YTZG - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YTZG - Uncharacterized RNA pseudouridine synthase YtzG

UniProt:	O32068	Sequences: MRLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKEHVDPDTQEVTVYGEPVDYREFIYLMMNKPQGVLSATEDSRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLAHRLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPAKAEIKTNDSGNTVIYLTITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALAPGEYRELTEEELHLLNEPQA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	239 (210)
Sequences:	15163 (10264)
Seq/√Len:	708.3

ECOLI - RLUB RSUA RLUF RLUD RLUC RLUA RLUE TRUC
BACSU - YTZG RLUB YHCT YLYB YJBO

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
30_D	46_Q	3.732	1.00
132_T	179_Y	3.680	1.00
167_E	179_Y	3.034	1.00
165_K	183_T	2.903	1.00
28_M	49_T	2.847	1.00
134_E	177_V	2.834	1.00
56_D	109_F	2.653	1.00
34_A	39_E	2.614	1.00
26_A	51_Y	2.600	1.00
58_R	114_N	2.531	1.00
130_P	181_T	2.528	1.00
132_T	181_T	2.316	1.00
61_I	115_D	2.306	1.00
54_P	66_N	2.242	1.00
180_L	194_A	2.184	1.00
6_L	41_V	2.012	1.00
134_E	179_Y	1.952	1.00
136_H	177_V	1.943	1.00
169_K	179_Y	1.915	1.00
43_P	46_Q	1.877	1.00
115_D	118_L	1.867	1.00
20_A	24_A	1.861	1.00
135_V	180_L	1.854	1.00
83_V	110_L	1.774	1.00
65_M	86_L	1.773	1.00
13_G	18_V	1.760	1.00
6_L	10_S	1.753	1.00
17_E	20_A	1.744	1.00
69_Q	107_E	1.706	1.00
71_V	86_L	1.692	1.00
73_S	110_L	1.684	1.00
107_E	203_Y	1.673	1.00
29_I	39_E	1.660	1.00
163_P	183_T	1.649	1.00
125_P	128_H	1.619	1.00
165_K	181_T	1.596	1.00
141_I	176_T	1.590	1.00
3_L	34_A	1.586	1.00
132_T	208_S	1.554	1.00
102_L	110_L	1.514	1.00
137_L	178_I	1.497	1.00
137_L	194_A	1.490	1.00
7_L	18_V	1.488	1.00
178_I	194_A	1.469	1.00
168_I	176_T	1.464	1.00
147_S	151_T	1.432	1.00
140_Q	171_N	1.416	1.00
28_M	33_P	1.411	1.00
119_A	123_L	1.406	1.00
180_L	190_V	1.393	1.00
97_F	119_A	1.372	1.00
189_Q	193_M	1.371	1.00
64_M	109_F	1.369	1.00
164_A	180_L	1.349	1.00
161_T	164_A	1.340	1.00
147_S	150_E	1.339	1.00
139_S	176_T	1.335	1.00
107_E	205_K	1.331	1.00
170_T	177_V	1.313	1.00
29_I	34_A	1.309	1.00
121_R	125_P	1.300	1.00
21_V	50_V	1.292	1.00
135_V	178_I	1.288	1.00
23_K	37_V	1.286	1.00
4_D	19_K	1.276	1.00
188_H	191_K	1.271	1.00
87_L	112_L	1.269	1.00
135_V	201_V	1.266	1.00
136_H	175_N	1.261	1.00
29_I	48_V	1.259	1.00
17_E	21_V	1.256	1.00
64_M	111_L	1.227	1.00
145_D	199_N	1.211	1.00
117_Q	121_R	1.209	1.00
80_Q	104_K	1.204	1.00
138_K	200_E	1.202	1.00
75_T	84_V	1.196	1.00
144_E	171_N	1.182	1.00
139_S	199_N	1.174	1.00
82_T	85_D	1.173	1.00
31_G	49_T	1.172	1.00
13_G	21_V	1.152	1.00
84_V	98_P	1.145	1.00
141_I	199_N	1.134	1.00
140_Q	176_T	1.133	1.00
120_H	124_S	1.119	1.00
59_E	62_Y	1.118	1.00
168_I	171_N	1.114	1.00
42_D	46_Q	1.110	1.00
73_S	98_P	1.108	1.00
136_H	203_Y	1.098	1.00
