GREMLIN Database
YBBA - Uncharacterized protein YbbA
UniProt: P55192 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 250 (215)
Sequences: 9628 (7146)
Seq/√Len: 487.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
138_I148_I4.1031.00
110_E122_R3.5931.00
108_L112_N3.0051.00
116_T121_S2.9681.00
203_H207_K2.8171.00
150_S153_G2.8011.00
182_S222_K2.5831.00
219_S237_N2.5411.00
99_S103_N2.5111.00
205_S209_K2.4051.00
110_E115_V2.3271.00
33_V61_L2.3241.00
62_V115_V2.3211.00
151_I238_A2.2811.00
196_L200_K2.2411.00
23_Y114_N2.2351.00
98_L141_Y2.2111.00
22_S60_E2.2111.00
200_K220_I2.1571.00
149_G238_A2.1211.00
123_G147_K2.0351.00
32_A64_I2.0281.00
34_Y122_R1.9381.00
98_L137_A1.9281.00
179_S234_Q1.8971.00
106_I122_R1.8781.00
33_V125_I1.8771.00
30_F62_V1.8491.00
64_I109_I1.8401.00
19_L62_V1.8161.00
17_L64_I1.7751.00
35_V125_I1.7461.00
34_Y106_I1.7131.00
203_H213_E1.6461.00
109_I115_V1.6091.00
98_L140_K1.5741.00
23_Y30_F1.5261.00
118_E121_S1.5231.00
148_I176_V1.5161.00
204_Q208_E1.4851.00
28_G60_E1.4761.00
34_Y110_E1.4741.00
100_D105_F1.4701.00
204_Q207_K1.4471.00
15_F105_F1.4181.00
102_T141_Y1.4081.00
177_F219_S1.4031.00
110_E117_R1.3941.00
182_S220_I1.3921.00
153_G199_T1.3911.00
57_R240_E1.3681.00
134_S148_I1.3631.00
125_I149_G1.3621.00
236_I240_E1.3561.00
127_A231_F1.3501.00
36_Q133_I1.3481.00
135_M150_S1.3381.00
200_K204_Q1.3311.00
203_H218_L1.3091.00
147_K175_R1.3061.00
15_F108_L1.2991.00
201_Q204_Q1.2911.00
136_F140_K1.2891.00
135_M155_Y1.2871.00
36_Q97_Y1.2841.00
103_N107_P1.2831.00
165_H168_S1.2701.00
213_E218_L1.2651.00
30_F114_N1.2561.00
106_I144_M1.2551.00
71_R74_E1.2411.00
162_E165_H1.2411.00
103_N141_Y1.2381.00
59_P239_L1.2171.00
131_G150_S1.2161.00
36_Q124_M1.2091.00
124_M134_S1.1831.00
107_P144_M1.1781.00
205_S208_E1.1701.00
18_Y50_E1.1701.00
6_S104_Q1.1661.00
32_A115_V1.1491.00
124_M148_I1.1301.00
203_H220_I1.1291.00
35_V46_I1.1271.00
106_I145_F1.1241.00
33_V63_L1.1151.00
102_T144_M1.1121.00
29_G114_N1.1121.00
164_I167_S1.1101.00
47_E51_S1.1081.00
197_K201_Q1.1031.00
141_Y144_M1.1011.00
98_L102_T1.0991.00
125_I151_I1.0961.00
162_E167_S1.0821.00
128_S226_H1.0661.00
14_R43_Q1.0631.00
207_K213_E1.0601.00
75_Y78_W1.0571.00
164_I168_S1.0331.00
49_L63_L1.0271.00
122_R144_M1.0261.00
34_Y64_I1.0251.00
155_Y202_V1.0241.00
37_D41_L1.0241.00
124_M137_A1.0221.00
13_R100_D1.0211.00
8_H104_Q1.0191.00
6_S9_K1.0151.00
34_Y109_I1.0141.00
149_G242_L1.0121.00
8_H99_S1.0111.00
134_S150_S1.0061.00
199_T218_L1.0051.00
29_G116_T1.0041.00
62_V113_W1.0041.00
51_S55_Q1.0011.00
24_S27_S0.9981.00
19_L23_Y0.9961.00
175_R241_W0.9861.00
178_M203_H0.9671.00
152_S231_F0.9571.00
32_A122_R0.9541.00
14_R67_E0.9521.00
178_M199_T0.9511.00
221_E234_Q0.9511.00
206_L211_F0.9481.00
35_V65_G0.9451.00
31_P61_L0.9411.00
100_D104_Q0.9361.00
9_K13_R0.9341.00
206_L213_E0.9311.00
15_F100_D0.9281.00
156_W201_Q0.9271.00
180_I195_M0.9251.00
25_T114_N0.9241.00
51_S54_Q0.9221.00
74_E77_P0.9101.00
22_S30_F0.9101.00
101_I137_A0.9001.00
106_I110_E0.9001.00
64_I105_F0.8931.00
217_C241_W0.8861.00
59_P240_E0.8811.00
152_S184_E0.8811.00
24_S114_N0.8721.00
73_D78_W0.8711.00
71_R75_Y0.8701.00
163_T166_I0.8651.00
202_V206_L0.8651.00
77_P99_S0.8651.00
182_S223_G0.8631.00
36_Q66_I0.8621.00
182_S221_E0.8621.00
106_I109_I0.8611.00
34_Y145_F0.8571.00
102_T137_A0.8561.00
237_N240_E0.8481.00
108_L111_E0.8401.00
150_S178_M0.8401.00
58_L61_L0.8281.00
55_Q236_I0.8271.00
135_M176_V0.8241.00
127_A228_H0.8111.00
55_Q59_P0.8091.00
37_D42_F0.8081.00
156_W159_N0.8061.00
