YHAQ - BACSU - GREMLIN Contacts

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YHAQ - Uncharacterized ABC transporter ATP-binding protein YhaQ

UniProt:	C0SPB4	Sequences: MLTIDHVTKTFGDYKAVDGLDLDIPEQQMFGLLGANGAGKTTTFRMILGLLSITEGSISWKGRPVNYHISNKIGYLPEERGLYPKMKVRDQLVYLARLKGMEKREAVKELGTWLERFNITDYENKKVEELSKGNQQKIQFISAVLHKPELLILDEPFSGLDPVNVELLKEAVISLKNSGVSILFSSHRMEHVEELCENLCILQKGKPVVQGKLKEIKRSFGKKNVTIHSDDDLRFLQSHEGILQWKETADGVKLQIANEDISQEIFAMLQGKGFIRKFELEEPSLHDIFIEKVGAVYE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	298 (230)
Sequences:	105120 (62045)
Seq/√Len:	4091.1

ECOLI - YADG METN PROV MALK UGPC FBPC POTG POTA YCJV CYSA MACB YDCT YEHX ARAG RBSA OPPD DPPD DPPF SAPD DDPD MODC OPPF TAUB MLAF DDPF FEPC YTFR HISP YECC FECE GSIA SAPF GLNQ NIKE LSRA LPTB PHNC FHUC MDLB MDLA CYDC SSUB YHDZ GLTL YHES YPHE UUP LIVG MSBA YOJI PHNK XYLG ALSA CYDD SUFC THIQ LIVF FTSE ZNUC ARTP MODF PSTB LOLD MGLA BTUD NIKD FETA YBBA ETTA CCMA PHNL YNJD YDDA YEJF YBHF YBIT YHIH
BACSU - YHAQ YFIL YVRA YXLF OPUBA OPUCA YVFR OPUAA YHCH TAGH METN YDBJ YURJ YCBN MSMX YTRB OPPD YKFD APPD DPPD OPPF RBSA APPF YFMM YKPA YFMF FHUC ECFA1 YUSV TCYN ECSA SKFE YCLP YLMA SUFC YXEO YHEH YVCR YFIC BCEA TCYC YXDL GLNQ NATA YFIB YKNV YTLC YFMR FTSE YGAD ARTM ECFA2 YTHP SUNT YHEI YWJA ALBC BMRA YKNU YKOD MNTB YVRO PSTB1 CYDD YDIF SSUB CYDC PSTB2 YKNY YJKB YHCG YUFO YYBJ ZNUC YCLH EXPZ YYDI YTRE
HALSA - Q9HRJ6 Q9HMX3 BTUDA Q9HHQ5 Q9HMU8 Q9HMW0 Q9HNZ9 Q9HRH8 Q9HR06 Q9HMT3 Q9HMX2 Q9HMG1 Q9HHM2 PHNC Q9HNY3 Q9HMG6 PSTB2 Q9HSQ7 Q9HRZ9 Y1631 Y2317 Q9HRV7 Q9HHR7 Q9HS04 PSTB1 Q9HR96 Q9HR21 Q9HQA8 Q9HT03 Q9HMC1 Q9HMW1
SULSO - Q7LX64 Q97UF2 Q97UY8 Q97YY4 Q97VH6 Q97X18 Q97YK2 Q97YQ7 Q97ZC0 Q97VC1 Q97UH3 Q97VF5 Q97VK8 Q97YP3 Q97YP7 Q97UD4 Q97VK9 Q97UJ9 Q97YP8 Q97VF4 Q97Z03 Q97U54 Y2030 Y1893 Q97UH4 Q97W42 Q97V01 Q7LY07 PSTB Q97V00 Q980W0 Q97VM2 Q7LXM4 Q97VY4 Q7LX80 Q97Z56 Q97UG5 Q97Z96 Q97UC2 Q97YP4 Q97ZU0 Q980K5 Q980E6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_Q	198_N	3.504	1.00
72_K	149_E	3.110	1.00
15_K	18_D	3.084	1.00
3_T	23_D	3.042	1.00
6_H	19_G	2.975	1.00
198_N	210_Q	2.918	1.00
5_D	57_S	2.873	1.00
30_F	200_C	2.842	1.00
122_Y	125_K	2.713	1.00
57_S	64_P	2.678	1.00
31_G	196_C	2.670	1.00
25_P	28_Q	2.635	1.00
10_T	15_K	2.509	1.00
3_T	59_S	2.455	1.00
18_D	206_K	2.357	1.00
212_K	215_E	2.318	1.00
211_G	215_E	2.285	1.00
8_T	15_K	2.261	1.00
8_T	55_E	2.250	1.00
5_D	59_S	2.192	1.00
8_T	19_G	2.157	1.00
9_K	46_M	2.116	1.00
200_C	210_Q	2.053	1.00
200_C	207_P	1.995	1.00
4_I	7_V	1.966	1.00
61_K	149_E	1.962	1.00
