Query 034673
Match_columns 87
No_of_seqs 108 out of 367
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 05:18:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034673.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034673hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00249 Myb_DNA-binding: Myb- 99.2 1.4E-10 3.1E-15 67.3 6.3 44 1-47 4-47 (48)
2 KOG0724 Zuotin and related mol 99.0 3.3E-10 7.2E-15 86.7 5.3 65 2-67 35-104 (335)
3 smart00717 SANT SANT SWI3, AD 98.9 6E-09 1.3E-13 57.4 5.3 44 1-48 4-47 (49)
4 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.1E-08 2.4E-13 55.7 5.5 43 1-47 2-44 (45)
5 PF13921 Myb_DNA-bind_6: Myb-l 98.0 1.6E-05 3.6E-10 47.1 4.9 40 2-46 2-41 (60)
6 KOG0457 Histone acetyltransfer 97.2 0.00067 1.5E-08 56.1 5.3 41 2-46 76-116 (438)
7 PLN03212 Transcription repress 97.1 0.0013 2.8E-08 51.1 5.7 45 1-50 81-125 (249)
8 PLN03212 Transcription repress 97.0 0.0013 2.8E-08 51.1 4.7 43 1-46 28-70 (249)
9 PLN03091 hypothetical protein; 96.8 0.0028 6E-08 52.9 5.9 45 1-50 70-114 (459)
10 COG5259 RSC8 RSC chromatin rem 96.6 0.0025 5.3E-08 53.7 4.2 41 2-47 283-323 (531)
11 KOG4167 Predicted DNA-binding 96.6 0.0037 8.1E-08 55.1 5.4 40 1-45 622-661 (907)
12 TIGR01557 myb_SHAQKYF myb-like 96.5 0.011 2.3E-07 36.3 5.6 42 2-46 7-52 (57)
13 PLN03091 hypothetical protein; 96.5 0.004 8.7E-08 51.9 4.5 43 1-46 17-59 (459)
14 KOG0048 Transcription factor, 96.3 0.0088 1.9E-07 44.7 4.8 40 1-45 65-104 (238)
15 COG5114 Histone acetyltransfer 95.8 0.021 4.6E-07 46.8 5.4 52 3-63 68-119 (432)
16 KOG1279 Chromatin remodeling f 95.2 0.032 7E-07 47.0 4.7 41 2-47 257-297 (506)
17 PF13873 Myb_DNA-bind_5: Myb/S 92.2 0.8 1.7E-05 28.1 5.8 53 1-53 5-74 (78)
18 PLN03142 Probable chromatin-re 92.1 0.41 8.8E-06 43.4 6.1 53 2-58 828-890 (1033)
19 KOG0049 Transcription factor, 91.5 0.28 6.1E-06 43.6 4.3 42 1-46 363-404 (939)
20 PF13837 Myb_DNA-bind_4: Myb/S 89.3 1.3 2.9E-05 27.2 5.0 56 2-57 5-73 (90)
21 smart00595 MADF subfamily of S 89.2 0.59 1.3E-05 29.0 3.3 27 22-50 28-54 (89)
22 PF09111 SLIDE: SLIDE; InterP 89.1 1.9 4.1E-05 29.8 6.1 52 1-52 52-114 (118)
23 KOG1194 Predicted DNA-binding 88.9 0.84 1.8E-05 38.9 4.9 40 2-46 191-230 (534)
24 PF10545 MADF_DNA_bdg: Alcohol 87.9 1.2 2.7E-05 26.6 4.0 33 21-53 26-58 (85)
25 PF00046 Homeobox: Homeobox do 78.7 8.7 0.00019 21.8 4.9 43 1-45 7-49 (57)
26 KOG4329 DNA-binding protein [G 78.3 3.3 7.2E-05 34.6 4.0 41 1-45 280-320 (445)
27 KOG0050 mRNA splicing protein 77.4 3.1 6.7E-05 36.1 3.7 43 2-48 11-53 (617)
28 PF13404 HTH_AsnC-type: AsnC-t 75.4 4.5 9.8E-05 22.9 3.0 37 7-48 6-42 (42)
29 KOG0050 mRNA splicing protein 72.4 9 0.00019 33.4 5.2 36 20-57 77-112 (617)
30 PF06461 DUF1086: Domain of Un 71.8 17 0.00036 26.5 5.8 43 1-45 41-83 (145)
31 smart00386 HAT HAT (Half-A-TPR 71.6 7 0.00015 18.8 2.8 24 6-30 7-30 (33)
32 PF00674 DUP: DUP family; Int 71.6 6.9 0.00015 25.9 3.6 26 6-31 44-69 (108)
33 PF12776 Myb_DNA-bind_3: Myb/S 70.2 23 0.0005 21.9 5.6 55 2-56 3-70 (96)
34 PF04282 DUF438: Family of unk 69.6 3.3 7.1E-05 26.6 1.6 23 33-55 11-33 (71)
35 cd08308 Death_Tube Death domai 69.4 2.1 4.5E-05 30.3 0.7 36 19-56 20-55 (125)
36 cd00086 homeodomain Homeodomai 68.8 18 0.00039 20.1 5.6 43 1-45 7-49 (59)
37 KOG0048 Transcription factor, 68.1 8.3 0.00018 28.8 3.7 49 1-52 12-61 (238)
38 KOG3554 Histone deacetylase co 67.8 12 0.00026 32.6 5.0 64 2-69 289-364 (693)
39 COG5147 REB1 Myb superfamily p 66.9 6.5 0.00014 33.5 3.2 33 20-53 90-122 (512)
40 cd08307 Death_Pelle Death doma 66.6 6.1 0.00013 26.5 2.5 20 19-39 19-38 (97)
41 COG1522 Lrp Transcriptional re 64.8 9.8 0.00021 25.4 3.3 37 12-50 13-49 (154)
42 PF07030 DUF1320: Protein of u 63.5 28 0.00061 23.6 5.4 27 37-63 84-110 (130)
43 PF05263 DUF722: Protein of un 63.2 25 0.00055 24.8 5.2 45 3-52 84-128 (130)
44 PF04545 Sigma70_r4: Sigma-70, 63.0 25 0.00053 19.6 6.4 45 1-52 5-49 (50)
45 KOG4468 Polycomb-group transcr 62.6 19 0.00041 32.1 5.3 56 2-62 92-158 (782)
46 PF05524 PEP-utilisers_N: PEP- 61.7 7.5 0.00016 25.7 2.2 46 3-50 34-79 (123)
47 PF01466 Skp1: Skp1 family, di 61.0 10 0.00023 23.6 2.7 41 4-45 12-56 (78)
48 PF00887 ACBP: Acyl CoA bindin 60.6 9 0.0002 24.2 2.4 22 30-52 62-83 (87)
49 PRK11169 leucine-responsive tr 59.2 19 0.00042 25.1 4.1 33 16-50 23-55 (164)
50 KOG4282 Transcription factor G 57.9 33 0.00071 26.6 5.5 37 22-58 84-123 (345)
51 cd00435 ACBP Acyl CoA binding 57.3 17 0.00037 23.4 3.3 22 30-52 60-81 (85)
52 PTZ00458 acyl CoA binding prot 57.1 19 0.00041 23.8 3.5 21 31-52 63-83 (90)
53 KOG0049 Transcription factor, 55.1 14 0.00031 33.3 3.3 44 2-46 309-352 (939)
54 PRK11179 DNA-binding transcrip 55.1 54 0.0012 22.5 5.7 39 6-49 11-49 (153)
55 PF01388 ARID: ARID/BRIGHT DNA 55.0 24 0.00052 22.0 3.6 28 22-50 58-90 (92)
56 smart00389 HOX Homeodomain. DN 54.7 36 0.00077 18.9 5.4 43 1-45 7-49 (56)
57 smart00501 BRIGHT BRIGHT, ARID 54.5 43 0.00093 21.2 4.8 32 21-52 53-88 (93)
58 PF13428 TPR_14: Tetratricopep 46.5 20 0.00043 19.4 2.0 23 6-29 21-43 (44)
59 COG4281 ACB Acyl-CoA-binding p 46.1 50 0.0011 22.1 4.2 30 22-53 54-83 (87)
60 TIGR02795 tol_pal_ybgF tol-pal 45.8 65 0.0014 19.3 4.7 43 7-49 60-104 (119)
61 PF13432 TPR_16: Tetratricopep 45.8 32 0.0007 19.3 2.9 42 7-49 18-59 (65)
62 PF10124 Mu-like_gpT: Mu-like 45.3 5.9 0.00013 31.5 -0.4 30 6-40 9-38 (291)
63 PF13560 HTH_31: Helix-turn-he 44.8 29 0.00062 20.2 2.6 29 34-62 14-42 (64)
64 PF13412 HTH_24: Winged helix- 43.8 56 0.0012 17.9 5.7 43 1-49 1-43 (48)
65 PF14966 DNA_repr_REX1B: DNA r 42.3 47 0.001 22.0 3.6 45 7-59 20-64 (97)
66 PF10743 Phage_Cox: Regulatory 42.2 55 0.0012 22.0 3.9 42 14-68 6-47 (87)
67 KOG1724 SCF ubiquitin ligase, 42.1 41 0.00088 24.5 3.6 41 4-45 96-140 (162)
68 PF01726 LexA_DNA_bind: LexA D 41.7 82 0.0018 19.3 4.7 48 1-49 4-52 (65)
69 PF15583 Imm41: Immunity prote 41.5 68 0.0015 23.7 4.6 29 2-32 112-140 (158)
70 KOG0051 RNA polymerase I termi 37.9 38 0.00083 29.7 3.3 33 18-51 537-570 (607)
71 PRK10803 tol-pal system protei 37.7 81 0.0018 24.0 4.8 44 7-50 201-246 (263)
72 cd06257 DnaJ DnaJ domain or J- 37.6 46 0.001 18.2 2.7 18 34-51 11-28 (55)
73 PF12753 Nro1: Nuclear pore co 37.0 29 0.00063 29.0 2.3 26 6-31 331-360 (404)
74 TIGR03830 CxxCG_CxxCG_HTH puta 35.6 1.2E+02 0.0026 19.5 5.8 58 2-61 43-105 (127)
75 PF13730 HTH_36: Helix-turn-he 35.2 84 0.0018 17.5 5.6 44 2-49 4-51 (55)
76 PF13413 HTH_25: Helix-turn-he 35.0 34 0.00073 20.7 1.9 29 34-62 10-39 (62)
77 COG1722 XseB Exonuclease VII s 34.9 31 0.00068 22.4 1.8 20 42-61 14-33 (81)
78 COG1548 Predicted transcriptio 34.6 51 0.0011 26.8 3.3 22 16-46 216-237 (330)
79 PF09722 DUF2384: Protein of u 34.5 51 0.0011 18.9 2.6 48 10-57 2-53 (54)
80 cd08793 Death_IRAK4 Death doma 34.3 40 0.00087 23.0 2.4 30 21-56 21-50 (100)
81 PF14164 YqzH: YqzH-like prote 34.3 31 0.00067 21.9 1.7 27 6-32 7-39 (64)
82 smart00344 HTH_ASNC helix_turn 33.1 1.3E+02 0.0027 18.9 5.6 41 5-50 4-44 (108)
83 COG0776 HimA Bacterial nucleoi 32.1 90 0.002 20.8 3.7 41 24-66 8-50 (94)
84 PF14775 NYD-SP28_assoc: Sperm 31.7 57 0.0012 19.9 2.5 32 22-54 1-38 (60)
85 PRK14064 exodeoxyribonuclease 31.4 48 0.001 21.2 2.2 21 42-62 10-30 (75)
86 PF12451 VPS11_C: Vacuolar pro 31.0 40 0.00086 19.8 1.7 25 4-32 19-43 (49)
87 PF15508 NAAA-beta: beta subun 30.6 61 0.0013 20.9 2.7 28 21-50 15-42 (95)
88 PF00325 Crp: Bacterial regula 30.0 1E+02 0.0022 16.8 3.4 25 23-49 4-28 (32)
89 COG5118 BDP1 Transcription ini 29.9 1.2E+02 0.0025 26.0 4.8 39 2-45 369-407 (507)
90 PF08281 Sigma70_r4_2: Sigma-7 29.7 1.1E+02 0.0023 17.0 5.9 40 1-47 11-50 (54)
91 PF08259 Periviscerokin: Periv 29.6 24 0.00052 15.5 0.4 8 56-63 3-10 (11)
92 PLN02247 indole-3-acetic acid- 29.5 1.4E+02 0.003 26.0 5.3 49 3-59 26-82 (606)
93 PF11035 SnAPC_2_like: Small n 28.7 2.8E+02 0.0061 22.9 6.6 50 2-53 25-75 (344)
