PSB - HALSA - GREMLIN Contacts

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PSB - Proteasome subunit beta

UniProt:	Q9HR36	Sequences: MFNPNNGSEFARNRARLDDTPNPYEPEVGSLPEGDRSQAGSDTVNKTGTTIVGLTTQDGVLMASDMRASLGGRVISNKNVQKVEEIQPNAALSISGSVGGAQSFIRSLRAEANLYEARRGEYMSIDALSTMASNLLRGGPFFRVVPILGGVDDDGGHVFSLDPAGSSMSDTYTAQGSGMPYALGVLEQEYSEDLTMADAEQVAAHAVKSASERDTASGNGIHITKITHDGLTTVGHKEFDALL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	243 (193)
Sequences:	4168 (2332)
Seq/√Len:	167.9

HALSA - PSB PSA
SULSO - PSA PSB2 PSB1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
195_T	198_D	5.377	1.00
63_A	203_A	3.955	1.00
53_G	62_M	3.191	1.00
57_Q	193_D	3.100	1.00
157_H	169_S	2.560	1.00
53_G	158_V	2.506	1.00
56_T	199_A	2.466	1.00
196_M	227_T	2.461	1.00
51_I	93_S	2.451	1.00
56_T	59_G	2.406	1.00
189_E	205_H	2.388	1.00
90_A	125_I	2.348	1.00
196_M	232_T	2.326	1.00
116_E	122_Y	2.319	1.00
85_E	88_P	2.139	1.00
196_M	200_E	2.114	1.00
54_L	203_A	2.113	1.00
91_A	231_L	2.053	1.00
171_T	192_E	2.034	1.00
62_M	149_G	2.031	1.00
152_D	155_G	1.993	1.00
140_P	143_R	1.960	1.00
58_D	228_H	1.956	1.00
57_Q	195_T	1.920	1.00
191_S	198_D	1.831	1.00
87_Q	116_E	1.821	1.00
55_T	169_S	1.781	1.00
125_I	150_G	1.729	1.00
194_L	202_V	1.724	1.00
147_I	173_T	1.710	1.00
89_N	122_Y	1.687	1.00
61_L	203_A	1.684	1.00
60_V	149_G	1.647	1.00
90_A	128_L	1.647	1.00
56_T	227_T	1.645	1.00
189_E	202_V	1.642	1.00
61_L	200_E	1.634	1.00
200_E	223_I	1.619	1.00
54_L	199_A	1.593	1.00
227_T	232_T	1.526	1.00
227_T	230_G	1.523	1.00
61_L	225_K	1.522	1.00
50_T	178_G	1.477	1.00
124_S	127_A	1.475	1.00
108_L	132_A	1.467	1.00
145_V	163_P	1.460	1.00
58_D	196_M	1.447	1.00
56_T	196_M	1.419	1.00
224_T	231_L	1.418	1.00
112_A	128_L	1.407	1.00
191_S	194_L	1.400	1.00
63_A	223_I	1.367	1.00
190_Y	193_D	1.363	1.00
83_V	224_T	1.339	1.00
200_E	225_K	1.333	1.00
92_L	148_L	1.330	1.00
94_I	101_A	1.328	1.00
59_G	199_A	1.325	1.00
55_T	171_T	1.310	1.00
159_F	169_S	1.303	1.00
201_Q	205_H	1.295	1.00
224_T	233_T	1.286	1.00
190_Y	194_L	1.255	1.00
60_V	158_V	1.252	1.00
92_L	105_I	1.248	1.00
87_Q	122_Y	1.229	1.00
83_V	93_S	1.223	1.00
107_S	111_E	1.219	1.00
86_I	112_A	1.209	1.00
91_A	226_I	1.208	1.00
123_M	128_L	1.206	1.00
185_V	189_E	1.185	1.00
147_I	175_Q	1.175	1.00
111_E	114_L	1.164	1.00
107_S	135_L	1.155	1.00
81_Q	222_H	1.148	1.00
225_K	232_T	1.141	1.00
68_A	80_V	1.138	1.00
174_A	186_L	1.136	1.00
59_G	196_M	1.131	1.00
50_T	182_A	1.127	1.00
115_Y	119_R	1.119	1.00
151_V	228_H	1.113	1.00
136_L	146_P	1.113	1.00
129_S	167_S	1.108	1.00
185_V	206_A	1.102	1.00
61_L	199_A	1.096	1.00
