Q97YP3 - SULSO - GREMLIN Contacts

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Q97YP3 - Oligo/dipeptide transport, ATP binding protein . (DppD-2)

UniProt:	Q97YP3	Sequences: MSLQVRDLNISYKIGKGSIRAINRVYFQLEKGDSLGVIGETGSGKTTIANAIMRALPENAEYSGSIFFNNKDILKMDQETYRKEIRWKKISIIPQYSMNAFNPIKRVGEQLVKIMMENDSNIDTSKASERIFYLFNQLSLPPEIYKKLPDELSGGQRQRVVIASALLLDPELVIADEPTTALDVINQARVISLIKREIVDKQKTLIYITHDIAVVAGVAKKVLTLYAGEIMEFGDSRKIFKEPLHPYSKGLLSSVPDIRFGKVKKVHYIPGDPPDLSKEIKGCPFAPRCSIAKDICKVEKPKLRYVDGRYVACHLVGGEENGQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (256)
Sequences:	59317 (36216)
Seq/√Len:	2263.5

ECOLI - DPPF CYSA PROV OPPF POTG OPPD FBPC DDPD SAPD MALK DPPD POTA YCJV UGPC METN DDPF YDCT YEHX GSIA MODC YADG YHES RBSA ARAG UUP FEPC MACB MDLB SAPF MLAF FECE MDLA NIKE MSBA CYDC CYDD TAUB FHUC YTFR HISP YECC LSRA ETTA PHNC YOJI GLNQ SSUB YHDZ MODF LPTB PHNK GLTL SUFC ARTP LIVG YPHE ALSA THIQ ZNUC FTSE BTUD LIVF XYLG LOLD PSTB MGLA NIKD FETA YEJF YBBA PHNL YBHF YDDA CCMA YNJD YBIT YHIH
BACSU - OPUCA OPUBA OPPD OPUAA DPPD APPD YVRA MSMX YKFD METN YURJ APPF YKPA OPPF YHCH YFMM YFIL TAGH YHAQ YXLF YVFR YCBN YDBJ YDIF YHEH YUSV SUNT RBSA ECFA1 YTRB YFIB YFMR FHUC YFIC YKNV BMRA YCLP YFMF YLMA TCYN YGAD YWJA YKNU YHEI CYDC YTLC ECFA2 BCEA CYDD YXDL SUFC YKOD YXEO ARTM ECSA GLNQ TCYC SSUB YVCR YJKB SKFE NATA FTSE YKNY MNTB YVRO ALBC PSTB1 EXPZ YTHP PSTB2 YHCG YCLH ZNUC YUFO YYBJ YTRE YYDI
HALSA - Q9HMX3 Q9HMW0 BTUDA Q9HMX2 Q9HHQ5 Q9HNZ9 Q9HR06 Q9HMT3 Q9HRJ6 Q9HMG1 Q9HMU8 Q9HSQ7 Q9HRH8 PSTB2 PHNC Q9HMG6 Q9HHM2 Q9HNY3 Y1631 Q9HRV7 Q9HRZ9 Y2317 PSTB1 Q9HR96 Q9HHR7 Q9HT03 Q9HS04 Q9HQA8 Q9HR21 Q9HMC1 Q9HMW1
SULSO - Q97YP3 Q97UF2 Q97UH3 Q97VF5 Q97UY8 Q97VK8 Q97YY4 Q97YP7 Q97ZC0 Q97VC1 Q97VK9 Q97YP8 Q97VH6 Q7LX64 Q97UJ9 Q97VF4 Q97YK2 Q97UD4 Q97X18 Q97YQ7 Y1893 Q97U54 Y2030 Q97Z03 Q980W0 Q97UH4 PSTB Q97W42 Q97V00 Q7LY07 Q7LXM4 Q97V01 Q97VM2 Q97VY4 Q7LX80 Q97UG5 Q97Z56 Q97YP4 Q97Z96 Q97UC2 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
33_D	221_K	3.879	1.00
89_K	171_E	3.203	1.00
7_D	24_R	3.147	1.00
4_Q	28_Q	3.054	1.00
6_R	65_S	2.961	1.00
20_R	23_N	2.832	1.00
35_L	223_L	2.793	1.00
10_I	51_A	2.653	1.00
65_S	72_D	2.554	1.00
36_G	219_A	2.541	1.00
235_D	238_K	2.498	1.00