102_E	105_E	1.953	1.00
26_E	149_E	1.841	1.00
111_G	123_E	1.775	1.00
109_E	147_K	1.771	1.00
111_G	119_I	1.761	1.00
147_K	180_V	1.736	1.00
88_V	130_L	1.727	1.00
116_R	178_S	1.709	1.00
173_I	194_E	1.667	1.00
44_F	152_I	1.666	1.00
89_R	93_V	1.648	1.00
44_F	185_S	1.631	1.00
89_R	123_E	1.604	1.00
186_S	192_V	1.601	1.00
193_E	214_K	1.549	1.00
89_R	124_N	1.544	1.00
11_F	42_T	1.531	1.00
111_G	115_E	1.523	1.00
125_K	129_E	1.521	1.00
22_L	200_C	1.510	1.00
11_F	16_A	1.503	1.00
109_E	112_T	1.496	1.00
107_V	111_G	1.462	1.00
211_G	216_I	1.454	1.00
9_K	51_L	1.454	1.00
6_H	21_D	1.448	1.00
9_K	54_T	1.421	1.00
112_T	116_R	1.418	1.00
28_Q	197_E	1.418	1.00
64_P	67_Y	1.400	1.00
115_E	120_T	1.384	1.00
220_F	224_N	1.368	1.00
61_K	72_K	1.366	1.00
24_I	30_F	1.360	1.00
8_T	18_D	1.357	1.00
114_L	123_E	1.356	1.00
4_I	22_L	1.345	1.00
10_T	54_T	1.341	1.00
93_V	106_A	1.338	1.00
30_F	210_Q	1.318	1.00
49_G	52_S	1.302	1.00
85_K	90_D	1.275	1.00
7_V	53_I	1.268	1.00
59_S	64_P	1.262	1.00
30_F	198_N	1.244	1.00
25_P	198_N	1.229	1.00
87_K	90_D	1.212	1.00
203_Q	208_V	1.212	1.00
20_L	43_T	1.204	1.00
224_N	228_H	1.198	1.00
4_I	47_I	1.197	1.00
31_G	192_V	1.196	1.00
113_W	145_L	1.195	1.00
215_E	219_S	1.194	1.00
17_V	46_M	1.181	1.00
22_L	43_T	1.178	1.00
29_M	176_K	1.167	1.00
175_L	180_V	1.159	1.00
10_T	13_D	1.150	1.00
209_V	219_S	1.147	1.00
5_D	23_D	1.146	1.00
63_R	68_H	1.145	1.00
91_Q	142_S	1.117	1.00
48_L	75_Y	1.116	1.00
32_L	43_T	1.116	1.00
213_L	223_K	1.115	1.00
147_K	178_S	1.103	1.00
222_K	225_V	1.097	1.00
29_M	196_C	1.092	1.00
169_K	191_H	1.081	1.00
93_V	110_L	1.074	1.00
108_K	112_T	1.073	1.00
74_G	148_P	1.065	1.00
103_K	107_V	1.063	1.00
46_M	53_I	1.060	1.00
29_M	184_F	1.059	1.00
166_E	170_E	1.050	1.00
105_E	108_K	1.045	1.00
160_L	168_L	1.032	1.00
26_E	61_K	1.030	1.00
89_R	107_V	1.024	1.00
122_Y	130_L	1.021	1.00
43_T	202_L	1.021	1.00
153_L	182_I	1.021	1.00
92_L	145_L	1.020	1.00
214_K	218_R	1.018	1.00
78_E	132_K	1.016	1.00
93_V	107_V	1.013	1.00
102_E	106_A	1.010	1.00
96_A	100_G	1.010	1.00
223_K	226_T	1.009	1.00
165_V	188_R	0.984	1.00
165_V	191_H	0.976	1.00
104_R	108_K	0.975	1.00
112_T	115_E	0.974	1.00
4_I	43_T	0.973	1.00
29_M	182_I	0.972	1.00
209_V	220_F	0.970	1.00
89_R	110_L	0.970	1.00
86_M	90_D	0.967	1.00
5_D	21_D	0.965	1.00
173_I	176_K	0.958	1.00
45_R	51_L	0.956	1.00
110_L	113_W	0.956	1.00
151_L	180_V	0.955	1.00
76_L	153_L	0.943	1.00
113_W	141_I	0.940	1.00
87_K	124_N	0.940	1.00
199_L	213_L	0.938	1.00
35_A	203_Q	0.935	1.00
6_H	55_E	0.932	1.00
103_K	106_A	0.930	1.00
208_V	222_K	0.927	1.00
106_A	110_L	0.926	1.00
