GREMLIN Database
YDDK - Putative uncharacterized protein YddK
UniProt: P76123 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13782
Length: 318 (249)
Sequences: 5520 (4895)
Seq/√Len: 310.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
155_T176_T4.1651.00
239_N262_Q4.0091.00
176_T197_Q3.8061.00
262_Q286_K3.1521.00
218_L239_N3.0701.00
158_S179_S3.0381.00
181_A200_N2.6791.00
240_T263_T2.6501.00
290_L293_N2.4741.00
75_M78_W2.4521.00
263_T287_S2.4071.00
161_N182_H2.3991.00
111_T132_V2.2421.00
265_N289_R2.2061.00
88_T91_V2.1411.00
55_S63_L2.1081.00
57_K61_H2.0931.00
198_Y219_L2.0881.00
177_Y198_Y2.0441.00
137_N158_S2.0411.00
231_H234_L2.0401.00
91_V94_D2.0231.00
197_Q218_L1.9811.00
135_S158_S1.9491.00
138_S161_N1.9151.00
110_F113_I1.9151.00
174_S195_W1.9111.00
88_T92_T1.8801.00
179_S200_N1.8441.00
269_N293_N1.8251.00
156_H177_Y1.8111.00
160_N179_S1.7681.00
132_V155_T1.7331.00
91_V95_L1.7051.00
92_T95_L1.6991.00
243_I266_A1.6591.00
159_M180_A1.6561.00
65_N68_N1.6511.00
87_D91_V1.6271.00
219_L240_T1.6051.00
90_E94_D1.5851.00
245_N268_N1.5451.00
204_N269_N1.5361.00
87_D90_E1.5341.00
101_T104_P1.5301.00
114_N135_S1.5061.00
55_S59_L1.4851.00
60_W63_L1.4811.00
133_K156_H1.4681.00
75_M79_T1.4651.00
266_A269_N1.4391.00
271_L275_N1.4251.00
182_H203_H1.4161.00
115_L118_N1.4151.00
58_H61_H1.3981.00
180_A201_L1.3931.00
242_L265_N1.3771.00
224_H245_N1.3741.00
56_S63_L1.3741.00
88_T93_I1.3681.00
184_Q205_Q1.3651.00
144_I147_P1.3561.00
130_R153_S1.3511.00
153_S174_S1.3431.00
90_E93_I1.3351.00
89_N92_T1.3341.00
82_R85_I1.3151.00
260_N284_S1.3141.00
136_L140_A1.3141.00
57_K60_W1.2981.00
84_I87_D1.2931.00
54_I60_W1.2911.00
248_L269_N1.2711.00
120_F123_F1.2661.00
53_L63_L1.2591.00
55_S60_W1.2461.00
63_L66_G1.2431.00
57_K62_V1.2411.00
228_T249_S1.2341.00
56_S60_W1.2331.00
56_S62_V1.2321.00
190_L193_C1.2261.00
58_H62_V1.2221.00
183_N204_N1.2151.00
57_K63_L1.2121.00
74_Q78_W1.2061.00
283_P286_K1.1981.00
151_N193_C1.1971.00
86_D89_N1.1951.00
216_E237_N1.1861.00
84_I88_T1.1851.00
53_L56_S1.1821.00
180_A183_N1.1821.00
202_S221_D1.1781.00
183_N225_N1.1681.00
249_S272_K1.1661.00
282_L288_L1.1621.00
62_V66_G1.1601.00
183_N269_N1.1581.00
217_L220_L1.1551.00
55_S58_H1.1541.00
85_I88_T1.1501.00
196_L199_L1.1481.00
54_I58_H1.1451.00
235_F238_L1.1401.00
58_H63_L1.1321.00
221_D242_L1.1321.00
148_Q151_N1.1031.00
246_N293_N1.0961.00
85_I89_N1.0951.00
88_T94_D1.0931.00
269_N275_N1.0911.00
204_N293_N1.0881.00
243_I246_N1.0871.00
162_N183_N1.0811.00
272_K275_N1.0811.00
86_D90_E1.0761.00
265_N287_S1.0751.00
222_L225_N1.0721.00
266_A290_L1.0621.00
267_A289_R1.0571.00
60_W64_V1.0531.00
74_Q77_Y1.0511.00
48_N51_D1.0501.00
47_T50_I1.0491.00