30_E	33_D	2.433	1.00
221_K	233_F	2.405	1.00
69_N	171_E	2.385	1.00
11_S	20_R	2.385	1.00
144_I	147_K	2.357	1.00
223_L	230_I	2.326	1.00
4_Q	67_F	2.322	1.00
123_D	126_K	2.224	1.00
23_N	229_E	2.216	1.00
137_Q	201_K	2.204	1.00
9_N	63_S	2.155	1.00
9_N	24_R	2.072	1.00
196_R	200_D	2.060	1.00
5_V	8_L	2.047	1.00
31_K	171_E	1.968	1.00
6_R	67_F	1.948	1.00
216_A	237_R	1.938	1.00
72_D	75_K	1.897	1.00
49_A	208_I	1.891	1.00
12_Y	47_T	1.872	1.00
77_D	80_T	1.856	1.00
132_F	145_Y	1.848	1.00
9_N	20_R	1.821	1.00
105_K	109_E	1.819	1.00
130_R	133_Y	1.814	1.00
130_R	169_D	1.788	1.00
134_L	167_L	1.747	1.00
137_Q	200_D	1.745	1.00
223_L	233_F	1.733	1.00
234_G	239_I	1.714	1.00
49_A	174_I	1.701	1.00
136_N	142_P	1.679	1.00
234_G	238_K	1.668	1.00
209_T	215_V	1.645	1.00
54_R	81_Y	1.643	1.00
147_K	151_E	1.636	1.00
12_Y	21_A	1.631	1.00
133_Y	137_Q	1.583	1.00
10_I	56_L	1.574	1.00
36_G	215_V	1.559	1.00
108_G	146_K	1.543	1.00
132_F	142_P	1.537	1.00
195_K	217_G	1.531	1.00
69_N	89_K	1.520	1.00
11_S	62_Y	1.516	1.00
10_I	62_Y	1.498	1.00
7_D	26_Y	1.485	1.00
11_S	18_S	1.483	1.00
238_K	242_E	1.476	1.00
108_G	145_Y	1.468	1.00
112_V	127_A	1.456	1.00
195_K	198_I	1.453	1.00
71_K	80_T	1.452	1.00
112_V	131_I	1.449	1.00
169_D	201_K	1.439	1.00
5_V	27_F	1.405	1.00
108_G	112_V	1.382	1.00
144_I	152_L	1.382	1.00
9_N	23_N	1.381	1.00
8_L	58_E	1.348	1.00
76_M	80_T	1.341	1.00
116_M	127_A	1.340	1.00
175_A	205_L	1.339	1.00
128_S	132_F	1.312	1.00
33_D	220_K	1.292	1.00
106_R	109_E	1.291	1.00
5_V	52_I	1.270	1.00
137_Q	196_R	1.258	1.00
27_F	223_L	1.237	1.00
98_M	157_R	1.229	1.00
54_R	57_P	1.226	1.00
35_L	233_F	1.220	1.00
34_S	198_I	1.218	1.00
6_R	28_Q	1.215	1.00
111_L	135_F	1.210	1.00
53_M	92_I	1.197	1.00
27_F	48_I	1.192	1.00
29_L	35_L	1.186	1.00
6_R	26_Y	1.166	1.00
93_I	175_A	1.161	1.00
125_S	129_E	1.156	1.00
143_E	147_K	1.153	1.00
25_V	48_I	1.153	1.00
109_E	112_V	1.152	1.00
237_R	241_K	1.149	1.00
246_P	249_K	1.149	1.00
67_F	72_D	1.148	1.00
30_E	221_K	1.147	1.00
135_F	145_Y	1.147	1.00
35_L	221_K	1.145	1.00
191_I	214_V	1.143	1.00
104_I	150_D	1.141	1.00
106_R	146_K	1.140	1.00
34_S	205_L	1.134	1.00
124_T	127_A	1.132	1.00
37_V	206_I	1.123	1.00
71_K	76_M	1.121	1.00
108_G	128_S	1.120	1.00
129_E	133_Y	1.108	1.00
34_S	219_A	1.107	1.00
249_K	253_S	1.106	1.00
