GREMLIN Database
DDPF - Probable D,D-dipeptide transport ATP-binding protein DdpF
UniProt: P77622 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13786
Length: 308 (238)
Sequences: 63408 (38660)
Seq/√Len: 2506.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_E212_R4.1351.00
81_I162_D3.3831.00
30_H33_N3.1651.00
212_R224_L3.0401.00
45_L214_A2.9541.00
40_R43_E2.9271.00
46_G210_S2.6811.00
72_Q79_Q2.6731.00
226_D229_Q2.6351.00
97_L101_R2.5251.00
123_E133_P2.4731.00
76_S162_D2.4121.00
135_Y138_R2.4081.00
214_A221_I2.3541.00
128_Q192_H2.3171.00
33_N220_Q2.2201.00
207_R228_Q2.1301.00
214_A224_L2.0851.00
114_S117_Q2.0711.00
59_A165_V2.0411.00
225_G229_Q1.9461.00
41_R162_D1.9051.00
59_A199_I1.8891.00
123_E136_L1.8191.00
100_W104_T1.8171.00
17_A20_N1.7951.00
20_N24_K1.7761.00
18_R72_Q1.7731.00
186_V208_H1.7471.00
225_G230_V1.7391.00
123_E127_V1.7121.00
121_L124_E1.6831.00
188_L194_L1.6771.00
227_A238_Y1.6671.00
138_R142_A1.6671.00
125_L158_S1.6551.00
121_L160_Q1.6521.00
21_W34_G1.6451.00
37_L214_A1.6391.00
124_E128_Q1.6251.00
46_G206_I1.6061.00
200_S206_I1.5981.00
98_P101_R1.5811.00
100_W137_D1.5341.00
229_Q233_A1.5291.00
160_Q194_L1.5281.00
100_W136_L1.5221.00
39_I45_L1.5161.00
239_T243_L1.5101.00
18_R74_I1.4931.00
234_P239_T1.4791.00
76_S81_I1.4631.00
37_L58_L1.4531.00
22_L26_T1.4101.00
45_L212_R1.3971.00
64_G67_Q1.3921.00
116_Q120_A1.3741.00
223_E233_A1.3681.00
43_E211_D1.3651.00
44_T210_S1.3641.00
104_T118_R1.3531.00
119_R123_E1.3511.00
63_M84_M1.3331.00
44_T189_Q1.3151.00
217_Y222_V1.3001.00
135_Y143_F1.2941.00
166_L196_Y1.2841.00
160_Q192_H1.2841.00
83_Q161_P1.2781.00
114_S118_R1.2711.00
122_A125_L1.2681.00
44_T196_Y1.2681.00
237_P240_R1.2651.00
23_G30_H1.2491.00
104_T122_A1.2471.00
35_I58_L1.2461.00
40_R212_R1.2441.00
96_R141_H1.2441.00
240_R244_D1.2231.00
126_A136_L1.2141.00
108_W118_R1.2071.00
61_L68_P1.2041.00
74_I79_Q1.2041.00
90_L148_R1.1991.00
45_L224_L1.1871.00
103_I126_A1.1851.00
66_L69_S1.1831.00
127_V133_P1.1591.00
182_L205_V1.1551.00
189_Q196_Y1.1491.00
21_W30_H1.1481.00
85_V166_L1.1451.00
173_L181_I1.1431.00
83_Q156_A1.1371.00
101_R104_T1.1351.00
223_E234_P1.1271.00
124_E127_V1.1181.00
20_N26_T1.1061.00
228_Q232_T1.1051.00
98_P137_D1.1001.00
41_R76_S1.0941.00
102_I155_R1.0931.00
229_Q232_T1.0921.00
143_F151_I1.0921.00
58_L216_M1.0891.00
237_P241_L1.0831.00
44_T198_L1.0771.00
21_W24_K1.0711.00
21_W70_H1.0691.00
117_Q120_A1.0661.00
132_R135_Y1.0651.00
47_I214_A1.0641.00
115_E118_R1.0631.00
127_V132_R1.0621.00
60_Q65_M1.0521.00
32_I61_L1.0491.00
120_A124_E1.0451.00
39_I197_V1.0341.00
103_I158_S1.0281.00
