GREMLIN Database
PDAB - Probable polysaccharide deacetylase PdaB
UniProt: P50865 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 254 (197)
Sequences: 6432 (4985)
Seq/√Len: 355.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
80_K109_D4.0811.00
82_N227_H3.8571.00
105_R109_D3.1211.00
112_Q240_G2.9151.00
143_E149_D2.8211.00
139_Q173_Y2.6301.00
82_N230_K2.5651.00
91_L103_V2.5311.00
223_P227_H2.5231.00
198_T228_Q2.4741.00
133_K137_R2.4131.00
77_N105_R2.3681.00
81_A223_P2.2121.00
194_I224_D2.1421.00
183_Q186_T2.1031.00
127_E130_E2.0541.00
194_I198_T2.0421.00
118_Y137_R2.0261.00
158_G178_Y2.0241.00
122_N159_Q1.9911.00
228_Q232_K1.9541.00
228_Q231_E1.9041.00
58_D235_K1.8861.00
73_E105_R1.8731.00
128_S163_N1.8471.00
91_L106_I1.8301.00
201_V229_L1.8281.00
84_I226_I1.8101.00
107_V148_K1.8061.00
82_N223_P1.8001.00
97_E141_A1.6921.00
93_A118_Y1.6801.00
104_A108_K1.6051.00
195_D199_K1.5881.00
118_Y141_A1.5851.00
136_N171_Y1.5831.00
216_K220_E1.5801.00
119_A134_D1.5521.00
96_A103_V1.5451.00
189_G217_Q1.5281.00
155_P177_H1.5191.00
124_A159_Q1.4211.00
79_L87_A1.4061.00
76_L106_I1.4031.00
73_E102_T1.3771.00
58_D237_V1.3671.00
115_S139_Q1.3481.00
90_F152_L1.3341.00
82_N226_I1.3251.00
141_A145_L1.3241.00
59_I229_L1.3231.00
116_M120_Y1.3191.00
85_K111_H1.2921.00
197_V225_I1.2851.00
136_N140_T1.2811.00
227_H231_E1.2731.00
191_E224_D1.2661.00
84_I236_N1.2611.00
132_K136_N1.2551.00
140_T144_K1.2531.00
78_T223_P1.2501.00
75_I219_E1.2461.00
226_I236_N1.2461.00
179_S205_D1.2451.00
166_K170_Q1.2431.00
57_K234_L1.2381.00
77_N81_A1.2381.00
78_T82_N1.2361.00
126_L130_E1.2341.00
224_D228_Q1.2321.00
141_A144_K1.2181.00
56_S235_K1.2181.00
189_G192_K1.2151.00
60_S237_V1.2091.00
132_K171_Y1.2051.00
132_K170_Q1.2041.00
135_M168_A1.1991.00
131_I167_V1.1951.00
226_I230_K1.1811.00
131_I164_V1.1721.00
191_E195_D1.1701.00
78_T219_E1.1651.00
75_I222_L1.1621.00
190_V194_I1.1551.00
63_F222_L1.1531.00
96_A141_A1.1531.00
182_S209_L1.1461.00
72_A211_A1.1391.00
190_V224_D1.1111.00
128_S167_V1.1071.00
139_Q149_D1.0991.00
122_N157_T1.0901.00
77_N109_D1.0901.00
237_V241_D1.0891.00
176_V239_V1.0851.00
121_K134_D1.0831.00
74_P220_E1.0501.00
105_R108_K1.0391.00
122_N125_N1.0251.00
74_P78_T1.0221.00
222_L226_I1.0211.00
167_V170_Q1.0201.00
212_S215_A1.0151.00
59_I236_N1.0141.00
115_S138_A1.0111.00
59_I201_V1.0101.00
96_A145_L1.0081.00
227_H230_K1.0081.00
136_N139_Q1.0081.00
107_V146_G0.9881.00
128_S132_K0.9851.00
132_K167_V0.9811.00
168_A175_V0.9771.00
113_I146_G0.9771.00
137_R140_T0.9701.00
181_N185_W0.9701.00
103_V145_L0.9611.00
135_M153_L0.9531.00
142_F146_G0.9471.00
78_T226_I0.9411.00
65_I211_A0.9401.00
130_E133_K0.9351.00
138_A141_A0.9341.00
117_G121_K0.9251.00
67_W211_A0.9231.00
123_Y153_L0.8991.00
101_D104_A0.8931.00
190_V220_E0.8911.00
74_P77_N0.8891.00
224_D227_H0.8851.00
107_V113_I0.8831.00
117_G123_Y0.8761.00
118_Y138_A0.8701.00
59_I207_I0.8671.00
76_L105_R0.8661.00
73_E77_N0.8641.00
160_F165_L0.8591.00
103_V106_I0.8581.00
84_I230_K0.8541.00
128_S170_Q0.8471.00
71_R74_P0.8421.00
80_K105_R0.8421.00
62_T206_I0.8391.00
153_L168_A0.8351.00
180_V205_D0.8341.00
209_L225_I0.8331.00
140_T143_E0.8311.00
92_S117_G0.8271.00
88_T112_Q0.8261.00
78_T222_L0.8261.00
194_I221_A0.8181.00
161_N164_V0.8161.00
80_K85_K0.8141.00
63_F79_L0.8131.00
167_V171_Y0.8051.00