166_A	194_A	1.094	1.00
175_N	202_V	1.093	1.00
81_Q	86_L	1.092	1.00
19_K	23_K	1.086	1.00
151_T	155_I	1.077	1.00
146_I	150_E	1.076	1.00
68_P	71_V	1.073	1.00
113_T	119_A	1.069	1.00
130_P	183_T	1.068	1.00
62_Y	118_L	1.065	1.00
21_V	26_A	1.062	1.00
171_N	176_T	1.052	1.00
208_S	213_S	1.047	1.00
134_E	169_K	1.044	1.00
137_L	199_N	1.038	1.00
131_K	182_I	1.036	1.00
141_I	178_I	1.030	1.00
164_A	193_M	1.027	1.00
155_I	158_G	1.024	1.00
65_M	87_L	1.023	1.00
149_L	153_V	1.018	1.00
142_S	145_D	1.012	1.00
8_A	15_R	1.011	1.00
143_R	168_I	0.992	1.00
35_K	39_E	0.983	1.00
83_V	112_L	0.975	1.00
72_L	79_R	0.974	1.00
27_V	50_V	0.973	1.00
69_Q	203_Y	0.971	1.00
25_G	33_P	0.967	1.00
70_G	104_K	0.961	1.00
60_F	114_N	0.958	1.00
137_L	176_T	0.957	1.00
145_D	167_E	0.953	1.00
63_L	112_L	0.952	1.00
134_E	207_L	0.951	1.00
164_A	182_I	0.944	1.00
148_D	152_G	0.939	1.00
99_A	113_T	0.937	1.00
138_K	202_V	0.930	1.00
138_K	175_N	0.929	1.00
22_V	37_V	0.928	1.00
61_I	118_L	0.927	1.00
148_D	151_T	0.923	1.00
63_L	87_L	0.919	1.00
49_T	54_P	0.917	1.00
22_V	27_V	0.912	1.00
47_E	54_P	0.910	1.00
195_K	200_E	0.910	1.00
121_R	124_S	0.908	1.00
182_I	190_V	0.907	1.00
140_Q	174_G	0.901	1.00
64_M	212_V	0.899	1.00
149_L	152_G	0.897	1.00
75_T	82_T	0.896	1.00
105_D	205_K	0.891	1.00
75_T	98_P	0.886	1.00
96_P	112_L	0.884	1.00
138_K	209_M	0.874	1.00
155_I	192_Q	0.873	1.00
120_H	123_L	0.864	1.00
130_P	208_S	0.863	1.00
113_T	118_L	0.862	1.00
16_K	19_K	0.861	1.00
105_D	191_K	0.860	1.00
154_Y	160_K	0.856	1.00
137_L	141_I	0.854	1.00
15_R	19_K	0.844	1.00
163_P	166_A	0.843	1.00
154_Y	157_G	0.842	1.00
182_I	189_Q	0.840	1.00
138_K	199_N	0.839	1.00
39_E	42_D	0.832	1.00
19_K	37_V	0.827	1.00
118_L	122_L	0.824	1.00
171_N	174_G	0.823	1.00
41_V	48_V	0.818	1.00
32_K	39_E	0.814	1.00
150_E	153_V	0.810	1.00
39_E	46_Q	0.807	1.00
53_E	86_L	0.805	1.00
106_T	135_V	0.804	1.00
153_V	196_A	0.795	1.00
20_A	23_K	0.795	1.00
76_E	79_R	0.795	1.00
152_G	155_I	0.789	1.00
116_G	119_A	0.789	1.00
7_L	13_G	0.789	1.00
192_Q	195_K	0.782	1.00
142_S	199_N	0.782	1.00
99_A	122_L	0.770	1.00
84_V	112_L	0.761	1.00
179_Y	207_L	0.759	1.00
190_V	201_V	0.759	1.00
209_M	212_V	0.756	1.00
74_A	82_T	0.755	1.00
73_S	102_L	0.753	1.00
167_E	181_T	0.751	1.00
98_P	112_L	0.751	1.00
2_R	40_H	0.745	1.00
13_G	17_E	0.738	1.00
172_D	175_N	0.737	1.00
148_D	197_V	0.737	1.00
116_G	120_H	0.735	1.00
137_L	201_V	0.732	1.00
25_G	35_K	0.729	1.00
140_Q	173_S	0.729	1.00
194_A	201_V	0.725	1.00
138_K	174_G	0.723	1.00
154_Y	196_A	0.721	1.00
146_I	149_L	0.717	1.00
162_K	183_T	0.712	1.00
131_K	189_Q	0.706	1.00
141_I	168_I	0.705	1.00
28_M	51_Y	0.703	1.00
28_M	52_G	0.698	1.00
86_L	89_P	0.697	1.00
6_L	48_V	0.696	1.00
154_Y	158_G	0.690	1.00
106_T	191_K	0.690	1.00
7_L	27_V	0.690	1.00
65_M	83_V	0.688	1.00
166_A	180_L	0.685	1.00