94 PF11112 PyocinActivator: Pyoc 28.4 97 0.0021 19.8 3.3 31 37-67 17-50 (76)
95 PLN02620 indole-3-acetic acid- 28.4 1.4E+02 0.0031 26.0 5.2 48 3-58 37-93 (612)
96 PF08311 Mad3_BUB1_I: Mad3/BUB 27.6 77 0.0017 21.4 2.9 30 3-32 2-37 (126)
97 PRK14068 exodeoxyribonuclease 27.6 62 0.0013 20.8 2.3 21 42-62 10-30 (76)
98 PF02609 Exonuc_VII_S: Exonucl 27.4 60 0.0013 18.9 2.0 20 42-61 3-22 (53)
99 PF13748 ABC_membrane_3: ABC t 27.4 66 0.0014 25.0 2.8 28 21-49 170-197 (237)
100 PRK00977 exodeoxyribonuclease 27.4 62 0.0013 20.8 2.3 20 42-61 14-33 (80)
101 PRK10664 transcriptional regul 27.3 97 0.0021 19.9 3.2 39 25-65 8-48 (90)
102 COG4717 Uncharacterized conser 27.2 1.1E+02 0.0024 28.4 4.4 50 4-54 774-830 (984)
103 cd04517 TLF TBP-like factors ( 26.7 99 0.0021 22.3 3.5 33 33-65 62-94 (174)
104 PLN03142 Probable chromatin-re 26.3 2.4E+02 0.0052 26.2 6.4 49 1-52 929-988 (1033)
105 COG2345 Predicted transcriptio 26.3 1.3E+02 0.0029 22.9 4.2 35 14-50 18-52 (218)
106 PRK00199 ihfB integration host 26.1 1.2E+02 0.0026 19.2 3.4 40 25-65 8-49 (94)
107 PRK14069 exodeoxyribonuclease 25.9 66 0.0014 21.7 2.3 21 42-62 12-32 (95)
108 PRK14066 exodeoxyribonuclease 25.9 68 0.0015 20.5 2.2 21 42-62 8-28 (75)
109 smart00426 TEA TEA domain. 25.8 59 0.0013 20.9 1.9 17 4-20 9-25 (68)
110 PRK14070 exodeoxyribonuclease 25.4 44 0.00096 21.2 1.3 18 45-62 2-19 (69)
111 cd08315 Death_TRAILR_DR4_DR5 D 25.4 43 0.00093 22.0 1.3 25 8-32 5-30 (96)
112 smart00271 DnaJ DnaJ molecular 25.1 99 0.0022 17.2 2.7 18 34-51 12-29 (60)
113 cd07216 Pat17_PNPLA8_PNPLA9_li 24.9 1E+02 0.0022 23.5 3.4 26 26-52 54-81 (309)
114 TIGR01280 xseB exodeoxyribonuc 24.8 76 0.0016 19.7 2.3 20 43-62 6-25 (67)
115 PRK11924 RNA polymerase sigma 24.7 2.1E+02 0.0045 18.7 5.3 47 4-52 114-170 (179)
116 KOG0483 Transcription factor H 24.7 1.8E+02 0.004 21.8 4.7 40 1-42 57-96 (198)
117 smart00027 EH Eps15 homology d 24.7 95 0.0021 19.4 2.8 20 1-20 4-23 (96)
118 PTZ00100 DnaJ chaperone protei 24.3 81 0.0018 21.9 2.5 29 22-51 65-93 (116)
119 PF11740 KfrA_N: Plasmid repli 24.3 2E+02 0.0044 18.4 5.6 49 6-55 4-52 (120)
120 PF04081 DNA_pol_delta_4: DNA 23.3 1.3E+02 0.0028 21.3 3.4 37 4-42 59-105 (124)
121 TIGR01690 ICE_RAQPRD integrati 23.3 47 0.001 22.5 1.1 51 4-58 21-73 (94)
122 PRK14063 exodeoxyribonuclease 23.1 83 0.0018 20.1 2.2 21 42-62 9-29 (76)
123 PF10929 DUF2811: Protein of u 23.1 57 0.0012 20.3 1.4 16 2-17 23-38 (57)
124 COG4387 Mu-like prophage prote 23.1 1.2E+02 0.0027 21.9 3.3 29 34-62 80-108 (139)
125 COG1791 Uncharacterized conser 22.9 84 0.0018 23.7 2.5 35 21-57 30-64 (181)
126 PLN02249 indole-3-acetic acid- 22.7 2.2E+02 0.0048 24.5 5.3 48 3-58 36-92 (597)
127 COG3416 Uncharacterized protei 22.7 1.4E+02 0.003 23.4 3.7 57 1-58 1-78 (233)
128 KOG2522 Filamentous baseplate 22.6 1.5E+02 0.0032 25.8 4.2 53 6-58 243-302 (560)
129 cd02962 TMX2 TMX2 family; comp 22.6 40 0.00087 23.7 0.8 17 29-45 133-149 (152)
130 COG1003 GcvP Glycine cleavage 22.2 67 0.0015 27.6 2.1 32 32-64 43-74 (496)
131 PRK14067 exodeoxyribonuclease 22.2 88 0.0019 20.2 2.2 20 43-62 12-31 (80)
132 PF13174 TPR_6: Tetratricopept 22.2 94 0.002 14.8 1.9 13 6-18 20-32 (33)
133 PF12006 DUF3500: Protein of u 22.2 44 0.00095 26.4 0.9 27 1-27 221-252 (313)
134 PRK01112 phosphoglyceromutase; 21.9 62 0.0013 23.8 1.7 41 11-51 124-165 (228)
135 cd07212 Pat_PNPLA9 Patatin-lik 21.8 1E+02 0.0022 23.9 2.9 27 26-52 44-70 (312)
136 TIGR02787 codY_Gpos GTP-sensin 21.8 3.4E+02 0.0074 21.4 5.8 47 1-49 177-224 (251)
137 PF05138 PaaA_PaaC: Phenylacet 21.8 2.1E+02 0.0046 21.9 4.6 59 2-65 163-229 (263)
138 PF01638 HxlR: HxlR-like helix 21.6 1.5E+02 0.0033 18.4 3.3 29 20-49 17-45 (90)
139 PF13431 TPR_17: Tetratricopep 21.3 1.2E+02 0.0026 15.8 2.3 23 8-31 1-23 (34)
140 KOG3411 40S ribosomal protein 21.1 1E+02 0.0022 22.5 2.6 35 31-66 1-35 (143)
141 PRK14981 DNA-directed RNA poly 20.9 2.7E+02 0.0059 18.7 6.5 26 20-47 66-91 (112)
142 COG4680 Uncharacterized protei 20.9 2.4E+02 0.0052 19.4 4.2 39 6-45 6-46 (98)
143 COG1426 Predicted transcriptio 20.6 94 0.002 24.1 2.5 27 34-60 16-42 (284)
144 COG3053 CitC Citrate lyase syn 20.5 99 0.0021 25.5 2.7 30 22-52 316-345 (352)
145 KOG0721 Molecular chaperone (D 20.5 87 0.0019 24.4 2.3 17 32-49 109-125 (230)
146 KOG0817 Acyl-CoA-binding prote 20.4 1.3E+02 0.0028 21.5 3.0 24 30-54 64-87 (142)
147 TIGR00988 hip integration host 20.1 1.8E+02 0.004 18.2 3.4 40 25-65 8-49 (94)
No 1
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.16 E-value=1.4e-10 Score=67.33 Aligned_cols=44 Identities=27% Similarity=0.663 Sum_probs=40.4
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
.|.+|+++|..|+..|+.+ +|..||..||+|||..+|+.||..|
T Consensus 4 Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 4 WTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp S-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 4899999999999999977 8999999999889999999999876
No 2
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=3.3e-10 Score=86.75 Aligned_cols=65 Identities=42% Similarity=0.592 Sum_probs=61.0
Q ss_pred CHHHHHHHHHHHhhcCCC----CChHHHHHHHHcCCC-CCHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCC
Q 034673 2 DPEQNKKFERALAVYDKD----TPDRWQNVARAVGGG-KSPDDVKRHYDRLVEDLIFIESAQFPLPNYKNT 67 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~----tpdRWekIA~~VpgG-KS~~evk~hY~~LveDV~~IEsg~v~~P~y~~~ 67 (87)
+.+.+|.|+.||++|... ++++|++++++|| + ++.+++++||..++.||..|++|++|+|.|...
T Consensus 35 ~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~-~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~ 104 (335)
T KOG0724|consen 35 TEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALP-LEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKS 104 (335)
T ss_pred HHHHHHHHHHHHHHHhccccccchhhhhHHHhcCc-cccccchhHHhhhhhHHHHhhhhccCCCccccCcc
Confidence 467789999999999854 8999999999999 8 999999999999999999999999999999875
No 3
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.88 E-value=6e-09 Score=57.39 Aligned_cols=44 Identities=16% Similarity=0.552 Sum_probs=40.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLV 48 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lv 48 (87)
.|.+|+++|..+++.|+. .+|..||..+| +||..+|+.+|..+.
T Consensus 4 Wt~~E~~~l~~~~~~~g~---~~w~~Ia~~~~-~rt~~~~~~~~~~~~ 47 (49)
T smart00717 4 WTEEEDELLIELVKKYGK---NNWEKIAKELP-GRTAEQCRERWNNLL 47 (49)
T ss_pred CCHHHHHHHHHHHHHHCc---CCHHHHHHHcC-CCCHHHHHHHHHHHc
Confidence 489999999999999985 45999999999 999999999998764
No 4
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.84 E-value=1.1e-08 Score=55.74 Aligned_cols=43 Identities=21% Similarity=0.598 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
.|.+|++.|.++++.|+. ..|..||..+| +||..+|+.||..+
T Consensus 2 Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 2 WTEEEDELLLEAVKKYGK---NNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCHHHHHHHHHHHHHHCc---CCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 489999999999999975 45999999999 89999999999865
No 5
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.00 E-value=1.6e-05 Score=47.15 Aligned_cols=40 Identities=15% Similarity=0.532 Sum_probs=34.5
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
|.+|+..|..+...|.. .|.+||..+| .+|..+|+.||..
T Consensus 2 T~eEd~~L~~~~~~~g~----~W~~Ia~~l~-~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 2 TKEEDELLLELVKKYGN----DWKKIAEHLG-NRTPKQCRNRWRN 41 (60)
T ss_dssp -HHHHHHHHHHHHHHTS-----HHHHHHHST-TS-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHCc----CHHHHHHHHC-cCCHHHHHHHHHH
Confidence 88999999999999853 5999999997 8999999999998
No 6
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.20 E-value=0.00067 Score=56.15 Aligned_cols=41 Identities=24% Similarity=0.530 Sum_probs=37.9
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
|.+|.-+|-.|+.+|.-+. |+-||..|+ .||++||++||..
