GREMLIN Database
YHBD - Uncharacterized protein YhbD
UniProt: P97032 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 238 (205)
Sequences: 142 (124)
Seq/√Len: 8.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
150_L164_A4.1750.98
76_R220_L3.2910.93
63_R66_T3.2760.93
167_A196_C3.1020.91
178_E183_T3.0020.90
53_K96_D2.9980.90
102_L222_A2.7620.85
84_S87_Q2.7200.84
169_E173_K2.6450.82
191_L196_C2.4980.79
144_L147_L2.4280.76
103_S227_K2.3710.75
163_E189_R2.1560.67
27_E199_A2.1280.66
84_S100_E2.0780.64
116_L144_L2.0260.62
152_G225_E1.9780.60
115_E209_S1.9760.60
175_D216_R1.9540.59
126_A159_V1.9210.58
149_V219_L1.8880.56
183_T206_L1.8750.56
39_R76_R1.8170.53
41_S141_S1.8130.53
154_L157_G1.8110.53
66_T73_F1.7980.53
159_V164_A1.7810.52
199_A211_V1.7750.52
161_L208_E1.7720.51
80_L154_L1.7430.50
160_S195_T1.7350.50
63_R93_L1.7040.49
53_K157_G1.7040.49
35_E112_T1.6690.47
117_L127_L1.6350.46
89_M144_L1.6250.45
59_E118_H1.5840.43
111_M206_L1.5640.43
101_M193_V1.5610.43
187_V191_L1.5580.42
181_K203_D1.5460.42
28_E174_H1.5370.42
63_R185_L1.5330.41
43_S58_E1.5240.41
140_S160_S1.5200.41
123_S194_T1.5180.41
87_Q195_T1.5150.41
38_E230_F1.5090.40
66_T185_L1.4840.39
108_D129_A1.4820.39
100_E150_L1.4520.38
93_L154_L1.4280.37
59_E209_S1.3910.36
151_E206_L1.3820.35
78_E109_V1.3810.35
112_T158_N1.3750.35
79_I130_Y1.3660.35
108_D115_E1.3620.34
108_D172_K1.3610.34
67_F83_I1.3250.33
208_E228_T1.3150.33
156_S186_I1.3110.33
96_D157_G1.3060.32
55_L63_R1.3040.32
46_Q71_E1.2720.31
68_T71_E1.2720.31
46_Q68_T1.2720.31
189_R192_G1.2690.31
85_M164_A1.2680.31
59_E185_L1.2560.31
157_G163_E1.2550.30
102_L137_P1.2360.30
115_E177_E1.2130.29
77_E132_E1.2090.29
171_L214_V1.2050.29
106_M208_E1.2030.29
154_L189_R1.1990.28
87_Q126_A1.1850.28
47_L74_F1.1640.27
97_E214_V1.1580.27
187_V207_F1.1520.27
172_K193_V1.1390.26
36_L47_L1.1320.26
59_E101_M1.1310.26
144_L169_E1.1040.25
152_G222_A1.1010.25
184_E216_R1.0940.25
140_S213_V1.0910.25
187_V215_E1.0750.24
83_I117_L1.0720.24
81_K175_D1.0630.24
64_K78_E1.0620.24
162_A178_E1.0520.24
155_Q214_V1.0490.24
53_K64_K1.0390.23
185_L204_S1.0340.23
106_M211_V1.0320.23
88_K202_A1.0290.23
152_G188_L1.0270.23
92_N175_D1.0260.23
111_M222_A1.0210.23
108_D140_S1.0070.22
116_L221_K1.0010.22
105_K118_H1.0000.22
163_E212_K0.9950.22
148_F151_E0.9930.22
32_S65_S0.9760.21
154_L163_E0.9740.21
88_K100_E0.9700.21
31_I205_I0.9650.21
128_E132_E0.9540.21
56_I66_T0.9530.21
167_A187_V0.9530.21
29_Q128_E0.9500.21
105_K230_F0.9460.21
93_L224_E0.9450.21
123_S224_E0.9410.20
26_M230_F0.9310.20
223_S230_F0.9270.20
46_Q95_L0.9240.20
71_E95_L0.9240.20
68_T95_L0.9240.20
30_L62_I0.9230.20
119_K191_L0.9200.20
176_T219_L0.9130.20
134_G225_E0.9110.20
35_E137_P0.9110.20
29_Q84_S0.9070.19
129_A152_G0.9000.19
115_E188_L0.9000.19
122_V164_A0.8970.19
40_T72_T0.8930.19
27_E76_R0.8920.19
92_N230_F0.8920.19
185_L219_L0.8910.19
28_E114_D0.8890.19
211_V230_F0.8870.19
66_T91_E0.8860.19
36_L94_S0.8840.19
111_M152_G0.8820.19
96_D120_G0.8820.19
28_E173_K0.8730.19
109_V173_K0.8680.18
27_E124_R0.8610.18
163_E190_K0.8600.18
81_K179_I0.8570.18
138_V179_I0.8510.18
101_M196_C0.8490.18
160_S187_V0.8440.18
28_E230_F0.8430.18
115_E160_S0.8410.18
160_S182_Q0.8320.18
35_E87_Q0.8270.17
30_L64_K0.8270.17
115_E197_F0.8150.17
27_E138_V0.8120.17
100_E135_G0.8090.17
102_L203_D0.8060.17
157_G224_E0.8060.17
168_A171_L0.8030.17
119_K141_S0.8010.17
158_N210_S0.8000.17
