RNPH - ECOLI - GREMLIN Contacts

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

RNPH - Inactive ribonuclease PH

UniProt:	P0CG19	Sequences: MRPAGRSNNQVRPVTLTRNYTKHAEGSVLVEFGDTKVLCTASIEEGVPRFLKGQGQGWITAEYGMLPRSTHTRNAREAAKGKQGGRTMEIQRLIARALRAAVDLKALGEFTITLDCDVLQADGGTRTASITGACVALVDALQKLVENGKLKTNPMKGMVAAVSVGIVNGEAVCDLEYVEDSAAETDMNVVMTEDGRIIEVQGTAEGEPFTHEELLILLALARGESNPL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10863
Length:	228 (197)
Sequences:	7198 (3182)
Seq/√Len:	226.7

ECOLI - RNPH PNP
BACSU - RNPH PNP
SULSO - RRP42 RRP41

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
39_C	132_G	3.631	1.00
18_R	139_D	3.604	1.00
15_T	31_E	3.288	1.00
31_E	36_K	3.156	1.00
41_A	136_A	3.062	1.00
166_I	213_E	2.960	1.00
173_C	224_E	2.711	1.00
189_V	221_A	2.705	1.00
210_T	213_E	2.568	1.00
39_C	114_L	2.523	1.00
157_G	194_D	2.520	1.00
17_T	31_E	2.484	1.00
16_L	30_V	2.400	1.00
134_C	158_M	2.399	1.00
25_E	68_R	2.347	1.00
157_G	193_E	2.328	1.00
19_N	139_D	2.307	1.00
22_K	34_D	2.301	1.00
16_L	135_V	2.278	1.00
165_G	175_L	2.262	1.00
176_E	179_E	2.173	1.00
211_H	215_L	2.008	1.00
171_A	216_I	1.988	1.00
98_L	133_A	1.984	1.00
166_I	184_E	1.958	1.00
165_G	183_A	1.919	1.00
16_L	131_T	1.911	1.00
37_V	118_V	1.901	1.00
78_A	83_Q	1.866	1.00
21_T	40_T	1.786	1.00
38_L	119_L	1.740	1.00
191_M	225_S	1.722	1.00
69_S	74_N	1.703	1.00
30_V	128_A	1.699	1.00
168_N	182_A	1.699	1.00
29_L	36_K	1.634	1.00
211_H	222_R	1.632	1.00
57_G	95_A	1.613	1.00
171_A	220_L	1.589	1.00
14_V	32_F	1.570	1.00
11_V	173_C	1.564	1.00
166_I	171_A	1.557	1.00
141_L	153_N	1.539	1.00
219_A	223_G	1.533	1.00
167_V	172_V	1.506	1.00
157_G	192_T	1.435	1.00
173_C	220_L	1.426	1.00
97_A	199_E	1.401	1.00
213_E	216_I	1.380	1.00
64_G	87_T	1.379	1.00
21_T	24_A	1.363	1.00
189_V	218_L	1.351	1.00
74_N	77_E	1.326	1.00
138_V	155_M	1.317	1.00
25_E	141_L	1.306	1.00
74_N	84_G	1.303	1.00
130_I	161_A	1.294	1.00
160_A	225_S	1.285	1.00
28_V	135_V	1.284	1.00
48_P	54_Q	1.277	1.00
114_L	133_A	1.267	1.00
95_A	99_R	1.262	1.00
178_V	182_A	1.255	1.00
98_L	137_L	1.245	1.00
215_L	219_A	1.231	1.00
32_F	128_A	1.226	1.00
14_V	131_T	1.222	1.00
116_C	129_S	1.219	1.00
163_S	186_D	1.212	1.00
30_V	132_G	1.204	1.00
212_E	216_I	1.200	1.00
43_I	110_F	1.198	1.00
41_A	114_L	1.194	1.00
161_A	190_V	1.159	1.00
122_D	178_V	1.136	1.00
171_A	217_L	1.133	1.00
56_Q	105_K	1.107	1.00
127_T	161_A	1.101	1.00
169_G	184_E	1.098	1.00
41_A	140_A	1.090	1.00
25_E	42_S	1.086	1.00
97_A	190_V	1.078	1.00
102_V	137_L	1.055	1.00
172_V	179_E	1.054	1.00
73_R	76_R	1.031	1.00
35_T	123_G	1.024	1.00
164_V	173_C	1.016	1.00
164_V	221_A	1.016	1.00