T Consensus 76 tadEEilLLea~~t~G~GN---W~dIA~hIG-tKtkeeck~hy~k 116 (438)
T KOG0457|consen 76 TADEEILLLEAAETYGFGN---WQDIADHIG-TKTKEECKEHYLK 116 (438)
T ss_pred ChHHHHHHHHHHHHhCCCc---HHHHHHHHc-ccchHHHHHHHHH
Confidence 6788899999999999886 999999999 9999999999964
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.10 E-value=0.0013 Score=51.09 Aligned_cols=45 Identities=13% Similarity=0.429 Sum_probs=37.2
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.|.+|+.++..+-+.|. .+|.+||..|| |+|-.+|+.||..++.-
T Consensus 81 WT~EED~lLlel~~~~G----nKWs~IAk~Lp-GRTDnqIKNRWns~LrK 125 (249)
T PLN03212 81 ITSDEEDLILRLHRLLG----NRWSLIAGRIP-GRTDNEIKNYWNTHLRK 125 (249)
T ss_pred CChHHHHHHHHHHHhcc----ccHHHHHhhcC-CCCHHHHHHHHHHHHhH
Confidence 47888888877766665 47999999999 99999999999866644
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=96.98 E-value=0.0013 Score=51.07 Aligned_cols=43 Identities=9% Similarity=0.226 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
+|.||+..+-++.+.|.. .+|..||..++.|+|..+|++||..
T Consensus 28 WT~EEDe~L~~lV~kyG~---~nW~~IAk~~g~gRT~KQCReRW~N 70 (249)
T PLN03212 28 WTVEEDEILVSFIKKEGE---GRWRSLPKRAGLLRCGKSCRLRWMN 70 (249)
T ss_pred CCHHHHHHHHHHHHHhCc---ccHHHHHHhhhcCCCcchHHHHHHH
Confidence 589999999999999974 4699999988338999999999974
No 9
>PLN03091 hypothetical protein; Provisional
Probab=96.85 E-value=0.0028 Score=52.86 Aligned_cols=45 Identities=16% Similarity=0.454 Sum_probs=38.6
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.|.+|++++-..-+.|. .+|.+||..+| |+|..+||.||..++.-
T Consensus 70 WT~EED~lLLeL~k~~G----nKWskIAk~LP-GRTDnqIKNRWnslLKK 114 (459)
T PLN03091 70 FSQQEENLIIELHAVLG----NRWSQIAAQLP-GRTDNEIKNLWNSCLKK 114 (459)
T ss_pred CCHHHHHHHHHHHHHhC----cchHHHHHhcC-CCCHHHHHHHHHHHHHH
Confidence 47889988888888876 47999999999 99999999999876653
No 10
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.64 E-value=0.0025 Score=53.74 Aligned_cols=41 Identities=27% Similarity=0.514 Sum_probs=32.6
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
|.+|--++-.++..|. |.|++||..|+ .||++||+-||-.|
T Consensus 283 S~qE~~LLLEGIe~yg----DdW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 283 SRQELLLLLEGIEMYG----DDWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred cHHHHHHHHHHHHHhh----hhHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 4455555666777774 56999999999 99999999999755
No 11
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=96.64 E-value=0.0037 Score=55.14 Aligned_cols=40 Identities=30% Similarity=0.413 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
.|..|.|+|..||.+|.+| +.+|+.+|+ |||+.+|.+.|-
T Consensus 622 WTp~E~~lF~kA~y~~~KD----F~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 622 WTPLERKLFNKALYTYSKD----FIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred ccHHHHHHHHHHHHHhccc----HHHHHHHhc-cccHHHHHHHHH
Confidence 3788999999999999988 789999999 999999999984
No 12
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=96.54 E-value=0.011 Score=36.26 Aligned_cols=42 Identities=14% Similarity=0.327 Sum_probs=35.5
Q ss_pred CHHHHHHHHHHHhhcCCCCChHH---HHHHHHcCCCC-CHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRW---QNVARAVGGGK-SPDDVKRHYDR 46 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRW---ekIA~~VpgGK-S~~evk~hY~~ 46 (87)
|.+|...|..|+..|..+. | .+|++.+...+ |..+|+.|+..
T Consensus 7 T~eeh~~Fl~ai~~~G~g~---~a~pk~I~~~~~~~~lT~~qV~SH~QK 52 (57)
T TIGR01557 7 TEDLHDRFLQAVQKLGGPD---WATPKRILELMVVDGLTRDQVASHLQK 52 (57)
T ss_pred CHHHHHHHHHHHHHhCCCc---ccchHHHHHHcCCCCCCHHHHHHHHHH
Confidence 8899999999999998633 8 99999865235 99999999975
No 13
>PLN03091 hypothetical protein; Provisional
Probab=96.49 E-value=0.004 Score=51.90 Aligned_cols=43 Identities=19% Similarity=0.442 Sum_probs=37.6
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
.|.+||+++-.++..|.. ..|..||..++.|+|..+|+.||..
T Consensus 17 WTpEEDe~L~~~V~kyG~---~nWs~IAk~~g~gRT~KQCRERW~N 59 (459)
T PLN03091 17 WSPEEDEKLLRHITKYGH---GCWSSVPKQAGLQRCGKSCRLRWIN 59 (459)
T ss_pred CCHHHHHHHHHHHHHhCc---CCHHHHhhhhccCcCcchHhHHHHh
Confidence 489999999999999975 3599999988548999999999973
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.26 E-value=0.0088 Score=44.70 Aligned_cols=40 Identities=23% Similarity=0.541 Sum_probs=35.2
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+|.||+.+.-+|=+.+. .||..||..+| |+|--|||.|..
T Consensus 65 fT~eEe~~Ii~lH~~~G----NrWs~IA~~LP-GRTDNeIKN~Wn 104 (238)
T KOG0048|consen 65 FSDEEEDLIIKLHALLG----NRWSLIAGRLP-GRTDNEVKNHWN 104 (238)
T ss_pred CCHHHHHHHHHHHHHHC----cHHHHHHhhCC-CcCHHHHHHHHH
Confidence 58899999888877774 56999999999 999999999885
No 15
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.80 E-value=0.021 Score=46.80 Aligned_cols=52 Identities=23% Similarity=0.580 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCC
Q 034673 3 PEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQFPLPN 63 (87)
Q Consensus 3 ~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v~~P~ 63 (87)
..|.-+|-.++.+..-+. |+-||..|+ .++++||+.||-... +||.-+|+|+
T Consensus 68 adEEllli~~~~TlGlGN---W~dIadyiG-sr~kee~k~HylK~y-----~es~~ypl~~ 119 (432)
T COG5114 68 ADEELLLIECLDTLGLGN---WEDIADYIG-SRAKEEIKSHYLKMY-----DESKYYPLPD 119 (432)
T ss_pred chHHHHHHHHHHhcCCCc---HHHHHHHHh-hhhhHHHHHHHHHHH-----hhcccccccc
Confidence 456667777777776664 999999999 999999999997542 3444445543
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=95.23 E-value=0.032 Score=46.96 Aligned_cols=41 Identities=27% Similarity=0.472 Sum_probs=33.7
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
|.+|.=++-.|+-.|.. -|.+||..|+ .||.+||+-||-.|
T Consensus 257 T~qE~lLLLE~ie~y~d----dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 257 TEQETLLLLEAIEMYGD----DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cHHHHHHHHHHHHHhcc----cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 55666667777888754 4999999999 99999999999765
No 17
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=92.20 E-value=0.8 Score=28.06 Aligned_cols=53 Identities=13% Similarity=0.288 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHHHhhcCC---C----------CChHHHHHHHHc----CCCCCHHHHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDK---D----------TPDRWQNVARAV----GGGKSPDDVKRHYDRLVEDLIF 53 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~---~----------tpdRWekIA~~V----pgGKS~~evk~hY~~LveDV~~ 53 (87)
+|.+|...|-.-+..|+. + ...-|+.||..+ |+.||..+|++.|..|...++.
T Consensus 5 fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 5 FSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 477888888777777632 1 246799999887 3359999999999999888764
No 18
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.13 E-value=0.41 Score=43.39 Aligned_cols=53 Identities=23% Similarity=0.348 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH----------HHHHHhCC
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED----------LIFIESAQ 58 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD----------V~~IEsg~ 58 (87)
|+.+=..|-+|.+.|..+ ..++||..|. |||.+||++..+..-+- +..||.|.
T Consensus 828 ~~~~f~~f~~~~~~~gr~---~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e 890 (1033)
T PLN03142 828 SRRDFNAFIRACEKYGRN---DIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGE 890 (1033)
T ss_pred cHHHHHHHHHHHHHhCHh---HHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHH
Confidence 344455667777777654 4899999999 89999999755443322 55666663
No 19
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=91.55 E-value=0.28 Score=43.58 Aligned_cols=42 Identities=19% Similarity=0.401 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
.|.+|+-++-.|.+.|.... |-+|-..|| |+|-.+|+.||-.
T Consensus 363 wt~~ED~~L~~AV~~Yg~kd---w~k~R~~vP-nRSdsQcR~RY~n 404 (939)
T KOG0049|consen 363 WTDQEDVLLVCAVSRYGAKD---WAKVRQAVP-NRSDSQCRERYTN 404 (939)
T ss_pred CCCHHHHHHHHHHHHhCccc---hhhHHHhcC-CccHHHHHHHHHH
Confidence 37788999999999998653 999999999 9999999999953
No 20
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=89.28 E-value=1.3 Score=27.23 Aligned_cols=56 Identities=16% Similarity=0.381 Sum_probs=36.7
Q ss_pred CHHHHHHHHHHHhh------cC--CCC--ChHHHHHHHHc---CCCCCHHHHHHHHHHHHHHHHHHHhC
Q 034673 2 DPEQNKKFERALAV------YD--KDT--PDRWQNVARAV---GGGKSPDDVKRHYDRLVEDLIFIESA 57 (87)
Q Consensus 2 T~eenK~FE~ALa~------~~--~~t--pdRWekIA~~V---pgGKS~~evk~hY~~LveDV~~IEsg 57 (87)
|.+|-++|-.+... |. ... ..-|+.||..+ +-.+|+.+|+.+++.|..+.+.+...
T Consensus 5 t~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~ 73 (90)
T PF13837_consen 5 TDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDR 73 (90)
T ss_dssp -HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSS
T ss_pred CHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 55666666666555 21 122 24799999986 22589999999999999999977543
No 21
>smart00595 MADF subfamily of SANT domain.
Probab=89.17 E-value=0.59 Score=29.04 Aligned_cols=27 Identities=22% Similarity=0.624 Sum_probs=23.4
Q ss_pred hHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 22 dRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.-|..||..++ .|+++|+.+++.|..-
T Consensus 28 ~aW~~Ia~~l~--~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 28 KAWEEIAEELG--LSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHHHC--cCHHHHHHHHHHHHHH
Confidence 56999999997 6999999999988543
No 22
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=89.13 E-value=1.9 Score=29.79 Aligned_cols=52 Identities=15% Similarity=0.426 Sum_probs=43.1
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcC-----------CCCCHHHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVG-----------GGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~Vp-----------gGKS~~evk~hY~~LveDV~ 52 (87)
.|.+||+.+-..+..|.-++++.|++|-..+- -.+|+.|+.+|...|+.-|.
T Consensus 52 yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 52 YSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp S-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred cCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 37899999999999999999999999998762 04899999999999986554
No 23
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=88.87 E-value=0.84 Score=38.87 Aligned_cols=40 Identities=23% Similarity=0.380 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
|.|+--+||+|+..|.++ +.+|-+++| -||...+.+.|-.
T Consensus 191 T~Ed~vlFe~aF~~~GK~----F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 191 TAEDIVLFEQAFQFFGKD----FHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred hHHHHHHHHHHHHHhccc----HHHHHHHcc-CccHHHHHHHHHH
Confidence 788999999999999886 899999999 9999999998843
No 24
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=87.95 E-value=1.2 Score=26.64 Aligned_cols=33 Identities=30% Similarity=0.534 Sum_probs=27.3
Q ss_pred ChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 034673 21 PDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIF 53 (87)
Q Consensus 21 pdRWekIA~~VpgGKS~~evk~hY~~LveDV~~ 53 (87)
.+-|+.||..++..-++++|+++...|......