213_V227_A1.0261.00
113_S118_R1.0241.00
178_Q202_N1.0231.00
119_R136_L1.0211.00
60_Q66_L1.0211.00
47_I197_V1.0141.00
47_I58_L1.0101.00
99_V143_F1.0001.00
100_W112_R1.0001.00
107_L111_K0.9991.00
164_I194_L0.9971.00
134_E138_R0.9971.00
104_T108_W0.9961.00
107_L158_S0.9951.00
61_L66_L0.9831.00
25_T28_H0.9781.00
107_L110_A0.9761.00
186_V189_Q0.9761.00
179_A183_N0.9751.00
21_W26_T0.9731.00
168_E201_H0.9711.00
164_I196_Y0.9611.00
117_Q121_L0.9551.00
223_E235_A0.9551.00
62_L197_V0.9491.00
115_E119_R0.9481.00
182_L208_H0.9461.00
185_L196_Y0.9421.00
41_R193_G0.9381.00
53_C216_M0.9361.00
113_S117_Q0.9361.00
114_S123_E0.9351.00
100_W119_R0.9351.00
32_I35_I0.9161.00
248_A251_K0.9161.00
85_V153_I0.9001.00
129_V154_A0.8961.00
93_L148_R0.8891.00
40_R195_T0.8891.00
50_E217_Y0.8881.00
97_L102_I0.8841.00
97_L105_E0.8831.00
85_V156_A0.8771.00
24_K57_T0.8721.00
227_A231_L0.8721.00
100_W122_A0.8701.00
178_Q205_V0.8691.00
166_L185_L0.8651.00
61_L69_S0.8641.00
106_P109_I0.8641.00
44_T186_V0.8631.00
63_M165_V0.8611.00
48_V206_I0.8601.00
165_V197_V0.8591.00
184_L187_T0.8541.00
139_L142_A0.8511.00
39_I195_T0.8501.00
118_R123_E0.8491.00
99_V151_I0.8471.00
125_L154_A0.8471.00
198_L210_S0.8461.00
223_E230_V0.8351.00
183_N186_V0.8341.00
163_V195_T0.8341.00
186_V209_M0.8311.00
246_L249_I0.8171.00
250_D253_L0.8141.00
125_L128_Q0.8121.00
140_P151_I0.8121.00
236_H239_T0.8111.00
24_K27_E0.8071.00
39_I163_V0.8061.00
45_L197_V0.8041.00
215_V234_P0.8021.00
94_N97_L0.7981.00
104_T119_R0.7921.00
34_G220_Q0.7911.00
222_V237_P0.7901.00
121_L125_L0.7891.00
217_Y220_Q0.7861.00
198_L209_M0.7851.00
217_Y241_L0.7781.00
230_V239_T0.7771.00
61_L73_Y0.7741.00
31_A57_T0.7711.00
24_K69_S0.7701.00
20_N72_Q0.7701.00
210_S213_V0.7701.00
244_D258_A0.7651.00
145_G150_R0.7611.00
256_E259_L0.7591.00
221_I224_L0.7591.00
98_P102_I0.7571.00
116_Q119_R0.7571.00
110_A159_S0.7541.00
130_G187_T0.7501.00
222_V236_H0.7501.00
246_L250_D0.7501.00
98_P139_L0.7491.00
102_I140_P0.7481.00
183_N187_T0.7441.00
128_Q187_T0.7421.00
82_M163_V0.7421.00
35_I221_I0.7401.00
48_V215_V0.7351.00
205_V209_M0.7321.00
189_Q211_D0.7321.00
118_R122_A0.7291.00
231_L234_P0.7281.00
78_S81_I0.7261.00
241_L245_S0.7201.00
93_L102_I0.7201.00
105_E109_I0.7161.00
44_T209_M0.7091.00
24_K61_L0.7091.00
130_G180_Q0.7061.00
215_V230_V0.7011.00
117_Q133_P0.7001.00
143_F147_Q0.6931.00
131_I135_Y0.6921.00
245_S248_A0.6901.00
56_S60_Q0.6901.00
242_L246_L0.6901.00
23_G69_S0.6891.00
104_T112_R0.6881.00
75_R81_I0.6851.00
240_R243_L0.6781.00
63_M82_M0.6781.00
106_P159_S0.6771.00
203_V231_L0.6751.00
170_T205_V0.6741.00
51_S177_V0.6731.00
