GREMLIN Database
YPIP - Uncharacterized protein YpiP
UniProt: P54171 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 257 (211)
Sequences: 947 (677)
Seq/√Len: 46.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
99_L175_V4.7211.00
127_K202_E3.4821.00
103_L124_G3.4231.00
125_I161_G3.3691.00
87_L115_A3.1781.00
161_G166_H2.9371.00
125_I166_H2.5881.00
124_G156_I2.5171.00
137_T141_S2.4751.00
106_G135_V2.4591.00
53_R63_K2.4301.00
176_D219_R2.4061.00
90_A112_A2.3681.00
184_F246_A2.3251.00
98_F112_A2.2111.00
161_G165_E2.1781.00
132_S158_V2.0981.00
213_E217_V2.0931.00
96_D220_K2.0651.00
89_A223_V2.0581.00
239_N252_V2.0230.99
166_H170_L1.9970.99
123_V175_V1.9480.99
64_F138_G1.9310.99
215_V236_F1.9180.99
103_L158_V1.9030.99
86_M112_A1.8680.99
127_K162_D1.8410.99
162_D165_E1.8210.99
186_E198_R1.8110.99
184_F231_P1.8070.99
185_H227_H1.8050.99
232_R241_M1.7720.99
73_F78_F1.7580.98
85_P246_A1.7540.98
75_A111_I1.7180.98
97_T121_S1.6870.98
50_G55_E1.6830.98
103_L135_V1.6400.98
90_A120_G1.6320.97
71_A84_E1.6050.97
99_L167_I1.5960.97
164_F209_G1.5890.97
168_K209_G1.5880.97
215_V222_V1.5820.97
70_T248_F1.5570.97
147_E151_A1.5490.96
75_A114_M1.5440.96
101_C180_F1.5130.96
163_C210_C1.4980.96
121_S157_Q1.4700.95
123_V157_Q1.4420.95
178_V217_V1.3960.94
224_L233_F1.3890.94
116_V120_G1.3830.93
185_H226_D1.3700.93
240_V250_Y1.3560.93
113_S244_K1.3490.93
232_R235_Q1.3270.92
187_P198_R1.3230.92
180_F210_C1.3060.91
187_P190_T1.3050.91
54_F133_V1.3020.91
97_T123_V1.2970.91
184_F245_T1.2910.91
198_R203_D1.2690.90
129_H160_N1.2640.90
82_E86_M1.2460.89
81_G111_I1.2350.89
226_D232_R1.2330.89
97_T175_V1.2270.88
167_I217_V1.2250.88
243_R246_A1.2170.88
109_A124_G1.2010.87
66_F74_R1.2000.87
243_R247_L1.1880.87
58_T61_G1.1810.86
178_V222_V1.1770.86
50_G63_K1.1610.85
123_V178_V1.1340.84
170_L175_V1.1340.84
87_L90_A1.1250.84
98_F116_V1.1220.83
164_F168_K1.1190.83
50_G53_R1.1170.83
149_L152_A1.1160.83
227_H249_H1.1070.83
92_L116_V1.1040.82
149_L153_M1.1010.82
69_N72_M1.0950.82
110_I152_A1.0940.82
107_S193_G1.0850.81
127_K206_L1.0840.81
85_P243_R1.0790.81
92_L115_A1.0770.81
92_L96_D1.0700.80
198_R201_A1.0690.80
144_T150_Q1.0620.80
75_A110_I1.0540.79
90_A177_V1.0520.79
194_I197_L1.0510.79
91_G221_S1.0430.79
228_W243_R1.0410.79
226_D249_H1.0220.77
47_L56_L1.0160.77
38_L42_A1.0000.76
83_K194_I0.9990.76
55_E63_K0.9920.75
190_T247_L0.9900.75
64_F135_V0.9870.75
209_G212_N0.9850.75
86_M90_A0.9830.74
176_D220_K0.9780.74
112_A226_D0.9750.74
122_V209_G0.9730.74
125_I159_K0.9710.74
208_E212_N0.9700.73
99_L166_H0.9650.73
167_I218_A0.9620.73
75_A81_G0.9590.73
184_F243_R0.9560.72
92_L120_G0.9520.72
99_L125_I0.9510.72
113_S155_R0.9490.72
232_R236_F0.9410.71
211_I215_V0.9390.71
211_I224_L0.9330.70
174_S216_R0.9240.70
89_A221_S0.9160.69
218_A222_V0.9140.69
70_T73_F0.9070.68
214_A222_V0.9060.68
186_E195_A0.9030.68
54_F137_T0.9020.68
71_A111_I0.8970.67
82_E93_S0.8940.67
69_N193_G0.8890.67
46_L49_V0.8880.67
131_V149_L0.8820.66
105_L138_G0.8810.66
84_E111_I0.8790.66
110_I142_W0.8750.66
128_N201_A0.8720.65
90_A221_S0.8710.65
136_R140_H0.8680.65
82_E194_I0.8570.64
156_I220_K0.8560.64
213_E235_Q0.8490.63
162_D166_H0.8310.61
212_N236_F0.8280.61
142_W152_A0.8280.61
131_V201_A0.8220.61
228_W249_H0.8060.59
47_L54_F0.7990.58
106_G137_T0.7990.58
75_A79_L0.7950.58
45_D58_T0.7940.58
215_V253_I0.7870.57
213_E216_R0.7800.57
140_H165_E0.7690.56
45_D178_V0.7650.55
165_E168_K0.7650.55
243_R249_H0.7640.55
84_E152_A0.7630.55
151_A155_R0.7580.54
102_T181_D0.7570.54
