GREMLIN Database
YGGR - Uncharacterized protein YggR
UniProt: P52052 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12978
Length: 326 (271)
Sequences: 10463 (6071)
Seq/√Len: 368.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
153_L189_A3.2591.00
115_L259_A3.0611.00
112_L140_M2.9641.00
124_L223_A2.9531.00
102_Q105_Q2.9311.00
155_L185_G2.8781.00
118_S258_R2.8681.00
229_G232_Q2.8671.00
90_S151_H2.6751.00
48_L91_L2.6581.00
126_T225_L2.6101.00
150_A196_V2.5041.00
113_P143_Y2.4971.00
28_W37_A2.3911.00
126_T262_S2.3701.00
181_T184_S2.2611.00
15_V30_I2.2021.00
72_L76_Q2.1981.00
25_P36_A2.1621.00
268_D274_V2.1541.00
19_H193_D2.1451.00
81_S192_E2.1431.00
86_R159_V2.1291.00
9_L13_H2.1151.00
129_T194_P2.0431.00
136_T263_Q2.0381.00
146_Q166_Q2.0301.00
137_L222_L2.0251.00
30_I35_E2.0201.00
282_N287_G2.0041.00
10_S15_V1.9661.00
40_D43_D1.9631.00
238_V250_R1.9061.00
197_I214_A1.9051.00
7_V11_V1.8981.00
33_R149_D1.8731.00
53_D56_Q1.8411.00
116_L140_M1.8231.00
104_E113_P1.8181.00
187_R204_D1.8081.00
45_E49_R1.7991.00
202_L223_A1.7681.00
33_R267_V1.7661.00
125_V136_T1.7651.00
29_R193_D1.7541.00
129_T219_H1.7481.00
8_A12_K1.6781.00
202_L211_A1.6221.00
261_L279_L1.6031.00
24_W44_V1.5771.00
74_E97_P1.5751.00
6_I18_L1.5621.00
103_L139_A1.5531.00
146_Q149_D1.5521.00
131_S263_Q1.5521.00
99_H105_Q1.5381.00
125_V137_L1.5181.00
90_S167_R1.5131.00
155_L189_A1.4951.00
186_L210_L1.4941.00
96_L161_Y1.4821.00
27_R36_A1.4801.00
123_I220_L1.4711.00
205_S209_R1.4641.00
60_L89_I1.4401.00
202_L208_I1.4401.00
126_T233_A1.4351.00
65_Q188_A1.4321.00
48_L89_I1.4281.00
117_K143_Y1.3991.00
232_Q255_G1.3921.00
78_L93_L1.3921.00
208_I240_S1.3881.00
189_A197_I1.3801.00
114_E118_S1.3621.00
80_G93_L1.3371.00
126_T227_T1.3321.00
142_G146_Q1.3311.00
123_I259_A1.3311.00
56_Q59_I1.3291.00
83_F169_L1.3231.00
78_L95_L1.3121.00
10_S18_L1.3091.00
52_L82_A1.2911.00
19_H34_M1.2901.00
268_D272_G1.2861.00
141_V198_L1.2841.00
201_E226_H1.2831.00
217_T236_R1.2761.00
142_G166_Q1.2701.00
124_L225_L1.2661.00
41_T45_E1.2661.00
114_E281_I1.2631.00
234_V257_L1.2621.00
14_N30_I1.2441.00
145_N152_I1.2401.00
213_T236_R1.2361.00
231_A280_L1.2261.00
104_E143_Y1.2231.00
120_N258_R1.2171.00
215_A221_V1.2121.00
137_L198_L1.2031.00
172_Q175_I1.2011.00
122_L221_V1.1991.00
213_T239_D1.1981.00
113_P140_M1.1971.00
111_V114_E1.1971.00
114_E143_Y1.1961.00
145_N149_D1.1931.00
208_I237_L1.1851.00
233_A260_V1.1841.00
144_L196_V1.1751.00
14_N31_R1.1751.00
209_R213_T1.1391.00
49_R57_R1.1381.00
257_L260_V1.1361.00
13_H35_E1.1291.00
79_R188_A1.1281.00
225_L233_A1.1261.00
41_T44_V1.1251.00
85_Q167_R1.1231.00
227_T233_A1.1111.00
10_S95_L1.0951.00
64_G84_A1.0941.00
103_L113_P1.0911.00
115_L123_I1.0901.00
191_R203_R1.0871.00
31_R268_D1.0841.00
14_N271_E1.0821.00
87_H170_I1.0771.00
9_L12_K1.0751.00
7_V78_L1.0711.00
101_P105_Q1.0671.00
121_G258_R1.0651.00
72_L75_N1.0591.00
150_A168_C1.0541.00