T Consensus 26 ~~aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~ 58 (85)
T PF10545_consen 26 EEAWQEIARELGKEFSVDDCKKRWKNLRDRYRR 58 (85)
T ss_pred HHHHHHHHHHHccchhHHHHHHHHHHHHHHHHH
Confidence 367999999998557899999999999776554
No 25
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=78.70 E-value=8.7 Score=21.82 Aligned_cols=43 Identities=19% Similarity=0.285 Sum_probs=37.2
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+|.+|-+.||.....-+.-+.+.-+.||..++ -|...|..=|.
T Consensus 7 ~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~--l~~~~V~~WF~ 49 (57)
T PF00046_consen 7 FTKEQLKVLEEYFQENPYPSKEEREELAKELG--LTERQVKNWFQ 49 (57)
T ss_dssp SSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHT--SSHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhcccccccccccccccc--ccccccccCHH
Confidence 58899999999999877777788999999995 99999987664
No 26
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=78.28 E-value=3.3 Score=34.63 Aligned_cols=41 Identities=27% Similarity=0.347 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
.|.+|=+.||.-|..|.|+. -..=|..|+ .+|+-||...|-
T Consensus 280 wsEeEcr~FEegl~~yGKDF---~lIr~nkvr-tRsvgElVeyYY 320 (445)
T KOG4329|consen 280 WSEEECRNFEEGLELYGKDF---HLIRANKVR-TRSVGELVEYYY 320 (445)
T ss_pred CCHHHHHHHHHHHHHhcccH---HHHHhcccc-cchHHHHHHHHH
Confidence 36789999999999999974 334478899 999999998884
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=77.42 E-value=3.1 Score=36.09 Aligned_cols=43 Identities=16% Similarity=0.454 Sum_probs=35.9
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLV 48 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lv 48 (87)
+..|+..+-.|...|+++ .|-+||+.++ -||+.+|+.+|.+-+
T Consensus 11 rntEdeilkaav~kyg~n---qws~i~sll~-~kt~rqC~~rw~e~l 53 (617)
T KOG0050|consen 11 RNTEDEVLKAAVMKYGKN---QWSRIASLLN-RKTARQCKARWEEWL 53 (617)
T ss_pred cccHHHHHHHHHHHcchH---HHHHHHHHHh-hcchhHHHHHHHHHh
Confidence 456788888888888765 5999999999 999999999997543
No 28
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=75.45 E-value=4.5 Score=22.95 Aligned_cols=37 Identities=30% Similarity=0.423 Sum_probs=25.9
Q ss_pred HHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 034673 7 KKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLV 48 (87)
Q Consensus 7 K~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lv 48 (87)
+..-++|.. +..--|..||+.|+ -|...|.+|.+.|.
T Consensus 6 ~~Il~~Lq~---d~r~s~~~la~~lg--lS~~~v~~Ri~rL~ 42 (42)
T PF13404_consen 6 RKILRLLQE---DGRRSYAELAEELG--LSESTVRRRIRRLE 42 (42)
T ss_dssp HHHHHHHHH----TTS-HHHHHHHHT--S-HHHHHHHHHHHH
T ss_pred HHHHHHHHH---cCCccHHHHHHHHC--cCHHHHHHHHHHhC
Confidence 344444444 35566999999996 99999999998873
No 29
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=72.41 E-value=9 Score=33.36 Aligned_cols=36 Identities=17% Similarity=0.522 Sum_probs=31.0
Q ss_pred CChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhC
Q 034673 20 TPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESA 57 (87)
Q Consensus 20 tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg 57 (87)
.|..|--||..|+ +|..+|-+||..|+..-..-..+
T Consensus 77 ~p~qwrtIa~i~g--r~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 77 EPTQWRTIADIMG--RTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred cCCccchHHHHhh--hhHHHHHHHHHHHHHHHHhhhcc
Confidence 3677999999996 99999999999999887766555
No 30
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=71.82 E-value=17 Score=26.46 Aligned_cols=43 Identities=23% Similarity=0.408 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+++.|.++|-+|+-.|.-+.= -|.-+...+. +||.+|++.+-.
T Consensus 41 Fn~rQR~~Fln~vMR~G~~~f-~~~w~~~~Lr-~Ks~~ei~aY~~ 83 (145)
T PF06461_consen 41 FNPRQRKAFLNAVMRYGMGAF-DWKWFVPRLR-GKSEKEIRAYGS 83 (145)
T ss_pred cCHHHHHHHHHHHHHHCcCcc-cchHHhhhhc-cccHHHHHHHHH
Confidence 478899999999999987543 4777788899 899999887654
No 31
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=71.64 E-value=7 Score=18.76 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=19.3
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHH
Q 034673 6 NKKFERALAVYDKDTPDRWQNVARA 30 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~~ 30 (87)
.++||+||..+| ..++-|-.-+..
T Consensus 7 r~i~e~~l~~~~-~~~~~W~~y~~~ 30 (33)
T smart00386 7 RKIYERALEKFP-KSVELWLKYAEF 30 (33)
T ss_pred HHHHHHHHHHCC-CChHHHHHHHHH
Confidence 568999999998 667889876653
No 32
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=71.59 E-value=6.9 Score=25.93 Aligned_cols=26 Identities=15% Similarity=0.249 Sum_probs=20.6
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHHc
Q 034673 6 NKKFERALAVYDKDTPDRWQNVARAV 31 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~~V 31 (87)
.|++...++.=|...+..|+.||..+
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~m 69 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRM 69 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHH
Confidence 56677777776777789999999876
No 33
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=70.17 E-value=23 Score=21.90 Aligned_cols=55 Identities=18% Similarity=0.295 Sum_probs=39.2
Q ss_pred CHHHHHHHHHHHhhc------C-C--CCChHHHHHHHHc----CCCCCHHHHHHHHHHHHHHHHHHHh
Q 034673 2 DPEQNKKFERALAVY------D-K--DTPDRWQNVARAV----GGGKSPDDVKRHYDRLVEDLIFIES 56 (87)
Q Consensus 2 T~eenK~FE~ALa~~------~-~--~tpdRWekIA~~V----pgGKS~~evk~hY~~LveDV~~IEs 56 (87)
|.++.+.|-.+|... + . -++.-|..|+..+ +...|..+|+.||..|..+-..+..
T Consensus 3 t~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~~~ 70 (96)
T PF12776_consen 3 TPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIWKE 70 (96)
T ss_pred ChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHH
Confidence 556667776666543 1 1 1267899999875 2236889999999999998887754
No 34
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=69.62 E-value=3.3 Score=26.59 Aligned_cols=23 Identities=30% Similarity=0.648 Sum_probs=19.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 034673 33 GGKSPDDVKRHYDRLVEDLIFIE 55 (87)
Q Consensus 33 gGKS~~evk~hY~~LveDV~~IE 55 (87)
.|.+.++|++.|..++.+|...|
T Consensus 11 ~G~~~e~vk~~F~~~~~~Vs~~E 33 (71)
T PF04282_consen 11 EGEDPEEVKEEFKKLFSDVSASE 33 (71)
T ss_pred CCCCHHHHHHHHHHHHCCCCHHH
Confidence 48999999999999999887654
No 35
>cd08308 Death_Tube Death domain of Tube. Death domains (DDs) similar to the DD in the protein Tube from Drosophila melanogaster. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and also in mediating innate immune response to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Some members of this subfamily contain a C-terminal kinase domain, like Pelle, in addition to the DD. Tube has no counterpart in vertebrates. It contains an N-terminal DD and a C-terminal region with five copies of the Tube repeat, an 8-amino acid motif. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (D
Probab=69.41 E-value=2.1 Score=30.28 Aligned_cols=36 Identities=22% Similarity=0.376 Sum_probs=24.2
Q ss_pred CCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Q 034673 19 DTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIES 56 (87)
Q Consensus 19 ~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEs 56 (87)
|..|.|.+++..+| |...+-..+.++=.++|+.||.
T Consensus 20 D~~d~Wk~L~~~Ip--~~~~~~~~~~~Y~~~hv~~ie~ 55 (125)
T cd08308 20 DINDGWKKLMAIIP--SDDDDFNNLAKYNAEHFKLIEQ 55 (125)
T ss_pred CccccHHHHHHhcC--CcccccccccccCHHHHHHHHH
Confidence 44689999999999 6666533333333457777774
No 36
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=68.79 E-value=18 Score=20.14 Aligned_cols=43 Identities=19% Similarity=0.370 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+|.++...||..+...+.-+...=+.||..++ -|..+|..-|.
T Consensus 7 ~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~--l~~~qV~~WF~ 49 (59)
T cd00086 7 FTPEQLEELEKEFEKNPYPSREEREELAKELG--LTERQVKIWFQ 49 (59)
T ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHC--cCHHHHHHHHH
Confidence 47789999999999988767777899999985 99999988765
No 37
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=68.09 E-value=8.3 Score=28.75 Aligned_cols=49 Identities=14% Similarity=0.203 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH-HHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD-RLVEDLI 52 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~-~LveDV~ 52 (87)
.|.|||..+-.-+..|.+. +|-.||...|=|++-..|+.|.- +|-=||+
T Consensus 12 Wt~EED~~L~~~V~~~G~~---~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 12 WTQEEDLTQIRSIKSFGKH---NGTALPKLAGLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred CChHHHHHHHHHHHHhCCC---CcchhhhhcCCCccchHHHHHhhcccCCCcc
Confidence 4889999999888888766 69999999985699999999974 4433333
No 38
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=67.79 E-value=12 Score=32.56 Aligned_cols=64 Identities=25% Similarity=0.267 Sum_probs=43.9
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHH------H--HHHHHHh----CCCCCCCCCCCCC
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLV------E--DLIFIES----AQFPLPNYKNTGN 69 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lv------e--DV~~IEs----g~v~~P~y~~~~~ 69 (87)
|..|--+||.||-.|.+|..| .=+..+| =||..++.+.|-... + -++.-|+ .+|=+|.|.....
T Consensus 289 SasEanLFEeALeKyGKDFnd---IrqdfLP-WKSl~sIveyYYmwKttdRYvqqKrlKaaeadsKlkqvYIP~ynKPnp 364 (693)
T KOG3554|consen 289 SASEANLFEEALEKYGKDFND---IRQDFLP-WKSLTSIVEYYYMWKTTDRYVQQKRLKAAEADSKLKQVYIPTYNKPNP 364 (693)
T ss_pred cchhhHHHHHHHHHhcccHHH---HHHhhcc-hHHHHHHHHHHHHHhhhhHHHHHHhhhhhhhhhhhheeeccCCCCCCc
Confidence 556788999999999998654 3477899 899999999884321 1 1122222 2366888865444
No 39
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=66.89 E-value=6.5 Score=33.51 Aligned_cols=33 Identities=18% Similarity=0.334 Sum_probs=29.7
Q ss_pred CChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 034673 20 TPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIF 53 (87)
Q Consensus 20 tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~ 53 (87)
.+.+|.-||..+| |.|...|..+|..+.++...
T Consensus 90 ~~~~wstia~~~d-~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 90 LGTQWSTIADYKD-RRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cCchhhhhccccC-ccchHHHHHHHHHHhhhhhc
Confidence 3456999999999 89999999999999998886
No 40
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=66.60 E-value=6.1 Score=26.54 Aligned_cols=20 Identities=40% Similarity=0.632 Sum_probs=14.7
Q ss_pred CCChHHHHHHHHcCCCCCHHH
Q 034673 19 DTPDRWQNVARAVGGGKSPDD 39 (87)
Q Consensus 19 ~tpdRWekIA~~VpgGKS~~e 39 (87)
|+.+.|.++|..|+ +=|..|
T Consensus 19 D~~~~W~~LA~~i~-~ys~~~ 38 (97)
T cd08307 19 DTDNVWEELAFVMM-GYSNDD 38 (97)
T ss_pred CCcCcHHHHHHHHh-cCCHHH
Confidence 44589999999998 544443
No 41
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=64.79 E-value=9.8 Score=25.36 Aligned_cols=37 Identities=32% Similarity=0.413 Sum_probs=29.2
Q ss_pred HHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 12 ALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 12 ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.|...-.+.+..+..||+.|+ .|...|.+|-+.|.++
T Consensus 13 IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 13 ILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEE 49 (154)
T ss_pred HHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHC
Confidence 344444555677999999996 9999999999999764
No 42
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=63.49 E-value=28 Score=23.64 Aligned_cols=27 Identities=19% Similarity=0.234 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCC
Q 034673 37 PDDVKRHYDRLVEDLIFIESAQFPLPN 63 (87)
Q Consensus 37 ~~evk~hY~~LveDV~~IEsg~v~~P~ 63 (87)
.+.++++|+.-+..++.|-+|++.|+.