92_L	114_L	0.926	1.00
176_K	182_I	0.923	1.00
116_R	174_S	0.918	1.00
32_L	200_C	0.917	1.00
96_A	99_K	0.912	1.00
47_I	183_L	0.911	1.00
215_E	218_R	0.907	1.00
9_K	42_T	0.906	1.00
209_V	221_G	0.905	1.00
105_E	109_E	0.898	1.00
4_I	58_I	0.891	1.00
90_D	93_V	0.887	1.00
171_A	174_S	0.885	1.00
32_L	183_L	0.882	1.00
109_E	113_W	0.875	1.00
89_R	111_G	0.870	1.00
99_K	146_H	0.870	1.00
74_G	143_A	0.868	1.00
130_L	138_I	0.866	1.00
113_W	117_F	0.864	1.00
153_L	172_V	0.863	1.00
63_R	72_K	0.863	1.00
117_F	141_I	0.863	1.00
151_L	182_I	0.860	1.00
120_T	123_E	0.850	1.00
96_A	145_L	0.848	1.00
176_K	197_E	0.845	1.00
127_V	138_I	0.835	1.00
19_G	206_K	0.833	1.00
155_E	187_H	0.829	1.00
101_M	105_E	0.828	1.00
48_L	152_I	0.828	1.00
46_M	58_I	0.827	1.00
52_S	66_N	0.824	1.00
97_R	106_A	0.819	1.00
118_N	167_L	0.814	1.00
169_K	194_E	0.812	1.00
7_V	46_M	0.809	1.00
106_A	111_G	0.808	1.00
87_K	126_K	0.796	1.00
24_I	183_L	0.796	1.00
88_V	138_I	0.796	1.00
76_L	140_F	0.792	1.00
207_P	210_Q	0.787	1.00
224_N	227_I	0.786	1.00
10_T	16_A	0.785	1.00
122_Y	134_N	0.782	1.00
102_E	111_G	0.782	1.00
118_N	121_D	0.779	1.00
170_E	173_I	0.779	1.00
222_K	226_T	0.777	1.00
82_L	135_Q	0.772	1.00
107_V	110_L	0.771	1.00
167_L	170_E	0.771	1.00
38_A	202_L	0.767	1.00
29_M	173_I	0.767	1.00
17_V	20_L	0.755	1.00
10_T	18_D	0.752	1.00
149_E	180_V	0.751	1.00
209_V	216_I	0.750	1.00
96_A	106_A	0.749	1.00
184_F	196_C	0.746	1.00
193_E	213_L	0.746	1.00
172_V	182_I	0.744	1.00
225_V	229_S	0.739	1.00
226_T	230_D	0.736	1.00
76_L	143_A	0.734	1.00
126_K	129_E	0.733	1.00
24_I	181_S	0.732	1.00
223_K	227_I	0.731	1.00
157_F	168_L	0.730	1.00
225_V	228_H	0.727	1.00
53_I	66_N	0.725	1.00
26_E	179_G	0.722	1.00
57_S	66_N	0.719	1.00
20_L	207_P	0.718	1.00
105_E	119_I	0.715	1.00
93_V	97_R	0.715	1.00
193_E	217_K	0.713	1.00
46_M	51_L	0.712	1.00
51_L	54_T	0.711	1.00
132_K	137_K	0.710	1.00
80_R	139_Q	0.710	1.00
152_I	183_L	0.709	1.00
64_P	68_H	0.708	1.00
86_M	91_Q	0.706	1.00
85_K	128_E	0.706	1.00
28_Q	210_Q	0.705	1.00
213_L	217_K	0.705	1.00
130_L	134_N	0.703	1.00
25_P	181_S	0.694	1.00
29_M	195_L	0.693	1.00
30_F	183_L	0.691	1.00
19_G	55_E	0.689	1.00
2_L	47_I	0.686	1.00
105_E	114_L	0.685	1.00
203_Q	227_I	0.683	1.00
69_I	73_I	0.682	1.00
203_Q	222_K	0.682	1.00
113_W	116_R	0.680	1.00
2_L	150_L	0.679	1.00
170_E	174_S	0.676	1.00
36_N	164_N	0.676	1.00
101_M	106_A	0.672	1.00
95_L	142_S	0.671	1.00
91_Q	127_V	0.669	1.00
95_L	99_K	0.668	1.00
33_L	201_I	0.656	1.00
220_F	223_K	0.655	1.00
47_I	58_I	0.654	1.00
33_L	189_M	0.650	1.00
209_V	224_N	0.648	1.00
189_M	217_K	0.643	1.00