217_Y237_P0.6681.00
106_P155_R0.6671.00
233_A237_P0.6651.00
241_L244_D0.6641.00
60_Q84_M0.6581.00
17_A37_L0.6581.00
30_H34_G0.6551.00
251_K254_E0.6551.00
230_V234_P0.6541.00
111_K121_L0.6541.00
135_Y147_Q0.6511.00
25_T30_H0.6501.00
170_T181_I0.6501.00
180_Q183_N0.6491.00
23_G26_T0.6451.00
87_Q145_G0.6431.00
130_G133_P0.6411.00
104_T107_L0.6401.00
65_M86_F0.6371.00
134_E137_D0.6351.00
119_R122_A0.6341.00
243_L247_P0.6331.00
125_L129_V0.6321.00
122_A136_L0.6301.00
75_R163_V0.6301.00
32_I58_L0.6301.00
119_R137_D0.6281.00
163_V197_V0.6271.00
210_S227_A0.6271.00
59_A63_M0.6251.00
200_S205_V0.6251.00
22_L57_T0.6171.00
44_T211_D0.6171.00
207_R227_A0.6171.00
50_E53_C0.6111.00
125_L157_L0.6071.00
85_V149_Q0.6061.00
103_I117_Q0.6051.00
206_I210_S0.6031.00
108_W115_E0.5991.00
223_E239_T0.5981.00
62_L73_Y0.5971.00
238_Y241_L0.5961.00
38_Q224_L0.5961.00
207_R231_L0.5961.00
23_G28_H0.5951.00
234_P243_L0.5951.00
17_A27_E0.5921.00
51_S168_E0.5921.00
17_A62_L0.5801.00
162_D194_L0.5781.00
189_Q194_L0.5671.00
216_M221_I0.5651.00
100_W103_I0.5651.00
189_Q192_H0.5621.00
183_N208_H0.5621.00
117_Q126_A0.5611.00
34_G70_H0.5591.00
68_P73_Y0.5591.00
252_P256_E0.5581.00
51_S173_L0.5581.00
144_S147_Q0.5581.00
107_L113_S0.5561.00
23_G70_H0.5551.00
244_D247_P0.5541.00
80_R159_S0.5531.00
233_A236_H0.5511.00
103_I122_A0.5491.00
43_E224_L0.5481.00
42_G195_T0.5471.00
120_A123_E0.5461.00
80_R111_K0.5441.00
238_Y242_L0.5421.00
93_L151_I0.5421.00
153_I181_I0.5401.00
113_S121_L0.5371.00
202_N205_V0.5331.00
26_T31_A0.5321.00
120_A127_V0.5301.00
231_L242_L0.5291.00
235_A240_R0.5291.00
131_I134_E0.5281.00
121_L128_Q0.5261.00
20_N23_G0.5211.00
137_D140_P0.5201.00
104_T113_S0.5201.00
30_H70_H0.5201.00
175_I179_A0.5161.00
206_I213_V0.5161.00
106_P110_A0.5131.00
33_N218_L0.5131.00
217_Y236_H0.5131.00
100_W113_S0.5131.00
95_P148_R0.5121.00
74_I77_G0.5121.00
227_A230_V0.5101.00
41_R195_T0.5091.00
206_I227_A0.5061.00
48_V203_V0.5051.00
37_L45_L0.5051.00
99_V103_I0.5031.00
157_L194_L0.5021.00
149_Q172_A0.5021.00
228_Q231_L0.5011.00
212_R226_D0.5001.00
51_S150_R0.5001.00
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  
4ry2A 2 0.7532 100 0.254 Contact Map
3tuiC 2 0.9318 100 0.259 Contact Map
1oxxK 1 0.9351 100 0.26 Contact Map
4fwiB 1 0.9286 100 0.26 Contact Map
4f4cA 1 0.737 100 0.261 Contact Map
4yerA 2 0.8539 100 0.262 Contact Map
4mkiB 2 0.8799 100 0.264 Contact Map
4u00A 1 0.7468 100 0.266 Contact Map
3fvqA 2 0.9448 100 0.267 Contact Map
2yyzA 1 0.9416 100 0.268 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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