T Consensus 84 ~e~~~~rY~~A~~~L~~ia~G~~~L~~ 110 (130)
T PF07030_consen 84 TEPVRERYKDAIKWLEDIAKGKISLGL 110 (130)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCccCCC
Confidence 889999999999999999999987653
No 43
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=63.25 E-value=25 Score=24.77 Aligned_cols=45 Identities=22% Similarity=0.459 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 034673 3 PEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 3 ~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~ 52 (87)
.++.+.|+ ..|....-.-|..||..+- +|...|++.|....++|.
T Consensus 84 de~k~Ii~---lry~~r~~~TW~~IA~~l~--i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 84 DEEKRIIK---LRYDRRSRRTWYQIAQKLH--ISERTARRWRDRFKNDIY 128 (130)
T ss_pred HHHHHHHH---HHHcccccchHHHHHHHhC--ccHHHHHHHHHHHHHHhc
Confidence 34444442 2355554567999999997 999999999998888875
No 44
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=63.02 E-value=25 Score=19.63 Aligned_cols=45 Identities=18% Similarity=0.336 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~ 52 (87)
+|.+|...+..-. |. +-.+..||..++ .|..-|+++...-++-++
T Consensus 5 L~~~er~vi~~~y--~~---~~t~~eIa~~lg--~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 5 LPPREREVIRLRY--FE---GLTLEEIAERLG--ISRSTVRRILKRALKKLR 49 (50)
T ss_dssp S-HHHHHHHHHHH--TS---T-SHHHHHHHHT--SCHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHh--cC---CCCHHHHHHHHC--CcHHHHHHHHHHHHHHhc
Confidence 4677888877764 22 234999999996 999999999987766554
No 45
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=62.59 E-value=19 Score=32.08 Aligned_cols=56 Identities=27% Similarity=0.370 Sum_probs=43.2
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHH----------HHHcCCCCCHHHHHHHHHHHHHHHHHHHhCC-CCCC
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNV----------ARAVGGGKSPDDVKRHYDRLVEDLIFIESAQ-FPLP 62 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekI----------A~~VpgGKS~~evk~hY~~LveDV~~IEsg~-v~~P 62 (87)
|..|.-.|=.||.+|.++ +|+| -..+- -||+.+|+.||-.++.-+...-.|. +++|
T Consensus 92 t~~E~~~Ffdal~~~GKd----Fe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~~m~k~~F~~~l~~d 158 (782)
T KOG4468|consen 92 THQEEESFFDALRQVGKD----FEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVRRMNKLLFGPDLSLD 158 (782)
T ss_pred chhhHHHHHHHHHHhccc----HHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHHHHHhhhcccccCcc
Confidence 556778899999999988 6777 55577 7999999999998887776655443 4444
No 46
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=61.65 E-value=7.5 Score=25.67 Aligned_cols=46 Identities=13% Similarity=0.174 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 3 PEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 3 ~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
..|...|++||...-.+-.+..+++...++ .... ++..-|..|++|
T Consensus 34 ~~E~~rl~~Al~~~~~eL~~l~~~~~~~~~-~~~a-~If~ah~~~L~D 79 (123)
T PF05524_consen 34 EAEIERLEQALEKAREELEQLAERAESKLG-EEEA-AIFEAHLMMLED 79 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCH-SSCT-HHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-ccHH-HHHHHHHHHhcC
Confidence 468899999999987766555666666676 4555 999999999998
No 47
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=61.03 E-value=10 Score=23.65 Aligned_cols=41 Identities=20% Similarity=0.361 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhhcCCCCC----hHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 4 EQNKKFERALAVYDKDTP----DRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 4 eenK~FE~ALa~~~~~tp----dRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+.+.+|+-..|..--+-+ ---..||..+- |||++|++..|.
T Consensus 12 ~~~~L~~l~~AA~yL~I~~L~~~~~~~iA~~i~-gks~eeir~~fg 56 (78)
T PF01466_consen 12 DNDELFDLLNAANYLDIKGLLDLCCKYIANMIK-GKSPEEIRKYFG 56 (78)
T ss_dssp -HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHT-TS-HHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHcchHHHHHHHHHHHHHhc-CCCHHHHHHHcC
Confidence 345667776666533332 33467889999 899999999884
No 48
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=60.62 E-value=9 Score=24.24 Aligned_cols=22 Identities=45% Similarity=0.685 Sum_probs=19.3
Q ss_pred HcCCCCCHHHHHHHHHHHHHHHH
Q 034673 30 AVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 30 ~VpgGKS~~evk~hY~~LveDV~ 52 (87)
.+. |.|.+|.|+.|-.|++.+.
T Consensus 62 ~l~-gms~~eA~~~Yi~~v~~~~ 83 (87)
T PF00887_consen 62 ALK-GMSKEEAMREYIELVEELI 83 (87)
T ss_dssp TTT-TTHHHHHHHHHHHHHHHHH
T ss_pred Hcc-CCCHHHHHHHHHHHHHHHH
Confidence 367 8999999999999998875
No 49
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.23 E-value=19 Score=25.08 Aligned_cols=33 Identities=24% Similarity=0.266 Sum_probs=27.3
Q ss_pred cCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 16 YDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 16 ~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.-++..-.|..||+.|+ -|..-|.+|++.|.++
T Consensus 23 Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 23 LQKDGRISNVELSKRVG--LSPTPCLERVRRLERQ 55 (164)
T ss_pred hccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHC
Confidence 34555666999999996 9999999999999653
No 50
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=57.95 E-value=33 Score=26.58 Aligned_cols=37 Identities=24% Similarity=0.411 Sum_probs=28.9
Q ss_pred hHHHHHHHH---cCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 034673 22 DRWQNVARA---VGGGKSPDDVKRHYDRLVEDLIFIESAQ 58 (87)
Q Consensus 22 dRWekIA~~---VpgGKS~~evk~hY~~LveDV~~IEsg~ 58 (87)
.-|+.||+. .+.-||..+|+.+++.|..-.+....+.
T Consensus 84 ~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~ 123 (345)
T KOG4282|consen 84 PLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKK 123 (345)
T ss_pred cHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhccc
Confidence 459999982 2223999999999999988888776654
No 51
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=57.32 E-value=17 Score=23.42 Aligned_cols=22 Identities=36% Similarity=0.540 Sum_probs=19.3
Q ss_pred HcCCCCCHHHHHHHHHHHHHHHH
Q 034673 30 AVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 30 ~VpgGKS~~evk~hY~~LveDV~ 52 (87)
.+. |.|.+|.|+.|-.|++.+.
T Consensus 60 ~l~-~ms~~eA~~~YV~~~~~l~ 81 (85)
T cd00435 60 SLK-GMSKEDAMKAYIAKVEELI 81 (85)
T ss_pred HcC-CCCHHHHHHHHHHHHHHHh
Confidence 367 9999999999999998875
No 52
>PTZ00458 acyl CoA binding protein; Provisional
Probab=57.06 E-value=19 Score=23.78 Aligned_cols=21 Identities=24% Similarity=0.536 Sum_probs=19.0
Q ss_pred cCCCCCHHHHHHHHHHHHHHHH
Q 034673 31 VGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 31 VpgGKS~~evk~hY~~LveDV~ 52 (87)
+. |-|.+|.+++|-.|++.+.
T Consensus 63 l~-~ms~~eA~~~YI~l~~~l~ 83 (90)
T PTZ00458 63 IE-NLNREDAKKRYVEIVTELF 83 (90)
T ss_pred cC-CCCHHHHHHHHHHHHHHHh
Confidence 56 8999999999999999875
No 53
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=55.14 E-value=14 Score=33.32 Aligned_cols=44 Identities=11% Similarity=0.352 Sum_probs=34.0
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
|.|||..+-+....-.-++--.|.||-..+| |||..+++-||-.
T Consensus 309 sEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~ 352 (939)
T KOG0049|consen 309 SEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSH 352 (939)
T ss_pred chhhhHHHHHHHHHhhccCccchHHHHHhcC-Ccchhhhhhhhee
Confidence 5667766655444445566678999999999 9999999999954
No 54
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=55.10 E-value=54 Score=22.49 Aligned_cols=39 Identities=15% Similarity=0.369 Sum_probs=29.8
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 6 NKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
|+.+-.+|.. +..-.|..||+.++ -|...|.+|++.|.+
T Consensus 11 D~~Il~~Lq~---d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 11 DRGILEALME---NARTPYAELAKQFG--VSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHH---cCCCCHHHHHHHHC--cCHHHHHHHHHHHHH
Confidence 4444455555 34556999999996 999999999999965
No 55
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=54.99 E-value=24 Score=22.02 Aligned_cols=28 Identities=25% Similarity=0.697 Sum_probs=20.8
Q ss_pred hHHHHHHHHcCCCCC-----HHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKS-----PDDVKRHYDRLVED 50 (87)
Q Consensus 22 dRWekIA~~VpgGKS-----~~evk~hY~~LveD 50 (87)
..|..||..++ -.+ ...++.+|...+.+
T Consensus 58 ~~W~~va~~lg-~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 58 KKWREVARKLG-FPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp TTHHHHHHHTT-S-TTSCHHHHHHHHHHHHHTHH
T ss_pred chHHHHHHHhC-CCCCCCcHHHHHHHHHHHHhHh
Confidence 45999999996 333 47899999876554
No 56
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=54.73 E-value=36 Score=18.86 Aligned_cols=43 Identities=21% Similarity=0.348 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+|.++...||.++...+.-+++.=+.||..++ -|..+|..=|.
T Consensus 7 ~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~--l~~~qV~~WF~ 49 (56)
T smart00389 7 FTPEQLEELEKEFQKNPYPSREEREELAAKLG--LSERQVKVWFQ 49 (56)
T ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHC--cCHHHHHHhHH
Confidence 47889999999999887656677788999885 89888877654
No 57
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=54.48 E-value=43 Score=21.17 Aligned_cols=32 Identities=22% Similarity=0.631 Sum_probs=23.8
Q ss_pred ChHHHHHHHHcCCCC----CHHHHHHHHHHHHHHHH
Q 034673 21 PDRWQNVARAVGGGK----SPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 21 pdRWekIA~~VpgGK----S~~evk~hY~~LveDV~ 52 (87)
..+|..||..++-.. ....++.+|...+....
T Consensus 53 ~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE 88 (93)
T smart00501 53 DKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFE 88 (93)
T ss_pred CCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHH
Confidence 478999999997322 25789999987766554
No 58
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=46.54 E-value=20 Score=19.43 Aligned_cols=23 Identities=35% Similarity=0.749 Sum_probs=17.5
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHH
Q 034673 6 NKKFERALAVYDKDTPDRWQNVAR 29 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~ 29 (87)
.+.|+++|+.+|.+ ++-|...|.
T Consensus 21 ~~~~~~~l~~~P~~-~~a~~~La~ 43 (44)
T PF13428_consen 21 ERLLRRALALDPDD-PEAWRALAQ 43 (44)
T ss_pred HHHHHHHHHHCcCC-HHHHHHhhh
Confidence 47899999998865 677877664
No 59
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=46.08 E-value=50 Score=22.13 Aligned_cols=30 Identities=33% Similarity=0.506 Sum_probs=24.5
Q ss_pred hHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKSPDDVKRHYDRLVEDLIF 53 (87)
Q Consensus 22 dRWekIA~~VpgGKS~~evk~hY~~LveDV~~ 53 (87)
..|+--|. +- |||.+|....|-.||+.++.