150_L	181_S	0.642	1.00
17_V	43_T	0.632	1.00
115_E	121_D	0.632	1.00
45_R	50_L	0.631	1.00
173_I	195_L	0.629	1.00
33_L	192_V	0.627	1.00
15_K	19_G	0.623	1.00
6_H	9_K	0.623	1.00
114_L	119_I	0.622	1.00
61_K	150_L	0.621	1.00
59_S	62_G	0.620	1.00
108_K	111_G	0.616	1.00
87_K	91_Q	0.614	1.00
89_R	120_T	0.612	1.00
227_I	230_D	0.609	1.00
23_D	210_Q	0.608	1.00
107_V	123_E	0.607	1.00
73_I	150_L	0.607	1.00
2_L	60_W	0.606	1.00
203_Q	206_K	0.604	1.00
12_G	15_K	0.600	1.00
9_K	17_V	0.599	1.00
227_I	231_D	0.598	1.00
170_E	194_E	0.596	1.00
79_E	135_Q	0.595	1.00
36_N	155_E	0.594	1.00
111_G	120_T	0.588	1.00
63_R	67_Y	0.587	1.00
10_T	55_E	0.587	1.00
112_T	147_K	0.586	1.00
186_S	191_H	0.584	1.00
100_G	103_K	0.582	1.00
83_Y	91_Q	0.582	1.00
48_L	73_I	0.579	1.00
15_K	55_E	0.577	1.00
196_C	199_L	0.573	1.00
24_I	150_L	0.571	1.00
96_A	101_M	0.567	1.00
62_G	65_V	0.567	1.00
61_K	65_V	0.566	1.00
11_F	51_L	0.566	1.00
10_T	14_Y	0.564	1.00
74_G	146_H	0.563	1.00
49_G	66_N	0.563	1.00
192_V	196_C	0.562	1.00
60_W	150_L	0.562	1.00
46_M	54_T	0.561	1.00
95_L	98_L	0.561	1.00
101_M	109_E	0.559	1.00
114_L	117_F	0.555	1.00
220_F	228_H	0.554	1.00
80_R	135_Q	0.554	1.00
198_N	212_K	0.551	1.00
164_N	167_L	0.551	1.00
136_Q	159_G	0.550	1.00
174_S	178_S	0.547	1.00
150_L	183_L	0.541	1.00
60_W	72_K	0.540	1.00
113_W	144_V	0.539	1.00
77_P	80_R	0.537	1.00
14_Y	204_K	0.536	1.00
118_N	174_S	0.536	1.00
111_G	121_D	0.535	1.00
191_H	195_L	0.534	1.00
215_E	221_G	0.534	1.00
27_Q	181_S	0.527	1.00
188_R	191_H	0.524	1.00
216_I	225_V	0.523	1.00
18_D	204_K	0.521	1.00
29_M	197_E	0.521	1.00
131_S	134_N	0.520	1.00
16_A	42_T	0.520	1.00
201_I	216_I	0.518	1.00
26_E	181_S	0.517	1.00
47_I	152_I	0.517	1.00
97_R	103_K	0.514	1.00
92_L	105_E	0.514	1.00
86_M	94_Y	0.512	1.00
221_G	226_T	0.512	1.00
57_S	67_Y	0.510	1.00
3_T	62_G	0.508	1.00
76_L	139_Q	0.508	1.00
38_A	204_K	0.507	1.00
41_T	45_R	0.507	1.00
95_L	146_H	0.506	1.00
157_F	191_H	0.505	1.00
82_L	127_V	0.504	1.00
92_L	110_L	0.503	1.00
49_G	53_I	0.503	1.00
190_E	194_E	0.501	1.00
7_V	58_I	0.501	1.00
217_K	220_F	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
4yerA	2	0.9128	100	0.113	Contact Map
3tuiC	2	1	100	0.159	Contact Map
4rvcA	4	0.7919	100	0.181	Contact Map
4u00A	1	0.7852	100	0.182	Contact Map
1v43A	2	0.9497	100	0.182	Contact Map
4ymuJ	2	0.7819	100	0.183	Contact Map
1vplA	2	0.7852	100	0.184	Contact Map
2oljA	2	0.7819	100	0.184	Contact Map
1g291	4	0.9899	100	0.186	Contact Map
1b0uA	2	0.7987	100	0.187	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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