246_N269_N1.0441.00
132_V153_S1.0431.00
56_S59_L1.0401.00
204_N225_N1.0281.00
59_L62_V1.0281.00
112_S133_K1.0201.00
116_D135_S1.0151.00
222_L243_I1.0111.00
116_D137_N1.0101.00
81_V85_I0.9981.00
178_F193_C0.9961.00
157_I172_L0.9951.00
71_P75_M0.9901.00
72_L75_M0.9851.00
244_N265_N0.9761.00
145_N148_Q0.9751.00
261_V264_L0.9731.00
273_Y277_D0.9731.00
285_I288_L0.9731.00
52_Q59_L0.9711.00
144_I149_G0.9681.00
53_L62_V0.9641.00
89_N93_I0.9641.00
82_R86_D0.9601.00
203_H224_H0.9581.00
277_D280_T0.9561.00
170_D192_S0.9391.00
50_I53_L0.9371.00
48_N54_I0.9361.00
145_N149_G0.9351.00
272_K276_L0.9321.00
236_P239_N0.9321.00
255_Y258_F0.9271.00
142_E165_R0.9231.00
200_N221_D0.9221.00
86_D91_V0.9211.00
165_R184_Q0.9181.00
201_L222_L0.9111.00
225_N246_N0.9061.00
183_N246_N0.9041.00
225_N293_N0.9001.00
85_I91_V0.8931.00
50_I55_S0.8901.00
229_S233_D0.8901.00
109_N130_R0.8891.00
54_I59_L0.8841.00
275_N279_L0.8731.00
128_Y131_L0.8671.00
269_N272_K0.8651.00
181_A202_S0.8621.00
158_S162_N0.8591.00
55_S66_G0.8591.00
71_P74_Q0.8571.00
79_T82_R0.8541.00
120_F139_N0.8521.00
90_E95_L0.8501.00
87_D92_T0.8491.00
76_Q79_T0.8461.00
204_N246_N0.8461.00
81_V87_D0.8431.00
195_W216_E0.8431.00
111_T130_R0.8381.00
279_L283_P0.8381.00
84_I93_I0.8381.00
254_F258_F0.8371.00
46_P49_D0.8331.00
258_F264_L0.8301.00
59_L63_L0.8281.00
139_N162_N0.8251.00
87_D93_I0.8251.00
86_D92_T0.8231.00
55_S61_H0.8221.00
183_N189_Q0.8211.00
60_W66_G0.8161.00
55_S62_V0.8141.00
259_C283_P0.8091.00
56_S61_H0.8081.00
230_L233_D0.8051.00
86_D93_I0.8041.00
151_N172_L0.8031.00
140_A163_A0.8011.00
268_N292_N0.7981.00
118_N139_N0.7981.00
154_I157_I0.7961.00
171_R192_S0.7891.00
218_L221_D0.7750.99
135_S141_L0.7740.99
267_A291_D0.7730.99
67_I71_P0.7730.99
65_N69_N0.7720.99
274_I279_L0.7720.99
107_L110_F0.7670.99
280_T283_P0.7670.99
82_R87_D0.7640.99
284_S287_S0.7620.99
216_E220_L0.7610.99
155_T174_S0.7610.99
80_A85_I0.7590.99
255_Y259_C0.7550.99
63_L68_N0.7470.99
47_T52_Q0.7450.99
148_Q168_D0.7420.99
112_S116_D0.7420.99
78_W82_R0.7420.99
108_Q112_S0.7410.99
50_I54_I0.7320.99
274_I295_I0.7300.99
273_Y276_L0.7280.99
250_E273_Y0.7250.99
48_N52_Q0.7230.99
48_N53_L0.7200.99
186_E205_Q0.7160.99
252_K255_Y0.7100.99
227_L246_N0.7090.99
67_I70_D0.7080.99
223_S242_L0.7080.99
225_N230_L0.7040.99
273_Y290_L0.7020.99
237_N260_N0.7010.99
104_P120_F0.7000.99
183_N188_V0.6970.99
248_L252_K0.6960.99
217_L238_L0.6930.99
243_I248_L0.6900.99
143_S148_Q0.6900.99
51_D55_S0.6890.99
64_V71_P0.6880.99
251_I254_F0.6850.99
82_R91_V0.6840.99
53_L58_H0.6800.99
52_Q55_S0.6780.99
54_I61_H0.6770.99
71_P78_W0.6760.99
51_D54_I0.6710.99
84_I89_N0.6660.98
66_G71_P0.6620.98
225_N269_N0.6600.98
112_S115_L0.6600.98