T Consensus 54 ~K~eAW~~-LK-GksqedA~qeYialVeeLka 83 (87)
T COG4281 54 YKYEAWAG-LK-GKSQEDARQEYIALVEELKA 83 (87)
T ss_pred hhHHHHhh-cc-CccHHHHHHHHHHHHHHHHh
Confidence 45666665 45 79999999999999998874
No 60
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=45.83 E-value=65 Score=19.27 Aligned_cols=43 Identities=16% Similarity=0.296 Sum_probs=23.0
Q ss_pred HHHHHHHhhcCCC--CChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 7 KKFERALAVYDKD--TPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 7 K~FE~ALa~~~~~--tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
+.|+.++..+|.. .++-|...+.+.-.-+...+...+|..+++
T Consensus 60 ~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~ 104 (119)
T TIGR02795 60 KAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIK 104 (119)
T ss_pred HHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence 4566666666543 345566655554423444555566655544
No 61
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=45.79 E-value=32 Score=19.31 Aligned_cols=42 Identities=26% Similarity=0.415 Sum_probs=26.5
Q ss_pred HHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 7 KKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 7 K~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
+.|+++|..+|. .++-|...+.+.=.-+..++-...|+.+++
T Consensus 18 ~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 18 AAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 567777777655 467777777655434566666677776653
No 62
>PF10124 Mu-like_gpT: Mu-like prophage major head subunit gpT; InterPro: IPR018774 This entry represents a conserved domain found in various caudoviral prophage proteins, including the bacteriophage Mu major head subunit GpT and related prophage.
Probab=45.28 E-value=5.9 Score=31.51 Aligned_cols=30 Identities=20% Similarity=0.562 Sum_probs=23.9
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHH
Q 034673 6 NKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDV 40 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~ev 40 (87)
++.|.+||... +..|.+||..|| .-|+++-
T Consensus 9 ~~~F~~~l~~a----~~~~~~iA~~Vp-Stt~~n~ 38 (291)
T PF10124_consen 9 KTAFQKGLEAA----PPQWNKIATEVP-STTASNT 38 (291)
T ss_pred HHHHHHHHhhC----CChhheEEEEcc-CCCCccc
Confidence 67899998865 355999999999 7777653
No 63
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=44.84 E-value=29 Score=20.24 Aligned_cols=29 Identities=21% Similarity=0.226 Sum_probs=21.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 034673 34 GKSPDDVKRHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV~~IEsg~v~~P 62 (87)
|.|..++=++-..=..-|..||+|..+.|
T Consensus 14 gls~~~lA~~~g~s~s~v~~iE~G~~~~p 42 (64)
T PF13560_consen 14 GLSQAQLADRLGVSQSTVSRIERGRRPRP 42 (64)
T ss_dssp TS-HHHHHHHHTS-HHHHHHHHTTSSSS-
T ss_pred CCCHHHHHHHHCcCHHHHHHHHCCCCCCC
Confidence 57777777777777788999999998755
No 64
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=43.79 E-value=56 Score=17.91 Aligned_cols=43 Identities=26% Similarity=0.287 Sum_probs=29.4
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
|+..+-+.+ .+|..-|. --...||..++ -|..-|.++.+.|++
T Consensus 1 l~~~~~~Il-~~l~~~~~---~t~~ela~~~~--is~~tv~~~l~~L~~ 43 (48)
T PF13412_consen 1 LDETQRKIL-NYLRENPR---ITQKELAEKLG--ISRSTVNRYLKKLEE 43 (48)
T ss_dssp --HHHHHHH-HHHHHCTT---S-HHHHHHHHT--S-HHHHHHHHHHHHH
T ss_pred CCHHHHHHH-HHHHHcCC---CCHHHHHHHhC--CCHHHHHHHHHHHHH
Confidence 455566666 55555444 34778999996 999999999999976
No 65
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=42.29 E-value=47 Score=22.01 Aligned_cols=45 Identities=13% Similarity=0.392 Sum_probs=35.6
Q ss_pred HHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCC
Q 034673 7 KKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQF 59 (87)
Q Consensus 7 K~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v 59 (87)
..|+.|++.|-.+.|. +. -+ ....+|-.-|..+-.+|..||+..-
T Consensus 20 ~~~~~gf~~yl~~~~~--~~----y~--~~~~~iT~~f~~~S~ei~~ie~~L~ 64 (97)
T PF14966_consen 20 NRFEEGFKKYLRSGPE--EA----YR--QLCHEITQEFSAISKEILAIEAELR 64 (97)
T ss_pred HHHHHHHHHHHhcCCh--HH----HH--HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5799999999887776 22 33 4556788999999999999998763
No 66
>PF10743 Phage_Cox: Regulatory phage protein cox; InterPro: IPR019679 Phage Cox proteins are expressed by Enterobacteria phages. The Cox protein is a 79-residue basic protein with a predicted strong helix-turn-helix DNA-binding motif. It inhibits integrative recombination and it activates site-specific excision of the HP1 genome from the Haemophilus influenzae chromosome, Hp1. Cox appears to function as a tetramer. Cox binding sites consist of two direct repeats of the consensus motif 5'-GGTMAWWWWA, one Cox tetramer binding to each motif. Cox binding interferes with the interaction of HP1 integrase with one of its binding sites, IBS5. This competition is central to directional control. Both Cox binding sites are needed for full inhibition of integration and for activating excision, because it plays a positive role in assembling the nucleoprotein complexes that produce excisive recombination, by inducing the formation of a critical conformation in those complexes [].
Probab=42.21 E-value=55 Score=21.98 Aligned_cols=42 Identities=21% Similarity=0.560 Sum_probs=29.1
Q ss_pred hhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCC
Q 034673 14 AVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQFPLPNYKNTG 68 (87)
Q Consensus 14 a~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v~~P~y~~~~ 68 (87)
..||.+. =--++.|..++ ||..-|+. .|++|+.|+=...+..
T Consensus 6 ~~~p~d~-v~~~~FA~~IG--Kt~sAVr~----------Mi~~gKLP~i~~~dP~ 47 (87)
T PF10743_consen 6 SEYPSDA-VTYEKFAEYIG--KTPSAVRK----------MIKAGKLPVIEMRDPE 47 (87)
T ss_pred Hhhhccc-cCHHHHHHHHC--CCHHHHHH----------HHHcCCCCeEeccCCC
Confidence 3454442 23589999995 99998863 6889999875554443
No 67
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=42.11 E-value=41 Score=24.46 Aligned_cols=41 Identities=24% Similarity=0.473 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhhcCCCCCh----HHHHHHHHcCCCCCHHHHHHHHH
Q 034673 4 EQNKKFERALAVYDKDTPD----RWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 4 eenK~FE~ALa~~~~~tpd----RWekIA~~VpgGKS~~evk~hY~ 45 (87)
++.-+|+-.||.+--+-+. .=..||.++- |||.+|++..|.
T Consensus 96 d~~tLfdli~AAnyLdi~gLl~~~ck~va~mik-gktpeEir~~f~ 140 (162)
T KOG1724|consen 96 DQGTLFDLILAANYLDIKGLLDLTCKTVANMIK-GKTPEEIREIFN 140 (162)
T ss_pred CHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHc-cCCHHHHHHHcC
Confidence 4667999999998766653 3468899998 899999999874
No 68
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=41.70 E-value=82 Score=19.25 Aligned_cols=48 Identities=25% Similarity=0.333 Sum_probs=33.4
Q ss_pred CCHHHHHHHHHHHhhcC-CCCChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYD-KDTPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~-~~tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
||..|.+.|+-.-..+. .+-|---..||+.++ =+|..-|..|-+.|++
T Consensus 4 LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g-~~S~~tv~~~L~~Le~ 52 (65)
T PF01726_consen 4 LTERQKEVLEFIREYIEENGYPPTVREIAEALG-LKSTSTVQRHLKALER 52 (65)
T ss_dssp --HHHHHHHHHHHHHHHHHSS---HHHHHHHHT-SSSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence 57888888876555444 244556788999998 7899999999888864
No 69
>PF15583 Imm41: Immunity protein 41
Probab=41.53 E-value=68 Score=23.67 Aligned_cols=29 Identities=14% Similarity=0.350 Sum_probs=22.4
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcC
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVG 32 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~Vp 32 (87)
|.||..++-+||+-|..+-.+ ..++.++|
T Consensus 112 t~EE~~~~~~aL~dF~~~p~~--YdL~Em~d 140 (158)
T PF15583_consen 112 TSEENTAINKALKDFARNPLE--YDLSEMCD 140 (158)
T ss_pred CHHHHHHHHHHHHHHHhCHHh--hhHHHhCC
Confidence 789999999999999765322 24577777
No 70
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=37.90 E-value=38 Score=29.68 Aligned_cols=33 Identities=21% Similarity=0.637 Sum_probs=27.2
Q ss_pred CCCChHHHHHHHHcCCCCC-HHHHHHHHHHHHHHH
Q 034673 18 KDTPDRWQNVARAVGGGKS-PDDVKRHYDRLVEDL 51 (87)
Q Consensus 18 ~~tpdRWekIA~~VpgGKS-~~evk~hY~~LveDV 51 (87)
...+--|+.||...| |-+ .++|+.+|..|..-|
T Consensus 537 e~~~IDW~~l~~~~~-g~~~~~e~r~q~~~lk~~I 570 (607)
T KOG0051|consen 537 EESPIDWKSLAEYAP-GESTGEELRLQFERLKKKI 570 (607)
T ss_pred cCCccCHHHHHHhCC-CCCcHHHHHHHHHhHhhcc
Confidence 455666999999999 787 999999999886543
No 71
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=37.69 E-value=81 Score=24.00 Aligned_cols=44 Identities=16% Similarity=0.250 Sum_probs=27.6
Q ss_pred HHHHHHHhhcCC--CCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 7 KKFERALAVYDK--DTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 7 K~FE~ALa~~~~--~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
..|+.++..||. ..++-|.+++...-.-+-.++.+..|+.++++
T Consensus 201 ~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~ 246 (263)
T PRK10803 201 YYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK 246 (263)
T ss_pred HHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 346667777764 35677777766553245667777777766654
No 72
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=37.62 E-value=46 Score=18.25 Aligned_cols=18 Identities=22% Similarity=0.497 Sum_probs=15.4
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 034673 34 GKSPDDVKRHYDRLVEDL 51 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV 51 (87)
+-|.++|++.|..|+.-.
T Consensus 11 ~~~~~~ik~~y~~l~~~~ 28 (55)
T cd06257 11 DASDEEIKKAYRKLALKY 28 (55)
T ss_pred CCCHHHHHHHHHHHHHHH
Confidence 789999999999997644
No 73
>PF12753 Nro1: Nuclear pore complex subunit Nro1; InterPro: IPR024318 In fission yeast, Nro1 is a positive regulator of the stability of Sre1N, the sterol regulatory element-binding protein, which is an ER membrane-bound transcription factor that controls adaptation to low oxygen-growth []. In addition, the fission yeast Nro1 is a direct inhibitor of a protein that inhibits SreN1 degradation, Ofd1 (an oxoglutamate deoxygenase). The outcome of this reactivity is that Ofd1 acts as an oxygen sensor that regulates the binding of Nro1 to Ofd1 to control the stability of Sre1N []. This entry also represents ETT1, an Nro1 ortholog []. ETT1 is required for correct translation termination and probably involved in regulation of hypoxic gene expression in association TPA1 []. It inhibits replication of Brome mosaic virus [].; GO: 0005515 protein binding, 0005634 nucleus; PDB: 3QTM_B 3MSV_B 3QTN_B.
