YTWF - BACSU - GREMLIN Contacts

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YTWF - Uncharacterized protein YtwF

UniProt:	O32072	Sequences: MEIKEISTAALKEKIEADEELYLIDVREDEEVAEGMIPQAVHIRMGDIPEKMETLDKDKEYVFICRSGMRSMNVCKYLDEQGFKTVNVEGGMMAWEGETKPKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	103 (93)
Sequences:	11188 (8085)
Seq/√Len:	838.4

ECOLI - YIBN GLPE YGAP PSPE THTM YNJE SELU
BACSU - YTWF YRKF YQHL YRKH
HALSA - Q9HME4 Q9HMT6 Q9HS22 O54661 O54647 Q9HMT7
SULSO - Q97VI9 Q7LX53 Q97ZB1 Q97XC6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
32_V	36_M	2.416	1.00
22_Y	59_K	2.388	1.00
29_D	42_H	2.179	1.00
6_I	10_A	2.172	1.00
94_A	98_E	2.135	1.00
10_A	14_K	2.123	1.00
35_G	96_E	2.080	1.00
29_D	33_A	2.068	1.00
7_S	10_A	2.042	1.00
8_T	94_A	1.727	1.00
8_T	98_E	1.715	1.00
49_P	53_E	1.644	1.00
63_F	78_L	1.636	1.00
11_L	23_L	1.577	1.00
60_E	85_T	1.561	1.00
51_K	54_T	1.527	1.00
48_I	52_M	1.524	1.00
31_E	70_R	1.475	1.00
56_D	59_K	1.466	1.00
14_K	18_D	1.423	1.00
14_K	60_E	1.418	1.00
43_I	55_L	1.384	1.00
14_K	21_L	1.376	1.00
26_V	74_V	1.370	1.00
71_S	87_N	1.356	1.00
75_C	87_N	1.322	1.00
57_K	83_F	1.321	1.00
36_M	64_I	1.300	1.00
47_D	51_K	1.264	1.00
21_L	62_V	1.259	1.00
90_G	94_A	1.247	1.00
22_Y	41_V	1.231	1.00
51_K	55_L	1.225	1.00
11_L	88_V	1.224	1.00
23_L	64_I	1.214	1.00
7_S	89_E	1.212	1.00
11_L	62_V	1.191	1.00
64_I	92_M	1.184	1.00
47_D	50_E	1.168	1.00
75_C	86_V	1.167	1.00
92_M	96_E	1.165	1.00
8_T	12_K	1.136	1.00
31_E	66_R	1.132	1.00
50_E	54_T	1.118	1.00
8_T	88_V	1.110	1.00
38_P	95_W	1.106	1.00
43_I	51_K	1.106	1.00
37_I	64_I	1.105	1.00
65_C	71_S	1.088	1.00
28_E	31_E	1.065	1.00
63_F	75_C	1.064	1.00
6_I	11_L	1.047	1.00
93_M	97_G	1.042	1.00
75_C	79_D	1.029	1.00
63_F	74_V	1.005	1.00
93_M	96_E	0.997	1.00
66_R	93_M	0.987	1.00
27_R	92_M	0.987	1.00
37_I	40_A	0.985	1.00
77_Y	81_Q	0.980	1.00
61_Y	78_L	0.979	1.00
79_D	84_K	0.970	1.00
9_A	13_E	0.968	1.00
88_V	95_W	0.949	1.00
27_R	66_R	0.939	1.00
65_C	68_G	0.924	1.00
11_L	15_I	0.902	1.00
52_M	78_L	0.895	1.00
67_S	93_M	0.892	1.00
62_V	88_V	0.888	1.00
26_V	63_F	0.885	1.00
11_L	21_L	0.871	1.00
21_L	60_E	0.869	1.00
12_K	15_I	0.867	1.00
88_V	94_A	0.866	1.00
23_L	37_I	0.862	1.00
40_A	64_I	0.852	1.00
76_K	80_E	0.850	1.00
22_Y	56_D	0.848	1.00
78_L	86_V	0.844	1.00
22_Y	61_Y	0.835	1.00
32_V	42_H	0.821	1.00
94_A	97_G	0.820	1.00
11_L	14_K	0.818	1.00
63_F	86_V	0.808	1.00
10_A	13_E	0.807	1.00
32_V	40_A	0.807	1.00
35_G	92_M	0.802	1.00
72_M	87_N	0.767	1.00
88_V	91_G	0.765	1.00
37_I	95_W	0.754	1.00
31_E	34_E	0.747	1.00
17_A	20_E	0.725	1.00
33_A	96_E	0.723	1.00
79_D	86_V	0.722	1.00
45_M	73_N	0.722	1.00
6_I	62_V	0.722	1.00
9_A	98_E	0.709	1.00
67_S	70_R	0.700	1.00
23_L	40_A	0.695	1.00
48_I	51_K	0.692	1.00
78_L	83_F	0.690	1.00
36_M	42_H	0.685	1.00
61_Y	83_F	0.662	1.00
72_M	76_K	0.659	1.00
67_S	71_S	0.636	1.00
30_E	33_A	0.635	1.00
24_I	41_V	0.632	1.00
66_R	70_R	0.626	1.00
31_E	67_S	0.618	1.00
43_I	74_V	0.615	1.00
52_M	55_L	0.615	1.00
83_F	86_V	0.611	1.00
20_E	60_E	0.610	1.00
49_P	81_Q	0.608	1.00
77_Y	80_E	0.607	1.00
48_I	81_Q	0.600	1.00
48_I	77_Y	0.594	1.00
46_G	70_R	0.590	1.00
79_D	85_T	0.590	1.00
29_D	44_R	0.572	1.00
80_E	83_F	0.570	1.00
14_K	19_E	0.568	1.00
14_K	17_A	0.561	1.00
26_V	45_M	0.560	1.00
66_R	69_M	0.545	1.00
49_P	57_K	0.545	1.00
45_M	70_R	0.544	1.00
14_K	62_V	0.543	1.00
45_M	77_Y	0.536	1.00
24_I	43_I	0.533	1.00
33_A	42_H	0.528	1.00
8_T	15_I	0.521	1.00
96_E	99_T	0.521	1.00
76_K	79_D	0.513	1.00
68_G	71_S	0.505	1.00
24_I	74_V	0.503	1.00
73_N	76_K	0.501	1.00
41_V	55_L	0.501	1.00
24_I	63_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
3fojA	1	0.9709	99.9	0.176	Contact Map
3iwhA	1	0.9806	99.9	0.177	Contact Map
1yt8A	1	0.9903	99.9	0.182	Contact Map
3tp9A	2	0.9903	99.9	0.192	Contact Map
1gmxA	1	0.9806	99.9	0.202	Contact Map
3ilmA	2	0.9515	99.9	0.202	Contact Map
3flhA	3	1	99.9	0.208	Contact Map
3nhvA	3	1	99.9	0.212	Contact Map
1tq1A	1	0.9806	99.9	0.213	Contact Map
1qxnA	2	1	99.9	0.218	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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