111_E	131_M	1.096	1.00
131_M	135_L	1.090	1.00
66_M	220_G	1.053	0.99
136_L	161_L	1.029	0.99
125_I	157_H	1.028	0.99
52_V	186_L	1.024	0.99
84_E	105_I	1.018	0.99
62_M	91_A	1.000	0.99
197_A	201_Q	0.997	0.99
148_L	161_L	0.992	0.99
55_T	156_G	0.985	0.99
205_H	208_K	0.984	0.99
201_Q	204_A	0.981	0.99
186_L	206_A	0.977	0.99
162_D	166_S	0.970	0.99
110_A	114_L	0.970	0.99
135_L	138_G	0.960	0.99
204_A	221_I	0.954	0.99
70_L	76_S	0.954	0.99
62_M	224_T	0.951	0.99
91_A	224_T	0.945	0.99
204_A	223_I	0.936	0.99
86_I	92_L	0.934	0.99
123_M	131_M	0.924	0.99
160_S	173_T	0.907	0.98
66_M	222_H	0.906	0.98
84_E	94_I	0.899	0.98
105_I	109_R	0.895	0.98
60_V	156_G	0.893	0.98
81_Q	233_T	0.892	0.98
95_S	175_Q	0.891	0.98
170_D	173_T	0.877	0.98
115_Y	127_A	0.877	0.98
185_V	202_V	0.876	0.98
60_V	63_A	0.875	0.98
87_Q	90_A	0.872	0.98
67_R	218_G	0.864	0.98
172_Y	186_L	0.864	0.98
197_A	200_E	0.862	0.98
135_L	142_F	0.862	0.98
62_M	93_S	0.858	0.98
124_S	129_S	0.848	0.97
67_R	75_I	0.841	0.97
53_G	149_G	0.840	0.97
151_V	156_G	0.837	0.97
174_A	182_A	0.835	0.97
114_L	118_R	0.824	0.97
89_N	153_D	0.818	0.97
206_A	210_A	0.815	0.97
104_F	144_V	0.812	0.97
84_E	103_S	0.804	0.97
160_S	170_D	0.803	0.97
132_A	148_L	0.799	0.96
52_V	74_V	0.798	0.96
101_A	144_V	0.797	0.96
198_D	201_Q	0.793	0.96
113_N	116_E	0.792	0.96
110_A	113_N	0.792	0.96
187_E	213_R	0.786	0.96
92_L	146_P	0.783	0.96
101_A	105_I	0.776	0.96
205_H	209_S	0.775	0.96
43_T	46_K	0.774	0.96
222_H	233_T	0.771	0.96
194_L	198_D	0.766	0.95
88_P	122_Y	0.765	0.95
214_D	217_S	0.762	0.95
123_M	127_A	0.760	0.95
56_T	225_K	0.760	0.95
64_S	95_S	0.756	0.95
89_N	123_M	0.749	0.95
69_S	75_I	0.746	0.95
94_I	99_G	0.740	0.95
182_A	206_A	0.738	0.94
124_S	153_D	0.737	0.94
132_A	161_L	0.736	0.94
49_T	65_D	0.735	0.94
152_D	157_H	0.734	0.94
149_G	226_I	0.731	0.94
50_T	207_V	0.729	0.94
47_T	184_G	0.727	0.94
104_F	132_A	0.722	0.94
194_L	199_A	0.720	0.94
98_V	101_A	0.720	0.94
51_I	64_S	0.718	0.94
142_F	163_P	0.716	0.93
67_R	177_S	0.713	0.93
172_Y	183_L	0.711	0.93
61_L	196_M	0.711	0.93
107_S	110_A	0.710	0.93
232_T	235_G	0.708	0.93
196_M	199_A	0.704	0.93
153_D	228_H	0.703	0.93
57_Q	192_E	0.703	0.93
134_N	138_G	0.702	0.93
100_G	141_F	0.699	0.93
139_G	142_F	0.697	0.93
121_E	153_D	0.697	0.93
196_M	225_K	0.694	0.92
90_A	148_L	0.693	0.92
82_K	190_Y	0.690	0.92
195_T	199_A	0.688	0.92
214_D	218_G	0.684	0.92
95_S	166_S	0.684	0.92
64_S	83_V	0.681	0.92
115_Y	123_M	0.677	0.91
52_V	63_A	0.673	0.91
154_D	157_H	0.671	0.91
208_K	211_S	0.668	0.91
115_Y	124_S	0.668	0.91
127_A	130_T	0.659	0.90
147_I	158_V	0.659	0.90
151_V	226_I	0.658	0.90
