GREMLIN Database
DDPB - Probable D,D-dipeptide transport system permease protein DdpB
UniProt: P77308 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13789
Length: 340 (294)
Sequences: 22627 (14507)
Seq/√Len: 846.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
61_Q65_V3.3191.00
61_Q69_R3.2731.00
30_H66_Q3.1531.00
227_M254_A2.7641.00
68_Y72_S2.7581.00
72_S76_H2.7151.00
47_D51_E2.6521.00
55_Q60_D2.5491.00
22_C67_F2.5461.00
118_L134_V2.4441.00
240_R246_G2.4341.00
106_G208_A2.4291.00
99_A286_W2.4291.00
248_Y252_C2.3921.00
291_A295_T2.3751.00
230_Q235_Y2.2411.00
236_I254_A2.2131.00
35_D54_R2.1951.00
131_D224_R2.1481.00
23_V67_F2.1361.00
230_Q233_E2.1321.00
247_W251_L2.1121.00
64_Y68_Y2.0761.00
245_P248_Y2.0371.00
267_G323_V2.0221.00
92_E292_W2.0091.00
88_P91_E2.0081.00
110_L212_A1.9361.00
5_S9_Q1.9191.00
49_I52_N1.9181.00
244_L248_Y1.9161.00
50_V54_R1.9091.00
113_L117_P1.8881.00
231_L254_A1.8391.00
85_T92_E1.8261.00
164_L202_Q1.8171.00
46_S49_I1.8131.00
125_W128_R1.7891.00
21_V313_S1.7761.00
236_I249_I1.7641.00
129_W133_L1.7591.00
158_Y166_G1.7511.00
52_N56_Q1.7421.00
65_V69_R1.7121.00
51_E55_Q1.7081.00
234_D237_R1.7061.00
87_R91_E1.6861.00
164_L205_I1.6671.00
90_L94_R1.6631.00
89_V307_G1.6551.00
51_E54_R1.6401.00
120_I227_M1.6391.00
69_R72_S1.6321.00
123_A227_M1.6191.00
130_L134_V1.6061.00
121_L130_L1.5791.00
73_D78_D1.5721.00
263_I330_I1.5671.00
114_I117_P1.5371.00
230_Q258_A1.5241.00
18_V314_F1.5211.00
208_A212_A1.5181.00
121_L125_W1.5151.00
124_V250_V1.5121.00
238_T242_S1.5051.00
114_I216_L1.4851.00
35_D38_R1.4801.00
79_L307_G1.4611.00
124_V246_G1.4561.00
326_L329_W1.4401.00
111_A215_H1.4401.00
264_T327_Y1.4371.00
219_V269_A1.4351.00
293_V308_F1.4341.00
235_Y257_N1.4291.00
230_Q254_A1.4171.00
14_L317_V1.4131.00
296_S304_A1.4121.00
102_E106_G1.4061.00
200_A203_H1.3981.00
74_L79_L1.3731.00
148_W152_G1.3681.00
112_L266_L1.3651.00
230_Q236_I1.3631.00
79_L90_L1.3601.00
69_R73_D1.3591.00
53_I56_Q1.3551.00
87_R95_I1.3511.00
125_W130_L1.3471.00
155_V160_H1.3431.00
19_A23_V1.3321.00
19_A67_F1.3171.00
75_F78_D1.3011.00
99_A102_E1.2961.00
65_V68_Y1.2921.00
95_I98_P1.2911.00
62_P65_V1.2901.00
53_I57_L1.2891.00
153_V210_T1.2811.00
12_W16_L1.2791.00
102_E200_A1.2721.00
115_G223_I1.2701.00
134_V220_A1.2601.00
27_I30_H1.2561.00
222_Q265_V1.2431.00
115_G219_V1.2411.00
119_G123_A1.2321.00
108_L266_L1.2291.00
141_G217_G1.2181.00
242_S253_Y1.2171.00
37_A50_V1.2131.00
87_R92_E1.2081.00
8_R12_W1.2061.00
82_S87_R1.2051.00
212_A216_L1.2051.00
127_N131_D1.1981.00
224_R228_L1.1881.00
61_Q64_Y1.1861.00
123_A231_L1.1831.00
81_T88_P1.1771.00
292_W304_A1.1721.00
156_L160_H1.1691.00
22_C70_Y1.1631.00
227_M258_A1.1601.00
199_N203_H1.1591.00
271_G316_Y1.1581.00
118_L220_A1.1561.00
129_W132_H1.1491.00
199_N202_Q1.1471.00
122_S134_V1.1451.00
23_V27_I1.1411.00
144_T149_L1.1381.00
58_G61_Q1.1351.00
327_Y331_D1.1321.00
4_W7_L1.1261.00
138_A220_A1.1251.00
92_E304_A1.1151.00
119_G223_I1.1121.00
25_T97_F1.1121.00
205_I209_L1.1081.00
260_I327_Y1.0931.00
308_F312_V1.0801.00
223_I262_S1.0721.00
239_A249_I1.0691.00
239_A244_L1.0621.00
294_V298_Q1.0511.00
38_R50_V1.0501.00
325_L329_W1.0501.00
