Q9HQD2 - HALSA - GREMLIN Contacts

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Q9HQD2 - Sporulation regulator homolog

UniProt:	Q9HQD2	Sequences: MTVRPASGTDIDAVAELWVQLAAEQRAHGSHLLAAENHAQARDLIGQYVHADGVAVTTQAGRTVGFVMFHTETGFYETDRTRGVIDNLYVAPGFRGDGRGSALLTHAERELRSRGADALAIEALADNAAARRLYERRGYAPHRVTFEQSVENDTHSKDDP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	160 (139)
Sequences:	10518 (8303)
Seq/√Len:	704.2

ECOLI - PHNO YPEA MNAT YJGM RIMI YEDL YJAB YIAC YAFP YHHY RIML ATDA RIMJ YHBS
BACSU - YHFO YQJY YHDJ YTMI YWNH PAIA YYCN YDGE YUAI YSNE RIMI YESJ YBFA YYAR SPSD YVBK YOBR YOKL BLTD YDAF YNAD YKKB YJDG YBBJ YOAA YJCK YRKN YITH
HALSA - Q9HQD2 Q9HMI8 Q9HMF0 Q9HSL3 Q9HRK6 Q9HNJ3 Q9HMZ2 Q9HRY5 Q9HRY6 Q9HP19
SULSO - Y209 Q7LXZ8 Q97UX1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
4_R	58_T	3.327	1.00
20_Q	91_A	3.102	1.00
108_E	139_Y	3.098	1.00
67_V	107_A	2.609	1.00
64_V	94_F	2.437	1.00
55_A	106_H	2.311	1.00
101_S	137_R	2.297	1.00
106_H	109_R	2.291	1.00
101_S	136_R	2.079	1.00
83_G	111_L	2.061	1.00
110_E	114_R	2.057	1.00
56_V	63_T	2.045	1.00
59_Q	94_F	2.041	1.00
13_A	16_E	1.991	1.00
128_A	132_R	1.937	1.00
110_E	113_S	1.918	1.00
57_T	99_R	1.893	1.00
94_F	97_D	1.878	1.00
4_R	10_D	1.852	1.00
104_L	137_R	1.758	1.00
131_R	135_E	1.749	1.00
108_E	119_L	1.736	1.00
135_E	141_P	1.666	1.00
71_T	116_A	1.642	1.00
59_Q	64_V	1.625	1.00
62_R	91_A	1.614	1.00
59_Q	97_D	1.607	1.00
106_H	110_E	1.594	1.00
62_R	93_G	1.578	1.00
58_T	63_T	1.563	1.00
132_R	135_E	1.550	1.00
6_A	14_V	1.547	1.00
121_I	134_Y	1.509	1.00
55_A	110_E	1.483	1.00
69_F	107_A	1.468	1.00
16_E	91_A	1.459	1.00
101_S	105_T	1.446	1.00
105_T	137_R	1.410	1.00
141_P	144_V	1.408	1.00
65_G	90_V	1.381	1.00
13_A	63_T	1.379	1.00
16_E	20_Q	1.372	1.00
58_T	61_G	1.333	1.00
131_R	141_P	1.263	1.00
83_G	116_A	1.232	1.00
109_R	113_S	1.232	1.00
125_A	144_V	1.229	1.00
95_R	129_A	1.215	1.00
111_L	116_A	1.187	1.00
111_L	119_L	1.181	1.00
62_R	94_F	1.181	1.00
123_A	127_N	1.176	1.00
41_A	44_L	1.169	1.00
69_F	110_E	1.160	1.00
98_G	101_S	1.155	1.00
67_V	85_I	1.154	1.00
82_R	120_A	1.146	1.00
15_A	19_V	1.135	1.00
91_A	94_F	1.118	1.00
17_L	63_T	1.112	1.00
130_A	134_Y	1.100	1.00
69_F	111_L	1.089	1.00
57_T	65_G	1.073	1.00
67_V	103_L	1.063	1.00
104_L	134_Y	1.061	1.00
19_V	23_A	1.032	1.00
59_Q	62_R	1.025	1.00
37_N	40_Q	1.023	1.00
85_I	104_L	1.023	1.00
33_L	36_E	1.022	1.00
42_R	46_G	1.016	1.00
64_V	99_R	0.993	1.00
6_A	54_V	0.987	1.00
127_N	130_A	0.984	1.00
17_L	21_L	0.971	1.00
11_I	15_A	0.965	1.00
39_A	42_R	0.959	1.00
33_L	37_N	0.959	1.00
88_L	134_Y	0.953	1.00
71_T	114_R	0.948	1.00
70_H	86_D	0.945	1.00
65_G	103_L	0.944	1.00
108_E	112_R	0.936	1.00
38_H	42_R	0.922	1.00
20_Q	93_G	0.918	1.00
100_G	133_L	0.917	1.00
17_L	91_A	0.910	1.00
20_Q	92_P	0.909	1.00
10_D	58_T	0.908	1.00
133_L	137_R	0.897	1.00
121_I	139_Y	0.894	1.00
102_A	105_T	0.886	1.00
123_A	130_A	0.882	1.00
6_A	56_V	0.876	1.00
8_G	42_R	0.874	1.00
82_R	118_A	0.870	1.00
123_A	131_R	0.863	1.00