129_S	159_F	0.654	0.90
198_D	202_V	0.653	0.90
114_L	117_A	0.652	0.90
94_I	146_P	0.648	0.90
126_D	154_D	0.646	0.89
85_E	233_T	0.645	0.89
144_V	186_L	0.645	0.89
67_R	214_D	0.641	0.89
154_D	228_H	0.636	0.89
83_V	91_A	0.634	0.89
133_S	167_S	0.629	0.88
50_T	75_I	0.627	0.88
204_A	208_K	0.626	0.88
213_R	230_G	0.626	0.88
115_Y	121_E	0.622	0.88
145_V	175_Q	0.618	0.87
232_T	236_H	0.616	0.87
130_T	134_N	0.612	0.87
211_S	214_D	0.610	0.87
107_S	131_M	0.610	0.87
88_P	201_Q	0.610	0.87
54_L	202_V	0.609	0.87
96_G	100_G	0.604	0.86
83_V	222_H	0.603	0.86
86_I	128_L	0.601	0.86
108_L	131_M	0.596	0.85
58_D	195_T	0.595	0.85
115_Y	136_L	0.595	0.85
210_A	214_D	0.591	0.85
163_P	175_Q	0.585	0.84
49_T	95_S	0.584	0.84
99_G	166_S	0.584	0.84
86_I	109_R	0.584	0.84
196_M	215_T	0.580	0.84
197_A	229_D	0.579	0.84
132_A	165_G	0.576	0.83
209_S	220_G	0.575	0.83
139_G	161_L	0.574	0.83
113_N	118_R	0.572	0.83
51_I	94_I	0.571	0.83
117_A	128_L	0.568	0.83
151_V	157_H	0.568	0.83
57_Q	88_P	0.566	0.82
73_R	76_S	0.564	0.82
97_S	100_G	0.564	0.82
167_S	170_D	0.562	0.82
96_G	165_G	0.561	0.82
59_G	178_G	0.560	0.82
97_S	103_S	0.557	0.81
82_K	177_S	0.557	0.81
200_E	234_V	0.555	0.81
104_F	141_F	0.555	0.81
172_Y	190_Y	0.554	0.81
84_E	101_A	0.553	0.81
185_V	209_S	0.550	0.80
84_E	95_S	0.550	0.80
51_I	147_I	0.546	0.80
78_K	81_Q	0.546	0.80
233_T	236_H	0.542	0.80
219_N	236_H	0.537	0.79
97_S	143_R	0.537	0.79
156_G	228_H	0.532	0.78
210_A	217_S	0.532	0.78
173_T	183_L	0.530	0.78
129_S	148_L	0.530	0.78
130_T	133_S	0.530	0.78
116_E	120_G	0.528	0.78
227_T	231_L	0.526	0.78
60_V	226_I	0.522	0.77
106_R	109_R	0.522	0.77
126_D	130_T	0.521	0.77
75_I	78_K	0.518	0.76
159_F	167_S	0.517	0.76
187_E	209_S	0.517	0.76
48_G	82_K	0.516	0.76
85_E	229_D	0.515	0.76
197_A	236_H	0.514	0.76
177_S	214_D	0.512	0.76
120_G	127_A	0.510	0.75
106_R	180_P	0.510	0.75
86_I	108_L	0.509	0.75
82_K	95_S	0.509	0.75
229_D	232_T	0.508	0.75
178_G	181_Y	0.505	0.75
58_D	227_T	0.505	0.75
81_Q	105_I	0.504	0.74
60_V	147_I	0.502	0.74
204_A	207_V	0.501	0.74
91_A	174_A	0.500	0.74
183_L	213_R	0.500	0.74

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
1rypC	1	0.9259	100	0.158	Contact Map
4r3oB	1	0.9177	100	0.159	Contact Map
1rypF	1	0.9136	100	0.163	Contact Map
4r3oC	1	0.9218	100	0.166	Contact Map
4r3oA	1	0.93	100	0.172	Contact Map
4r3oE	1	0.9012	100	0.174	Contact Map
1rypB	1	0.9177	100	0.176	Contact Map
1rypA	1	0.9095	100	0.176	Contact Map
1yarA	3	0.8807	100	0.176	Contact Map
4r3oF	1	0.9053	100	0.176	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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