120_I250_V1.0471.00
91_E95_I1.0401.00
58_G69_R1.0371.00
210_T214_V1.0331.00
319_V323_V1.0231.00
20_G24_I1.0221.00
201_L205_I1.0201.00
52_N55_Q1.0101.00
223_I227_M0.9971.00
137_M141_G0.9961.00
73_D76_H0.9921.00
102_E204_L0.9911.00
107_A212_A0.9881.00
117_P120_I0.9881.00
302_F306_M0.9851.00
239_A253_Y0.9721.00
248_Y251_L0.9651.00
92_E95_I0.9641.00
48_A52_N0.9611.00
4_W8_R0.9581.00
123_A228_L0.9531.00
16_L19_A0.9481.00
94_R98_P0.9481.00
12_W325_L0.9461.00
150_G210_T0.9421.00
157_F163_I0.9411.00
55_Q61_Q0.9311.00
7_L325_L0.9281.00
229_E233_E0.9211.00
246_G249_I0.9191.00
30_H63_L0.9131.00
131_D228_L0.9061.00
14_L321_L0.9041.00
91_E94_R0.8991.00
81_T86_G0.8981.00
41_A53_I0.8961.00
244_L249_I0.8951.00
19_A71_V0.8931.00
116_I223_I0.8921.00
82_S301_D0.8901.00
240_R249_I0.8901.00
96_F292_W0.8891.00
258_A261_P0.8881.00
102_E105_F0.8851.00
146_A280_T0.8851.00
107_A111_A0.8831.00
226_A229_E0.8831.00
14_L318_L0.8831.00
71_V74_L0.8821.00
153_V206_L0.8771.00
164_L206_L0.8721.00
15_V19_A0.8721.00
295_T298_Q0.8721.00
133_L137_M0.8711.00
135_R220_A0.8651.00
18_V317_V0.8651.00
209_L212_A0.8611.00
270_L319_V0.8591.00
107_A211_L0.8561.00
72_S75_F0.8531.00
204_L208_A0.8491.00
112_L117_P0.8471.00
160_H163_I0.8451.00
216_L220_A0.8451.00
295_T299_A0.8421.00
322_V326_L0.8411.00
110_L208_A0.8391.00
11_C321_L0.8391.00
127_N132_H0.8381.00
263_I323_V0.8381.00
93_L307_G0.8381.00
27_I63_L0.8361.00
226_A230_Q0.8321.00
120_I255_L0.8321.00
223_I258_A0.8321.00
23_V63_L0.8261.00
132_H135_R0.8221.00
292_W296_S0.8181.00
115_G119_G0.8151.00
6_I328_L0.8131.00
89_V304_A0.8131.00
89_V292_W0.8131.00
105_F109_L0.8121.00
157_F206_L0.8111.00
152_G156_L0.8111.00
74_L310_V0.8091.00
48_A51_E0.8051.00
328_L334_I0.7981.00
249_I254_A0.7971.00
237_R240_R0.7971.00
84_R295_T0.7951.00
130_L133_L0.7911.00
271_G319_V0.7911.00
318_L322_V0.7901.00
22_C310_V0.7881.00
34_G300_L0.7871.00
146_A150_G0.7871.00
251_L254_A0.7861.00
100_T104_A0.7841.00
16_L20_G0.7831.00
124_V251_L0.7821.00
327_Y334_I0.7801.00
106_G286_W0.7751.00
47_D50_V0.7741.00
116_I262_S0.7681.00
108_L270_L0.7661.00
119_G227_M0.7651.00
126_R130_L0.7631.00
98_P102_E0.7621.00
68_Y71_V0.7621.00
30_H302_F0.7601.00
296_S305_V0.7561.00
118_L216_L0.7531.00
117_P121_L0.7531.00
205_I208_A0.7471.00
23_V64_Y0.7401.00
70_Y74_L0.7381.00
49_I53_I0.7341.00
293_V296_S0.7321.00
126_R232_S0.7261.00
67_F71_V0.7251.00
150_G283_V0.7231.00
314_F318_L0.7231.00
115_G220_A0.7221.00
215_H218_I0.7211.00
226_A258_A0.7201.00
157_F164_L0.7201.00
37_A41_A0.7151.00
18_V318_L0.7141.00
21_V315_A0.7121.00
142_I217_G0.7111.00
136_I139_I0.7101.00
292_W308_F0.7071.00
239_A242_S0.7071.00
246_G250_V0.7051.00
105_F270_L0.7041.00
24_I94_R0.7041.00
307_G311_V0.6981.00
138_A217_G0.6961.00
325_L328_L0.6941.00
111_A212_A0.6921.00
306_M309_A0.6921.00
25_T309_A0.6881.00
312_V316_Y0.6841.00
149_L213_F0.6821.00
122_S131_D0.6821.00
101_L105_F0.6811.00
79_L93_L0.6791.00
94_R97_F0.6781.00
77_G88_P0.6761.00
112_L219_V0.6761.00
45_A50_V0.6731.00
7_L13_G0.6731.00
114_I212_A0.6731.00
328_L335_G0.6721.00
37_A53_I0.6701.00
93_L308_F0.6681.00
277_A280_T0.6681.00
244_L253_Y0.6661.00
132_H136_I0.6591.00