31_K	69_N	1.104	1.00
169_D	203_K	1.092	1.00
128_S	145_Y	1.071	1.00
76_M	81_Y	1.064	1.00
136_N	141_P	1.058	1.00
152_L	160_V	1.057	1.00
126_K	129_E	1.056	1.00
194_I	205_L	1.053	1.00
132_F	136_N	1.051	1.00
139_S	196_R	1.030	1.00
238_K	241_K	1.027	1.00
110_Q	164_S	1.024	1.00
222_V	236_S	1.024	1.00
31_K	202_Q	1.023	1.00
51_A	58_E	1.023	1.00
246_P	250_G	1.016	1.00
112_V	116_M	0.996	1.00
48_I	225_L	0.994	1.00
105_K	113_K	0.989	1.00
123_D	127_A	0.983	1.00
141_P	144_I	0.981	1.00
52_I	206_I	0.974	1.00
7_D	63_S	0.971	1.00
182_L	190_V	0.967	1.00
133_Y	136_N	0.965	1.00
173_V	203_K	0.964	1.00
111_L	167_L	0.963	1.00
124_T	128_S	0.961	1.00
127_A	131_I	0.959	1.00
108_G	131_I	0.958	1.00
122_I	127_A	0.957	1.00
22_I	51_A	0.950	1.00
173_V	205_L	0.948	1.00
245_H	248_S	0.941	1.00
30_E	204_T	0.931	1.00
10_I	47_T	0.923	1.00
115_M	167_L	0.922	1.00
230_I	233_F	0.909	1.00
248_S	252_L	0.907	1.00
50_N	56_L	0.902	1.00
236_S	240_F	0.898	1.00
11_S	23_N	0.898	1.00
37_V	48_I	0.897	1.00
29_L	172_L	0.895	1.00
37_V	223_L	0.891	1.00
91_S	170_P	0.890	1.00
53_M	174_I	0.889	1.00
240_F	243_P	0.889	1.00
134_L	163_A	0.889	1.00
226_Y	231_M	0.888	1.00
207_Y	218_V	0.887	1.00
122_I	126_K	0.884	1.00
107_V	160_V	0.881	1.00
187_Q	211_D	0.880	1.00
50_N	55_A	0.878	1.00
91_S	165_A	0.877	1.00
175_A	194_I	0.871	1.00
198_I	205_L	0.870	1.00
187_Q	214_V	0.869	1.00
107_V	152_L	0.867	1.00
5_V	66_I	0.867	1.00
148_L	151_E	0.864	1.00
198_I	220_K	0.861	1.00
236_S	247_Y	0.861	1.00
58_E	62_Y	0.860	1.00
43_S	225_L	0.858	1.00
112_V	128_S	0.857	1.00
239_I	248_S	0.851	1.00
21_A	47_T	0.849	1.00
106_R	148_L	0.849	1.00
257_D	260_F	0.840	1.00
125_S	128_S	0.840	1.00
72_D	76_M	0.829	1.00
126_K	130_R	0.824	1.00
71_K	89_K	0.817	1.00
177_E	210_H	0.817	1.00
105_K	110_Q	0.812	1.00
34_S	195_K	0.810	1.00
93_I	162_I	0.809	1.00
34_S	218_V	0.808	1.00
214_V	218_V	0.807	1.00
90_I	172_L	0.806	1.00
193_L	196_R	0.805	1.00
51_A	56_L	0.802	1.00
134_L	137_Q	0.801	1.00
130_R	134_L	0.800	1.00
8_L	51_A	0.798	1.00
138_L	163_A	0.797	1.00
68_F	89_K	0.794	1.00
22_I	25_V	0.794	1.00
38_I	215_V	0.783	1.00
266_V	270_P	0.781	1.00
221_K	232_E	0.781	1.00
101_F	157_R	0.780	1.00
188_A	192_S	0.778	1.00
78_Q	81_Y	0.777	1.00
29_L	204_T	0.773	1.00
139_S	189_R	0.771	1.00
