GREMLIN Database
DPPD - Dipeptide transport ATP-binding protein DppD
UniProt: P0AAG0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12627
Length: 327 (268)
Sequences: 51960 (32410)
Seq/√Len: 1979.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_E223_K4.1871.00
90_E173_K3.4931.00
8_K25_R3.3031.00
5_N29_S3.1791.00
7_D67_K3.1631.00
21_R24_D2.9821.00
36_V225_I2.9131.00
11_V52_A2.8301.00
137_Q203_E2.6271.00
37_G221_A2.6111.00
67_K74_D2.6071.00
237_D240_A2.5601.00
71_N173_K2.5121.00
31_K34_E2.4831.00
225_I232_V2.4061.00
146_R149_V2.4011.00
223_K235_T2.3981.00
12_H21_R2.3781.00
24_D231_Q2.3571.00
5_N69_E2.2971.00
10_S65_A2.2041.00
130_R133_D2.1981.00
6_V9_L2.1771.00
10_S25_R2.1461.00
218_A239_H2.1361.00
32_Q173_K2.1181.00
130_R171_R2.1041.00
50_S210_I2.0771.00
74_D77_R2.0431.00
123_N126_T2.0371.00
134_L169_A1.9761.00
236_G241_I1.9291.00
13_F48_V1.9131.00
7_D69_E1.9091.00
79_S82_E1.9011.00
132_I147_L1.8761.00
10_S21_R1.8231.00
106_Y110_F1.8031.00
55_G83_R1.7521.00
211_T217_V1.7491.00
50_S176_I1.7401.00
13_F22_A1.7171.00
37_G217_V1.7151.00
109_G148_D1.6421.00
149_V153_Q1.6371.00
113_M131_A1.6301.00
73_Q82_E1.6051.00
225_I235_T1.6011.00
236_G240_A1.5821.00
11_V57_I1.5791.00
113_M127_R1.5731.00
171_R203_E1.5511.00
133_D137_Q1.5371.00
12_H64_M1.5291.00
109_G147_L1.5281.00
8_K27_S1.5261.00
71_N90_E1.5261.00
11_V64_M1.5211.00
142_D145_S1.5191.00
199_L205_M1.5151.00
197_L219_E1.5001.00
117_K127_R1.4761.00
6_V28_Y1.4711.00
146_R154_L1.4621.00
240_A244_A1.4571.00
128_R132_I1.4571.00
78_I82_E1.4521.00
132_I142_D1.4201.00
9_L59_Y1.4121.00
177_A207_L1.4081.00
10_S24_D1.4041.00
141_P145_S1.3911.00
107_T110_F1.3601.00
109_G113_M1.3511.00
99_M159_S1.3451.00
145_S149_V1.2991.00
112_I135_L1.2941.00
6_V53_I1.2921.00
30_V36_V1.2891.00
35_V200_Q1.2841.00
34_E222_H1.2741.00
94_I177_A1.2731.00
28_Y49_S1.2721.00
193_I216_L1.2521.00
110_F113_M1.2501.00
7_D29_S1.2501.00
7_D27_S1.2341.00
128_R147_L1.2301.00
35_V207_L1.2221.00
54_M93_M1.2061.00
55_G58_D1.2051.00
107_T148_D1.2051.00
73_Q78_I1.2011.00
109_G128_R1.1981.00
105_C152_H1.1961.00
28_Y225_I1.1951.00
36_V235_T1.1891.00
196_L207_L1.1881.00
69_E74_D1.1831.00
26_I49_S1.1801.00
197_L200_Q1.1761.00
78_I83_R1.1751.00
154_L162_V1.1731.00
38_I208_V1.1641.00
251_Q255_R1.1641.00
129_Q133_D1.1621.00
135_L147_L1.1551.00
36_V223_K1.1531.00
32_Q71_N1.1481.00
239_H243_H1.1421.00
31_K223_K1.1321.00
111_Q166_M1.1241.00
106_Y114_E1.0881.00
35_V221_A1.0801.00
224_I238_A1.0611.00
126_T129_Q1.0581.00
52_A59_Y1.0561.00
139_G198_E1.0401.00
122_G127_R1.0361.00
171_R205_M1.0261.00
175_L205_M1.0251.00
109_G131_A1.0241.00
8_K65_A1.0191.00
136_N141_P1.0131.00
30_V174_L1.0121.00
240_A243_H1.0101.00
112_I169_A1.0091.00
23_V52_A1.0081.00
125_S129_Q1.0081.00
53_I208_V1.0051.00
113_M117_K1.0031.00
49_S227_M0.9991.00
136_N142_D0.9951.00
141_P146_R0.9891.00
51_L56_L0.9851.00
127_R131_A0.9801.00
