GREMLIN Database
DDPC - Probable D,D-dipeptide transport system permease protein DdpC
UniProt: P77463 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13788
Length: 298 (255)
Sequences: 28622 (18059)
Seq/√Len: 1130.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
179_A206_I2.8911.00
126_D176_R2.7551.00
182_V187_Y2.5081.00
196_A200_H2.5061.00
192_K198_R2.4921.00
200_H204_W2.4481.00
102_V160_M2.4451.00
114_L129_I2.4151.00
106_I164_A2.3791.00
182_V185_Y2.3721.00
95_Q234_F2.3451.00
197_S200_H2.3101.00
199_W203_N2.2821.00
62_D65_A2.2681.00
186_T189_Q2.1561.00
188_V201_L2.0671.00
188_V206_I2.0631.00
88_R249_M2.0241.00
116_C179_A2.0121.00
72_A75_W1.9821.00
121_L125_A1.9521.00
117_L121_L1.9511.00
121_L198_R1.9371.00
84_D87_S1.9231.00
109_M113_L1.8991.00
57_D60_A1.8591.00
120_V198_R1.7871.00
171_Y221_D1.7731.00
79_D83_R1.7721.00
119_G179_A1.7671.00
239_A252_N1.7591.00
187_Y209_N1.7521.00
41_V45_L1.7491.00
124_R128_I1.7411.00
47_M93_S1.7401.00
182_V210_S1.7371.00
219_S282_G1.7241.00
81_V88_R1.6911.00
76_F266_F1.6851.00
86_F90_L1.6701.00
110_I168_I1.6591.00
110_I113_L1.6471.00
125_A129_I1.6381.00
183_R206_I1.6291.00
117_L125_A1.6271.00
107_A167_R1.6261.00
80_E252_N1.6111.00
98_L102_V1.6021.00
85_L266_F1.5961.00
160_M164_A1.5781.00
74_H84_D1.5771.00
178_Q181_V1.5751.00
91_V94_Q1.5611.00
133_M172_V1.5601.00
120_V202_I1.5551.00
129_I172_V1.5291.00
253_G263_Y1.5271.00
108_G218_A1.5141.00
83_R87_S1.4871.00
33_T284_G1.4791.00
181_V185_Y1.4591.00
115_G119_G1.4341.00
250_V267_P1.4251.00
111_G171_Y1.4221.00
115_G175_A1.3901.00
131_R134_D1.3881.00
36_S277_G1.3851.00
49_F52_W1.3781.00
190_A194_F1.3781.00
104_V218_A1.3751.00
124_R127_A1.3601.00
114_L172_V1.3451.00
143_V147_A1.3411.00
89_V270_A1.3301.00
95_Q98_L1.3301.00
111_G175_A1.3231.00
119_G183_R1.3151.00
65_A68_L1.3131.00
176_R180_L1.3001.00
34_V38_V1.3001.00
118_S129_I1.2931.00
157_F161_L1.2901.00
216_V286_R1.2851.00
182_V188_V1.2751.00
76_F86_F1.2731.00
285_I288_L1.2681.00
116_C202_I1.2661.00
148_L162_A1.2621.00
43_M272_L1.2541.00
182_V206_I1.2491.00
174_L217_Q1.2451.00
45_L49_F1.2431.00
261_W265_A1.2391.00
191_A205_H1.2351.00
256_Y259_D1.2261.00
164_A168_I1.2231.00
215_I289_L1.2161.00
286_R290_D1.1991.00
71_S76_F1.1941.00
31_P34_V1.1861.00
99_A229_A1.1821.00
191_A201_L1.1671.00
83_R88_R1.1651.00
40_I273_L1.1581.00
191_A196_A1.1551.00
122_G183_R1.1511.00
179_A210_S1.1461.00
136_M169_P1.1361.00
284_G288_L1.1291.00
189_Q192_K1.1201.00
116_C207_L1.1161.00
83_R91_V1.1101.00
127_A131_R1.1051.00
175_A214_L1.0961.00
76_F89_V1.0911.00
267_P271_I1.0881.00
112_S175_A1.0851.00
175_A179_A1.0781.00
168_I172_V1.0751.00
200_H203_N1.0721.00
162_A166_V1.0691.00
194_F205_H1.0621.00
178_Q182_V1.0621.00
139_I144_L1.0551.00
223_G275_A1.0501.00
145_T162_A1.0501.00
