GREMLIN Database
YPHB - Uncharacterized protein YphB
UniProt: P76584 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13463
Length: 290 (272)
Sequences: 6040 (4655)
Seq/√Len: 282.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
60_N73_P3.1151.00
212_I250_F3.0961.00
61_R68_E2.8231.00
192_A197_Q2.7071.00
94_V104_V2.6161.00
13_L25_F2.5611.00
106_E115_R2.5271.00
140_T274_A2.5251.00
7_S12_K2.4821.00
260_D264_R2.3921.00
76_E79_A2.3731.00
222_I286_R2.3601.00
12_K26_W2.2971.00
106_E113_H2.2641.00
102_C119_A2.2591.00
4_Y101_L2.1921.00
134_T278_S2.1891.00
167_W202_G2.1731.00
102_C117_S2.1661.00
113_H138_A2.1531.00
38_K41_V2.1501.00
16_S23_E2.1091.00
24_G31_P2.1061.00
89_G105_Y2.1011.00
4_Y93_C2.0981.00
104_V117_S2.0131.00
30_T219_Y2.0091.00
132_S280_T2.0031.00
15_V103_L1.9491.00
13_L22_I1.8861.00
123_T128_T1.8841.00
234_I250_F1.8841.00
17_D90_E1.8721.00
130_T282_E1.8631.00
211_R220_A1.8581.00
274_A277_E1.8571.00
5_T14_D1.8431.00
14_D24_G1.8401.00
168_L178_F1.8291.00
63_V68_E1.7881.00
65_Q140_T1.7871.00
20_G103_L1.7821.00
100_S121_H1.7721.00
11_L25_F1.7671.00
183_P189_N1.7371.00
142_P272_A1.7371.00
104_V115_R1.7281.00
97_S100_S1.7081.00
211_R222_I1.7001.00
94_V102_C1.6761.00
61_R70_Q1.6751.00
154_S214_Q1.6521.00
224_E286_R1.6421.00
58_S260_D1.6221.00
114_Y143_F1.6091.00
254_P283_M1.5781.00
49_P118_Q1.5781.00
20_G49_P1.5661.00
64_W272_A1.5611.00
158_R191_P1.5581.00
55_N233_F1.5501.00
25_F287_V1.5291.00
128_T284_S1.5001.00
86_G116_V1.4971.00
160_Q211_R1.4961.00
158_R213_E1.4931.00
50_L146_G1.4721.00
33_L149_P1.4711.00
117_S134_T1.4601.00
224_E284_S1.4581.00
15_V101_L1.4521.00
188_F192_A1.4371.00
86_G105_Y1.4341.00
214_Q219_Y1.4301.00
53_F262_H1.4241.00
75_V80_H1.4151.00
65_Q139_E1.4041.00
144_G257_H1.4021.00
193_P196_R1.3611.00
67_R139_E1.3581.00
5_T12_K1.3531.00
227_P257_H1.3521.00
214_Q217_E1.3401.00
79_A172_Q1.3401.00
204_A258_A1.3291.00
165_G181_Q1.3281.00
226_T281_S1.3281.00
53_F271_I1.3251.00
121_H130_T1.3101.00
158_R215_P1.2781.00
109_S139_E1.2631.00
11_L27_R1.2611.00
115_R136_Q1.2491.00
92_Q104_V1.2481.00
140_T275_P1.2311.00
260_D263_H1.2281.00
257_H271_I1.2231.00
160_Q191_P1.2171.00
18_Q90_E1.2131.00
168_L180_E1.2091.00
192_A196_R1.2091.00
238_D247_F1.2011.00
22_I33_L1.1961.00
11_L126_T1.1931.00
237_S240_A1.1861.00
100_S119_A1.1651.00
94_V117_S1.1651.00
6_L122_L1.1611.00
11_L122_L1.1561.00
52_P107_H1.1561.00
232_Y252_L1.1551.00
95_S102_C1.1531.00
213_E220_A1.1491.00
166_Y180_E1.1371.00
45_A87_W1.1331.00
209_Q225_T1.1291.00
107_H113_H1.1221.00
227_P281_S1.1011.00
199_V203_F1.0911.00
143_F279_T1.0891.00
56_R82_L1.0851.00
13_L129_V1.0821.00
140_T272_A1.0801.00
59_G80_H1.0771.00
161_A234_I1.0701.00
159_I212_I1.0621.00
169_E173_W1.0621.00
202_G231_C1.0601.00
25_F151_F1.0581.00
60_N70_Q1.0551.00
231_C258_A1.0541.00
70_Q73_P1.0461.00
99_D121_H1.0441.00
31_P35_P1.0431.00
27_R32_L1.0411.00
16_S21_V1.0411.00
34_R249_F1.0391.00