137_Q198_E0.9751.00
184_L192_I0.9731.00
116_I169_A0.9711.00
175_L207_L0.9681.00
32_Q204_N0.9601.00
248_P251_Q0.9591.00
209_L220_A0.9521.00
31_K206_A0.9461.00
92_A167_A0.9431.00
132_I136_N0.9421.00
200_Q207_L0.9401.00
133_D136_N0.9341.00
113_M128_R0.9301.00
22_A48_V0.9151.00
54_M176_I0.9131.00
91_V174_L0.9131.00
11_V48_V0.9091.00
130_R134_L0.9071.00
6_V68_L0.9061.00
277_K280_R0.9041.00
106_Y111_Q0.9041.00
24_D285_L0.9031.00
122_G126_T0.9031.00
12_H24_D0.9021.00
231_Q285_L0.8951.00
94_I164_I0.8941.00
38_I49_S0.8891.00
120_Q130_R0.8841.00
134_L137_Q0.8811.00
44_S227_M0.8781.00
92_A172_P0.8761.00
80_E83_R0.8711.00
197_L220_A0.8661.00
52_A68_L0.8651.00
126_T130_R0.8651.00
189_Q213_D0.8631.00
51_L57_I0.8621.00
124_K127_R0.8611.00
274_V277_K0.8581.00
35_V197_L0.8551.00
177_A196_L0.8541.00
3_L71_N0.8511.00
38_I225_I0.8501.00
70_F90_E0.8471.00
241_I250_T0.8461.00
189_Q216_L0.8441.00
150_Y153_Q0.8431.00
74_D78_I0.8421.00
139_G191_Q0.8421.00
123_N127_R0.8391.00
134_L165_A0.8391.00
259_E262_Q0.8381.00
107_T150_Y0.8381.00
238_A242_F0.8331.00
73_Q90_E0.8301.00
108_V162_V0.8291.00
102_L159_S0.8241.00
200_Q222_H0.8221.00
128_R148_D0.8181.00
232_V235_T0.8161.00
23_V26_I0.8131.00
15_D20_F0.8101.00
9_L52_A0.8071.00
138_V165_A0.8041.00
142_D147_L0.8021.00
252_A256_A0.8021.00
216_L220_A0.8001.00
195_L198_E0.7981.00
59_Y64_M0.7951.00
52_A57_I0.7951.00
280_R285_L0.7911.00
108_V154_L0.7911.00
3_L70_F0.7881.00
194_E219_E0.7841.00
11_V23_V0.7831.00
35_V220_A0.7791.00
39_V217_V0.7781.00
131_A147_L0.7771.00
89_A120_Q0.7751.00
221_A224_I0.7741.00
103_N106_Y0.7621.00
140_I146_R0.7601.00
117_K124_K0.7591.00
26_I232_V0.7571.00
94_I167_A0.7561.00
248_P252_A0.7561.00
30_V206_A0.7521.00
193_I219_E0.7521.00
250_T254_L0.7491.00
8_K11_V0.7461.00
154_L158_M0.7451.00
115_A166_M0.7421.00
247_H250_T0.7411.00
226_V245_P0.7401.00
25_R231_Q0.7391.00
174_L208_V0.7391.00
115_A170_C0.7381.00
142_D146_R0.7381.00
174_L206_A0.7371.00
151_P162_V0.7361.00
209_L221_A0.7351.00
214_L242_F0.7291.00
244_A247_H0.7211.00
276_G279_D0.7201.00
81_K84_R0.7191.00
277_K281_P0.7191.00
4_L53_I0.7181.00
190_A194_E0.7171.00
35_V222_H0.7111.00
256_A259_E0.7111.00
134_L168_I0.7081.00
51_L93_M0.7071.00
221_A238_A0.7071.00
228_Y231_Q0.7071.00
179_E212_H0.7041.00
116_I120_Q0.7031.00
252_A255_R0.6991.00
271_P274_V0.6971.00
176_I208_V0.6931.00
23_V49_S0.6911.00
47_S51_L0.6911.00
275_P281_P0.6851.00
270_L273_V0.6851.00
13_F57_I0.6811.00
228_Y252_A0.6801.00
233_V247_H0.6801.00
146_R158_M0.6771.00
30_V208_V0.6761.00
228_Y233_V0.6741.00
279_D283_G0.6721.00
39_V226_V0.6701.00
276_G280_R0.6691.00
80_E84_R0.6681.00
56_L95_F0.6671.00
226_V241_I0.6651.00
268_A272_G0.6621.00
181_T216_L0.6611.00
36_V208_V0.6601.00
120_Q171_R0.6571.00
75_L91_V0.6571.00
12_H65_A0.6571.00
16_E20_F0.6561.00
112_I131_A0.6551.00
281_P284_C0.6521.00
119_H170_C0.6511.00
4_L174_L0.6511.00
100_T159_S0.6501.00