10_I	22_I	0.770	1.00
51_A	66_I	0.769	1.00
24_R	229_E	0.765	1.00
152_L	156_Q	0.764	1.00
174_I	206_I	0.764	1.00
149_P	160_V	0.756	1.00
114_I	164_S	0.755	1.00
195_K	218_V	0.755	1.00
224_T	243_P	0.753	1.00
172_L	204_T	0.753	1.00
192_S	217_G	0.753	1.00
25_V	230_I	0.750	1.00
207_Y	219_A	0.749	1.00
128_S	146_K	0.748	1.00
219_A	222_V	0.745	1.00
101_F	110_Q	0.743	1.00
7_D	10_I	0.743	1.00
114_I	168_L	0.742	1.00
88_K	120_S	0.741	1.00
231_M	245_H	0.739	1.00
226_Y	250_G	0.738	1.00
268_Y	272_D	0.738	1.00
102_N	105_K	0.731	1.00
29_L	206_I	0.726	1.00
24_R	63_S	0.718	1.00
93_I	165_A	0.711	1.00
227_A	271_G	0.709	1.00
250_G	254_S	0.708	1.00
226_Y	229_E	0.708	1.00
253_S	267_H	0.707	1.00
116_M	124_T	0.706	1.00
219_A	236_S	0.705	1.00
140_L	144_I	0.700	1.00
22_I	48_I	0.700	1.00
65_S	75_K	0.700	1.00
34_S	220_K	0.697	1.00
144_I	156_Q	0.694	1.00
254_S	257_D	0.694	1.00
192_S	196_R	0.690	1.00
128_S	131_I	0.690	1.00
247_Y	250_G	0.686	1.00
131_I	145_Y	0.684	1.00
40_E	226_Y	0.683	1.00
106_R	110_Q	0.683	1.00
250_G	253_S	0.679	1.00
192_S	195_K	0.678	1.00
3_L	52_I	0.678	1.00
120_S	130_R	0.675	1.00
115_M	121_N	0.675	1.00
195_K	199_V	0.674	1.00
255_V	258_I	0.671	1.00
172_L	206_I	0.670	1.00
134_L	166_L	0.669	1.00
35_L	206_I	0.669	1.00
5_V	48_I	0.667	1.00
118_N	168_L	0.665	1.00
111_L	131_I	0.664	1.00
179_T	214_V	0.659	1.00
118_N	121_N	0.658	1.00
38_I	224_T	0.658	1.00
212_I	240_F	0.658	1.00
270_P	273_P	0.657	1.00
79_E	82_R	0.657	1.00
50_N	92_I	0.656	1.00
78_Q	82_R	0.655	1.00
55_A	94_P	0.655	1.00
68_F	172_L	0.652	1.00
239_I	243_P	0.651	1.00
53_M	90_I	0.651	1.00
110_Q	149_P	0.647	1.00
73_I	90_I	0.647	1.00
114_I	117_E	0.647	1.00
67_F	70_N	0.646	1.00
11_S	63_S	0.646	1.00
129_E	136_N	0.645	1.00
243_P	248_S	0.645	1.00
198_I	201_K	0.644	1.00
108_G	132_F	0.641	1.00
197_E	203_K	0.635	1.00
224_T	239_I	0.634	1.00
255_V	259_R	0.629	1.00
65_S	74_L	0.628	1.00
259_R	262_K	0.626	1.00
238_K	244_L	0.626	1.00
46_T	50_N	0.626	1.00
120_S	127_A	0.625	1.00
120_S	123_D	0.623	1.00
237_R	240_F	0.619	1.00
52_I	66_I	0.617	1.00
34_S	207_Y	0.617	1.00
32_G	204_T	0.617	1.00
11_S	21_A	0.616	1.00
12_Y	56_L	0.612	1.00
162_I	190_V	0.611	1.00
265_K	268_Y	0.609	1.00
154_G	159_R	0.604	1.00
158_Q	181_A	0.603	1.00
268_Y	273_P	0.602	1.00