5_K	9_N	0.680	1.00
146_I	151_T	0.678	1.00
141_I	145_D	0.677	1.00
31_G	47_E	0.674	1.00
146_I	152_G	0.666	1.00
35_K	38_K	0.663	1.00
122_L	209_M	0.663	1.00
101_R	185_G	0.659	1.00
73_S	84_V	0.659	1.00
165_K	168_I	0.659	1.00
64_M	215_D	0.658	1.00
145_D	197_V	0.658	1.00
18_V	21_V	0.657	1.00
14_S	17_E	0.642	1.00
71_V	83_V	0.640	1.00
160_K	186_K	0.640	1.00
85_D	88_T	0.637	1.00
7_L	10_S	0.636	1.00
65_M	71_V	0.624	1.00
85_D	89_P	0.622	1.00
121_R	127_K	0.619	1.00
149_L	206_R	0.619	1.00
29_I	46_Q	0.618	1.00
120_H	126_K	0.614	1.00
145_D	168_I	0.614	1.00
193_M	197_V	0.613	1.00
81_Q	85_D	0.611	1.00
136_H	202_V	0.609	1.00
125_P	129_V	0.608	1.00
72_L	78_S	0.606	1.00
4_D	38_K	0.605	1.00
158_G	186_K	0.604	1.00
71_V	81_Q	0.602	1.00
3_L	22_V	0.601	1.00
62_Y	115_D	0.592	1.00
134_E	203_Y	0.592	1.00
123_L	209_M	0.589	1.00
72_L	76_E	0.588	1.00
53_E	65_M	0.587	1.00
131_K	183_T	0.586	1.00
209_M	213_S	0.585	1.00
84_V	96_P	0.584	1.00
30_D	48_V	0.579	1.00
70_G	107_E	0.577	1.00
118_L	121_R	0.575	1.00
184_E	189_Q	0.574	1.00
7_L	11_G	0.573	1.00
99_A	119_A	0.568	1.00
177_V	203_Y	0.567	1.00
54_P	57_Y	0.565	1.00
100_G	110_L	0.560	1.00
93_R	96_P	0.560	1.00
138_K	212_V	0.559	1.00
151_T	154_Y	0.559	1.00
148_D	153_V	0.557	1.00
73_S	83_V	0.555	1.00
141_I	171_N	0.554	1.00
80_Q	85_D	0.552	1.00
131_K	185_G	0.549	1.00
168_I	178_I	0.548	1.00
145_D	166_A	0.548	1.00
139_S	200_E	0.547	1.00
22_V	34_A	0.546	1.00
11_G	18_V	0.546	1.00
141_I	194_A	0.546	1.00
130_P	165_K	0.546	1.00
149_L	193_M	0.545	1.00
106_T	190_V	0.543	1.00
7_L	55_V	0.543	1.00
16_K	20_A	0.539	1.00
63_L	114_N	0.538	1.00
143_R	171_N	0.538	1.00
72_L	77_D	0.536	1.00
74_A	78_S	0.536	1.00
72_L	80_Q	0.535	1.00
72_L	104_K	0.535	1.00
65_M	110_L	0.532	1.00
53_E	90_E	0.532	1.00
12_Y	21_V	0.530	1.00
3_L	48_V	0.525	1.00
66_N	107_E	0.525	1.00
176_T	199_N	0.524	1.00
29_I	41_V	0.523	1.00
19_K	38_K	0.522	1.00
113_T	122_L	0.522	1.00
30_D	47_E	0.522	1.00
147_S	152_G	0.517	1.00
158_G	161_T	0.517	1.00
169_K	177_V	0.515	1.00
186_K	189_Q	0.513	1.00
3_L	29_I	0.511	0.99
192_Q	196_A	0.510	0.99
117_Q	120_H	0.509	0.99
162_K	166_A	0.509	0.99
122_L	125_P	0.509	0.99
84_V	88_T	0.506	0.99
83_V	86_L	0.506	0.99
40_H	43_P	0.504	0.99
28_M	31_G	0.501	0.99
70_G	105_D	0.500	0.99
164_A	189_Q	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
1vioA	2	0.954	100	0.134	Contact Map
1kskA	1	0.9623	100	0.183	Contact Map
4lgtA	1	0.9623	100	0.185	Contact Map
3dh3A	1	0.954	100	0.188	Contact Map
1v9fA	1	0.7699	100	0.201	Contact Map
2omlA	1	0.6946	100	0.298	Contact Map
2gmlA	1	0.7197	100	0.305	Contact Map
2olwA	1	0.6904	100	0.308	Contact Map
1v9kA	1	0.7824	100	0.347	Contact Map
2i82A	1	0.8159	100	0.358	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.

Page generated in 0.0083 seconds.