137_P197_F0.7990.17
162_A217_V0.7900.17
53_K121_L0.7870.16
134_G194_T0.7860.16
166_M211_V0.7830.16
188_L197_F0.7810.16
109_V208_E0.7800.16
54_N102_L0.7760.16
150_L226_L0.7750.16
62_I122_V0.7750.16
125_P138_V0.7650.16
129_A185_L0.7550.16
190_K193_V0.7430.15
59_E126_A0.7420.15
66_T195_T0.7420.15
121_L157_G0.7410.15
93_L123_S0.7350.15
81_K191_L0.7320.15
139_F219_L0.7320.15
135_G144_L0.7300.15
88_K206_L0.7280.15
103_S168_A0.7270.15
124_R129_A0.7250.15
29_Q178_E0.7180.15
148_F158_N0.7150.15
186_I223_S0.7140.15
129_A132_E0.7140.15
55_L122_V0.7120.15
78_E230_F0.7100.15
88_K219_L0.7090.15
59_E167_A0.7000.15
128_E152_G0.6950.14
188_L195_T0.6920.14
126_A197_F0.6900.14
88_K214_V0.6890.14
150_L205_I0.6820.14
66_T187_V0.6810.14
151_E202_A0.6800.14
129_A215_E0.6770.14
54_N150_L0.6760.14
212_K221_K0.6730.14
101_M191_L0.6730.14
105_K134_G0.6690.14
89_M207_F0.6670.14
104_P139_F0.6620.14
124_R128_E0.6600.14
107_K170_V0.6590.14
150_L184_E0.6540.14
29_Q147_L0.6510.14
28_E135_G0.6510.14
142_S158_N0.6500.13
98_M145_L0.6470.13
93_L148_F0.6460.13
66_T129_A0.6450.13
174_H191_L0.6450.13
199_A207_F0.6440.13
160_S175_D0.6440.13
88_K92_N0.6410.13
66_T101_M0.6370.13
26_M96_D0.6360.13
157_G189_R0.6360.13
76_R160_S0.6350.13
197_F218_D0.6330.13
31_I164_A0.6330.13
76_R229_T0.6320.13
98_M175_D0.6310.13
160_S216_R0.6270.13
114_D118_H0.6250.13
114_D128_E0.6250.13
150_L170_V0.6220.13
96_D186_I0.6210.13
98_M121_L0.6210.13
156_S179_I0.6210.13
92_N100_E0.6200.13
38_E224_E0.6200.13
54_N209_S0.6180.13
63_R211_V0.6110.13
76_R179_I0.6060.13
195_T227_K0.6030.13
121_L198_I0.6000.13
123_S164_A0.5990.13
77_E124_R0.5970.12
189_R224_E0.5970.12
117_L139_F0.5950.12
77_E97_E0.5930.12
185_L199_A0.5910.12
195_T211_V0.5910.12
142_S151_E0.5900.12
145_L149_V0.5870.12
100_E144_L0.5860.12
53_K62_I0.5850.12
78_E105_K0.5850.12
116_L158_N0.5820.12
140_S155_Q0.5800.12
153_L158_N0.5790.12
106_M172_K0.5780.12
186_I209_S0.5760.12
147_L221_K0.5750.12
115_E140_S0.5720.12
47_L61_F0.5710.12
147_L178_E0.5710.12
182_Q219_L0.5710.12
40_T145_L0.5670.12
83_I134_G0.5650.12
58_E72_T0.5620.12
142_S198_I0.5590.12
153_L215_E0.5580.12
161_L195_T0.5530.12
154_L193_V0.5530.12
54_N171_L0.5520.12
59_E203_D0.5510.12
118_H228_T0.5510.12
102_L175_D0.5490.12
135_G139_F0.5470.12
106_M228_T0.5460.12
173_K209_S0.5440.12
121_L224_E0.5430.12
164_A225_E0.5400.11
165_K176_T0.5360.11
95_L99_R0.5350.11
85_M175_D0.5350.11
144_L182_Q0.5350.11
93_L121_L0.5330.11
117_L219_L0.5310.11
126_A172_K0.5280.11
132_E155_Q0.5250.11
59_E217_V0.5240.11
98_M178_E0.5230.11
189_R193_V0.5230.11
144_L149_V0.5210.11
87_Q180_E0.5210.11
198_I204_S0.5210.11
126_A144_L0.5200.11
28_E193_V0.5180.11
122_V134_G0.5180.11
77_E155_Q0.5150.11
124_R176_T0.5150.11
135_G214_V0.5140.11
159_V196_C0.5120.11
66_T93_L0.5120.11
97_E147_L0.5090.11
146_S171_L0.5080.11
177_E200_A0.5070.11
161_L190_K0.5070.11
133_D159_V0.5050.11
59_E151_E0.5000.11
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  
4j2nA 4 0.2311 96.5 0.935 Contact Map
3whpA 1 0.5294 96.3 0.937 Contact Map
4r24B 2 0.3487 96.2 0.937 Contact Map
3ucsA 2 0.4076 96.1 0.938 Contact Map
4r4eB 2 0.3487 95.8 0.94 Contact Map
1z4hA 1 0.2773 94.2 0.945 Contact Map
2jmlA 1 0.3277 94 0.945 Contact Map
2vz4A 2 0.416 91.4 0.95 Contact Map
1r8dA 2 0.4538 91.4 0.95 Contact Map
3gpvA 2 0.4874 90.4 0.951 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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