Probab=36.98 E-value=29 Score=28.99 Aligned_cols=26 Identities=35% Similarity=0.716 Sum_probs=18.8
Q ss_pred HHHHHHHHhhc----CCCCChHHHHHHHHc
Q 034673 6 NKKFERALAVY----DKDTPDRWQNVARAV 31 (87)
Q Consensus 6 nK~FE~ALa~~----~~~tpdRWekIA~~V 31 (87)
++++.+||.-. +++.|+.|-+||.+.
T Consensus 331 ~~l~~~Al~yL~kA~d~ddPetWv~vAEa~ 360 (404)
T PF12753_consen 331 QELIKKALEYLKKAQDEDDPETWVDVAEAM 360 (404)
T ss_dssp HHHHHHHHHHHHHHHHS--TTHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhccCChhHHHHHHHHH
Confidence 46777887665 578999999999874
No 74
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=35.58 E-value=1.2e+02 Score=19.48 Aligned_cols=58 Identities=22% Similarity=0.271 Sum_probs=42.9
Q ss_pred CHHHHHHHHHHHhhc-----CCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCCCC
Q 034673 2 DPEQNKKFERALAVY-----DKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQFPL 61 (87)
Q Consensus 2 T~eenK~FE~ALa~~-----~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v~~ 61 (87)
|.+..+.+..+++.+ ..-+|.+...+-... |-|..++-+....=..-|..+|+|.++.
T Consensus 43 ~~e~~~~~~~~i~~~~~~~~~~~~~~~i~~~r~~~--gltq~~lA~~lg~~~~tis~~e~g~~~p 105 (127)
T TIGR03830 43 DPEESKRNSAALADFYRKVDGLLTPPEIRRIRKKL--GLSQREAAELLGGGVNAFSRYERGEVRP 105 (127)
T ss_pred cHHHHHHHHHHHHHHHHHccCCcCHHHHHHHHHHc--CCCHHHHHHHhCCCHHHHHHHHCCCCCC
Confidence 455666666666554 456788887776665 5999999888877778899999998743
No 75
>PF13730 HTH_36: Helix-turn-helix domain
Probab=35.25 E-value=84 Score=17.50 Aligned_cols=44 Identities=27% Similarity=0.408 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHHhhcC-CCCChHH---HHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYD-KDTPDRW---QNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 2 T~eenK~FE~ALa~~~-~~tpdRW---ekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
|..+-.++ ..|..|. .++- -| +.||..++ .|..-|.++-+.|++
T Consensus 4 s~~~~~v~-~~l~~~~~~~~~-~~pS~~~la~~~g--~s~~Tv~~~i~~L~~ 51 (55)
T PF13730_consen 4 SPTAKLVY-LYLASYANKNGG-CFPSQETLAKDLG--VSRRTVQRAIKELEE 51 (55)
T ss_pred CHHHHHHH-HHHHHhcCCCCC-CCcCHHHHHHHHC--cCHHHHHHHHHHHHH
Confidence 33333333 3445553 3332 44 89999985 999999999999975
No 76
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=35.01 E-value=34 Score=20.72 Aligned_cols=29 Identities=38% Similarity=0.442 Sum_probs=20.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCC-CCC
Q 034673 34 GKSPDDVKRHYDRLVEDLIFIESAQF-PLP 62 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV~~IEsg~v-~~P 62 (87)
|.|.+||-..=+.=..-+..||+|.+ .+|
T Consensus 10 glsl~~va~~t~I~~~~l~aiE~~~~~~lp 39 (62)
T PF13413_consen 10 GLSLEDVAEETKISVSYLEAIENGDFDSLP 39 (62)
T ss_dssp T--HHHHHHHCS--HHHHHHHHCT-GCCSS
T ss_pred CCCHHHHHHHhCCCHHHHHHHHCcChhhCC
Confidence 78999999999999999999999986 355
No 77
>COG1722 XseB Exonuclease VII small subunit [DNA replication, recombination, and repair]
Probab=34.90 E-value=31 Score=22.44 Aligned_cols=20 Identities=30% Similarity=0.373 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHhCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPL 61 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~ 61 (87)
.-++.|.+=|..+|+|.+||
T Consensus 14 ~~l~eLE~IV~~LE~Gel~L 33 (81)
T COG1722 14 EALAELEEIVESLESGELPL 33 (81)
T ss_pred HHHHHHHHHHHHHHcCcccH
Confidence 34456777788899999886
No 78
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=34.56 E-value=51 Score=26.84 Aligned_cols=22 Identities=50% Similarity=0.854 Sum_probs=16.9
Q ss_pred cCCCCChHHHHHHHHcCCCCCHHHHHHHHHH
Q 034673 16 YDKDTPDRWQNVARAVGGGKSPDDVKRHYDR 46 (87)
Q Consensus 16 ~~~~tpdRWekIA~~VpgGKS~~evk~hY~~ 46 (87)
|.-+||| +-|||.+||++|-..
T Consensus 216 YTc~TpD---------GaGks~eecmrRlaR 237 (330)
T COG1548 216 YTCDTPD---------GAGKSREECMRRLAR 237 (330)
T ss_pred cCCCCCC---------CCCCCHHHHHHHHHH
Confidence 4556777 448999999999753
No 79
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=34.55 E-value=51 Score=18.88 Aligned_cols=48 Identities=29% Similarity=0.521 Sum_probs=28.6
Q ss_pred HHHHhhc-CCCCChHHHHHHHHcCCCCCHHHHHHHH---HHHHHHHHHHHhC
Q 034673 10 ERALAVY-DKDTPDRWQNVARAVGGGKSPDDVKRHY---DRLVEDLIFIESA 57 (87)
Q Consensus 10 E~ALa~~-~~~tpdRWekIA~~VpgGKS~~evk~hY---~~LveDV~~IEsg 57 (87)
.+|...| +++.-.+|-+=....=||||.-|++..- ....+=+.+||.|
T Consensus 2 ~~a~~vfgd~~~a~~Wl~~p~~~l~g~~Plel~~t~~G~~~V~~~L~~~~~G 53 (54)
T PF09722_consen 2 KQAEEVFGDEDKARRWLRTPNPALGGRTPLELLRTEAGAERVLDYLDRIEYG 53 (54)
T ss_pred hHHHHHHCCHHHHHHHHHChHHHhCCCCHHHHHcChHHHHHHHHHHHHHHcC
Confidence 4566777 2334467855443333499999999832 3334445566665
No 80
>cd08793 Death_IRAK4 Death domain of Interleukin-1 Receptor-Associated Kinase 4. Death Domain (DD) of Interleukin-1 Receptor-Associated Kinase 4 (IRAK4). IRAKs are essential components of innate immunity and inflammation in mammals and other vertebrates. They are involved in signal transduction pathways involving IL-1 and IL-18 receptors, Toll-like receptors, nuclear factor-kappaB, and mitogen-activated protein kinases. IRAKs contain an N-terminal DD domain and a C-terminal kinase domain. IRAK4 is an active kinase that is also involved in T-cell receptor signaling pathways, implying that it may function in acquired immunity and not just in innate immunity. It is known as the master IRAK member because its absence strongly impairs TLR- and IL-1-mediated signaling and innate immune defenses, while the absence of other IRAK proteins only shows slight effects. IRAK4-deficient patients have impaired inflammatory responses and recurrent life-threatening infections. DDs are protein-protein int
Probab=34.31 E-value=40 Score=22.97 Aligned_cols=30 Identities=20% Similarity=0.348 Sum_probs=18.4
Q ss_pred ChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Q 034673 21 PDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIES 56 (87)
Q Consensus 21 pdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEs 56 (87)
.+.|+.+|..++ +-+- --+|. ..+|+.||.
T Consensus 21 ~~~W~~LA~~i~-~~~~---~~~y~--~~ei~~ie~ 50 (100)
T cd08793 21 QEGWKKIAVAIK-KPSG---DPRYS--QFHIRRFEA 50 (100)
T ss_pred cccHHHHHHHHh-cccC---CCCCC--HHHHHHHHH
Confidence 468999999997 2111 12342 236777777
No 81
>PF14164 YqzH: YqzH-like protein
Probab=34.28 E-value=31 Score=21.92 Aligned_cols=27 Identities=19% Similarity=0.509 Sum_probs=19.3
Q ss_pred HHHHHHHHhhcCCC------CChHHHHHHHHcC
Q 034673 6 NKKFERALAVYDKD------TPDRWQNVARAVG 32 (87)
Q Consensus 6 nK~FE~ALa~~~~~------tpdRWekIA~~Vp 32 (87)
.|..-++|.+|..+ +++-|+.+.+.|-
T Consensus 7 ~Kmi~~~l~QYg~d~~~~pls~~E~~~L~~~i~ 39 (64)
T PF14164_consen 7 EKMIINCLRQYGYDVECMPLSDEEWEELCKHIQ 39 (64)
T ss_pred HHHHHHHHHHhCCcccCCCCCHHHHHHHHHHHH
Confidence 46778899999544 4677877766664
No 82
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=33.10 E-value=1.3e+02 Score=18.89 Aligned_cols=41 Identities=27% Similarity=0.335 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 5 QNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 5 enK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.++.+-.+|...+ +-.|..||..++ -|...|.++.+.|.+.
T Consensus 4 ~D~~il~~L~~~~---~~~~~~la~~l~--~s~~tv~~~l~~L~~~ 44 (108)
T smart00344 4 IDRKILEELQKDA---RISLAELAKKVG--LSPSTVHNRVKRLEEE 44 (108)
T ss_pred HHHHHHHHHHHhC---CCCHHHHHHHHC--cCHHHHHHHHHHHHHC
Confidence 3445556777654 344999999995 9999999999999773
No 83
>COG0776 HimA Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]
Probab=32.13 E-value=90 Score=20.85 Aligned_cols=41 Identities=17% Similarity=0.345 Sum_probs=33.2
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHH-HHHhCC-CCCCCCCC
Q 034673 24 WQNVARAVGGGKSPDDVKRHYDRLVEDLI-FIESAQ-FPLPNYKN 66 (87)
Q Consensus 24 WekIA~~VpgGKS~~evk~hY~~LveDV~-~IEsg~-v~~P~y~~ 66 (87)
=+.||+..+ -|+.|+..-.+.+++-|. .+++|. |.|+++++
T Consensus 8 i~~ia~~~~--l~k~~a~~~v~~~~~~i~~aL~~G~~V~l~gFG~ 50 (94)
T COG0776 8 IDAIAEKAG--LSKKDAEEAVDAFLEEITEALAKGERVELRGFGT 50 (94)
T ss_pred HHHHHHHcC--CCHHHHHHHHHHHHHHHHHHHHcCCeEEEeeeee
Confidence 367888886 999999999998887777 788876 68888854
No 84
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=31.66 E-value=57 Score=19.95 Aligned_cols=32 Identities=13% Similarity=0.458 Sum_probs=19.5
Q ss_pred hHHHHHHHHcCCCCCH------HHHHHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKSP------DDVKRHYDRLVEDLIFI 54 (87)
Q Consensus 22 dRWekIA~~VpgGKS~------~evk~hY~~LveDV~~I 54 (87)
+.|+++|..+| +++. +...++|...+.|-..+
T Consensus 1 eyW~~~~~vip-~~~~~~W~~L~~~l~rY~~vL~~R~~l 38 (60)
T PF14775_consen 1 EYWERLANVIP-DEKIRLWDALENFLKRYNKVLLDRAAL 38 (60)
T ss_pred CHHHHHhhcCC-hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36999999999 5443 33455665444444433
No 85
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=31.44 E-value=48 Score=21.16 Aligned_cols=21 Identities=14% Similarity=0.059 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHhCCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~P 62 (87)
..+..|.+=|..+|+|.+||-
T Consensus 10 e~l~~LE~IV~~LE~~~l~Le 30 (75)
T PRK14064 10 EAIAELETIVEALENGSASLE 30 (75)
T ss_pred HHHHHHHHHHHHHHCCCCCHH
Confidence 456677778888999999874
No 86
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=30.97 E-value=40 Score=19.77 Aligned_cols=25 Identities=28% Similarity=0.546 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhcCCCCChHHHHHHHHcC
Q 034673 4 EQNKKFERALAVYDKDTPDRWQNVARAVG 32 (87)
Q Consensus 4 eenK~FE~ALa~~~~~tpdRWekIA~~Vp 32 (87)
++-.+|..+| ..++||+.-||...+
T Consensus 19 ~~~d~F~~~L----~~s~D~F~vIaeyfG 43 (49)
T PF12451_consen 19 DQHDLFFKQL----EESEDRFSVIAEYFG 43 (49)
T ss_pred hcHHHHHHHH----HhCCCCchhHHHHHc
Confidence 4457888998 677899999999986
No 87
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=30.56 E-value=61 Score=20.85 Aligned_cols=28 Identities=14% Similarity=0.392 Sum_probs=19.3
Q ss_pred ChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 21 PDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 21 pdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
.+||..|+..-- ....++...++.++..
