GREMLIN Database
PHND - Phosphonates-binding periplasmic protein
UniProt: P16682 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10714
Length: 338 (280)
Sequences: 2608 (2079)
Seq/√Len: 124.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
186_N198_A4.4191.00
105_Q244_K4.1871.00
51_T55_Q3.9121.00
137_L197_V3.6011.00
132_N220_K3.4131.00
125_V220_K3.2231.00
32_A66_N3.1791.00
36_G85_V3.0831.00
241_E245_D2.8921.00
249_D253_N2.6811.00
276_S279_Q2.6721.00
32_A64_K2.6131.00
245_D249_D2.5801.00
95_A277_D2.5601.00
130_P220_K2.5001.00
147_G195_V2.4541.00
190_V198_A2.4491.00
60_K253_N2.4471.00
34_N66_N2.4201.00
248_Y274_A2.2761.00
277_D284_R2.2291.00
281_V284_R2.2081.00
281_V285_Q2.1821.00
120_W224_K2.1261.00
125_V129_S2.1261.00
189_A195_V2.1181.00
170_I173_S1.9711.00
34_N86_D1.9591.00
148_N179_V1.9541.00
107_F235_W1.9281.00
126_N193_K1.9261.00
275_S279_Q1.9001.00
20_L23_P1.8931.00
128_D220_K1.8591.00
123_L199_T1.8381.00
61_L65_V1.8161.00
51_T54_L1.8151.00
145_T176_K1.8081.00
118_G227_L1.7991.00
32_A63_V1.7961.00
111_V271_P1.7951.00
55_Q58_E1.7851.00
80_M90_Y1.7741.00
33_L87_I1.7651.00
215_K218_E1.7311.00
133_N136_D1.7141.00
120_W202_T1.7111.00
127_K220_K1.7091.00
81_R102_A1.6941.00
132_N136_D1.6931.00
124_I190_V1.6881.00
187_A208_L1.6771.00
146_F199_T1.6711.00
140_K196_D1.6631.00
149_G156_G1.6431.00
162_Y166_A1.6381.00
55_Q59_K1.6291.00
78_Q81_R1.6201.00
278_L281_V1.6191.00
91_G154_T1.6151.00
257_T260_E1.5761.00
123_L197_V1.5571.00
235_W244_K1.5471.00
83_N238_N1.5401.00
180_N186_N1.5271.00
56_D60_K1.5211.00
163_Y223_W1.5091.00
277_D281_V1.4881.00
157_F179_V1.4871.00
145_T196_D1.4801.00
20_L24_A1.4621.00
191_A219_L1.4611.00
157_F161_G1.4601.00
72_D75_G1.4581.00
245_D248_Y1.4461.00
125_V222_I1.4131.00
99_V277_D1.4121.00
111_V273_R1.3891.00
79_G85_V1.3841.00
87_I247_I1.3771.00
58_E64_K1.3571.00
221_V224_K1.3541.00
147_G180_N1.3451.00
57_M61_L1.3441.00
252_M274_A1.3261.00
56_D254_Y1.3231.00
243_T247_I1.3111.00
119_Y153_S1.3101.00
109_Q275_S1.3051.00
135_N167_K1.2941.00
166_A285_Q1.2921.00
95_A99_V1.2861.00
36_G76_I1.2811.00
56_D250_F1.2741.00
119_Y155_S1.2641.00
13_S16_S1.2290.99
61_L243_T1.2000.99
261_K265_E1.1990.99
187_A200_N1.1920.99
146_F197_V1.1890.99
93_L287_A1.1860.99
73_Y183_H1.1670.99
106_V275_S1.1590.99
95_A280_L1.1540.99
260_E264_L1.1530.99
159_V228_I1.1520.99
87_I239_L1.1410.99
34_N68_F1.1370.99
248_Y252_M1.1330.99
53_F254_Y1.1280.99
236_R239_L1.0980.99
124_I200_N1.0940.99
123_L146_F1.0830.99
156_G183_H1.0820.99
159_V286_L1.0760.99
187_A198_A1.0550.98
190_V219_L1.0520.98
12_T15_F1.0490.98
103_N237_K1.0480.98
57_M250_F1.0360.98
90_Y234_V1.0360.98
151_P179_V1.0340.98
125_V130_P1.0320.98
95_A232_P1.0280.98
63_V243_T1.0250.98
240_S243_T1.0140.98
77_I94_S1.0130.98
160_P199_T1.0130.98
105_Q237_K1.0110.98
123_L137_L1.0010.98
285_Q288_L1.0010.98
169_N174_D0.9980.98
191_A218_E0.9980.98
126_N218_E0.9940.98
146_F175_F0.9910.98
39_S73_Y0.9890.97
135_N138_L0.9840.97
149_G179_V0.9790.97
11_F15_F0.9780.97