39_C	133_A	1.010	1.00
64_G	83_Q	1.006	1.00
138_V	153_N	1.006	1.00
51_L	56_Q	0.993	1.00
30_V	131_T	0.990	1.00
130_I	159_V	0.989	1.00
45_E	110_F	0.986	1.00
167_V	182_A	0.982	1.00
134_C	155_M	0.977	1.00
24_A	42_S	0.977	1.00
162_V	173_C	0.973	1.00
71_H	74_N	0.967	1.00
211_H	219_A	0.965	1.00
120_Q	123_G	0.952	1.00
167_V	170_E	0.952	1.00
101_A	192_T	0.949	1.00
134_C	138_V	0.937	1.00
191_M	222_R	0.937	1.00
48_P	53_G	0.933	1.00
101_A	157_G	0.927	1.00
84_G	88_M	0.920	1.00
63_Y	125_T	0.916	1.00
44_E	48_P	0.914	0.99
164_V	220_L	0.906	0.99
101_A	134_C	0.904	0.99
184_E	207_E	0.900	0.99
164_V	171_A	0.896	0.99
18_R	135_V	0.890	0.99
83_Q	88_M	0.886	0.99
107_L	154_P	0.883	0.99
43_I	106_A	0.883	0.99
33_G	120_Q	0.881	0.99
26_G	136_A	0.881	0.99
219_A	222_R	0.880	0.99
192_T	198_I	0.876	0.99
84_G	87_T	0.873	0.99
26_G	41_A	0.867	0.99
25_E	43_I	0.863	0.99
56_Q	104_L	0.851	0.99
190_V	199_E	0.849	0.99
24_A	40_T	0.846	0.99
78_A	84_G	0.845	0.99
90_I	124_G	0.843	0.99
77_E	84_G	0.838	0.99
77_E	87_T	0.836	0.99
61_A	94_I	0.834	0.99
126_R	163_S	0.832	0.99
197_I	218_L	0.829	0.99
43_I	141_L	0.828	0.99
12_R	174_D	0.827	0.99
171_A	213_E	0.821	0.99
119_L	123_G	0.817	0.99
17_T	20_Y	0.811	0.99
131_T	160_A	0.810	0.99
43_I	140_A	0.807	0.99
204_A	208_P	0.805	0.99
57_G	104_L	0.795	0.99
37_V	129_S	0.794	0.99
92_R	99_R	0.791	0.99
164_V	187_M	0.790	0.99
54_Q	57_G	0.783	0.98
131_T	161_A	0.779	0.98
162_V	224_E	0.777	0.98
155_M	158_M	0.776	0.98
50_F	56_Q	0.768	0.98
112_I	141_L	0.763	0.98
94_I	116_C	0.762	0.98
63_Y	129_S	0.761	0.98
185_T	209_F	0.759	0.98
88_M	91_Q	0.756	0.98
103_D	106_A	0.750	0.98
19_N	26_G	0.750	0.98
31_E	34_D	0.749	0.98
138_V	158_M	0.745	0.98
216_I	219_A	0.742	0.98
64_G	115_D	0.737	0.98
170_E	179_E	0.732	0.98
220_L	224_E	0.731	0.98
215_L	222_R	0.731	0.98
118_V	123_G	0.730	0.98
44_E	113_T	0.730	0.98
62_E	115_D	0.729	0.98
102_V	112_I	0.727	0.97
18_R	28_V	0.726	0.97
57_G	107_L	0.725	0.97
28_V	139_D	0.721	0.97
21_T	38_L	0.719	0.97
101_A	159_V	0.717	0.97
20_Y	36_K	0.706	0.97
126_R	188_N	0.703	0.97
204_A	207_E	0.700	0.97
90_I	126_R	0.698	0.97
34_D	122_D	0.697	0.97
21_T	28_V	0.696	0.97
24_A	27_S	0.696	0.97
27_S	40_T	0.693	0.97
74_N	78_A	0.691	0.97
112_I	137_L	0.690	0.97
134_C	157_G	0.688	0.97
178_V	181_S	0.685	0.96
17_T	29_L	0.685	0.96
163_S	188_N	0.685	0.96
180_D	186_D	0.684	0.96
141_L	155_M	0.682	0.96
43_I	108_G	0.682	0.96
164_V	189_V	0.680	0.96
37_V	128_A	0.680	0.96
27_S	38_L	0.678	0.96
32_F	131_T	0.678	0.96
209_F	213_E	0.676	0.96
131_T	135_V	0.675	0.96
57_G	110_F	0.674	0.96
10_Q	13_P	0.670	0.96
32_F	123_G	0.669	0.96
67_P	76_R	0.663	0.96
