YRHH - BACSU - GREMLIN Contacts

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YRHH - Putative methyltransferase YrhH

UniProt:	O05400	Sequences: MLENRLYKRSDFWKLFSRKYKLTKTIEHMMIDSIDIQENDRILEIGIGNGTVFKSITKKLKKGSLKSIDPSKRKVRQISRANRKNMGNGEVFHGYPEDIPFDDRTFNKVFSLHTVQSCTDIRLALREIYRVLQIDGRFYISIDTNTGEKEKTYIQLLKDQHFRDLSVIRRASCLCIVAVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	180 (144)
Sequences:	22734 (17356)
Seq/√Len:	1446.3

ECOLI - UBIE UBIG CMOA TAM BIOC SMTA YJHP TEHB YAFE CMOB RLMA CFA
BACSU - YRHH YDAC MENG YXBB YCGJ YODH YBAJ YRRT YQEM YXJB
HALSA - Q9HR81 Q9HND6 Q9HMT2 ARSM Q9HRX3 Q9HR63 Q9HQ85 Q9HSK6
SULSO - Q97X57 Q97WT7 Q7LXN7 Q97ZU8 Q97YX4 Q97WN4 Q97WH3 Q97XD7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
47_I	67_S	2.516	1.00
72_K	93_H	2.515	1.00
41_R	64_S	2.494	1.00
129_Y	162_F	2.386	1.00
68_I	94_G	2.261	1.00
46_G	114_T	2.091	1.00
109_V	128_I	2.078	1.00
132_L	136_G	2.038	1.00
66_K	92_F	2.037	1.00
66_K	106_F	1.952	1.00
78_I	91_V	1.935	1.00
37_Q	40_D	1.899	1.00
101_F	106_F	1.870	1.00
43_L	106_F	1.863	1.00
120_D	123_L	1.812	1.00
75_V	91_V	1.784	1.00
127_E	130_R	1.769	1.00
40_D	108_K	1.765	1.00
45_I	128_I	1.761	1.00
122_R	159_D	1.735	1.00
53_F	65_L	1.729	1.00
114_T	118_C	1.725	1.00
64_S	90_E	1.675	1.00
107_N	133_Q	1.651	1.00
109_V	132_L	1.650	1.00
45_I	96_P	1.642	1.00
128_I	138_F	1.624	1.00
122_R	126_R	1.612	1.00
54_K	82_N	1.611	1.00
70_P	95_Y	1.600	1.00
116_Q	142_I	1.581	1.00
122_R	156_L	1.559	1.00
94_G	100_P	1.558	1.00
41_R	66_K	1.536	1.00
75_V	93_H	1.532	1.00
72_K	76_R	1.509	1.00
47_I	53_F	1.478	1.00
92_F	101_F	1.473	1.00
118_C	124_A	1.452	1.00
66_K	90_E	1.451	1.00
154_I	158_K	1.393	1.00
42_I	108_K	1.384	1.00
53_F	67_S	1.370	1.00
111_S	114_T	1.365	1.00
36_I	40_D	1.359	1.00
132_L	138_F	1.342	1.00
121_I	156_L	1.334	1.00
82_N	91_V	1.316	1.00
41_R	106_F	1.307	1.00
113_H	116_Q	1.304	1.00
117_S	142_I	1.303	1.00
96_P	114_T	1.275	1.00
122_R	160_Q	1.265	1.00
41_R	105_T	1.264	1.00
127_E	131_V	1.261	1.00
132_L	162_F	1.256	1.00
42_I	56_I	1.254	1.00
41_R	107_N	1.248	1.00
41_R	133_Q	1.242	1.00
44_E	47_I	1.233	1.00
54_K	81_A	1.229	1.00
126_R	160_Q	1.206	1.00
77_Q	80_R	1.188	1.00
102_D	105_T	1.185	1.00
125_L	157_L	1.180	1.00
69_D	75_V	1.172	1.00
96_P	118_C	1.159	1.00
103_D	130_R	1.148	1.00
82_N	89_G	1.137	1.00
67_S	91_V	1.136	1.00
66_K	101_F	1.093	1.00
56_I	110_F	1.068	1.00
52_V	112_L	1.065	1.00
99_I	131_V	1.063	1.00
47_I	78_I	1.057	1.00
129_Y	160_Q	1.037	1.00
69_D	74_K	1.034	1.00
155_Q	159_D	1.032	1.00
73_R	76_R	1.019	1.00
112_L	141_S	1.012	1.00
99_I	127_E	1.012	1.00
57_T	88_N	0.991	1.00
71_S	74_K	0.989	1.00
113_H	117_S	0.985	1.00
115_V	118_C	0.979	1.00
113_H	141_S	0.973	1.00
75_V	79_S	0.968	1.00
55_S	59_K	0.967	1.00
33_S	168_I	0.966	1.00
23_T	26_I	0.957	1.00
23_T	27_E	0.953	1.00
85_N	88_N	0.946	1.00
123_L	126_R	0.946	1.00
95_Y	98_D	0.945	1.00
49_N	74_K	0.932	1.00
29_M	33_S	0.924	1.00
76_R	79_S	0.914	1.00
55_S	58_K	0.902	1.00
124_A	128_I	0.883	1.00
52_V	110_F	0.882	1.00
67_S	78_I	0.874	1.00
36_I	39_N	0.872	1.00
154_I	167_V	0.871	1.00