12_D	16_E	0.861	1.00
36_E	40_Q	0.858	1.00
40_Q	44_L	0.857	1.00
90_V	99_R	0.857	1.00
53_G	110_E	0.851	1.00
108_E	137_R	0.845	1.00
13_A	62_R	0.845	1.00
5_P	110_E	0.834	1.00
25_Q	28_H	0.833	1.00
105_T	109_R	0.831	1.00
128_A	131_R	0.828	1.00
3_V	55_A	0.818	1.00
37_N	41_A	0.814	1.00
23_A	28_H	0.813	1.00
41_A	45_I	0.812	1.00
109_R	112_R	0.812	1.00
96_G	129_A	0.796	1.00
71_T	83_G	0.793	1.00
21_L	89_Y	0.775	1.00
44_L	48_Y	0.759	1.00
5_P	55_A	0.758	1.00
18_W	66_F	0.757	1.00
99_R	102_A	0.749	1.00
119_L	139_Y	0.749	1.00
14_V	66_F	0.748	1.00
84_V	122_E	0.747	1.00
53_G	114_R	0.744	1.00
121_I	130_A	0.744	1.00
128_A	135_E	0.735	1.00
72_E	84_V	0.734	1.00
57_T	103_L	0.730	1.00
24_E	27_A	0.729	1.00
102_A	106_H	0.725	1.00
129_A	132_R	0.724	1.00
8_G	46_G	0.724	1.00
7_S	10_D	0.723	1.00
24_E	92_P	0.716	1.00
68_M	86_D	0.715	1.00
104_L	133_L	0.711	1.00
54_V	68_M	0.701	1.00
66_F	89_Y	0.700	1.00
104_L	139_Y	0.698	1.00
54_V	58_T	0.697	1.00
13_A	17_L	0.693	1.00
3_V	106_H	0.692	1.00
47_Q	51_A	0.688	1.00
106_H	113_S	0.687	1.00
34_A	38_H	0.673	1.00
84_V	120_A	0.668	1.00
3_V	102_A	0.663	1.00
105_T	108_E	0.659	1.00
118_A	142_H	0.650	1.00
40_Q	43_D	0.647	1.00
84_V	87_N	0.643	1.00
130_A	133_L	0.642	1.00
12_D	38_H	0.642	1.00
26_R	29_G	0.633	1.00
45_I	48_Y	0.631	1.00
77_E	80_R	0.628	1.00
3_V	103_L	0.624	1.00
85_I	121_I	0.622	1.00
87_N	124_L	0.617	1.00
16_E	19_V	0.611	1.00
96_G	100_G	0.605	1.00
123_A	134_Y	0.602	1.00
81_T	117_D	0.600	1.00
22_A	26_R	0.590	1.00
16_E	62_R	0.581	1.00
6_A	11_I	0.579	1.00
18_W	22_A	0.576	1.00
65_G	99_R	0.576	1.00
57_T	64_V	0.572	1.00
32_L	37_N	0.570	1.00
94_F	99_R	0.567	1.00
10_D	13_A	0.567	1.00
88_L	121_I	0.566	1.00
132_R	136_R	0.562	1.00
13_A	56_V	0.562	1.00
85_I	119_L	0.561	1.00
72_E	82_R	0.557	1.00
13_A	91_A	0.557	1.00
49_V	52_D	0.554	1.00
88_L	104_L	0.553	1.00
88_L	130_A	0.550	1.00
32_L	35_A	0.547	1.00
85_I	107_A	0.542	1.00
135_E	140_A	0.538	1.00
71_T	81_T	0.531	1.00
23_A	26_R	0.531	1.00
30_S	33_L	0.530	1.00
96_G	132_R	0.524	1.00
8_G	11_I	0.524	1.00
18_W	41_A	0.522	1.00
127_N	133_L	0.522	1.00
35_A	39_A	0.519	1.00
4_R	56_V	0.518	1.00
37_N	45_I	0.517	1.00
85_I	88_L	0.516	1.00
127_N	131_R	0.515	1.00
101_S	132_R	0.515	1.00
22_A	89_Y	0.514	1.00
133_L	136_R	0.513	1.00
21_L	24_E	0.512	0.99
36_E	41_A	0.512	0.99
68_M	87_N	0.511	0.99
39_A	43_D	0.507	0.99
85_I	134_Y	0.504	0.99
96_G	136_R	0.504	0.99
12_D	15_A	0.502	0.99
53_G	69_F	0.501	0.99
83_G	107_A	0.500	0.99

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
3fynA	2	0.8938	99.8	0.327	Contact Map
2oh1A	1	0.9313	99.8	0.343	Contact Map
1ufhA	3	0.9187	99.8	0.344	Contact Map
3dr6A	2	0.975	99.8	0.347	Contact Map
3zj0A	1	0.9375	99.8	0.353	Contact Map
1z4eA	2	0.925	99.8	0.355	Contact Map
3i9sA	4	0.9875	99.8	0.356	Contact Map
1on0A	4	0.9313	99.8	0.356	Contact Map
1s3zA	2	0.8938	99.8	0.357	Contact Map
2j8mA	2	0.9688	99.8	0.357	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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