GREMLIN Database
YDZF - Uncharacterized HTH-type transcriptional regulator YdzF
UniProt: O31494 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 109 (97)
Sequences: 8815 (5189)
Seq/√Len: 526.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
68_H82_S2.8241.00
43_K51_H2.7681.00
52_K56_A2.7291.00
74_H78_K2.6921.00
32_G91_Y2.5121.00
89_S103_A2.4911.00
70_S82_S2.4441.00
68_H84_S2.2851.00
30_E45_A1.9811.00
72_V80_E1.9621.00
31_L67_I1.9351.00
93_L96_E1.8091.00
72_V78_K1.7261.00
86_R104_Q1.6881.00
36_T82_S1.6801.00
96_E99_K1.6761.00
37_M45_A1.6441.00
92_P96_E1.6171.00
59_K62_Q1.5841.00
53_M56_A1.5841.00
36_T80_E1.5771.00
27_I57_Q1.5071.00
31_L42_L1.4841.00
89_S100_W1.4591.00
88_R91_Y1.4011.00
85_D88_R1.3671.00
24_K60_E1.3661.00
24_K57_Q1.3551.00
83_L87_G1.3391.00
15_T97_M1.3141.00
86_R89_S1.2821.00
40_G44_R1.2401.00
14_Y105_G1.2261.00
15_T101_G1.2191.00
51_H55_S1.2141.00
37_M41_E1.2071.00
66_L87_G1.1741.00
21_G57_Q1.1581.00
18_L64_D1.1531.00
21_G24_K1.1341.00
55_S59_K1.1291.00
21_G60_E1.1161.00
31_L37_M1.1031.00
69_R79_V1.0771.00
70_S80_E1.0601.00
66_L90_L1.0531.00
38_R80_E1.0431.00
34_E37_M1.0351.00
72_V77_L1.0271.00
72_V75_T1.0261.00
98_C102_M1.0201.00
91_Y95_D1.0191.00
82_S88_R1.0051.00
28_L83_L0.9991.00
39_Y55_S0.9941.00
62_Q67_I0.9811.00
27_I46_M0.9681.00
49_I54_L0.9631.00
24_K61_L0.9591.00
99_K103_A0.9491.00
71_E76_P0.9421.00
18_L66_L0.9411.00
53_M57_Q0.9341.00
89_S104_Q0.9251.00
24_K64_D0.9131.00
25_M94_I0.9021.00
72_V76_P0.8711.00
46_M49_I0.8691.00
41_E44_R0.8681.00
30_E42_L0.8601.00
92_P99_K0.8561.00
95_D99_K0.8441.00
27_I49_I0.8421.00
13_E17_S0.8401.00
39_Y51_H0.8171.00
65_G86_R0.8121.00
71_E77_L0.8111.00
71_E75_T0.8051.00
71_E79_V0.8021.00
40_G43_K0.7951.00
32_G95_D0.7721.00
90_L100_W0.7621.00
60_E64_D0.7441.00
14_Y104_Q0.7431.00
32_G83_L0.7381.00
29_Y98_C0.7381.00
23_W49_I0.7361.00
8_K14_Y0.7271.00
50_T53_M0.7231.00
11_P102_M0.7201.00
73_S76_P0.7151.00
99_K102_M0.7121.00
35_K88_R0.7081.00
90_L93_L0.7001.00
71_E74_H0.6801.00
29_Y32_G0.6781.00
37_M42_L0.6781.00
8_K17_S0.6751.00
95_D98_C0.6711.00
38_R41_E0.6691.00
8_K13_E0.6681.00
74_H80_E0.6581.00
16_L97_M0.6501.00
93_L97_M0.6491.00
31_L36_T0.6271.00
75_T79_V0.6261.00
74_H77_L0.6231.00
30_E34_E0.6231.00
49_I79_V0.6231.00
101_G105_G0.6201.00
12_F105_G0.6141.00
51_H57_Q0.6071.00
16_L25_M0.6071.00
26_R30_E0.6041.00
30_E37_M0.5991.00
16_L90_L0.5981.00
62_Q71_E0.5870.99
62_Q69_R0.5870.99
93_L101_G0.5820.99
12_F29_Y0.5780.99
26_R46_M0.5760.99
92_P95_D0.5710.99
61_L66_L0.5710.99
39_Y43_K0.5580.99
39_Y54_L0.5480.99
55_S69_R0.5470.99
70_S73_S0.5470.99
31_L83_L0.5460.99
102_M105_G0.5420.99
28_L90_L0.5380.99
40_G79_V0.5370.99
47_P53_M0.5300.99
28_L61_L0.5290.99
92_P103_A0.5270.99
13_E47_P0.5240.99
74_H79_V0.5190.99
10_A39_Y0.5190.99
17_S45_A0.5180.99
13_E98_C0.5120.99
83_L88_R0.5100.98
89_S92_P0.5090.98
15_T66_L0.5060.98
76_P79_V0.5050.98
59_K69_R0.5050.98
29_Y39_Y0.5030.98
32_G88_R0.5000.98
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

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  
4gcvA 3 0.8991 99.8 0.39 Contact Map
4a5nA 2 0.9174 99.7 0.478 Contact Map
2fswA 2 0.945 99.7 0.488 Contact Map
1yyvA 2 0.9633 99.7 0.491 Contact Map
2hztA 2 0.8716 99.7 0.493 Contact Map
1z7uA 2 0.9633 99.6 0.501 Contact Map
2f2eA 4 0.9541 99.6 0.507 Contact Map
4hw0A 2 0.7982 99.5 0.539 Contact Map
3df8A 2 0.9358 99.5 0.551 Contact Map
4hqeA 2 0.9541 99.3 0.593 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 0.006 seconds.