.9871.00
285_K300_A0.9831.00
29_L270_G0.9811.00
36_E39_P0.9801.00
262_P265_A0.9711.00
42_L45_Q0.9701.00
234_F238_Q0.9621.00
261_I265_A0.9501.00
21_A24_D0.9451.00
263_A268_K0.9361.00
171_E175_M0.9331.00
97_Q272_L0.9181.00
162_S224_N0.9181.00
168_D171_E0.9181.00
79_L275_I0.9171.00
129_Y259_L0.9131.00
103_K272_L0.9131.00
141_D144_D0.9011.00
104_L276_N0.9001.00
274_L277_F0.8951.00
154_L225_L0.8941.00
307_E310_N0.8931.00
66_Y70_K0.8921.00
228_I232_S0.8881.00
142_A159_Y0.8871.00
45_Q283_V0.8871.00
187_T192_I0.8861.00
32_Y77_Y0.8791.00
70_K93_E0.8781.00
10_A13_A0.8771.00
42_L283_V0.8711.00
66_Y69_L0.8681.00
146_K162_S0.8681.00
271_A275_I0.8661.00
12_G16_L0.8621.00
189_P193_E0.8551.00
138_V147_S0.8511.00
27_N51_G0.8461.00
185_N188_D0.8451.00
216_N219_M0.8451.00
188_D191_E0.8401.00
200_K203_M0.8361.00
32_Y59_Y0.8361.00
214_P226_G0.8281.00
151_W155_W0.8281.00
305_S309_A0.8261.00
126_S260_A0.8231.00
110_L279_L0.8231.00
111_D114_M0.8211.00
98_K125_Y0.8191.00
54_V274_L0.8181.00
65_M69_L0.8181.00
158_E161_G0.8161.00
312_K315_Y0.8161.00
96_I125_Y0.8101.00
168_D172_V0.8101.00
110_L115_L0.8091.00
298_L302_K0.8031.00
180_L194_A0.8021.00
14_L18_M0.8001.00
97_Q262_P0.8001.00
164_L167_D0.8001.00
47_T54_V0.7981.00
6_R13_A0.7971.00
189_P192_I0.7941.00
118_P124_D0.7871.00
115_L124_D0.7821.00
199_L203_M0.7821.00
173_F177_L0.7801.00
212_D215_A0.7771.00
167_D170_R0.7751.00
219_M239_A0.7661.00
167_D171_E0.7651.00
171_E174_Q0.7651.00
180_L183_S0.7631.00
259_L278_L0.7611.00
9_L13_A0.7601.00
27_N52_I0.7591.00
97_Q265_A0.7561.00
235_V239_A0.7511.00
132_G255_W0.7501.00
91_R96_I0.7461.00
276_N280_R0.7431.00
109_N281_P0.7411.00
51_G273_K0.7401.00
97_Q101_K0.7401.00
138_V143_V0.7401.00
81_V259_L0.7361.00
173_F176_A0.7361.00
13_A17_G0.7361.00
17_G20_A0.7361.00
167_D172_V0.7341.00
159_Y224_N0.7331.00
196_Y200_K0.7311.00
24_D27_N0.7311.00
29_L267_N0.7271.00
41_G44_E0.7261.00
113_D116_N0.7251.00
307_E311_D0.7221.00
143_V146_K0.7191.00
137_G233_A0.7181.00
166_T171_E0.7161.00
212_D216_N0.7151.00
165_L168_D0.7141.00
65_M72_Y0.7131.00
47_T52_I0.7121.00
115_L119_F0.7121.00
86_Y89_K0.7111.00
16_L19_S0.7061.00
97_Q261_I0.7051.00
80_V96_I0.7041.00
147_S153_D0.7041.00
137_G245_V0.7021.00
147_S246_V0.7021.00
164_L168_D0.7001.00
10_A16_L0.7001.00
99_I275_I0.6981.00
146_K158_E0.6971.00
102_S105_T0.6951.00
19_S22_H0.6921.00
112_P298_L0.6921.00
119_F122_N0.6901.00
11_A14_L0.6891.00
110_L114_M0.6881.00
40_P44_E0.6841.00
100_D124_D0.6831.00
144_D242_P0.6831.00
233_A237_R0.6831.00
186_T191_E0.6791.00
109_N298_L0.6781.00
6_R9_L0.6781.00
12_G15_A0.6751.00
169_A173_F0.6751.00
6_R10_A0.6741.00
310_N313_T0.6651.00
215_A219_M0.6631.00
179_K182_Y0.6621.00
234_F237_R0.6601.00
188_D192_I0.6601.00
97_Q264_N0.6581.00
15_A18_M0.6531.00
213_N217_P0.6501.00
31_F56_Y0.6491.00
111_D115_L0.6471.00
164_L223_V0.6441.00
311_D314_L0.6431.00
100_D272_L0.6431.00
178_R182_Y0.6421.00
19_S23_A0.6401.00
8_L12_G0.6381.00
36_E40_P0.6371.00
164_L169_A0.6371.00
57_S77_Y0.6361.00
17_G21_A0.6351.00
64_T72_Y0.6351.00
180_L184_G0.6341.00
20_A23_A0.6331.00
