GREMLIN Database
YABB - Uncharacterized protein YabB
UniProt: P37543 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 247 (194)
Sequences: 7225 (5679)
Seq/√Len: 407.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
10_L17_D3.2101.00
19_K86_R3.1541.00
60_P73_G2.9011.00
72_L100_I2.7751.00
78_E101_H2.7381.00
117_D163_K2.5501.00
72_L116_Y2.4131.00
155_I184_M2.3691.00
88_V99_I2.3371.00
60_P71_I2.3151.00
50_V116_Y2.2851.00
102_D107_M2.2501.00
158_S168_A2.2491.00
23_S79_R2.1371.00
196_F202_G2.0481.00
54_T84_A2.0161.00
14_L66_R1.9951.00
76_I142_I1.9931.00
48_K70_D1.9661.00
12_Y17_D1.9211.00
63_L120_T1.9051.00
16_E65_T1.8901.00
81_H99_I1.8601.00
19_K90_Y1.7921.00
70_D98_Q1.7501.00
30_S33_A1.7451.00
128_T145_H1.7421.00
75_E81_H1.7211.00
16_E66_R1.7141.00
18_M62_L1.7011.00
170_L184_M1.6941.00
54_T60_P1.6931.00
88_V97_I1.6841.00
21_I83_M1.6801.00
162_L166_G1.6581.00
81_H101_H1.6271.00
73_G99_I1.6271.00
64_S71_I1.5771.00
36_L40_A1.5671.00
37_S195_Q1.5471.00
177_L194_V1.5431.00
149_C152_E1.5051.00
72_L98_Q1.5041.00
61_L93_L1.5011.00
155_I183_L1.4581.00
12_Y15_A1.4541.00
36_L39_F1.4421.00
182_E186_A1.4371.00
103_D106_N1.4361.00
37_S40_A1.4151.00
131_Q145_H1.3991.00
103_D153_D1.3911.00
16_E62_L1.3721.00
152_E183_L1.3601.00
156_S187_Y1.3571.00
181_F194_V1.3331.00
118_V169_A1.3331.00
141_R145_H1.3321.00
60_P97_I1.3151.00
73_G97_I1.3141.00
24_P56_N1.2891.00
93_L96_Q1.2791.00
105_K161_L1.2741.00
64_S96_Q1.2651.00
48_K72_L1.2491.00
23_S83_M1.2441.00
54_T75_E1.2411.00
44_I47_G1.2411.00
177_L202_G1.2331.00
181_F185_K1.2281.00
81_H85_V1.2231.00
52_L104_L1.2181.00
174_P201_Q1.2141.00
121_C170_L1.2141.00
48_K116_Y1.2021.00
59_V120_T1.1781.00
157_V160_K1.1601.00
84_A99_I1.1501.00
153_D157_V1.1481.00
49_I69_A1.1461.00
21_I86_R1.1351.00
51_D60_P1.1351.00
127_K175_G1.1321.00
53_C104_L1.1271.00
61_L88_V1.1101.00
172_H180_I1.1091.00
85_V89_E1.1001.00
182_E185_K1.0921.00
77_Q80_L1.0851.00
37_S41_Y1.0821.00
49_I71_I1.0721.00
74_V108_P1.0691.00
34_V169_A1.0671.00
31_L59_V1.0641.00
53_C121_C1.0551.00
77_Q142_I1.0501.00
9_R19_K1.0501.00
115_R163_K1.0461.00
10_L90_Y1.0421.00
42_V67_S1.0381.00
151_L179_E1.0371.00
172_H177_L1.0331.00
89_E94_D1.0331.00
135_N138_E1.0301.00
159_S189_I1.0271.00
158_S189_I1.0231.00
33_A198_Y1.0191.00
38_K169_A1.0101.00
48_K114_N1.0001.00
18_M61_L0.9841.00
178_L182_E0.9791.00
162_L168_A0.9621.00
151_L183_L0.9611.00
14_L62_L0.9541.00
61_L91_N0.9541.00
39_F67_S0.9461.00
38_K42_V0.9421.00
104_L153_D0.9371.00
41_Y167_K0.9371.00
74_V102_D0.9361.00
49_I118_V0.9301.00
65_T93_L0.9131.00
128_T147_I0.9081.00
52_L154_V0.9071.00
64_S97_I0.9031.00
105_K153_D0.8981.00
78_E82_D0.8981.00
15_A65_T0.8911.00
177_L181_F0.8901.00
41_Y169_A0.8831.00
20_I83_M0.8781.00
35_L62_L0.8701.00
47_G69_A0.8691.00
131_Q136_M0.8651.00
152_E186_A0.8631.00
26_V139_H0.8551.00
116_Y119_V0.8551.00
86_R90_Y0.8541.00
148_H152_E0.8501.00
86_R89_E0.8471.00
60_P64_S0.8421.00
184_M189_I0.8391.00
135_N140_L0.8351.00
102_D106_N0.8321.00
131_Q141_R0.8301.00
153_D156_S0.8281.00
176_R179_E0.8241.00
127_K130_K0.8241.00
38_K120_T0.8201.00
43_P47_G0.8181.00
49_I63_L0.8181.00
173_R176_R0.8171.00
134_Q145_H0.8131.00
118_V167_K0.7901.00