150_Q154_R0.7530.54
172_D216_R0.7490.54
168_K216_R0.7490.54
146_I149_L0.7460.53
230_S233_F0.7450.53
99_L170_L0.7430.53
202_E206_L0.7430.53
152_A155_R0.7410.53
48_V57_Y0.7390.53
93_S120_G0.7360.52
66_F73_F0.7310.52
69_N107_S0.7260.51
224_L238_F0.7250.51
59_K62_A0.7230.51
185_H249_H0.7230.51
142_W156_I0.7160.50
94_E239_N0.7110.50
66_F110_I0.7110.50
162_D202_E0.7040.49
75_A80_Q0.7040.49
106_G142_W0.7030.49
89_A243_R0.7010.49
240_V252_V0.6990.49
140_H143_E0.6960.48
133_V137_T0.6930.48
67_H109_A0.6870.47
132_S160_N0.6840.47
69_N105_L0.6830.47
66_F81_G0.6810.47
194_I201_A0.6780.47
170_L217_V0.6760.46
204_S207_H0.6730.46
52_E97_T0.6690.46
210_C224_L0.6670.45
83_K88_R0.6660.45
240_V245_T0.6660.45
92_L124_G0.6640.45
89_A244_K0.6610.45
46_L50_G0.6570.44
73_F84_E0.6560.44
210_C214_A0.6550.44
232_R237_G0.6510.44
193_G201_A0.6510.44
65_F68_P0.6510.44
180_F214_A0.6500.44
210_C223_V0.6490.44
192_D221_S0.6470.44
152_A156_I0.6460.43
180_F226_D0.6420.43
177_V218_A0.6410.43
198_R228_W0.6400.43
86_M240_V0.6390.43
193_G196_P0.6380.43
176_D179_Y0.6380.43
178_V200_L0.6370.43
227_H247_L0.6350.42
231_P235_Q0.6350.42
127_K204_S0.6350.42
125_I167_I0.6340.42
208_E213_E0.6250.41
84_E115_A0.6250.41
220_K253_I0.6220.41
92_L112_A0.6210.41
211_I222_V0.6200.41
242_K248_F0.6170.41
70_T179_Y0.6160.41
165_E171_P0.6120.40
84_E128_N0.6120.40
229_K245_T0.6120.40
97_T164_F0.6100.40
140_H144_T0.6060.40
188_V247_L0.6030.39
81_G84_E0.6010.39
193_G226_D0.6000.39
125_I162_D0.5990.39
203_D234_E0.5970.39
139_L153_M0.5960.39
90_A115_A0.5940.38
148_E151_A0.5920.38
179_Y250_Y0.5920.38
171_P216_R0.5910.38
95_G120_G0.5900.38
194_I204_S0.5890.38
102_T180_F0.5860.38
76_K238_F0.5810.37
54_F194_I0.5800.37
43_E220_K0.5790.37
174_S219_R0.5740.37
116_V192_D0.5730.36
103_L116_V0.5690.36
67_H250_Y0.5680.36
106_G139_L0.5670.36
78_F84_E0.5670.36
68_P153_M0.5660.36
185_H247_L0.5650.36
186_E197_L0.5650.36
233_F249_H0.5630.36
185_H194_I0.5620.35
97_T157_Q0.5620.35
149_L243_R0.5610.35
151_A154_R0.5610.35
56_L130_L0.5600.35
123_V159_K0.5570.35
111_I115_A0.5560.35
113_S135_V0.5520.35
49_V52_E0.5520.35
60_Q243_R0.5510.34
198_R236_F0.5500.34
224_L251_G0.5470.34
194_I224_L0.5460.34
150_Q153_M0.5440.34
164_F234_E0.5440.34
95_G232_R0.5430.34
79_L134_L0.5410.34
185_H231_P0.5400.34
123_V176_D0.5330.33
98_F109_A0.5330.33
208_E234_E0.5320.33
50_G136_R0.5320.33
183_M225_K0.5310.33
185_H232_R0.5300.33
130_L200_L0.5300.33
59_K197_L0.5290.33
125_I142_W0.5280.32
122_V237_G0.5270.32
137_T189_E0.5250.32
84_E246_A0.5250.32
107_S190_T0.5230.32
85_P229_K0.5230.32
121_S171_P0.5230.32
166_H217_V0.5220.32
56_L200_L0.5220.32
65_F158_V0.5200.32
161_G222_V0.5190.32
134_L249_H0.5180.32
97_T144_T0.5160.31
69_N83_K0.5160.31
167_I214_A0.5150.31
142_W247_L0.5130.31
147_E150_Q0.5130.31
80_Q87_L0.5120.31
100_D104_G0.5120.31
100_D126_E0.5120.31
104_G126_E0.5120.31
80_Q84_E0.5050.31
216_R237_G0.5030.30
159_K165_E0.5020.30
47_L116_V0.5010.30
136_R148_E0.5010.30
88_R249_H0.5000.30
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  
2r6zA 2 0.8949 100 0.557 Contact Map
2oyrA 1 0.9144 100 0.566 Contact Map
1uwvA 1 0.8054 99 0.854 Contact Map
2as0A 2 0.9144 98.9 0.858 Contact Map
3c0kA 2 0.9339 98.9 0.858 Contact Map
3bt7A 1 0.821 98.8 0.862 Contact Map
2dulA 2 0.6848 98.8 0.863 Contact Map
3ll7A 1 0.856 98.8 0.864 Contact Map
3vywA 1 0.9183 98.7 0.867 Contact Map
3axsA 2 0.6848 98.7 0.869 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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