260_F	263_V	0.598	1.00
108_G	111_L	0.597	1.00
3_L	172_L	0.597	1.00
3_L	68_F	0.597	1.00
215_V	219_A	0.597	1.00
113_K	117_E	0.596	1.00
179_T	190_V	0.593	1.00
28_Q	233_F	0.589	1.00
31_K	204_T	0.587	1.00
142_P	145_Y	0.587	1.00
77_D	81_Y	0.587	1.00
236_S	239_I	0.585	1.00
40_E	247_Y	0.584	1.00
66_I	74_L	0.583	1.00
247_Y	251_L	0.582	1.00
127_A	132_F	0.578	1.00
215_V	222_V	0.575	1.00
51_A	62_Y	0.572	1.00
216_A	240_F	0.572	1.00
140_L	156_Q	0.571	1.00
166_L	203_K	0.569	1.00
252_L	256_P	0.566	1.00
33_D	233_F	0.561	1.00
9_N	62_Y	0.558	1.00
253_S	256_P	0.557	1.00
101_F	160_V	0.556	1.00
112_V	145_Y	0.552	1.00
171_E	203_K	0.551	1.00
234_G	243_P	0.550	1.00
232_E	243_P	0.550	1.00
40_E	43_S	0.548	1.00
7_D	64_G	0.547	1.00
216_A	236_S	0.546	1.00
115_M	118_N	0.546	1.00
269_I	273_P	0.545	1.00
266_V	269_I	0.544	1.00
122_I	130_R	0.544	1.00
267_H	271_G	0.543	1.00
96_Y	157_R	0.538	1.00
111_L	114_I	0.537	1.00
264_K	268_Y	0.536	1.00
244_L	249_K	0.535	1.00
129_E	132_F	0.534	1.00
20_R	24_R	0.534	1.00
191_I	195_K	0.534	1.00
265_K	269_I	0.532	1.00
41_T	177_E	0.532	1.00
115_M	168_L	0.531	1.00
68_F	73_I	0.530	1.00
234_G	240_F	0.530	1.00
115_M	120_S	0.529	1.00
95_Q	154_G	0.528	1.00
267_H	270_P	0.528	1.00
213_A	217_G	0.527	1.00
189_R	192_S	0.526	1.00
54_R	74_L	0.526	1.00
249_K	252_L	0.526	1.00
107_V	111_L	0.522	1.00
209_T	214_V	0.520	1.00
135_F	144_I	0.519	1.00
215_V	236_S	0.519	1.00
37_V	225_L	0.518	1.00
147_K	152_L	0.517	1.00
153_S	156_Q	0.513	1.00
4_Q	26_Y	0.511	1.00
198_I	203_K	0.511	1.00
73_I	76_M	0.510	1.00
49_A	53_M	0.509	1.00
57_P	74_L	0.509	1.00
242_E	246_P	0.508	1.00
232_E	242_E	0.506	1.00
115_M	127_A	0.506	1.00
130_R	137_Q	0.505	1.00
243_P	252_L	0.502	1.00
226_Y	245_H	0.501	1.00
268_Y	271_G	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
3tuiC	2	0.9598	100	0.211	Contact Map
4fwiB	1	0.9474	100	0.219	Contact Map
4ry2A	2	0.7368	100	0.224	Contact Map
1v43A	2	0.9102	100	0.226	Contact Map
4mkiB	2	0.8669	100	0.227	Contact Map
2yyzA	1	0.9288	100	0.229	Contact Map
2it1A	1	0.9412	100	0.229	Contact Map
4f4cA	1	0.7028	100	0.23	Contact Map
1z47A	2	0.9412	100	0.231	Contact Map
4ymuJ	2	0.7368	100	0.233	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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