PGBA_N - PFAM28P - GREMLIN Contacts

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PGBA_N - Plasminogen-binding protein pgbA N-terminal

PFAM:	PF15436	Sequences: PIKTPILSVDGNNATITINSKNIPVGMSGIVVHNYGNGHSAIIARAVVISKDGGIATLKLSPFDALKQDALPTIKTKPKVGDKVILGYLYNRALLIAPNEETYAKITKSYKNKTWIHPDLFAAYLSKEGHPTPTKEDFQKFAKKYSVGLIFIVLKNKLYLLDCISFKILSKKDAPLLPKKAQLPFYTRVEKIDSGWFSKGFGSSEIGDYYPYYYELL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	217 (213)
Sequences:	599 (492)
Seq/√Len:	33.7
META:	0.866

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
31_V	84_V	6.498	1.00
142_A	163_C	5.064	1.00
117_H	188_R	4.474	1.00
152_I	161_L	4.215	1.00
157_K	171_K	3.529	1.00
128_E	140_K	2.991	1.00
107_T	115_W	2.961	1.00
6_I	14_A	2.891	1.00
3_K	83_K	2.804	1.00
99_N	165_S	2.794	1.00
25_V	49_I	2.783	1.00
6_I	78_P	2.663	1.00
93_A	113_K	2.541	1.00
208_D	211_P	2.490	1.00
99_N	178_P	2.465	1.00
46_A	60_L	2.446	1.00
27_M	87_G	2.402	0.99
13_N	57_T	2.176	0.99
26_G	29_G	2.175	0.99
97_A	103_Y	2.131	0.99
11_G	15_T	1.897	0.97
133_P	192_I	1.896	0.97
22_N	25_V	1.869	0.97
131_P	192_I	1.863	0.97
44_A	78_P	1.861	0.97
48_V	86_L	1.845	0.97
45_R	164_I	1.840	0.97
121_F	141_F	1.788	0.96
95_L	107_T	1.756	0.96
130_H	137_D	1.745	0.95
64_D	143_K	1.742	0.95
150_I	163_C	1.735	0.95
47_V	165_S	1.711	0.95
140_K	144_K	1.705	0.95
154_L	159_Y	1.677	0.94
35_Y	76_T	1.676	0.94
62_P	96_I	1.663	0.94
43_I	142_A	1.609	0.93
110_Y	151_F	1.603	0.93
64_D	139_Q	1.596	0.93
72_P	188_R	1.593	0.93
157_K	173_D	1.592	0.92
68_Q	163_C	1.573	0.92
86_L	131_P	1.563	0.92
99_N	102_T	1.524	0.91
6_I	9_V	1.517	0.91
106_I	115_W	1.516	0.90
154_L	161_L	1.491	0.90
159_Y	166_F	1.475	0.89
68_Q	142_A	1.434	0.88
161_L	217_L	1.400	0.87
50_S	157_K	1.385	0.86
69_D	180_K	1.375	0.86
27_M	160_L	1.365	0.85
8_S	31_V	1.359	0.85
115_W	196_W	1.329	0.84
48_V	58_L	1.309	0.83
50_S	116_I	1.303	0.82
25_V	50_S	1.269	0.81
149_L	160_L	1.268	0.81
8_S	15_T	1.264	0.80
90_Y	149_L	1.250	0.80
131_P	186_Y	1.249	0.79
23_I	27_M	1.236	0.79
43_I	163_C	1.235	0.79
213_Y	217_L	1.199	0.77
92_R	138_F	1.194	0.76
161_L	166_F	1.185	0.76
106_I	153_V	1.178	0.75
159_Y	168_I	1.177	0.75
170_S	186_Y	1.175	0.75
213_Y	216_L	1.175	0.75
9_V	80_V	1.171	0.75
86_L	90_Y	1.161	0.74
38_G	47_V	1.140	0.73
66_L	137_D	1.135	0.73
187_T	190_E	1.117	0.71
172_K	197_F	1.116	0.71
113_K	149_L	1.107	0.71
136_E	156_N	1.082	0.69
6_I	16_I	1.072	0.68
103_Y	165_S	1.066	0.68
59_K	168_I	1.057	0.67
99_N	177_L	1.041	0.66
51_K	56_A	1.029	0.65
182_Q	204_S	1.022	0.64
43_I	76_T	1.020	0.64
196_W	201_F	1.015	0.64
200_G	203_S	1.014	0.64
108_K	111_K	1.013	0.64
117_H	186_Y	1.011	0.64
54_G	57_T	1.008	0.63
105_K	172_K	1.008	0.63
30_I	156_N	1.006	0.63
184_P	188_R	0.998	0.62
166_F	169_L	0.997	0.62
63_F	135_K	0.982	0.61
196_W	200_G	0.980	0.61