148_N177_R0.9760.97
124_I219_L0.9750.97
232_P280_L0.9710.97
99_V284_R0.9710.97
15_F18_S0.9690.97
209_K216_L0.9650.97
229_P282_P0.9510.97
235_W247_I0.9500.97
121_S225_S0.9440.97
19_T23_P0.9430.97
30_E63_V0.9400.97
138_L174_D0.9390.97
60_K250_F0.9370.97
242_T246_K0.9370.97
100_D284_R0.9310.96
70_A79_G0.9300.96
162_Y286_L0.9300.96
83_N86_D0.9270.96
20_L25_H0.9260.96
242_T245_D0.9210.96
77_I98_A0.9200.96
108_A252_M0.9150.96
7_A13_S0.9090.96
107_F233_I0.9060.96
29_Q240_S0.8990.96
91_G94_S0.8990.96
149_G180_N0.8960.95
264_L267_L0.8920.95
86_D236_R0.8900.95
162_Y289_F0.8880.95
107_F248_Y0.8800.95
247_I251_F0.8790.95
23_P26_A0.8750.95
96_M284_R0.8710.95
262_A266_R0.8700.95
93_L158_L0.8690.95
244_K248_Y0.8630.94
138_L169_N0.8600.94
225_S228_I0.8570.94
131_I140_K0.8560.94
163_Y167_K0.8560.94
241_E249_D0.8550.94
154_T159_V0.8540.94
31_K63_V0.8400.94
33_L65_V0.8390.94
83_N236_R0.8380.94
187_A190_V0.8320.93
188_L192_N0.8310.93
54_L58_E0.8290.93
60_K257_T0.8280.93
87_I235_W0.8240.93
10_A14_M0.8230.93
35_F89_W0.8230.93
180_N189_A0.8190.93
147_G189_A0.8140.93
166_A289_F0.8140.93
120_W227_L0.8120.92
18_S22_S0.8110.92
14_M20_L0.8110.92
16_S19_T0.8100.92
24_A28_E0.8080.92
18_S21_L0.8010.92
164_V197_V0.8010.92
105_Q248_Y0.7960.92
163_Y226_P0.7920.92
235_W239_L0.7860.91
109_Q279_Q0.7860.91
38_I94_S0.7850.91
54_L251_F0.7850.91
80_M234_V0.7840.91
255_G271_P0.7840.91
53_F263_V0.7810.91
22_S25_H0.7780.91
35_F54_L0.7770.91
130_P140_K0.7750.91
195_V198_A0.7710.90
61_L64_K0.7710.90
62_G246_K0.7700.90
33_L239_L0.7670.90
122_V224_K0.7650.90
155_S231_D0.7620.90
121_S199_T0.7570.90
11_F18_S0.7550.89
153_S156_G0.7520.89
122_V202_T0.7510.89
33_L61_L0.7500.89
57_M65_V0.7490.89
12_T16_S0.7460.89
95_A281_V0.7420.89
76_I85_V0.7420.89
92_N231_D0.7400.89
148_N199_T0.7390.88
30_E64_K0.7390.88
33_L243_T0.7380.88
19_T24_A0.7310.88
54_L67_A0.7280.88
36_G75_G0.7250.88
187_A219_L0.7230.87
7_A12_T0.7170.87
260_E263_V0.7140.87
17_L20_L0.7140.87
154_T228_I0.7120.87
33_L63_V0.7110.86
35_F233_I0.7100.86
61_L250_F0.7080.86
159_V225_S0.7070.86
126_N196_D0.7070.86
38_I91_G0.7060.86
134_L167_K0.7040.86
92_N154_T0.7030.86
7_A10_A0.6990.86
236_R240_S0.6960.85
167_K175_F0.6960.85
250_F254_Y0.6940.85
190_V195_V0.6920.85
201_N231_D0.6910.85
19_T22_S0.6910.85
127_K217_K0.6890.85
261_K264_L0.6870.85
186_N190_V0.6870.85
81_R101_R0.6850.84
39_S183_H0.6810.84
240_S244_K0.6810.84
73_Y153_S0.6790.84
38_I50_W0.6780.84
240_S245_D0.6760.84
90_Y94_S0.6750.84
137_L222_I0.6730.83
182_G185_T0.6720.83
145_T195_V0.6720.83
12_T17_L0.6720.83
24_A27_E0.6710.83
147_G186_N0.6690.83
70_A76_I0.6690.83
259_E262_A0.6660.83
183_H232_P0.6620.82
125_V197_V0.6620.82
50_W91_G0.6580.82
73_Y91_G0.6570.82
202_T224_K0.6550.82
18_S24_A0.6500.81
185_T188_L0.6490.81
125_V132_N0.6450.81
96_M283_I0.6440.81
205_L219_L0.6430.80
253_N256_K0.6410.80
41_E91_G0.6390.80
119_Y183_H0.6380.80
91_G201_N0.6370.80
42_S45_N0.6340.80
109_Q280_L0.6320.79
33_L247_I0.6320.79
127_K130_P0.6320.79
104_G234_V0.6320.79