143_F273_L1.0301.00
113_H137_G1.0281.00
73_P79_A1.0281.00
237_S249_F1.0271.00
182_L189_N1.0261.00
93_C101_L1.0181.00
202_G233_F1.0121.00
21_V48_F1.0121.00
119_A132_S1.0011.00
58_S170_R0.9931.00
273_L278_S0.9861.00
59_G79_A0.9851.00
8_H122_L0.9831.00
49_P147_W0.9831.00
158_R193_P0.9811.00
186_L201_N0.9801.00
223_M254_P0.9751.00
95_S100_S0.9651.00
155_P247_F0.9611.00
159_I188_F0.9591.00
125_D286_R0.9551.00
22_I149_P0.9531.00
53_F57_V0.9451.00
116_V145_T0.9421.00
126_T286_R0.9391.00
58_S174_L0.9371.00
132_S282_E0.9361.00
25_F33_L0.9361.00
261_D271_I0.9281.00
36_G46_S0.9211.00
123_T126_T0.9211.00
157_T214_Q0.9211.00
221_I287_V0.9191.00
65_Q274_A0.9171.00
118_Q131_L0.9151.00
176_G179_C0.9061.00
126_T284_S0.9041.00
58_S263_H0.8971.00
45_A82_L0.8951.00
63_V66_G0.8911.00
8_H126_T0.8901.00
205_G208_G0.8871.00
103_L120_F0.8761.00
83_H148_H0.8751.00
53_F81_Y0.8751.00
26_W31_P0.8751.00
160_Q213_E0.8721.00
45_A88_L0.8701.00
57_V71_L0.8681.00
8_H124_A0.8681.00
148_H253_E0.8651.00
156_Q193_P0.8641.00
108_R113_H0.8621.00
226_T282_E0.8611.00
81_Y84_G0.8611.00
9_G124_A0.8581.00
194_L250_F0.8571.00
159_I234_I0.8511.00
145_T279_T0.8481.00
142_P262_H0.8471.00
62_F69_Y0.8441.00
161_A232_Y0.8321.00
52_P114_Y0.8271.00
80_H172_Q0.8261.00
137_G141_L0.8201.00
49_P120_F0.8181.00
117_S132_S0.8170.99
65_Q272_A0.8140.99
83_H253_E0.8110.99
123_T130_T0.8090.99
32_L287_V0.8070.99
72_Q81_Y0.8030.99
156_Q216_Q0.8030.99
4_Y103_L0.8020.99
96_H101_L0.8010.99
132_S278_S0.8010.99
210_A232_Y0.7990.99
91_W116_V0.7970.99
22_I129_V0.7930.99
89_G108_R0.7880.99
159_I252_L0.7880.99
4_Y17_D0.7840.99
199_V234_I0.7830.99
136_Q141_L0.7820.99
142_P270_L0.7770.99
51_V116_V0.7750.99
153_L157_T0.7740.99
137_G275_P0.7730.99
130_T280_T0.7720.99
91_W118_Q0.7720.99
10_S28_D0.7650.99
254_P281_S0.7650.99
164_S189_N0.7620.99
161_A210_A0.7570.99
86_G114_Y0.7560.99
27_R219_Y0.7530.99
93_C103_L0.7460.99
186_L203_F0.7450.99
223_M252_L0.7420.99
25_F32_L0.7400.99
22_I147_W0.7360.99
55_N202_G0.7360.99
61_R263_H0.7340.99
71_L81_Y0.7300.99
209_Q222_I0.7300.99
212_I252_L0.7290.99
116_V133_V0.7240.99
75_V82_L0.7230.99
14_D23_E0.7230.99
128_T286_R0.7210.99
155_P198_W0.7200.99
151_F285_L0.7170.99
64_W112_Y0.7170.99
53_F142_P0.7170.99
9_G126_T0.7140.99
51_V86_G0.7130.99
125_D128_T0.7130.99
165_G179_C0.7100.99
58_S264_R0.7090.99
114_Y141_L0.7050.99
131_L147_W0.7030.98
264_R267_G0.7010.98
168_L176_G0.7000.98
59_G73_P0.6990.98
188_F191_P0.6960.98
59_G172_Q0.6950.98
223_M285_L0.6940.98
225_T283_M0.6940.98
159_I194_L0.6920.98
17_D93_C0.6920.98
35_P152_P0.6890.98
168_L179_C0.6870.98
50_L54_A0.6870.98
195_P198_W0.6860.98
257_H261_D0.6860.98
273_L277_E0.6840.98
15_V22_I0.6830.98
11_L32_L0.6820.98
134_T280_T0.6810.98
24_G35_P0.6790.98
53_F261_D0.6780.98
202_G255_M0.6760.98
57_V262_H0.6760.98
199_V202_G0.6740.98
52_P84_G0.6680.98
115_R134_T0.6670.98
154_S215_P0.6650.98
8_H125_D0.6640.98