79_S83_R0.6501.00
270_L274_V0.6471.00
275_P279_D0.6471.00
6_V49_S0.6461.00
255_R268_A0.6461.00
107_T111_Q0.6451.00
194_E197_L0.6451.00
277_K282_N0.6451.00
272_G275_P0.6431.00
276_G281_P0.6431.00
277_K283_G0.6411.00
111_Q151_P0.6401.00
109_G112_I0.6391.00
125_S128_R0.6331.00
238_A249_Y0.6301.00
69_E72_G0.6291.00
279_D282_N0.6231.00
67_K76_Q0.6231.00
70_F174_L0.6221.00
67_K77_R0.6201.00
129_Q136_N0.6181.00
54_M91_V0.6171.00
257_L261_A0.6161.00
242_F245_P0.6151.00
181_T192_I0.6131.00
116_I121_G0.6121.00
25_R65_A0.6111.00
272_G276_G0.6101.00
52_A64_M0.6101.00
102_L162_V0.6101.00
102_L111_Q0.6081.00
278_Y283_G0.6081.00
280_R283_G0.6081.00
33_G206_A0.6081.00
53_I68_L0.6071.00
75_L78_I0.6071.00
272_G277_K0.6031.00
273_V276_G0.6031.00
140_I158_M0.6021.00
8_K66_E0.6021.00
129_Q132_I0.6001.00
41_E44_S0.5981.00
194_E198_E0.5941.00
68_L76_Q0.5921.00
277_K285_L0.5911.00
149_V154_L0.5901.00
280_R284_C0.5891.00
109_G132_I0.5851.00
115_A118_V0.5841.00
32_Q206_A0.5841.00
116_I122_G0.5821.00
97_D100_T0.5811.00
3_L174_L0.5801.00
278_Y282_N0.5781.00
261_A264_K0.5761.00
70_F75_L0.5761.00
3_L206_A0.5731.00
269_S273_V0.5731.00
41_E228_Y0.5721.00
4_L70_F0.5701.00
164_I192_I0.5671.00
12_H22_A0.5671.00
267_L270_L0.5651.00
245_P250_T0.5651.00
128_R131_A0.5621.00
130_R137_Q0.5611.00
273_V277_K0.5611.00
34_E235_T0.5581.00
238_A241_I0.5571.00
168_I205_M0.5561.00
274_V280_R0.5561.00
113_M147_L0.5541.00
282_N285_L0.5541.00
134_L138_V0.5531.00
278_Y285_L0.5531.00
236_G242_F0.5521.00
264_K268_A0.5491.00
10_S64_M0.5491.00
217_V221_A0.5491.00
240_A246_R0.5481.00
160_Q183_A0.5471.00
122_G130_R0.5461.00
275_P278_Y0.5421.00
156_G161_R0.5421.00
111_Q115_A0.5421.00
270_L277_K0.5391.00
228_Y247_H0.5351.00
218_A242_F0.5341.00
265_E268_A0.5331.00
12_H15_D0.5311.00
274_V278_Y0.5251.00
241_I245_P0.5251.00
96_Q156_G0.5221.00
200_Q203_E0.5191.00
131_A169_A0.5191.00
236_G245_P0.5181.00
257_L260_F0.5161.00
217_V224_I0.5161.00
275_P280_R0.5161.00
135_L146_R0.5151.00
145_S148_D0.5141.00
193_I220_A0.5121.00
101_S163_M0.5121.00
254_L257_L0.5111.00
21_R25_R0.5091.00
264_K267_L0.5091.00
233_V285_L0.5071.00
274_V281_P0.5071.00
251_Q254_L0.5061.00
112_I115_A0.5061.00
173_K205_M0.5051.00
211_T216_L0.5051.00
116_I170_C0.5041.00
29_S235_T0.5031.00
41_E249_Y0.5021.00
274_V279_D0.5011.00
269_S274_V0.5001.00
121_G127_R0.5001.00
217_V238_A0.5001.00
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  
3tuiC 2 0.9388 100 0.21 Contact Map
4ry2A 2 0.7309 100 0.22 Contact Map
4f4cA 1 0.7003 100 0.229 Contact Map
2yyzA 1 0.8471 100 0.231 Contact Map
2it1A 1 0.8716 100 0.234 Contact Map
1g291 4 0.8746 100 0.235 Contact Map
1v43A 2 0.9052 100 0.236 Contact Map
4fwiB 1 0.9419 100 0.237 Contact Map
1oxxK 1 0.9266 100 0.239 Contact Map
1z47A 2 0.9388 100 0.239 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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