151_I231_F0.8001.00
179_S230_Y0.7991.00
181_G223_G0.7941.00
30_F60_E0.7911.00
135_M153_G0.7851.00
121_S146_G0.7781.00
7_E10_A0.7741.00
196_L220_I0.7731.00
17_L62_V0.7661.00
234_Q237_N0.7661.00
74_E78_W0.7651.00
138_I174_A0.7591.00
132_L136_F0.7551.00
152_S181_G0.7521.00
8_H103_N0.7521.00
103_N144_M0.7521.00
18_Y53_F0.7481.00
179_S221_E0.7471.00
221_E230_Y0.7441.00
96_H99_S0.7431.00
50_E53_F0.7411.00
102_T107_P0.7411.00
73_D77_P0.7411.00
221_E237_N0.7391.00
16_T43_Q0.7361.00
24_S29_G0.7361.00
61_L243_Y0.7351.00
110_E144_M0.7331.00
123_G243_Y0.7331.00
224_A230_Y0.7321.00
230_Y234_Q0.7311.00
151_I179_S0.7311.00
160_A198_K0.7221.00
183_E223_G0.7211.00
55_Q58_L0.7201.00
195_M198_K0.7181.00
123_G146_G0.7161.00
66_I101_I0.7161.00
32_A63_L0.7141.00
19_L113_W0.7001.00
162_E166_I0.6961.00
197_K200_K0.6891.00
35_V235_F0.6871.00
198_K201_Q0.6861.00
151_I234_Q0.6851.00
56_Q59_P0.6831.00
123_G149_G0.6831.00
31_P60_E0.6821.00
45_Q228_H0.6771.00
19_L30_F0.6761.00
107_P145_F0.6741.00
130_G133_I0.6721.00
116_T122_R0.6701.00
227_H230_Y0.6671.00
180_I199_T0.6661.00
32_A62_V0.6661.00
147_K242_L0.6651.00
102_T145_F0.6591.00
16_T67_E0.6591.00
175_R212_T0.6551.00
37_D66_I0.6551.00
183_E222_K0.6541.00
200_K218_L0.6531.00
32_A110_E0.6471.00
131_G153_G0.6471.00
23_Y29_G0.6441.00
17_L113_W0.6441.00
41_L45_Q0.6431.00
97_Y133_I0.6421.00
37_D45_Q0.6421.00
16_T44_N0.6401.00
51_S236_I0.6391.00
102_T106_I0.6391.00
98_L136_F0.6341.00
132_L154_S0.6341.00
169_L172_G0.6321.00
170_K173_T0.6311.00
53_F56_Q0.6291.00
180_I218_L0.6261.00
163_T167_S0.6251.00
235_F239_L0.6231.00
94_G133_I0.6180.99
174_A211_F0.6140.99
75_Y79_P0.6120.99
31_P121_S0.6110.99
54_Q58_L0.6090.99
48_L53_F0.6080.99
135_M202_V0.6080.99
27_S114_N0.6070.99
171_P174_A0.6040.99
221_E233_K0.6030.99
147_K241_W0.5990.99
25_T30_F0.5990.99
42_F65_G0.5980.99
24_S28_G0.5920.99
122_R146_G0.5910.99
201_Q205_S0.5850.99
195_M199_T0.5840.99
124_M145_F0.5830.99
53_F58_L0.5820.99
7_E104_Q0.5800.99
31_P116_T0.5780.99
8_H96_H0.5770.99
23_Y62_V0.5750.99
172_G211_F0.5750.99
49_L53_F0.5740.99
178_M213_E0.5740.99
52_A56_Q0.5720.99
29_G117_R0.5720.99
107_P111_E0.5690.99
77_P80_A0.5660.99
179_S219_S0.5640.99
53_F60_E0.5640.99
37_D40_S0.5640.99
181_G184_E0.5600.99
105_F109_I0.5600.99
233_K236_I0.5590.99
47_E50_E0.5570.99
229_K233_K0.5560.99
25_T29_G0.5550.99
138_I142_P0.5540.99
127_A153_G0.5480.99
36_Q127_A0.5470.99
69_E72_L0.5470.99
13_R68_P0.5460.99
180_I196_L0.5460.99
105_F108_L0.5460.99
207_K210_G0.5430.99
38_G128_S0.5330.99
213_E217_C0.5330.99
178_M206_L0.5320.98
125_I235_F0.5320.98
107_P110_E0.5280.98
36_Q134_S0.5280.98
13_R105_F0.5250.98
178_M202_V0.5220.98
62_V114_N0.5180.98
129_L133_I0.5180.98
44_N48_L0.5160.98
48_L51_S0.5160.98
56_Q60_E0.5160.98
150_S176_V0.5140.98
17_L32_A0.5110.98
23_Y113_W0.5110.98
18_Y63_L0.5110.98
170_K174_A0.5090.98
135_M178_M0.5080.98
43_Q67_E0.5070.98
62_V109_I0.5060.98
23_Y115_V0.5040.98
76_T79_P0.5040.98
110_E116_T0.5040.98
33_V239_L0.5020.98
200_K203_H0.5000.98
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  
4w9rA 2 0.916 100 0.371 Contact Map
3gffA 2 0.972 100 0.409 Contact Map
1jjfA 1 0.888 100 0.423 Contact Map
3c8dA 2 0.872 100 0.434 Contact Map
3ls2A 2 0.92 100 0.437 Contact Map
2gzsA 1 0.88 100 0.442 Contact Map
2uz0A 4 0.86 100 0.447 Contact Map
4rotA 4 0.884 100 0.452 Contact Map
3i6yA 1 0.924 100 0.458 Contact Map
3e4dA 3 0.924 100 0.467 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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