113_H	143_D	0.868	1.00
125_L	160_Q	0.846	1.00
46_G	111_S	0.843	1.00
116_Q	143_D	0.839	1.00
50_G	78_I	0.835	1.00
109_V	131_V	0.830	1.00
30_M	139_Y	0.829	1.00
115_V	124_A	0.826	1.00
53_F	91_V	0.815	1.00
29_M	32_D	0.809	1.00
111_S	128_I	0.804	1.00
29_M	168_I	0.804	1.00
49_N	81_A	0.798	1.00
45_I	109_V	0.798	1.00
43_L	131_V	0.797	1.00
100_P	127_E	0.791	1.00
115_V	125_L	0.775	1.00
47_I	75_V	0.772	1.00
43_L	109_V	0.764	1.00
54_K	58_K	0.760	1.00
97_E	120_D	0.760	1.00
51_T	55_S	0.750	1.00
155_Q	158_K	0.745	1.00
77_Q	81_A	0.744	1.00
150_E	154_I	0.741	1.00
40_D	107_N	0.739	1.00
79_S	91_V	0.739	1.00
111_S	140_I	0.736	1.00
152_T	155_Q	0.736	1.00
52_V	55_S	0.733	1.00
97_E	124_A	0.733	1.00
111_S	118_C	0.732	1.00
101_F	131_V	0.732	1.00
98_D	123_L	0.732	1.00
51_T	81_A	0.730	1.00
123_L	127_E	0.727	1.00
39_N	61_K	0.725	1.00
35_D	137_R	0.714	1.00
81_A	84_K	0.712	1.00
68_I	99_I	0.706	1.00
97_E	118_C	0.703	1.00
80_R	84_K	0.700	1.00
28_H	32_D	0.700	1.00
108_K	137_R	0.693	1.00
106_F	131_V	0.692	1.00
79_S	83_R	0.689	1.00
112_L	116_Q	0.687	1.00
125_L	153_Y	0.685	1.00
111_S	138_F	0.682	1.00
125_L	156_L	0.680	1.00
128_I	132_L	0.676	1.00
98_D	127_E	0.673	1.00
140_I	157_L	0.673	1.00
47_I	69_D	0.667	1.00
115_V	140_I	0.658	1.00
42_I	65_L	0.655	1.00
156_L	159_D	0.648	1.00
25_T	28_H	0.646	1.00
28_H	55_S	0.645	1.00
68_I	92_F	0.635	1.00
53_F	89_G	0.634	1.00
24_K	28_H	0.629	1.00
54_K	57_T	0.624	1.00
32_D	59_K	0.623	1.00
105_T	133_Q	0.621	1.00
104_R	134_I	0.617	1.00
49_N	77_Q	0.616	1.00
108_K	136_G	0.616	1.00
74_K	113_H	0.611	1.00
97_E	123_L	0.602	1.00
101_F	105_T	0.599	1.00
76_R	80_R	0.597	1.00
39_N	60_L	0.589	1.00
52_V	116_Q	0.587	1.00
117_S	143_D	0.585	1.00
94_G	99_I	0.584	1.00
30_M	33_S	0.583	1.00
43_L	68_I	0.583	1.00
103_D	131_V	0.583	1.00
51_T	54_K	0.576	1.00
152_T	156_L	0.568	1.00
112_L	142_I	0.566	1.00
144_T	150_E	0.562	1.00
164_D	167_V	0.561	1.00
144_T	148_E	0.559	1.00
44_E	68_I	0.559	1.00
73_R	77_Q	0.553	1.00
79_S	82_N	0.548	1.00
121_I	124_A	0.547	1.00
138_F	162_F	0.547	1.00
96_P	124_A	0.543	1.00
103_D	127_E	0.541	1.00
142_I	153_Y	0.540	1.00
126_R	129_Y	0.531	1.00
45_I	68_I	0.529	1.00
42_I	110_F	0.528	1.00
97_E	119_T	0.525	1.00
36_I	108_K	0.523	1.00
27_E	143_D	0.520	1.00
158_K	164_D	0.513	1.00
121_I	125_L	0.511	1.00
158_K	165_L	0.511	1.00
49_N	113_H	0.511	1.00
37_Q	61_K	0.510	1.00
27_E	112_L	0.510	1.00
27_E	52_V	0.508	1.00
50_G	91_V	0.506	1.00
30_M	34_I	0.506	1.00
114_T	117_S	0.505	1.00
52_V	56_I	0.503	1.00
83_R	86_M	0.501	1.00
72_K	79_S	0.501	1.00
31_I	59_K	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
4obxA	2	0.9611	100	0.356	Contact Map
4pneA	2	0.9833	100	0.369	Contact Map
2o57A	2	0.9889	100	0.371	Contact Map
3ujcA	1	0.9333	100	0.386	Contact Map
1vl5A	1	0.8611	100	0.391	Contact Map
4fsdA	1	0.8667	100	0.392	Contact Map
4kriA	1	0.9944	100	0.394	Contact Map
4ineA	2	0.9944	100	0.395	Contact Map
4iv0A	1	0.9556	100	0.395	Contact Map
3bkxA	2	0.9944	100	0.396	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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