113_L116_C1.0501.00
94_Q98_L1.0461.00
155_S158_N1.0461.00
78_T84_D1.0401.00
157_F160_M1.0271.00
36_S284_G1.0261.00
50_S91_V1.0241.00
54_A87_S1.0161.00
85_L249_M1.0131.00
132_I136_M1.0111.00
103_V164_A1.0061.00
253_G264_C1.0041.00
40_I277_G1.0021.00
126_D130_M0.9981.00
192_K201_L0.9971.00
130_M172_V0.9961.00
43_M274_T0.9911.00
85_L263_Y0.9871.00
88_R263_Y0.9801.00
249_M263_Y0.9791.00
98_L156_L0.9791.00
38_V42_L0.9781.00
35_T38_V0.9741.00
39_I277_G0.9731.00
126_D180_L0.9691.00
175_A210_S0.9681.00
103_V107_A0.9671.00
262_W266_F0.9661.00
36_S276_V0.9651.00
191_A194_F0.9621.00
38_V41_V0.9611.00
122_G184_Q0.9611.00
266_F269_A0.9571.00
128_I132_I0.9471.00
89_V266_F0.9391.00
103_V163_I0.9361.00
196_A201_L0.9351.00
217_Q221_D0.9331.00
87_S91_V0.9311.00
98_L101_L0.9301.00
92_G249_M0.9301.00
42_L46_M0.9261.00
37_A41_V0.9241.00
123_G126_D0.9231.00
198_R201_L0.9221.00
125_A128_I0.9161.00
74_H78_T0.9141.00
141_S228_M0.9141.00
71_S74_H0.9131.00
115_G179_A0.9091.00
71_S75_W0.9081.00
56_H73_A0.9071.00
68_L71_S0.9011.00
212_P286_R0.8981.00
127_A130_M0.8981.00
36_S280_L0.8981.00
152_L158_N0.8951.00
278_F282_G0.8831.00
277_G281_F0.8811.00
112_S214_L0.8731.00
108_G112_S0.8721.00
64_T68_L0.8681.00
133_M169_P0.8611.00
88_R91_V0.8601.00
163_I228_M0.8601.00
37_A281_F0.8561.00
210_S213_P0.8541.00
90_L94_Q0.8521.00
39_I273_L0.8521.00
222_I278_F0.8481.00
123_G127_A0.8421.00
203_N206_I0.8421.00
249_M267_P0.8361.00
109_M112_S0.8341.00
78_T82_G0.8341.00
161_L164_A0.8331.00
56_H87_S0.8311.00
46_M90_L0.8301.00
156_L160_M0.8301.00
108_G113_L0.8261.00
198_R202_I0.8211.00
215_I282_G0.8161.00
154_P158_N0.8141.00
103_V225_A0.8121.00
87_S90_L0.8071.00
153_G158_N0.8031.00
179_A183_R0.8001.00
148_L158_N0.7951.00
33_T280_L0.7951.00
113_L117_L0.7931.00
177_G180_L0.7901.00
141_S145_T0.7901.00
93_S274_T0.7881.00
251_A254_R0.7821.00
265_A269_A0.7821.00
185_Y189_Q0.7791.00
196_A205_H0.7771.00
114_L168_I0.7761.00
102_V234_F0.7751.00
56_H74_H0.7721.00
52_W261_W0.7721.00
33_T37_A0.7701.00
182_V209_N0.7701.00
119_G180_L0.7671.00
101_L105_A0.7641.00
108_G171_Y0.7641.00
158_N161_L0.7621.00
106_I160_M0.7601.00
137_L169_P0.7531.00
201_L206_I0.7511.00
118_S126_D0.7451.00
102_V105_A0.7431.00
189_Q193_T0.7431.00
230_A239_A0.7411.00
266_F270_A0.7361.00
96_S100_G0.7361.00
79_D260_Q0.7341.00
221_D224_S0.7321.00
49_F53_L0.7301.00
175_A178_Q0.7291.00
287_D293_A0.7291.00
286_R293_A0.7201.00
46_M93_S0.7181.00
178_Q213_P0.7161.00
110_I164_A0.7141.00
271_I275_A0.7091.00
55_T87_S0.7071.00
199_W202_I0.7041.00
75_W86_F0.7021.00
252_N255_N0.7021.00
223_G278_F0.6971.00
227_L230_A0.6971.00
90_L93_S0.6921.00
167_R170_F0.6901.00
273_L277_G0.6861.00
43_M273_L0.6841.00
32_L36_S0.6811.00
40_I278_F0.6771.00
65_A74_H0.6771.00
31_P35_T0.6761.00
62_D66_R0.6751.00
44_L269_A0.6741.00