88_V93_L0.7871.00
126_F144_R0.7801.00
105_K157_V0.7791.00
50_V119_V0.7751.00
157_V161_L0.7741.00
72_L114_N0.7711.00
130_K175_G0.7701.00
82_D85_V0.7681.00
104_L157_V0.7641.00
155_I187_Y0.7611.00
152_E187_Y0.7601.00
141_R147_I0.7591.00
60_P120_T0.7541.00
85_V88_V0.7491.00
18_M58_I0.7471.00
10_L19_K0.7411.00
14_L36_L0.7401.00
65_T91_N0.7381.00
128_T131_Q0.7361.00
54_T73_G0.7291.00
170_L180_I0.7281.00
156_S159_S0.7261.00
51_D54_T0.7261.00
15_A66_R0.7211.00
54_T99_I0.7171.00
17_D90_Y0.7141.00
50_V74_V0.7121.00
62_L66_R0.7071.00
121_C154_V0.7051.00
71_I97_I0.7021.00
52_L105_K0.7011.00
33_A37_S0.6991.00
154_V168_A0.6981.00
73_G84_A0.6981.00
127_K146_E0.6971.00
168_A184_M0.6951.00
51_D120_T0.6931.00
49_I67_S0.6911.00
159_S187_Y0.6881.00
46_K70_D0.6831.00
183_L187_Y0.6831.00
152_E156_S0.6821.00
104_L154_V0.6821.00
47_G117_D0.6821.00
64_S94_D0.6770.99
18_M93_L0.6770.99
48_K163_K0.6750.99
43_P67_S0.6740.99
197_V200_K0.6730.99
98_Q114_N0.6720.99
30_S199_P0.6650.99
8_E11_D0.6630.99
146_E176_R0.6630.99
36_L42_V0.6630.99
113_H160_K0.6620.99
109_E161_L0.6620.99
16_E91_N0.6620.99
196_F200_K0.6600.99
24_P83_M0.6590.99
200_K203_K0.6550.99
149_C154_V0.6520.99
140_L144_R0.6480.99
177_L201_Q0.6450.99
119_V161_L0.6440.99
197_V203_K0.6420.99
74_V100_I0.6420.99
64_S88_V0.6320.99
43_P46_K0.6310.99
36_L41_Y0.6240.99
119_V162_L0.6230.99
20_I24_P0.6230.99
185_K190_E0.6180.99
179_E182_E0.6180.99
126_F173_R0.6170.99
109_E113_H0.6130.99
100_I114_N0.6090.99
41_Y193_R0.6070.99
58_I62_L0.6030.99
88_V91_N0.6020.99
155_I170_L0.6020.99
172_H194_V0.6000.99
48_K117_D0.6000.99
154_V158_S0.5930.99
38_K118_V0.5930.99
128_T146_E0.5910.99
47_G67_S0.5890.99
35_L63_L0.5880.99
35_L59_V0.5850.99
146_E149_C0.5830.98
174_P177_L0.5820.98
62_L65_T0.5800.98
158_S166_G0.5760.98
63_L69_A0.5730.98
127_K176_R0.5700.98
181_F192_K0.5670.98
18_M91_N0.5660.98
176_R180_I0.5640.98
185_K192_K0.5580.98
82_D86_R0.5580.98
52_L161_L0.5530.98
64_S68_K0.5510.98
51_D121_C0.5490.98
69_A96_Q0.5490.98
25_T83_M0.5440.98
79_R82_D0.5440.98
61_L65_T0.5440.98
121_C168_A0.5390.98
131_Q146_E0.5350.97
135_N145_H0.5340.97
68_K96_Q0.5330.97
79_R139_H0.5300.97
106_N109_E0.5290.97
105_K119_V0.5280.97
50_V161_L0.5280.97
83_M87_S0.5250.97
146_E150_T0.5230.97
134_Q141_R0.5230.97
183_L186_A0.5220.97
33_A58_I0.5220.97
26_V80_L0.5220.97
127_K179_E0.5200.97
37_S169_A0.5190.97
50_V108_P0.5190.97
9_R28_A0.5180.97
25_T139_H0.5160.97
23_S28_A0.5150.97
64_S93_L0.5150.97
23_S26_V0.5130.97
85_V101_H0.5100.97
171_V197_V0.5090.96
155_I180_I0.5080.96
194_V202_G0.5070.96
53_C120_T0.5070.96
38_K41_Y0.5030.96
116_Y161_L0.5000.96
76_I101_H0.5000.96
108_P157_V0.5000.96
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  
3lpmA 2 0.8988 100 0.365 Contact Map
2ozvA 2 0.7773 100 0.414 Contact Map
2b3tA 1 0.834 100 0.492 Contact Map
1nv8A 1 0.8219 100 0.511 Contact Map
3evzA 1 0.753 100 0.572 Contact Map
3c6kA 2 0.8097 99.9 0.618 Contact Map
4dzrA 2 0.6113 99.9 0.62 Contact Map
4dcmA 1 0.7126 99.9 0.629 Contact Map
3tm4A 1 0.7652 99.9 0.637 Contact Map
3v97A 1 0.7571 99.9 0.641 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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