83_G230_K0.8001.00
182_S196_N0.7911.00
162_K166_K0.7911.00
76_L111_H0.7901.00
112_Q152_L0.7861.00
90_F176_V0.7841.00
192_K196_N0.7801.00
202_S205_D0.7771.00
198_T232_K0.7741.00
128_S166_K0.7741.00
142_F150_I0.7681.00
129_S133_K0.7641.00
221_A225_I0.7641.00
195_D198_T0.7531.00
215_A219_E0.7531.00
217_Q220_E0.7451.00
194_I228_Q0.7451.00
93_A138_A0.7331.00
60_S239_V0.7260.99
238_T241_D0.7250.99
134_D138_A0.7230.99
116_M210_H0.7220.99
90_F114_G0.7210.99
139_Q150_I0.7190.99
63_F75_I0.7160.99
237_V242_L0.7060.99
181_N186_T0.7010.99
96_A100_P0.6990.99
119_A137_R0.6970.99
76_L109_D0.6950.99
106_I113_I0.6900.99
62_T154_R0.6880.99
160_F164_V0.6870.99
197_V207_I0.6850.99
188_P217_Q0.6830.99
182_S197_V0.6820.99
91_L96_A0.6810.99
194_I197_V0.6800.99
104_A107_V0.6790.99
92_S95_W0.6770.99
115_S135_M0.6740.99
163_N167_V0.6690.99
85_K238_T0.6660.99
155_P175_V0.6650.99
92_S138_A0.6640.99
139_Q143_E0.6610.99
206_I239_V0.6590.99
103_V146_G0.6590.99
165_L175_V0.6530.99
76_L80_K0.6460.99
44_T47_K0.6450.99
96_A142_F0.6410.99
145_L148_K0.6400.99
152_L240_G0.6370.99
163_N166_K0.6360.99
193_I221_A0.6360.99
78_T81_A0.6360.99
80_K111_H0.6340.99
67_W72_A0.6340.99
61_L79_L0.6340.99
65_I92_S0.6320.99
124_A161_N0.6300.99
138_A142_F0.6300.99
65_I116_M0.6300.99
97_E118_Y0.6290.99
120_Y156_P0.6260.99
71_R219_E0.6240.98
64_D120_Y0.6240.98
130_E134_D0.6230.98
49_I52_G0.6210.98
121_K126_L0.6120.98
123_Y131_I0.6090.98
162_K165_L0.6070.98
72_A76_L0.6060.98
152_L239_V0.6040.98
104_A145_L0.6040.98
190_V217_Q0.6040.98
160_F175_V0.6020.98
196_N200_Q0.6020.98
94_S98_R0.6010.98
123_Y134_D0.5990.98
63_F87_A0.5960.98
92_S211_A0.5900.98
64_D154_R0.5840.98
103_V113_I0.5800.98
112_Q238_T0.5770.97
180_V207_I0.5770.97
85_K241_D0.5760.97
90_F239_V0.5760.97
85_K236_N0.5750.97
180_V197_V0.5740.97
90_F154_R0.5730.97
158_G177_H0.5720.97
97_E100_P0.5690.97
54_T58_D0.5680.97
126_L131_I0.5630.97
193_I197_V0.5580.97
100_P145_L0.5570.97
93_A141_A0.5560.97
123_Y126_L0.5530.97
142_F145_L0.5510.97
191_E194_I0.5500.97
179_S202_S0.5480.97
64_D116_M0.5470.97
60_S242_L0.5470.97
70_E73_E0.5430.96
168_A173_Y0.5430.96
72_A106_I0.5420.96
120_Y210_H0.5410.96
57_K233_G0.5380.96
121_K130_E0.5380.96
117_G134_D0.5360.96
88_T239_V0.5350.96
64_D210_H0.5340.96
197_V229_L0.5330.96
73_E109_D0.5330.96
44_T48_A0.5310.96
66_S92_S0.5300.96
103_V142_F0.5300.96
131_I163_N0.5250.96
115_S173_Y0.5230.96
68_G71_R0.5230.96
194_I225_I0.5220.95
45_G48_A0.5220.95
52_G58_D0.5210.95
66_S211_A0.5160.95
97_E144_K0.5160.95
74_P223_P0.5120.95
72_A102_T0.5100.95
126_L134_D0.5090.95
60_S238_T0.5070.95
100_P104_A0.5060.95
164_V168_A0.5050.95
47_K50_Y0.5030.94
150_I173_Y0.5030.94
140_T149_D0.5020.94
60_S88_T0.5020.94
188_P192_K0.5020.94
116_M208_L0.5000.94
45_G49_I0.5000.94
94_S119_A0.5000.94
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  
4m1bA 1 0.7874 100 0.148 Contact Map
2iw0A 1 0.815 100 0.236 Contact Map
2y8uA 1 0.811 100 0.248 Contact Map
2vyoA 1 0.7835 100 0.257 Contact Map
2w3zA 1 0.752 100 0.258 Contact Map
4l1gA 1 0.8307 100 0.261 Contact Map
2cc0A 2 0.7598 100 0.265 Contact Map
2j13A 1 0.7874 100 0.271 Contact Map
1ny1A 1 0.8858 100 0.272 Contact Map
2c1iA 1 0.9331 100 0.273 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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