166_V169_P0.6721.00
70_P262_W0.6681.00
51_P94_Q0.6671.00
275_A279_N0.6661.00
178_Q210_S0.6651.00
111_G115_G0.6641.00
36_S39_I0.6621.00
35_T39_I0.6601.00
71_S269_A0.6581.00
48_I52_W0.6561.00
281_F285_I0.6551.00
141_S144_L0.6511.00
107_A164_A0.6491.00
265_A268_G0.6491.00
180_L183_R0.6451.00
254_R257_V0.6411.00
159_A229_A0.6401.00
170_F221_D0.6401.00
56_H259_D0.6381.00
89_V267_P0.6351.00
55_T86_F0.6341.00
75_W84_D0.6341.00
128_I131_R0.6321.00
154_P157_F0.6311.00
120_V183_R0.6301.00
122_G126_D0.6301.00
110_I114_L0.6301.00
130_M133_M0.6241.00
104_V221_D0.6231.00
227_L231_T0.6221.00
196_A199_W0.6221.00
66_R70_P0.6211.00
34_V37_A0.6181.00
252_N258_L0.6181.00
264_C268_G0.6171.00
118_S130_M0.6141.00
67_L70_P0.6101.00
50_S53_L0.6081.00
39_I43_M0.6051.00
133_M168_I0.6051.00
228_M231_T0.6051.00
131_R135_I0.6041.00
100_G225_A0.6031.00
171_Y175_A0.6021.00
64_T67_L0.6011.00
63_L66_R0.5991.00
219_S223_G0.5981.00
80_E256_Y0.5961.00
144_L166_V0.5961.00
122_G180_L0.5941.00
69_P262_W0.5901.00
97_I101_L0.5831.00
67_L260_Q0.5821.00
229_A233_G0.5811.00
129_I133_M0.5801.00
226_I230_A0.5791.00
47_M268_G0.5761.00
147_A151_A0.5751.00
119_G126_D0.5751.00
105_A109_M0.5751.00
203_N208_R0.5721.00
94_Q97_I0.5711.00
121_L202_I0.5671.00
136_M168_I0.5671.00
102_V157_F0.5661.00
141_S165_I0.5641.00
54_A91_V0.5641.00
287_D294_G0.5611.00
165_I168_I0.5611.00
104_V108_G0.5611.00
104_V222_I0.5611.00
108_G214_L0.5591.00
171_Y217_Q0.5591.00
225_A228_M0.5581.00
93_S97_I0.5571.00
280_L284_G0.5561.00
51_P91_V0.5521.00
219_S278_F0.5521.00
120_V203_N0.5501.00
249_M252_N0.5501.00
46_M50_S0.5471.00
68_L78_T0.5471.00
188_V192_K0.5431.00
250_V271_I0.5411.00
230_A251_A0.5321.00
256_Y263_Y0.5321.00
88_R92_G0.5321.00
249_M253_G0.5321.00
169_P172_V0.5301.00
118_S176_R0.5291.00
134_D137_L0.5291.00
66_R69_P0.5281.00
197_S201_L0.5281.00
114_L117_L0.5281.00
32_L280_L0.5271.00
158_N162_A0.5261.00
40_I281_F0.5251.00
111_G172_V0.5241.00
161_L165_I0.5191.00
61_I81_V0.5161.00
283_D286_R0.5161.00
164_A167_R0.5161.00
149_A153_G0.5141.00
130_M134_D0.5101.00
67_L263_Y0.5101.00
100_G222_I0.5091.00
216_V219_S0.5071.00
217_Q220_L0.5051.00
167_R221_D0.5041.00
62_D74_H0.5041.00
99_A159_A0.5041.00
262_W265_A0.5021.00
174_L178_Q0.5021.00
251_A255_N0.5001.00
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  
4tquM 1 0.849 99.9 0.605 Contact Map
3d31C 2 0.7752 99.9 0.633 Contact Map
3tuiA 2 0.6779 99.9 0.641 Contact Map
2onkC 2 0.7953 99.9 0.644 Contact Map
3rlfF 1 0.9128 99.8 0.662 Contact Map
4tquN 1 0.8658 99.8 0.667 Contact Map
3rlfG 1 0.8658 99.8 0.672 Contact Map
4ymuD 2 0.7013 99.8 0.675 Contact Map
3j9pD 4 0.7752 88 0.92 Contact Map
3rvyA 3 0.6913 27.8 0.949 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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