223_S244_N0.6560.98
192_S197_Q0.6490.98
280_T288_L0.6480.98
137_N160_N0.6460.98
189_Q192_S0.6420.98
67_I75_M0.6410.98
259_C262_Q0.6400.98
227_L231_H0.6390.98
129_D133_K0.6370.98
121_T142_E0.6350.98
180_A185_L0.6300.98
61_H64_V0.6300.98
81_V86_D0.6270.98
197_Q200_N0.6270.98
56_S66_G0.6260.98
144_I159_M0.6230.98
120_F124_D0.6230.98
147_P167_I0.6200.98
201_L204_N0.6190.97
185_L204_N0.6190.97
226_K229_S0.6180.97
110_F128_Y0.6170.97
202_S223_S0.6170.97
271_L276_L0.6160.97
236_P240_T0.6150.97
113_I131_L0.6140.97
66_G70_D0.6130.97
63_L73_A0.6110.97
89_N94_D0.6100.97
236_P259_C0.6090.97
251_I266_A0.6080.97
261_V285_I0.6020.97
83_N87_D0.6010.97
46_P50_I0.6010.97
244_N268_N0.6010.97
103_Q115_L0.6000.97
107_L114_N0.5990.97
145_N172_L0.5980.97
133_K155_T0.5960.97
254_F257_N0.5950.97
258_F266_A0.5940.97
259_C280_T0.5940.97
80_A87_D0.5940.97
92_T96_S0.5940.97
244_N247_L0.5930.97
84_I90_E0.5900.97
258_F261_V0.5900.97
107_L113_I0.5890.97
85_I90_E0.5880.97
221_D224_H0.5840.96
235_F239_N0.5820.96
69_N72_L0.5810.96
215_N218_L0.5810.96
49_D64_V0.5810.96
73_A76_Q0.5800.96
176_T179_S0.5790.96
228_T272_K0.5790.96
65_N74_Q0.5750.96
143_S166_N0.5720.96
276_L279_L0.5720.96
106_G109_N0.5710.96
83_N86_D0.5700.96
67_I78_W0.5670.96
228_T247_L0.5660.96
242_L263_T0.5650.96
81_V88_T0.5650.96
109_N112_S0.5620.96
175_V178_F0.5620.96
87_D94_D0.5530.95
150_R171_R0.5520.95
80_A86_D0.5520.95
210_V231_H0.5510.95
64_V75_M0.5510.95
63_L67_I0.5470.95
119_Q123_F0.5460.95
70_D78_W0.5450.95
236_P250_E0.5440.95
162_N204_N0.5410.95
251_I274_I0.5410.95
198_Y202_S0.5390.94
53_L59_L0.5380.94
210_V213_N0.5370.94
153_S156_H0.5350.94
289_R294_K0.5340.94
255_Y279_L0.5330.94
286_K289_R0.5320.94
66_G78_W0.5320.94
104_P107_L0.5310.94
226_K246_N0.5300.94
235_F246_N0.5260.94
84_I92_T0.5260.94
149_G172_L0.5260.94
75_M80_A0.5230.94
107_L115_L0.5230.94
166_N187_F0.5230.94
46_P59_L0.5220.94
57_K66_G0.5190.93
60_W71_P0.5170.93
61_H65_N0.5170.93
133_K177_Y0.5170.93
235_F254_F0.5140.93
246_N252_K0.5130.93
232_N254_F0.5080.93
62_V75_M0.5060.92
273_Y281_Y0.5060.92
244_N267_A0.5040.92
52_Q56_S0.5030.92
271_L284_S0.5030.92
75_M85_I0.5020.92
46_P52_Q0.5000.92
82_R89_N0.5000.92
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  
4r6fA 1 0.9182 100 0.46 Contact Map
2id5A 3 0.8239 100 0.46 Contact Map
4r6gA 1 0.9182 100 0.464 Contact Map
3wn4A 2 0.8082 100 0.466 Contact Map
4u7lA 1 0.7453 100 0.467 Contact Map
4v2dA 1 0.8239 100 0.468 Contact Map
4u06A 1 0.7547 100 0.469 Contact Map
4r5dA 1 0.7862 100 0.469 Contact Map
3ojaA 1 0.7987 100 0.47 Contact Map
4qxfA 1 0.7579 100 0.47 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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