Q9HR09 - HALSA - GREMLIN Contacts

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Q9HR09 - Transcriptional regulatory protein

UniProt:	Q9HR09	Sequences: MRHRNEFPTMSDADTDATTDEHDTTVLVVDDERGLADLYTIWLEDDYDVKTAYSGTEAIDAIDPTIDVALLDRQMPDVSGDDVLDELRERGIECRVAMVTAVEPELDIIGLGFDDYLQKPVDRDTLLETVGRLQRRSTYDDTVAEFFAAARKQALLSESDDPTITDSAEFSALESDLASLRDDLDDVVADFDDADYEVLFRQLSGPDGDTDDG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	213 (174)
Sequences:	72620 (51726)
Seq/√Len:	3921.3

ECOLI - YHJB NARP UVRY CUSR CREB YEDW YJJQ BGLJ TORS OMPR YGEK FIMZ RCSB BASR DPIA EVGA CSGD RCSA PHOP QSEB ARCA PHOB CPXR NARL DCUR UHPA BAER KDPE ARCB BARA RCSC RSTA RSSB YPDB TORR NTRC CHEB GLRR YEHT ATOC ZRAR RCSD EVGS
BACSU - MALR YXJL PHOP YFIK YVFU YKOG CMPA LIAR DESR DEGU YRKP DCTR YHCZ CITT CSSR RESD YCBL YVCP YVRH YDFI YXDJ YCLJ YESN YYCF CHEB SP0A GLNL BCER YBDJ NATR LYTT CHEV
HALSA - Q9HR09 Q9HRE5 Q9HNM3 CHEB BAT O51970 Q9HP91