53_G	59_K	0.978	0.61
48_V	131_P	0.972	0.60
10_D	13_N	0.970	0.60
34_N	55_I	0.963	0.60
103_Y	138_F	0.961	0.60
96_I	138_F	0.961	0.60
9_V	197_F	0.956	0.59
49_I	58_L	0.940	0.58
92_R	146_S	0.939	0.58
4_T	186_Y	0.933	0.57
195_G	205_E	0.932	0.57
129_G	194_S	0.931	0.57
151_F	189_V	0.923	0.56
121_F	137_D	0.922	0.56
11_G	208_D	0.921	0.56
109_S	150_I	0.921	0.56
46_A	58_L	0.918	0.56
49_I	161_L	0.915	0.56
177_L	186_Y	0.904	0.55
43_I	74_I	0.890	0.54
149_L	184_P	0.890	0.54
122_A	192_I	0.888	0.53
86_L	96_I	0.885	0.53
80_V	83_K	0.883	0.53
118_P	189_V	0.874	0.52
115_W	118_P	0.873	0.52
61_S	187_T	0.866	0.52
181_A	189_V	0.866	0.52
62_P	77_K	0.866	0.52
21_K	54_G	0.864	0.51
126_S	131_P	0.863	0.51
42_I	110_Y	0.861	0.51
16_I	19_N	0.859	0.51
52_D	96_I	0.858	0.51
67_K	70_A	0.853	0.51
5_P	17_T	0.852	0.50
194_S	211_P	0.846	0.50
207_G	212_Y	0.843	0.50
74_I	87_G	0.842	0.50
34_N	40_S	0.837	0.49
15_T	58_L	0.835	0.49
72_P	117_H	0.835	0.49
206_I	210_Y	0.832	0.49
9_V	202_G	0.831	0.49
206_I	211_P	0.830	0.49
14_A	80_V	0.829	0.49
88_Y	126_S	0.824	0.48
110_Y	158_L	0.809	0.47
86_L	160_L	0.808	0.47
71_L	191_K	0.806	0.47
49_I	173_D	0.797	0.46
50_S	150_I	0.797	0.46
10_D	108_K	0.793	0.46
41_A	161_L	0.791	0.45
62_P	78_P	0.785	0.45
179_K	182_Q	0.781	0.45
116_I	191_K	0.779	0.44
134_T	153_V	0.777	0.44
31_V	46_A	0.776	0.44
53_G	208_D	0.776	0.44
203_S	215_E	0.773	0.44
66_L	70_A	0.770	0.44
42_I	63_F	0.770	0.44
177_L	191_K	0.767	0.43
91_N	113_K	0.762	0.43
125_L	184_P	0.757	0.43
207_G	215_E	0.756	0.42
44_A	124_Y	0.756	0.42
7_L	16_I	0.756	0.42
95_L	190_E	0.751	0.42
3_K	8_S	0.750	0.42
158_L	172_K	0.733	0.41
40_S	57_T	0.732	0.40
170_S	173_D	0.731	0.40
42_I	151_F	0.725	0.40
93_A	141_F	0.723	0.40
125_L	151_F	0.721	0.40
70_A	166_F	0.720	0.40
117_H	184_P	0.719	0.39
163_C	187_T	0.718	0.39
95_L	106_I	0.718	0.39
100_E	186_Y	0.718	0.39
46_A	84_V	0.717	0.39
34_N	83_K	0.714	0.39
8_S	16_I	0.710	0.39
32_V	190_E	0.708	0.39
6_I	80_V	0.708	0.39
65_A	76_T	0.707	0.38
138_F	146_S	0.707	0.38
99_N	193_D	0.705	0.38
6_I	111_K	0.699	0.38
77_K	136_E	0.698	0.38
42_I	45_R	0.698	0.38
112_N	120_L	0.696	0.38
2_I	97_A	0.692	0.37
11_G	14_A	0.689	0.37
122_A	130_H	0.689	0.37
14_A	60_L	0.688	0.37
183_L	206_I	0.687	0.37
45_R	61_S	0.683	0.37
118_P	167_K	0.681	0.36
8_S	165_S	0.678	0.36
154_L	157_K	0.678	0.36
106_I	204_S	0.676	0.36
207_G	210_Y	0.672	0.36
158_L	169_L	0.666	0.35
33_H	94_L	0.666	0.35
14_A	152_I	0.665	0.35
50_S	53_G	0.664	0.35
23_I	88_Y	0.663	0.35
9_V	133_P	0.662	0.35
102_T	178_P	0.661	0.35
77_K	155_K	0.659	0.35
125_L	192_I	0.658	0.35
27_M	51_K	0.658	0.35
70_A	168_I	0.654	0.34
3_K	9_V	0.652	0.34
182_Q	192_I	0.650	0.34
112_N	118_P	0.645	0.34
77_K	108_K	0.643	0.34
96_I	169_L	0.642	0.33
207_G	211_P	0.640	0.33
47_V	152_I	0.640	0.33
6_I	180_K	0.639	0.33