112_Y137_G0.6630.98
33_L151_F0.6620.98
234_I252_L0.6590.98
14_D26_W0.6570.98
75_V239_P0.6540.98
22_I25_F0.6530.98
166_Y186_L0.6500.97
49_P116_V0.6480.97
86_G107_H0.6460.97
62_F71_L0.6420.97
135_N143_F0.6380.97
17_D92_Q0.6370.97
167_W258_A0.6370.97
93_C96_H0.6360.97
194_L197_Q0.6360.97
48_F87_W0.6330.97
8_H11_L0.6300.97
137_G273_L0.6290.97
21_V42_A0.6250.97
160_Q190_Q0.6220.97
166_Y201_N0.6220.97
30_T217_E0.6190.97
73_P81_Y0.6160.97
58_S172_Q0.6150.97
233_F255_M0.6140.96
54_A255_M0.6140.96
56_R253_E0.6100.96
157_T212_I0.6080.96
6_L101_L0.6050.96
57_V62_F0.6050.96
240_A251_C0.6040.96
129_V133_V0.6040.96
182_L187_D0.6030.96
50_L87_W0.5980.96
162_Q208_G0.5960.96
82_L87_W0.5960.96
56_R83_H0.5950.96
136_Q278_S0.5940.96
107_H110_G0.5930.96
47_C147_W0.5910.96
76_E80_H0.5910.96
191_P213_E0.5910.96
86_G91_W0.5880.96
30_T214_Q0.5860.95
46_S240_A0.5840.95
20_G120_F0.5810.95
130_T284_S0.5800.95
113_H136_Q0.5800.95
64_W71_L0.5790.95
155_P158_R0.5790.95
166_Y203_F0.5760.95
96_H102_C0.5760.95
156_Q195_P0.5720.95
105_Y108_R0.5720.95
42_A87_W0.5710.95
63_V263_H0.5690.95
60_N81_Y0.5680.95
61_R73_P0.5670.95
118_Q129_V0.5670.95
92_Q106_E0.5640.94
162_Q209_Q0.5640.94
21_V88_L0.5630.94
161_A188_F0.5580.94
54_A257_H0.5570.94
76_E172_Q0.5550.94
133_V143_F0.5540.94
239_P246_A0.5540.94
85_D88_L0.5530.94
147_W283_M0.5510.94
143_F281_S0.5510.94
62_F263_H0.5510.94
133_V146_G0.5500.94
82_L259_P0.5440.93
223_M283_M0.5440.93
12_K24_G0.5410.93
152_P157_T0.5410.93
221_I285_L0.5400.93
10_S124_A0.5390.93
203_F234_I0.5390.93
162_Q207_N0.5390.93
150_Y235_F0.5380.93
6_L13_L0.5380.93
112_Y141_L0.5370.93
63_V69_Y0.5370.93
137_G140_T0.5360.93
15_V120_F0.5360.93
56_R60_N0.5360.93
54_A144_G0.5350.93
36_G41_V0.5330.93
36_G43_T0.5320.92
154_S216_Q0.5310.92
261_D268_G0.5290.92
21_V43_T0.5290.92
175_A178_F0.5280.92
128_T282_E0.5280.92
86_G89_G0.5250.92
56_R148_H0.5200.92
186_L199_V0.5190.92
271_I279_T0.5180.91
179_C204_A0.5170.91
165_G178_F0.5160.91
23_E46_S0.5160.91
131_L135_N0.5140.91
33_L46_S0.5130.91
126_T133_V0.5120.91
17_D103_L0.5110.91
267_G270_L0.5110.91
69_Y112_Y0.5110.91
212_I234_I0.5110.91
96_H100_S0.5100.91
146_G251_C0.5090.91
258_A267_G0.5080.91
74_N80_H0.5070.91
7_S98_D0.5060.91
36_G42_A0.5060.91
184_Q187_D0.5060.91
57_V60_N0.5040.90
36_G44_D0.5040.90
173_W239_P0.5040.90
209_Q224_E0.5030.90
257_H270_L0.5020.90
59_G75_V0.5010.90
72_Q75_V0.5000.90
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  
1z45A 2 0.9759 100 0.204 Contact Map
3nreA 1 0.9897 100 0.213 Contact Map
1ygaA 2 0.9793 100 0.216 Contact Map
1lurA 1 0.9724 100 0.238 Contact Map
1nsxA 2 0.9655 100 0.251 Contact Map
1snzA 1 0.969 100 0.256 Contact Map
4rnlA 1 0.9655 100 0.256 Contact Map
3mwxA 1 0.9759 100 0.259 Contact Map
3imhA 3 0.9586 100 0.267 Contact Map
3os7A 2 0.9759 100 0.268 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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