263_V267_L0.6300.79
153_S183_H0.6270.79
21_L24_A0.6250.79
189_A194_Q0.6240.78
89_W92_N0.6220.78
123_L222_I0.6220.78
129_S220_K0.6210.78
20_L27_E0.6210.78
126_N130_P0.6200.78
11_F14_M0.6180.78
60_K249_D0.6180.78
199_T223_W0.6170.78
126_N129_S0.6150.77
214_E218_E0.6150.77
165_F289_F0.6120.77
89_W233_I0.6060.76
175_F199_T0.6050.76
10_A15_F0.6020.76
187_A204_N0.6020.76
165_F170_I0.6020.76
41_E184_E0.6010.76
201_N205_L0.6010.76
14_M22_S0.6010.76
286_L289_F0.6000.76
98_A104_G0.5980.76
205_L209_K0.5970.75
201_N204_N0.5910.75
39_S98_A0.5890.74
168_N171_S0.5880.74
94_S154_T0.5880.74
129_S132_N0.5870.74
85_V153_S0.5860.74
262_A265_E0.5850.74
155_S201_N0.5850.74
23_P27_E0.5840.74
228_I286_L0.5840.74
41_E155_S0.5820.74
243_T246_K0.5810.73
131_I139_A0.5800.73
46_L69_F0.5790.73
16_S23_P0.5780.73
132_N138_L0.5780.73
11_F22_S0.5780.73
54_L65_V0.5740.73
9_L14_M0.5730.72
246_K250_F0.5710.72
46_L231_D0.5710.72
166_A226_P0.5700.72
191_A214_E0.5700.72
39_S46_L0.5680.72
91_G183_H0.5680.72
95_A284_R0.5670.72
208_L212_A0.5670.72
164_V169_N0.5670.72
121_S160_P0.5670.72
38_I90_Y0.5630.71
29_Q63_V0.5620.71
37_I67_A0.5610.71
80_M85_V0.5600.71
21_L25_H0.5590.71
169_N172_A0.5590.71
55_Q245_D0.5580.70
94_S231_D0.5570.70
20_L28_E0.5570.70
79_G84_K0.5560.70
38_I85_V0.5560.70
80_M102_A0.5550.70
241_E244_K0.5540.70
91_G153_S0.5530.70
10_A24_A0.5520.70
18_S23_P0.5520.70
163_Y225_S0.5490.69
158_L287_A0.5480.69
187_A203_E0.5460.69
148_N157_F0.5440.68
40_T155_S0.5440.68
166_A247_I0.5420.68
37_I46_L0.5410.68
109_Q273_R0.5410.68
30_E86_D0.5410.68
33_L86_D0.5400.68
94_S219_L0.5390.68
37_I50_W0.5390.68
137_L164_V0.5370.68
25_H28_E0.5370.68
212_A215_K0.5340.67
80_M158_L0.5340.67
91_G232_P0.5330.67
75_G150_D0.5300.67
73_Y88_A0.5290.66
11_F24_A0.5280.66
13_S101_R0.5280.66
53_F251_F0.5270.66
78_Q82_F0.5270.66
75_G79_G0.5270.66
209_K215_K0.5270.66
171_S174_D0.5250.66
260_E267_L0.5240.66
54_L187_A0.5240.66
148_N231_D0.5240.66
93_L149_G0.5230.65
76_I91_G0.5230.65
122_V205_L0.5220.65
124_I187_A0.5210.65
261_K266_R0.5200.65
17_L25_H0.5190.65
21_L166_A0.5180.65
201_N230_G0.5180.65
9_L15_F0.5160.64
17_L21_L0.5150.64
123_L205_L0.5140.64
119_Y149_G0.5130.64
124_I221_V0.5090.63
93_L154_T0.5070.63
91_G121_S0.5070.63
125_V137_L0.5050.63
7_A11_F0.5050.63
155_S180_N0.5030.63
119_Y156_G0.5020.62
149_G186_N0.5020.62
95_A234_V0.5020.62
138_L173_S0.5020.62
83_N139_A0.5020.62
285_Q289_F0.5020.62
269_W272_F0.5010.62
200_N204_N0.5010.62
36_G68_F0.5000.62
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  
3ekiA 1 0.7633 100 0.418 Contact Map
3myuA 1 0.7219 100 0.457 Contact Map
3p7iA 2 0.8728 100 0.539 Contact Map
1blfA 1 0.858 100 0.545 Contact Map
3v83A 6 0.8817 100 0.555 Contact Map
1iejA 1 0.7456 100 0.557 Contact Map
3n5lA 2 0.8905 100 0.562 Contact Map
1h45A 1 0.7278 100 0.568 Contact Map
1ryoA 1 0.7515 100 0.57 Contact Map
2d3iA 1 0.8521 100 0.584 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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