273_K277_F0.6331.00
141_D221_G0.6311.00
180_L198_E0.6301.00
165_L171_E0.6281.00
146_K159_Y0.6281.00
309_A312_K0.6271.00
9_L16_L0.6261.00
191_E195_A0.6261.00
68_K71_T0.6231.00
29_L271_A0.6231.00
67_A71_T0.6221.00
30_Y78_D0.6211.00
25_D28_T0.6191.00
188_D193_E0.6141.00
146_K224_N0.6141.00
150_S250_E0.6131.00
31_F79_L0.6121.00
7_H11_A0.6101.00
87_V126_S0.6101.00
305_S308_V0.6101.00
195_A199_L0.6081.00
137_G243_I0.6081.00
53_K56_Y0.6081.00
87_V91_R0.6061.00
59_Y68_K0.6051.00
268_K271_A0.6051.00
42_L278_L0.6051.00
111_D301_R0.6011.00
27_N273_K0.6011.00
78_D271_A0.6011.00
178_R181_G0.5991.00
215_A228_I0.5991.00
37_Y40_P0.5991.00
133_A230_N0.5991.00
50_T270_G0.5981.00
261_I268_K0.5971.00
9_L12_G0.5961.00
27_N30_Y0.5961.00
174_Q177_L0.5961.00
118_P126_S0.5941.00
42_L286_Q0.5941.00
106_N109_N0.5941.00
7_H10_A0.5931.00
66_Y89_K0.5931.00
139_N221_G0.5901.00
108_S111_D0.5861.00
83_S86_Y0.5851.00
165_L169_A0.5841.00
42_L277_F0.5841.00
79_L259_L0.5831.00
165_L173_F0.5831.00
192_I195_A0.5821.00
100_D119_F0.5801.00
108_S115_L0.5791.00
32_Y57_S0.5791.00
91_R94_G0.5791.00
138_V225_L0.5771.00
151_W198_E0.5761.00
182_Y191_E0.5741.00
6_R17_G0.5671.00
178_R184_G0.5671.00
217_P220_E0.5651.00
143_V159_Y0.5651.00
66_Y86_Y0.5641.00
32_Y72_Y0.5641.00
101_K123_N0.5631.00
120_D123_N0.5631.00
11_A17_G0.5621.00
166_T169_A0.5621.00
26_N52_I0.5611.00
41_G290_T0.5581.00
165_L172_V0.5581.00
30_Y33_N0.5581.00
185_N189_P0.5581.00
15_A19_S0.5581.00
298_L301_R0.5571.00
109_N112_P0.5571.00
101_K272_L0.5541.00
186_T192_I0.5531.00
43_L53_K0.5531.00
37_Y41_G0.5501.00
293_Y296_P0.5491.00
258_S262_P0.5481.00
309_A313_T0.5481.00
166_T170_R0.5451.00
16_L21_A0.5451.00
81_V129_Y0.5441.00
5_S8_L0.5441.00
136_I227_M0.5431.00
57_S68_K0.5421.00
38_V41_G0.5421.00
172_V176_A0.5411.00
143_V224_N0.5401.00
8_L14_L0.5391.00
31_F81_V0.5391.00
159_Y225_L0.5371.00
284_A296_P0.5361.00
149_T154_L0.5351.00
114_M131_W0.5331.00
99_I261_I0.5311.00
166_T172_V0.5291.00
232_S236_A0.5291.00
21_A25_D0.5291.00
214_P223_V0.5281.00
132_G257_D0.5271.00
99_I272_L0.5271.00
90_M95_M0.5241.00
232_S235_V0.5241.00
124_D127_I0.5241.00
76_A264_N0.5231.00
169_A172_V0.5231.00
211_S214_P0.5221.00
164_L172_V0.5201.00
193_E196_Y0.5191.00
130_I257_D0.5191.00
47_T51_G0.5191.00
192_I196_Y0.5191.00
272_L275_I0.5151.00
82_P90_M0.5141.00
167_D176_A0.5121.00
103_K269_E0.5091.00
215_A235_V0.5071.00
103_K276_N0.5061.00
164_L170_R0.5051.00
195_A198_E0.5051.00
165_L170_R0.5031.00
50_T277_F0.5021.00
27_N31_F0.5021.00
88_D91_R0.5001.00
241_T244_D0.5001.00
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  
3uorA 1 0.9195 100 0.255 Contact Map
4gl0A 1 0.9195 100 0.256 Contact Map
1potA 1 0.9253 100 0.259 Contact Map
4mfiA 1 0.9167 100 0.267 Contact Map
4eqbA 1 0.9195 100 0.269 Contact Map
2v84A 1 0.8994 100 0.271 Contact Map
4r9fA 1 0.9167 100 0.272 Contact Map
3ttmA 1 0.9253 100 0.275 Contact Map
4r2fA 1 0.9109 100 0.277 Contact Map
4jdfA 1 0.9224 100 0.284 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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