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
36_A	51_T	3.721	1.00
36_A	53_Y	3.308	1.00
40_T	51_T	3.191	1.00
29_V	58_A	2.705	1.00
59_I	86_E	2.626	1.00
56_T	77_D	2.539	1.00
55_G	78_V	2.383	1.00
78_V	86_E	2.373	1.00
50_K	66_I	2.348	1.00
54_S	77_D	2.299	1.00
25_T	48_D	2.169	1.00
25_T	50_K	2.110	1.00
42_W	123_R	2.090	1.00
52_A	61_A	1.986	1.00
178_A	181_R	1.977	1.00
152_K	155_L	1.955	1.00
40_T	44_E	1.948	1.00
74_Q	102_V	1.898	1.00
53_Y	57_E	1.841	1.00
71_L	83_V	1.841	1.00
84_L	96_V	1.836	1.00
98_M	113_F	1.775	1.00
88_R	114_D	1.725	1.00
98_M	108_I	1.691	1.00
27_L	52_A	1.685	1.00
54_S	57_E	1.658	1.00
61_A	64_P	1.597	1.00
50_K	61_A	1.580	1.00
50_K	64_P	1.578	1.00
24_T	134_Q	1.572	1.00
78_V	82_D	1.569	1.00
55_G	83_V	1.567	1.00
86_E	90_R	1.562	1.00
158_E	162_P	1.556	1.00
115_D	129_T	1.515	1.00
170_F	181_R	1.492	1.00
79_S	82_D	1.451	1.00
43_L	130_V	1.423	1.00
159_S	163_T	1.413	1.00
62_I	87_L	1.407	1.00
164_I	168_A	1.405	1.00
86_E	89_E	1.389	1.00
56_T	78_V	1.373	1.00
69_A	94_C	1.365	1.00
84_L	98_M	1.357	1.00
82_D	85_D	1.345	1.00
97_A	133_L	1.344	1.00
183_D	186_D	1.331	1.00
59_I	83_V	1.320	1.00
68_V	130_V	1.320	1.00
30_D	36_A	1.294	1.00
85_D	111_L	1.291	1.00
33_R	53_Y	1.274	1.00
73_R	81_D	1.261	1.00
136_R	140_D	1.254	1.00
29_V	75_M	1.246	1.00
25_T	64_P	1.232	1.00
61_A	66_I	1.230	1.00
59_I	78_V	1.216	1.00
47_Y	131_G	1.214	1.00
73_R	98_M	1.195	1.00
91_G	94_C	1.189	1.00
163_T	166_D	1.174	1.00
71_L	84_L	1.160	1.00
57_E	61_A	1.160	1.00
127_L	131_G	1.153	1.00
27_L	66_I	1.148	1.00
46_D	131_G	1.147	1.00
57_E	60_D	1.131	1.00
27_L	58_A	1.118	1.00
56_T	60_D	1.116	1.00
60_D	63_D	1.112	1.00
26_V	47_Y	1.101	1.00
31_D	72_D	1.098	1.00
27_L	61_A	1.093	1.00
114_D	133_L	1.085	1.00
52_A	58_A	1.077	1.00
164_I	172_A	1.072	1.00
81_D	108_I	1.071	1.00
81_D	107_D	1.056	1.00
154_A	158_E	1.053	1.00
125_T	128_E	1.046	1.00
110_G	131_G	1.032	1.00
153_Q	190_D	1.031	1.00
182_D	185_D	1.031	1.00
167_S	170_F	1.027	1.00
165_T	168_A	1.018	1.00
58_A	62_I	1.008	1.00
81_D	111_L	1.007	1.00
151_R	155_L	1.000	1.00
39_Y	99_V	0.995	1.00
85_D	107_D	0.990	1.00
192_D	195_D	0.989	1.00
37_D	51_T	0.979	1.00
58_A	83_V	0.978	1.00
128_E	132_R	0.974	1.00
164_I	170_F	0.958	1.00
107_D	111_L	0.941	1.00
106_L	110_G	0.939	1.00
168_A	172_A	0.939	1.00
27_L	62_I	0.936	1.00
95_R	114_D	0.936	1.00
33_R	37_D	0.934	1.00
68_V	134_Q	0.929	1.00
24_T	47_Y	0.926	1.00
29_V	69_A	0.923	1.00
184_L	196_Y	0.917	1.00
69_A	87_L	0.917	1.00
149_A	153_Q	0.916	1.00
105_E	125_T	0.914	1.00
169_E	172_A	0.909	1.00
40_T	49_V	0.906	1.00
34_G	38_L	0.905	1.00
155_L	158_E	0.896	1.00
136_R	139_Y	0.893	1.00
52_A	57_E	0.889	1.00
114_D	136_R	0.880	1.00
84_L	113_F	0.879	1.00
29_V	52_A	0.878	1.00
25_T	67_D	0.877	1.00
71_L	98_M	0.870	1.00
107_D	110_G	0.869	1.00
69_A	96_V	0.868	1.00
37_D	40_T	0.868	1.00
84_L	111_L	0.865	1.00
47_Y	127_L	0.863	1.00
28_V	39_Y	0.862	1.00
179_S	183_D	0.862	1.00
136_R	144_A	0.855	1.00
41_I	45_D	0.854	1.00
164_I	167_S	0.852	1.00
159_S	172_A	0.846	1.00
164_I	169_E	0.845	1.00
73_R	79_S	0.840	1.00
178_A	185_D	0.837	1.00
178_A	182_D	0.835	1.00
75_M	83_V	0.822	1.00
82_D	86_E	0.822	1.00
25_T	66_I	0.821	1.00
33_R	36_A	0.818	1.00
62_I	91_G	0.816	1.00
74_Q	101_A	0.814	1.00