158_M	193_E	0.662	0.96
15_T	29_L	0.657	0.95
59_I	102_V	0.652	0.95
92_R	96_R	0.651	0.95
42_S	113_T	0.651	0.95
70_T	121_A	0.644	0.95
43_I	153_N	0.643	0.95
26_G	139_D	0.642	0.95
32_F	162_V	0.641	0.95
39_C	116_C	0.641	0.95
92_R	95_A	0.640	0.95
57_G	112_I	0.639	0.95
170_E	216_I	0.634	0.95
37_V	132_G	0.632	0.94
104_L	107_L	0.632	0.94
53_G	56_Q	0.630	0.94
116_C	133_A	0.629	0.94
30_V	37_V	0.628	0.94
185_T	204_A	0.620	0.94
32_F	127_T	0.620	0.94
216_I	220_L	0.614	0.94
184_E	213_E	0.612	0.93
58_W	99_R	0.611	0.93
187_M	202_G	0.610	0.93
162_V	225_S	0.609	0.93
168_N	184_E	0.608	0.93
164_V	217_L	0.606	0.93
127_T	188_N	0.605	0.93
29_L	117_D	0.603	0.93
64_G	67_P	0.601	0.93
75_A	113_T	0.600	0.93
44_E	110_F	0.596	0.93
60_T	113_T	0.596	0.93
28_V	132_G	0.595	0.92
124_G	180_D	0.595	0.92
54_Q	107_L	0.588	0.92
127_T	130_I	0.588	0.92
209_F	214_L	0.588	0.92
170_E	212_E	0.587	0.92
212_E	215_L	0.583	0.92
76_R	83_Q	0.581	0.92
23_H	34_D	0.579	0.91
195_G	219_A	0.575	0.91
45_E	108_G	0.574	0.91
51_L	55_G	0.574	0.91
98_L	114_L	0.571	0.91
86_R	90_I	0.571	0.91
63_Y	90_I	0.569	0.91
195_G	200_V	0.567	0.91
20_Y	29_L	0.563	0.90
159_V	198_I	0.562	0.90
34_D	120_Q	0.561	0.90
121_A	177_Y	0.561	0.90
63_Y	87_T	0.561	0.90
218_L	221_A	0.559	0.90
46_G	110_F	0.556	0.90
73_R	77_E	0.556	0.90
42_S	115_D	0.548	0.89
46_G	111_T	0.547	0.89
138_V	141_L	0.547	0.89
103_D	156_K	0.544	0.89
119_L	125_T	0.541	0.88
187_M	197_I	0.539	0.88
189_V	200_V	0.538	0.88
52_K	55_G	0.537	0.88
64_G	74_N	0.536	0.88
101_A	156_K	0.536	0.88
43_I	112_I	0.535	0.88
177_Y	180_D	0.533	0.88
55_G	109_E	0.530	0.87
94_I	130_I	0.529	0.87
107_L	141_L	0.528	0.87
75_A	83_Q	0.525	0.87
116_C	121_A	0.524	0.87
33_G	123_G	0.522	0.87
57_G	108_G	0.521	0.87
195_G	222_R	0.518	0.86
40_T	117_D	0.517	0.86
11_V	162_V	0.517	0.86
134_C	159_V	0.514	0.86
35_T	128_A	0.513	0.86
121_A	125_T	0.511	0.85
110_F	153_N	0.510	0.85
65_M	69_S	0.509	0.85
64_G	78_A	0.509	0.85
221_A	224_E	0.509	0.85
222_R	225_S	0.506	0.85
61_A	129_S	0.503	0.85
11_V	14_V	0.502	0.84
86_R	126_R	0.501	0.84
200_V	222_R	0.501	0.84
176_E	182_A	0.501	0.84
41_A	137_L	0.500	0.84

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
1udnA	5	0.9956	100	0.135	Contact Map
3dd6A	3	0.9912	100	0.144	Contact Map
2po1B	1	0.9693	100	0.145	Contact Map
1oysA	2	0.8947	100	0.148	Contact Map
2wnrA	1	0.9693	100	0.149	Contact Map
2je6A	3	0.9605	100	0.151	Contact Map
3b4tA	3	0.9912	100	0.152	Contact Map
1r6lA	3	0.9868	100	0.153	Contact Map
2nn6E	1	0.9693	100	0.16	Contact Map
3m7nG	1	0.9693	100	0.162	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 0.0085 seconds.