123_I222_L1.0451.00
182_F199_L1.0291.00
90_S153_L1.0231.00
19_H29_R1.0081.00
12_K30_I1.0071.00
82_A91_L0.9941.00
106_L139_A0.9931.00
228_R232_Q0.9911.00
76_Q95_L0.9891.00
32_G273_R0.9831.00
9_L37_A0.9831.00
19_H92_A0.9801.00
128_A131_S0.9741.00
134_S161_Y0.9741.00
116_L259_A0.9721.00
90_S192_E0.9691.00
60_L175_I0.9651.00
258_R287_G0.9611.00
128_A264_K0.9601.00
264_K274_V0.9561.00
20_L91_L0.9461.00
213_T243_A0.9451.00
15_V28_W0.9411.00
159_V170_I0.9321.00
100_C142_G0.9291.00
11_V78_L0.9281.00
21_C171_Q0.9221.00
42_P46_E0.9211.00
196_V220_L0.9181.00
114_E117_K0.9111.00
6_I26_A0.9071.00
45_E89_I0.9071.00
238_V253_L0.9051.00
80_G91_L0.9001.00
187_R206_E0.8971.00
137_L224_T0.8931.00
237_L253_L0.8921.00
280_L286_V0.8871.00
44_V48_L0.8801.00
111_V281_I0.8801.00
185_G189_A0.8671.00
169_L189_A0.8661.00
180_M185_G0.8661.00
144_L150_A0.8651.00
213_T216_E0.8641.00
125_V261_L0.8631.00
190_L214_A0.8601.00
5_E9_L0.8541.00
284_P287_G0.8521.00
36_A148_A0.8511.00
212_L242_P0.8431.00
183_A206_E0.8411.00
133_K226_H0.8371.00
10_S28_W0.8351.00
9_L28_W0.8311.00
85_Q88_G0.8251.00
20_L44_V0.8221.00
51_W80_G0.8141.00
52_L56_Q0.8131.00
45_E61_L0.8111.00
41_T89_I0.8111.00
11_V76_Q0.8091.00
18_L28_W0.8031.00
20_L26_A0.8031.00
149_D167_R0.8021.00
17_D92_A0.8011.00
49_R61_L0.8011.00
157_D203_R0.7981.00
202_L210_L0.7981.00
6_I20_L0.7971.00
208_I242_P0.7971.00
69_A75_N0.7941.00
155_L171_Q0.7921.00
13_H30_I0.7871.00
243_A250_R0.7861.00
59_I63_N0.7831.00
115_L281_I0.7791.00
29_R195_D0.7761.00
153_L194_P0.7751.00
266_E274_V0.7731.00
39_F43_D0.7721.00
260_V280_L0.7711.00
199_L211_A0.7691.00
21_C27_R0.7661.00
18_L95_L0.7661.00
216_E252_Q0.7621.00
67_D79_R0.7581.00
197_I219_H0.7541.00
267_V270_Q0.7521.00
180_M184_S0.7491.00
23_A38_P0.7441.00
230_A262_S0.7421.00
216_E228_R0.7411.00
122_L258_R0.7331.00
43_D46_E0.7301.00
66_L78_L0.7271.00
133_K201_E0.7231.00
64_G180_M0.7211.00
25_P38_P0.7201.00
142_G163_Y0.7141.00
11_V95_L0.7120.99
194_P219_H0.7120.99
31_R272_G0.7110.99
153_L169_L0.7080.99
140_M143_Y0.7040.99
117_K148_A0.7030.99
216_E256_S0.7020.99
48_L82_A0.7020.99
232_Q235_E0.6990.99
261_L273_R0.6980.99
122_L211_A0.6960.99
86_R162_L0.6960.99
204_D207_T0.6950.99
229_G262_S0.6930.99
83_F171_Q0.6900.99
56_Q60_L0.6890.99
142_G145_N0.6890.99
160_E226_H0.6840.99
39_F44_V0.6820.99
107_G275_A0.6820.99
203_R226_H0.6760.99
90_S169_L0.6750.99
266_E276_L0.6730.99
181_T206_E0.6720.99
191_R226_H0.6700.99
201_E224_T0.6680.99
21_C165_S0.6670.99
160_E201_E0.6640.99
103_L143_Y0.6630.99
223_A228_R0.6630.99
48_L80_G0.6610.99
159_V172_Q0.6600.99
14_N97_P0.6600.99
253_L257_L0.6570.99
102_Q139_A0.6560.99
283_T286_V0.6540.99
81_S92_A0.6520.99
141_V222_L0.6500.99
157_D191_R0.6500.99
271_E274_V0.6490.99
120_N220_L0.6450.99
69_A172_Q0.6450.99
94_R226_H0.6440.99
182_F223_A0.6440.99
199_L214_A0.6410.99
230_A275_A0.6390.99
51_W68_F0.6380.99
94_R160_E0.6380.99
101_P139_A0.6370.99
