GREMLIN Database
PF02592 - Uncharacterized protein YpdP
UniProt: P54163 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 229 (197)
Sequences: 7351 (4589)
Seq/√Len: 327.0
META: 0.73

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
142_L174_F3.5831.00
104_L119_E2.7341.00
73_L85_A2.5761.00
149_A152_R2.2731.00
101_Q105_L2.2141.00
31_F85_A2.1911.00
116_T119_E2.1491.00
81_E84_K2.0301.00
131_G182_V2.0181.00
142_L170_V1.9951.00
87_W141_T1.9931.00
58_L103_V1.9791.00
117_A120_T1.9761.00
173_L201_Y1.9741.00
127_R186_G1.9391.00
189_P192_V1.9341.00
159_L162_L1.9261.00
161_W216_Y1.9131.00
177_F181_A1.9091.00
138_F178_I1.8941.00
181_A185_L1.8631.00
115_Q119_E1.8301.00
169_A205_F1.8171.00
150_I162_L1.7831.00
177_F197_F1.7731.00
142_L146_V1.7361.00
114_S120_T1.7161.00
74_N148_S1.6921.00
149_A153_I1.6391.00
27_K81_E1.6381.00
193_W197_F1.6351.00
185_L190_A1.6341.00
134_L182_V1.6081.00
195_H199_S1.5941.00
79_P83_R1.5771.00
176_T204_K1.5631.00
211_S214_Y1.5501.00
190_A194_L1.5391.00
96_L100_M1.5231.00
86_V144_V1.5061.00
89_G136_F1.4911.00
50_E53_G1.4891.00
221_M225_D1.4821.00
145_Y149_A1.4741.00
164_N212_L1.4731.00
37_A66_I1.4651.00
173_L177_F1.4341.00
71_D167_S1.4221.00
72_V218_A1.4211.00
201_Y205_F1.4171.00
139_S171_S1.4041.00
207_V211_S1.3711.00
188_Y196_I1.3611.00
154_F157_D1.3601.00
146_V150_I1.3581.00
57_T200_T1.3431.00
32_V36_F1.3331.00
94_L133_L1.3171.00
217_A220_K1.2991.00
97_T129_A1.2901.00
135_A178_I1.2821.00
212_L216_Y1.2801.00
160_L164_N1.2791.00
27_K31_F1.2781.00
36_F92_T1.2751.00
36_F40_C1.2711.00
32_V88_L1.2491.00
80_A84_K1.2451.00
80_A83_R1.2351.00
114_S117_A1.2331.00
214_Y218_A1.2251.00
39_V96_L1.2151.00
90_F137_I1.2071.00
90_F133_L1.1911.00
75_E163_R1.1641.00
57_T60_N1.1621.00
87_W91_S1.1601.00
100_M122_F1.1551.00
95_T99_V1.1511.00
165_G212_L1.1501.00
194_L198_I1.1441.00
154_F162_L1.1421.00
134_L178_I1.1411.00
127_R184_F1.1291.00
196_I200_T1.1221.00
102_G105_L1.1211.00
32_V35_G1.1181.00
79_P145_Y1.1181.00
57_T180_T1.1161.00
180_T200_T1.1151.00
42_N132_S1.1131.00
43_L100_M1.1021.00
93_L97_T1.0981.00
192_V195_H1.0951.00
181_A197_F1.0901.00
28_M31_F1.0851.00
68_F215_A1.0851.00
56_A203_I1.0781.00
154_F159_L1.0721.00
179_F183_A1.0711.00
214_Y217_A1.0651.00
62_M99_V1.0561.00
104_L118_L1.0371.00
116_T120_T1.0341.00
217_A221_M1.0331.00
150_I153_I1.0321.00
141_T145_Y1.0281.00
166_G170_V1.0241.00
71_D143_D1.0211.00
101_Q104_L1.0171.00
55_T111_S1.0131.00
44_Q100_M0.9981.00
83_R141_T0.9971.00
98_F102_G0.9891.00
76_K222_I0.9821.00
128_V183_A0.9821.00
60_N200_T0.9801.00
98_F101_Q0.9791.00
220_K224_N0.9751.00
79_P148_S0.9741.00
142_L145_Y0.9651.00
90_F136_F0.9651.00
138_F174_F0.9611.00
127_R187_I0.9601.00
140_Q144_V0.9601.00
146_V149_A0.9431.00
34_I89_G0.9371.00
112_D118_L0.9361.00
198_I202_L0.9341.00
176_T200_T0.9311.00
29_G88_L0.9311.00
40_C96_L0.9211.00
48_T55_T0.9191.00
103_V118_L0.9191.00
113_I116_T0.9091.00
58_L106_F0.9071.00
127_R193_W0.9031.00
188_Y192_V0.9001.00
71_D168_T0.8961.00
30_L73_L0.8961.00
169_A201_Y0.8941.00
180_T196_I0.8901.00
180_T197_F0.8871.00
202_L206_A0.8841.00
178_I182_V0.8721.00
162_L166_G0.8721.00
87_W137_I0.8711.00
156_S159_L0.8641.00
35_G39_V0.8641.00
194_L197_F0.8611.00
44_Q103_V0.8611.00
132_S175_D0.8581.00
108_P115_Q0.8561.00
165_G209_L0.8551.00
143_D171_S0.8541.00