223_I226_A0.6581.00
82_S85_T0.6541.00
37_A54_R0.6531.00
134_V138_A0.6521.00
107_A277_A0.6511.00
71_V75_F0.6511.00
10_R13_G0.6511.00
282_T291_A0.6501.00
84_R299_A0.6481.00
97_F101_L0.6411.00
27_I31_L0.6381.00
13_G16_L0.6381.00
282_T294_V0.6381.00
133_L136_I0.6361.00
114_I118_L0.6331.00
103_L281_E0.6311.00
72_S77_G0.6311.00
201_L204_L0.6271.00
98_P101_L0.6261.00
77_G81_T0.6241.00
316_Y320_N0.6191.00
218_I265_V0.6191.00
106_G201_L0.6181.00
294_V297_I0.6171.00
155_V159_G0.6121.00
237_R241_A0.6111.00
41_A45_A0.6101.00
17_V318_L0.6101.00
165_P203_H0.6091.00
247_W250_V0.6091.00
206_L209_L0.6071.00
113_L116_I0.6071.00
218_I269_A0.6071.00
9_Q12_W0.6051.00
136_I140_T0.6051.00
306_M310_V0.6041.00
126_R228_L0.6041.00
106_G109_L0.6011.00
265_V269_A0.6011.00
211_L280_T0.5961.00
32_I91_E0.5951.00
93_L311_V0.5951.00
92_E96_F0.5941.00
42_G45_A0.5921.00
104_A277_A0.5921.00
106_G205_I0.5911.00
210_T280_T0.5911.00
131_D135_R0.5901.00
259_L262_S0.5891.00
223_I255_L0.5881.00
17_V314_F0.5861.00
112_L116_I0.5851.00
146_A213_F0.5821.00
219_V223_I0.5811.00
40_L53_I0.5801.00
154_I166_G0.5781.00
103_L208_A0.5781.00
28_I95_I0.5771.00
219_V265_V0.5741.00
157_F160_H0.5711.00
217_G220_A0.5701.00
226_A261_P0.5691.00
287_P291_A0.5671.00
233_E237_R0.5661.00
214_V217_G0.5661.00
222_Q226_A0.5651.00
206_L210_T0.5631.00
100_T277_A0.5611.00
282_T295_T0.5601.00
109_L113_L0.5591.00
96_F291_A0.5581.00
158_Y206_L0.5581.00
24_I97_F0.5581.00
37_A57_L0.5581.00
212_A215_H0.5571.00
141_G213_F0.5561.00
278_V282_T0.5541.00
100_T281_E0.5531.00
17_V317_V0.5511.00
267_G319_V0.5501.00
244_L247_W0.5501.00
74_L77_G0.5501.00
293_V312_V0.5471.00
260_I334_I0.5471.00
128_R131_D0.5471.00
146_A149_L0.5441.00
14_L18_V0.5431.00
305_V309_A0.5431.00
278_V294_V0.5411.00
15_V322_V0.5411.00
97_F315_A0.5391.00
45_A49_I0.5391.00
245_P249_I0.5381.00
29_S305_V0.5331.00
122_S135_R0.5311.00
230_Q257_N0.5291.00
6_I321_L0.5281.00
218_I222_Q0.5261.00
135_R138_A0.5241.00
56_Q86_G0.5241.00
106_G110_L0.5231.00
6_I322_V0.5211.00
215_H269_A0.5191.00
263_I326_L0.5191.00
200_A286_W0.5191.00
65_V72_S0.5181.00
26_F30_H0.5181.00
63_L66_Q0.5181.00
118_L121_L0.5181.00
251_L256_P0.5181.00
14_L17_V0.5161.00
124_V231_L0.5161.00
269_A272_D0.5151.00
160_H206_L0.5141.00
54_R60_D0.5141.00
165_P202_Q0.5131.00
227_M231_L0.5121.00
146_A214_V0.5111.00
236_I240_R0.5111.00
153_V209_L0.5101.00
323_V327_Y0.5101.00
321_L325_L0.5101.00
215_H272_D0.5091.00
218_I272_D0.5081.00
144_T148_W0.5071.00
259_L263_I0.5061.00
202_Q205_I0.5051.00
78_D90_L0.5031.00
125_W246_G0.5031.00
225_S228_L0.5021.00
213_F216_L0.5011.00
51_E60_D0.5011.00
104_A108_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  
3tuiA 2 0.6147 99.9 0.681 Contact Map
4tquM 1 0.7971 99.9 0.698 Contact Map
3rlfF 1 0.7912 99.9 0.707 Contact Map
4ymuD 2 0.6176 99.8 0.715 Contact Map
3d31C 2 0.7265 99.8 0.717 Contact Map
2onkC 2 0.7353 99.8 0.723 Contact Map
4tquN 1 0.7559 99.8 0.735 Contact Map
3rlfG 1 0.7765 99.8 0.74 Contact Map
2yevC 1 0.0941 12.4 0.963 Contact Map
4lz6A 1 0.25 9.5 0.964 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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