171_Q192_E0.6350.99
27_R34_M0.6340.99
141_V163_Y0.6340.99
17_D193_D0.6320.99
41_T88_G0.6320.99
130_G193_D0.6310.99
268_D271_E0.6310.99
128_A228_R0.6260.99
113_P261_L0.6260.99
124_L202_L0.6260.99
122_L257_L0.6230.99
163_Y166_Q0.6220.99
184_S188_A0.6200.99
282_N286_V0.6200.99
236_R240_S0.6200.99
106_L136_T0.6200.99
152_I196_V0.6200.99
175_I181_T0.6190.99
102_Q142_G0.6190.99
21_C151_H0.6180.99
63_N180_M0.6180.99
13_H37_A0.6180.99
47_L50_E0.6160.99
68_F78_L0.6150.99
239_D252_Q0.6120.98
115_L279_L0.6120.98
92_A192_E0.6110.98
145_N165_S0.6090.98
56_Q66_L0.6080.98
111_V279_L0.6080.98
266_E270_Q0.6070.98
149_D168_C0.6070.98
79_R192_E0.6050.98
259_A281_I0.6040.98
122_L215_A0.6040.98
30_I33_R0.6020.98
129_T217_T0.6020.98
22_S25_P0.6010.98
199_L210_L0.6010.98
29_R34_M0.6000.98
123_I261_L0.6000.98
144_L222_L0.5990.98
124_L260_V0.5960.98
153_L167_R0.5960.98
103_L108_A0.5960.98
116_L121_G0.5950.98
200_G226_H0.5940.98
240_S243_A0.5920.98
16_S92_A0.5900.98
233_A262_S0.5860.98
183_A187_R0.5850.98
113_P117_K0.5830.98
123_I258_R0.5830.98
65_Q180_M0.5820.98
17_D130_G0.5770.98
144_L152_I0.5750.98
52_L66_L0.5680.98
183_A209_R0.5680.98
84_A89_I0.5670.97
13_H28_W0.5670.97
259_A279_L0.5660.97
212_L216_E0.5660.97
104_E110_T0.5650.97
81_S188_A0.5620.97
46_E49_R0.5610.97
60_L180_M0.5590.97
139_A143_Y0.5580.97
277_F281_I0.5560.97
115_L119_E0.5530.97
108_A277_F0.5530.97
59_I80_G0.5520.97
49_R54_D0.5520.97
31_R34_M0.5520.97
160_E191_R0.5500.97
243_A251_N0.5480.97
110_T114_E0.5470.97
5_E8_A0.5470.97
116_L143_Y0.5470.97
153_L192_E0.5430.97
202_L240_S0.5430.97
127_G218_G0.5410.97
121_G259_A0.5400.97
127_G131_S0.5400.97
26_A39_F0.5400.97
83_F92_A0.5400.97
271_E275_A0.5390.97
76_Q97_P0.5390.97
81_S90_S0.5380.97
16_S193_D0.5370.97
55_D62_E0.5330.96
129_T226_H0.5320.96
94_R201_E0.5320.96
85_Q90_S0.5310.96
46_E50_E0.5290.96
75_N98_S0.5280.96
29_R265_L0.5270.96
18_L93_L0.5270.96
191_R201_E0.5250.96
212_L241_F0.5250.96
211_A221_V0.5230.96
124_L257_L0.5230.96
229_G264_K0.5220.96
151_H171_Q0.5200.96
183_A205_S0.5200.96
227_T230_A0.5170.96
188_A192_E0.5160.96
129_T191_R0.5160.96
231_A235_E0.5140.96
173_R181_T0.5130.96
44_V91_L0.5120.95
59_I82_A0.5090.95
151_H167_R0.5080.95
198_L222_L0.5070.95
8_A75_N0.5050.95
124_L237_L0.5040.95
154_T163_Y0.5040.95
124_L233_A0.5040.95
234_V253_L0.5030.95
42_P45_E0.5010.95
272_G275_A0.5010.95
17_D94_R0.5000.95
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  
2ewvA 3 0.9816 100 0.236 Contact Map
3jvvA 3 0.9785 100 0.255 Contact Map
4ksrA 3 0.9325 100 0.314 Contact Map
4phtA 1 0.9417 100 0.326 Contact Map
1p9rA 1 0.9417 100 0.352 Contact Map
2oap1 3 0.9601 100 0.404 Contact Map
4ihqA 3 0.9632 100 0.415 Contact Map
2gzaA 3 0.8558 100 0.463 Contact Map
2eyuA 1 0.6933 100 0.465 Contact Map
2pt7A 3 0.819 99.9 0.667 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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