194_S	204_S	0.637	0.33
35_Y	43_I	0.636	0.33
154_L	158_L	0.630	0.33
121_F	132_T	0.630	0.33
45_R	193_D	0.628	0.32
131_P	189_V	0.626	0.32
135_K	181_A	0.622	0.32
7_L	17_T	0.620	0.32
101_E	104_A	0.617	0.32
56_A	113_K	0.615	0.31
93_A	115_W	0.613	0.31
78_P	142_A	0.604	0.31
98_P	102_T	0.604	0.31
210_Y	217_L	0.604	0.31
128_E	176_L	0.601	0.30
95_L	161_L	0.601	0.30
80_V	84_V	0.600	0.30
132_T	192_I	0.600	0.30
139_Q	164_I	0.600	0.30
15_T	52_D	0.600	0.30
60_L	99_N	0.596	0.30
87_G	90_Y	0.594	0.30
195_G	204_S	0.592	0.30
134_T	194_S	0.591	0.30
4_T	13_N	0.591	0.30
162_D	165_S	0.590	0.30
211_P	215_E	0.588	0.30
106_I	158_L	0.587	0.29
54_G	123_A	0.587	0.29
87_G	153_V	0.587	0.29
77_K	135_K	0.583	0.29
147_V	158_L	0.582	0.29
109_S	204_S	0.581	0.29
120_L	186_Y	0.580	0.29
10_D	80_V	0.579	0.29
141_F	147_V	0.579	0.29
71_L	108_K	0.578	0.29
93_A	166_F	0.577	0.29
130_H	134_T	0.575	0.29
70_A	161_L	0.573	0.28
95_L	180_K	0.573	0.28
38_G	152_I	0.572	0.28
27_M	86_L	0.568	0.28
76_T	87_G	0.567	0.28
86_L	166_F	0.567	0.28
132_T	206_I	0.567	0.28
93_A	96_I	0.563	0.28
68_Q	123_A	0.563	0.28
53_G	108_K	0.561	0.28
126_S	192_I	0.557	0.27
4_T	203_S	0.557	0.27
94_L	128_E	0.556	0.27
140_K	143_K	0.554	0.27
113_K	146_S	0.552	0.27
122_A	187_T	0.552	0.27
87_G	160_L	0.551	0.27
142_A	164_I	0.549	0.27
54_G	59_K	0.547	0.27
58_L	196_W	0.547	0.27
33_H	72_P	0.546	0.27
46_A	190_E	0.546	0.27
141_F	145_Y	0.546	0.27
65_A	106_I	0.545	0.27
197_F	204_S	0.541	0.26
194_S	200_G	0.540	0.26
85_I	138_F	0.539	0.26
9_V	136_E	0.539	0.26
32_V	64_D	0.538	0.26
2_I	147_V	0.537	0.26
89_L	160_L	0.537	0.26
102_T	106_I	0.535	0.26
14_A	17_T	0.535	0.26
83_K	167_K	0.535	0.26
210_Y	213_Y	0.534	0.26
28_S	98_P	0.534	0.26
113_K	160_L	0.531	0.26
84_V	103_Y	0.530	0.26
77_K	110_Y	0.528	0.25
131_P	206_I	0.527	0.25
6_I	60_L	0.525	0.25
96_I	147_V	0.523	0.25
6_I	10_D	0.522	0.25
118_P	188_R	0.520	0.25
135_K	174_A	0.520	0.25
203_S	206_I	0.514	0.25
27_M	115_W	0.514	0.25
93_A	151_F	0.513	0.25
12_N	57_T	0.512	0.24
99_N	202_G	0.512	0.24
66_L	127_K	0.511	0.24
99_N	175_P	0.510	0.24
160_L	172_K	0.508	0.24
46_A	49_I	0.508	0.24
90_Y	94_L	0.507	0.24
92_R	186_Y	0.502	0.24
66_L	153_V	0.501	0.24
9_V	38_G	0.501	0.24
37_N	77_K	0.500	0.24

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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
4gz8A	2	0.447	19.8	0.961	Contact Map
1q47A	2	0.4562	10.2	0.966	Contact Map
3w1eA	1	0.3687	7.3	0.968	Contact Map
4xl8A	3	0.7005	4.9	0.971	Contact Map
1kacA	3	0.7235	4.1	0.972	Contact Map
2wstA	3	0.7143	4	0.972	Contact Map
2bzvA	3	0.5991	3.7	0.972	Contact Map
4qq6A	1	0.2396	3.3	0.973	Contact Map
1qiuA	3	0.7235	2.9	0.974	Contact Map
1ah9A	1	0.3226	2.8	0.974	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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