85_D	89_E	0.813	1.00
125_T	129_T	0.802	1.00
144_A	147_F	0.801	1.00
71_L	96_V	0.797	1.00
70_L	126_L	0.792	1.00
109_I	129_T	0.790	1.00
184_L	188_V	0.787	1.00
97_A	129_T	0.783	1.00
123_R	127_L	0.780	1.00
28_V	49_V	0.779	1.00
106_L	124_D	0.774	1.00
37_D	41_I	0.772	1.00
24_T	138_T	0.769	1.00
165_T	169_E	0.768	1.00
153_Q	156_L	0.761	1.00
70_L	99_V	0.760	1.00
185_D	189_A	0.759	1.00
62_I	66_I	0.754	1.00
175_S	180_L	0.746	1.00
186_D	189_A	0.740	1.00
73_R	102_V	0.735	1.00
159_S	168_A	0.729	1.00
188_V	193_D	0.726	1.00
39_Y	126_L	0.724	1.00
62_I	94_C	0.724	1.00
87_L	96_V	0.723	1.00
115_D	132_R	0.723	1.00
165_T	170_F	0.723	1.00
29_V	83_V	0.723	1.00
182_D	186_D	0.722	1.00
121_V	126_L	0.720	1.00
140_D	144_A	0.714	1.00
181_R	184_L	0.702	1.00
28_V	40_T	0.701	1.00
159_S	173_L	0.699	1.00
59_I	62_I	0.693	1.00
55_G	77_D	0.692	1.00
108_I	113_F	0.688	1.00
78_V	83_V	0.687	1.00
105_E	118_Q	0.686	1.00
83_V	87_L	0.685	1.00
110_G	128_E	0.683	1.00
36_A	40_T	0.682	1.00
99_V	121_V	0.678	1.00
177_L	181_R	0.675	1.00
55_G	59_I	0.670	1.00
97_A	115_D	0.666	1.00
122_D	125_T	0.660	1.00
137_S	140_D	0.659	1.00
132_R	135_R	0.656	1.00
142_T	145_E	0.654	1.00
139_Y	144_A	0.654	1.00
30_D	75_M	0.651	1.00
129_T	133_L	0.647	1.00
124_D	128_E	0.642	1.00
87_L	92_I	0.641	1.00
141_D	144_A	0.640	1.00
38_L	42_W	0.636	1.00
150_A	153_Q	0.634	1.00
105_E	122_D	0.634	1.00
65_T	91_G	0.633	1.00
158_E	161_D	0.633	1.00
28_V	51_T	0.630	1.00
140_D	145_E	0.628	1.00
95_R	134_Q	0.626	1.00
143_V	147_F	0.626	1.00
103_E	107_D	0.624	1.00
160_D	184_L	0.618	1.00
35_L	121_V	0.617	1.00
121_V	125_T	0.616	1.00
26_V	68_V	0.614	1.00
84_L	88_R	0.614	1.00
137_S	141_D	0.613	1.00
32_E	101_A	0.613	1.00
70_L	97_A	0.611	1.00
101_A	120_P	0.608	1.00
150_A	190_D	0.606	1.00
152_K	183_D	0.605	1.00
62_I	69_A	0.605	1.00
44_E	49_V	0.604	1.00
167_S	177_L	0.603	1.00
166_D	172_A	0.601	1.00
73_R	108_I	0.601	1.00
24_T	67_D	0.601	1.00
149_A	152_K	0.592	1.00
160_D	163_T	0.590	1.00
167_S	171_S	0.589	1.00
139_Y	142_T	0.587	1.00
88_R	94_C	0.584	1.00
71_L	75_M	0.579	1.00
26_V	43_L	0.578	1.00
88_R	95_R	0.576	1.00
100_T	116_Y	0.573	1.00
32_E	35_L	0.573	1.00
70_L	130_V	0.572	1.00
43_L	47_Y	0.568	1.00
159_S	162_P	0.565	1.00
159_S	164_I	0.563	1.00
42_W	127_L	0.562	1.00
35_L	38_L	0.556	1.00
153_Q	157_S	0.554	1.00
161_D	164_I	0.554	1.00
44_E	48_D	0.549	1.00
176_D	179_S	0.546	1.00
175_S	179_S	0.544	1.00
59_I	90_R	0.540	1.00
72_D	119_K	0.535	1.00
115_D	133_L	0.532	1.00
140_D	143_V	0.525	1.00
38_L	41_I	0.523	1.00
31_D	100_T	0.520	1.00
170_F	173_L	0.515	1.00
27_L	64_P	0.509	1.00
128_E	131_G	0.508	1.00
55_G	75_M	0.506	1.00
155_L	159_S	0.504	1.00
106_L	109_I	0.503	1.00
28_V	36_A	0.501	1.00
65_T	92_I	0.500	1.00

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
3c3wA	2	0.8826	100	0.328	Contact Map
1yioA	1	0.8685	100	0.334	Contact Map
4gvpA	1	0.8826	100	0.335	Contact Map
1a04A	1	0.8826	100	0.347	Contact Map
4ldzA	2	0.8638	100	0.356	Contact Map
3kloA	2	0.892	100	0.361	Contact Map
4hyeA	2	0.8779	100	0.368	Contact Map
1ys7A	2	0.892	100	0.37	Contact Map
4b09A	2	0.8498	100	0.374	Contact Map
3q9sA	1	0.8451	100	0.377	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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