147_Y160_L0.8521.00
152_R157_D0.8481.00
181_A193_W0.8481.00
190_A193_W0.8451.00
49_V58_L0.8431.00
50_E55_T0.8371.00
33_W65_T0.8361.00
150_I166_G0.8341.00
93_L96_L0.8331.00
74_N144_V0.8291.00
150_I154_F0.8111.00
215_A219_K0.8101.00
160_L215_A0.8081.00
68_F214_Y0.8071.00
153_I156_S0.8011.00
128_V179_F0.7961.00
143_D147_Y0.7851.00
45_V48_T0.7841.00
49_V106_F0.7831.00
37_A41_A0.7741.00
191_D195_H0.7711.00
73_L82_A0.7580.99
70_T143_D0.7570.99
108_P112_D0.7550.99
140_Q147_Y0.7530.99
45_V60_N0.7530.99
160_L212_L0.7530.99
75_E151_R0.7510.99
150_I157_D0.7480.99
148_S152_R0.7480.99
169_A209_L0.7430.99
46_V124_F0.7410.99
208_S211_S0.7390.99
176_T201_Y0.7380.99
100_M104_L0.7360.99
30_L69_A0.7350.99
221_M224_N0.7330.99
55_T109_A0.7310.99
147_Y164_N0.7170.99
50_E110_S0.7160.99
104_L123_G0.7160.99
28_M32_V0.7160.99
113_I120_T0.7160.99
88_L92_T0.7110.99
45_V57_T0.7070.99
126_P130_L0.7060.99
47_K115_Q0.7010.99
41_A63_Y0.6970.99
206_A210_I0.6960.99
184_F188_Y0.6920.99
28_M84_K0.6900.99
40_C44_Q0.6870.99
112_D115_Q0.6860.99
45_V128_V0.6840.99
36_F39_V0.6770.99
34_I85_A0.6770.99
43_L47_K0.6760.99
144_V147_Y0.6760.99
216_Y219_K0.6730.99
76_K219_K0.6720.99
104_L121_I0.6690.99
78_G81_E0.6660.99
157_D223_P0.6640.99
37_A65_T0.6640.99
111_S192_V0.6630.99
124_F129_A0.6610.99
63_Y66_I0.6600.99
182_V186_G0.6590.99
126_P129_A0.6570.99
72_V76_K0.6560.99
40_C43_L0.6530.99
164_N211_S0.6530.99
128_V132_S0.6520.98
49_V56_A0.6510.98
44_Q58_L0.6500.98
97_T126_P0.6490.98
79_P144_V0.6480.98
168_T208_S0.6470.98
160_L219_K0.6450.98
137_I141_T0.6420.98
33_W69_A0.6390.98
99_V103_V0.6390.98
83_R87_W0.6390.98
94_L129_A0.6380.98
44_Q59_G0.6370.98
43_L122_F0.6350.98
135_A139_S0.6310.98
63_Y139_S0.6290.98
130_L182_V0.6270.98
69_A72_V0.6270.98
136_F175_D0.6260.98
160_L216_Y0.6230.98
192_V196_I0.6210.98
147_Y151_R0.6110.98
60_N180_T0.6060.98
143_D167_S0.6020.97
88_L91_S0.6000.97
104_L122_F0.5950.97
46_V121_I0.5940.97
165_G169_A0.5940.97
82_A86_V0.5930.97
188_Y193_W0.5900.97
175_D204_K0.5870.97
215_A218_A0.5850.97
104_L115_Q0.5820.97
191_D194_L0.5820.97
135_A175_D0.5800.97
133_L136_F0.5800.97
56_A60_N0.5790.97
76_K223_P0.5700.96
114_S121_I0.5700.96
100_M125_L0.5660.96
125_L129_A0.5650.96
45_V59_G0.5630.96
86_V90_F0.5610.96
168_T172_Q0.5610.96
218_A221_M0.5600.96
118_L121_I0.5590.96
130_L134_L0.5580.96
154_F158_R0.5520.96
97_T101_Q0.5520.96
29_G33_W0.5470.96
74_N147_Y0.5460.96
213_P216_Y0.5440.95
32_V92_T0.5440.95
112_D116_T0.5440.95
134_L138_F0.5390.95
151_R157_D0.5380.95
175_D179_F0.5320.95
42_N136_F0.5310.95
50_E109_A0.5310.95
220_K223_P0.5290.95
48_T109_A0.5290.95
33_W40_C0.5250.95
38_T136_F0.5180.94
33_W95_T0.5180.94
219_K223_P0.5140.94
76_K218_A0.5120.94
121_I126_P0.5110.94
48_T188_Y0.5050.93
138_F142_L0.5000.93
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  
4pypA 1 0.5808 29.1 0.942 Contact Map
3o7qA 1 0.5721 24.1 0.944 Contact Map
4ldsA 2 0.5371 24 0.944 Contact Map
2gfpA 2 0.5415 21.4 0.945 Contact Map
4rfsS 1 0.607 16.8 0.948 Contact Map
4m64A 1 0.607 15.4 0.949 Contact Map
4tphA 2 0.5633 14.3 0.95 Contact Map
4xnjA 1 0.5983 11.5 0.952 Contact Map
3wdoA 1 0.5764 11.3 0.952 Contact Map
4gc0A 1 0.6245 8.1 0.955 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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