T Consensus 15 ~eRw~~i~~~~k--~~i~~l~~~~~~~~~~ 42 (95)
T PF15508_consen 15 EERWVQIAKDYK--DEIRELIEVLKDLLQS 42 (95)
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 399999998764 5555666666666544
No 88
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=30.04 E-value=1e+02 Score=16.81 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=19.9
Q ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 23 RWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 23 RWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
-++.||+.++ -|.+=|-+-.+.|.+
T Consensus 4 tr~diA~~lG--~t~ETVSR~l~~l~~ 28 (32)
T PF00325_consen 4 TRQDIADYLG--LTRETVSRILKKLER 28 (32)
T ss_dssp -HHHHHHHHT--S-HHHHHHHHHHHHH
T ss_pred CHHHHHHHhC--CcHHHHHHHHHHHHH
Confidence 4788999996 999999998888865
No 89
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=29.87 E-value=1.2e+02 Score=25.96 Aligned_cols=39 Identities=15% Similarity=0.382 Sum_probs=34.5
Q ss_pred CHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 2 T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~ 45 (87)
|.+|-..|=.||.+|.-+ +-.|+...| .++-.+|+-.|.
T Consensus 369 s~~e~ekFYKALs~wGtd----F~LIs~lfP-~R~RkqIKaKfi 407 (507)
T COG5118 369 SKKEIEKFYKALSIWGTD----FSLISSLFP-NRERKQIKAKFI 407 (507)
T ss_pred cHHHHHHHHHHHHHhcch----HHHHHHhcC-chhHHHHHHHHH
Confidence 667888999999998765 688999999 999999999985
No 90
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=29.67 E-value=1.1e+02 Score=16.99 Aligned_cols=40 Identities=25% Similarity=0.340 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
|+..+.++|... |-.+ -.|..||..++ .|..-|+.++..-
T Consensus 11 L~~~~r~i~~l~---~~~g--~s~~eIa~~l~--~s~~~v~~~l~ra 50 (54)
T PF08281_consen 11 LPERQREIFLLR---YFQG--MSYAEIAEILG--ISESTVKRRLRRA 50 (54)
T ss_dssp S-HHHHHHHHHH---HTS-----HHHHHHHCT--S-HHHHHHHHHHH
T ss_pred CCHHHHHHHHHH---HHHC--cCHHHHHHHHC--cCHHHHHHHHHHH
Confidence 455566666544 2222 45899999985 9999999988643
No 91
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=29.64 E-value=24 Score=15.46 Aligned_cols=8 Identities=38% Similarity=0.816 Sum_probs=6.1
Q ss_pred hCCCCCCC
Q 034673 56 SAQFPLPN 63 (87)
Q Consensus 56 sg~v~~P~ 63 (87)
+|.+|+|.
T Consensus 3 sGlI~fpR 10 (11)
T PF08259_consen 3 SGLIPFPR 10 (11)
T ss_pred ccccccCC
Confidence 67888884
No 92
>PLN02247 indole-3-acetic acid-amido synthetase
Probab=29.53 E-value=1.4e+02 Score=26.02 Aligned_cols=49 Identities=14% Similarity=0.089 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhhcCC-----C---CChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCC
Q 034673 3 PEQNKKFERALAVYDK-----D---TPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQF 59 (87)
Q Consensus 3 ~eenK~FE~ALa~~~~-----~---tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v 59 (87)
..|++.|...|+.-.. . .--.++...+.|| ..-|+.|..+|.+|-.|.-
T Consensus 26 ~~Q~~vL~~iL~~n~~Teyg~~~~~~i~~~e~Fk~~VP--------v~~Yedl~pyI~Ri~~Ge~ 82 (606)
T PLN02247 26 QIQQQVLEEILTQNAGTEYLRSFLDGESDKQSFKNKVP--------VVNYEDIKPCIERIANGES 82 (606)
T ss_pred HHHHHHHHHHHHhcccChhhhhcCccCCCHHHHHHhCC--------CccHHHhHHHHHHHHcCCC
Confidence 3577778777765321 1 1223677788888 5679999999999998874
No 93
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=28.69 E-value=2.8e+02 Score=22.89 Aligned_cols=50 Identities=16% Similarity=0.339 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHhhc-CCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 034673 2 DPEQNKKFERALAVY-DKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIF 53 (87)
Q Consensus 2 T~eenK~FE~ALa~~-~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~ 53 (87)
|..|.+.+-++|..- ....||.=+ ||..|| |+|..|++.--+.|..-|.+
T Consensus 25 s~rEkr~Llr~Lqar~g~~epd~ae-l~~~l~-~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 25 SAREKRQLLRLLQARRGQPEPDAAE-LAKELP-GRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cHHHHHHHHHHHHHhcCCCCcCHHH-HHhhcc-CcCHHHHHHHHHHHHHHHHH
Confidence 566778888888764 345567655 899999 99999999888888766653
No 94
>PF11112 PyocinActivator: Pyocin activator protein PrtN
Probab=28.45 E-value=97 Score=19.81 Aligned_cols=31 Identities=19% Similarity=0.321 Sum_probs=20.9
Q ss_pred HHHHHHHHH-HH--HHHHHHHHhCCCCCCCCCCC
Q 034673 37 PDDVKRHYD-RL--VEDLIFIESAQFPLPNYKNT 67 (87)
Q Consensus 37 ~~evk~hY~-~L--veDV~~IEsg~v~~P~y~~~ 67 (87)
.++|.++|= -| ..-.+.|-+|.+|||.+.-.
T Consensus 17 L~~v~~~yf~~lt~~~a~rk~~~g~lplPv~rl~ 50 (76)
T PF11112_consen 17 LEEVCEDYFPHLTPKTAKRKANAGELPLPVFRLD 50 (76)
T ss_pred HHHHHHHHHccCCHHHHHHHHHCCCCCCceeecC
Confidence 667776663 22 22345577999999999755
No 95
>PLN02620 indole-3-acetic acid-amido synthetase
Probab=28.35 E-value=1.4e+02 Score=26.04 Aligned_cols=48 Identities=13% Similarity=0.169 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhhcC---------CCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 034673 3 PEQNKKFERALAVYD---------KDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQ 58 (87)
Q Consensus 3 ~eenK~FE~ALa~~~---------~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~ 58 (87)
+-|++.|...|..-. -+.--.++..++.|| ..-|+.|..+|.+|-.|.
T Consensus 37 ~vQ~~vL~~IL~~n~~Teyg~~~~f~~i~~~~~F~~~VP--------v~~Yedl~pyI~Ri~~Ge 93 (612)
T PLN02620 37 EVQKRVLEEILSRNAHVEYLQRHGLNGRTDRETFKKVMP--------VITYEDIQPDINRIANGD 93 (612)
T ss_pred HHHHHHHHHHHHhcccChhHHhcCCCCCCCHHHHHHhCC--------CccHHHhHHHHHHHHcCC
Confidence 346777777776532 122233788888899 567999999999999984
No 96
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=27.60 E-value=77 Score=21.41 Aligned_cols=30 Identities=27% Similarity=0.643 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhcC-CCCC-hHHHH----HHHHcC
Q 034673 3 PEQNKKFERALAVYD-KDTP-DRWQN----VARAVG 32 (87)
Q Consensus 3 ~eenK~FE~ALa~~~-~~tp-dRWek----IA~~Vp 32 (87)
..+.+.||..|+.|. .+.| +-|.+ +-...|
T Consensus 2 ~~~r~~~e~~i~~~~~~dDPL~~w~~yI~w~~~~~p 37 (126)
T PF08311_consen 2 EQQRQEFEEQIRSYEEGDDPLDPWLRYIKWIEENYP 37 (126)
T ss_dssp HHHHHHHHHHHHCCGGSS-CHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHccCCCCChHHHHHHHHHHHHHCC
Confidence 357789999999999 6667 77843 456678
No 97
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=27.58 E-value=62 Score=20.77 Aligned_cols=21 Identities=10% Similarity=0.116 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~P 62 (87)
..++.|.+=|..+|+|.+||-
T Consensus 10 eal~~Le~IV~~LE~gdl~Le 30 (76)
T PRK14068 10 EMMQELEQIVQKLDNETVSLE 30 (76)
T ss_pred HHHHHHHHHHHHHHcCCCCHH
Confidence 345667777888999999874
No 98
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=27.43 E-value=60 Score=18.90 Aligned_cols=20 Identities=30% Similarity=0.363 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHhCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPL 61 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~ 61 (87)
..+..|.+-|..+|+|.+|+
T Consensus 3 e~~~~Le~Iv~~Le~~~~sL 22 (53)
T PF02609_consen 3 EAMERLEEIVEKLESGELSL 22 (53)
T ss_dssp HHHHHHHHHHHHHHTT-S-H
T ss_pred HHHHHHHHHHHHHHcCCCCH
Confidence 35677888888999998775
No 99
>PF13748 ABC_membrane_3: ABC transporter transmembrane region
Probab=27.39 E-value=66 Score=25.03 Aligned_cols=28 Identities=25% Similarity=0.567 Sum_probs=24.9
Q ss_pred ChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 21 PDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 21 pdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
.+|||+=...|. +.+...+++||..|..
T Consensus 170 NnrlE~eV~~i~-~~~~~~l~rHy~~L~~ 197 (237)
T PF13748_consen 170 NNRLEKEVDIIE-RRKPASLRRHYRRLSR 197 (237)
T ss_pred hHHHHHHccHhh-cCChHHHHHHHHHHHh
Confidence 589999999999 8999999999987753
No 100
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=27.39 E-value=62 Score=20.77 Aligned_cols=20 Identities=30% Similarity=0.388 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHhCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPL 61 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~ 61 (87)
..++.|.+=|..+|+|.+||
T Consensus 14 ea~~~LEeIv~~LE~~~l~L 33 (80)
T PRK00977 14 EALAELEEIVTRLESGDLPL 33 (80)
T ss_pred HHHHHHHHHHHHHHCCCCCH
Confidence 44567777788899999886
No 101
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=27.33 E-value=97 Score=19.87 Aligned_cols=39 Identities=15% Similarity=0.269 Sum_probs=29.9
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHH-H-HhCCCCCCCCC
Q 034673 25 QNVARAVGGGKSPDDVKRHYDRLVEDLIF-I-ESAQFPLPNYK 65 (87)
Q Consensus 25 ekIA~~VpgGKS~~evk~hY~~LveDV~~-I-Esg~v~~P~y~ 65 (87)
..||+.. |.|..|+..-++.+++-|.. + +.+.|.||+++
T Consensus 8 ~~ia~~~--~~s~~~~~~~v~~~~~~i~~~L~~~~~v~l~gfG 48 (90)
T PRK10664 8 DKIAAGA--DISKAAAGRALDAIIASVTESLKEGDDVALVGFG 48 (90)
T ss_pred HHHHHHh--CCCHHHHHHHHHHHHHHHHHHHhCCCEEEECCcE
Confidence 4567764 59999999999988888754 3 45668999875
No 102
>COG4717 Uncharacterized conserved protein [Function unknown]
Probab=27.17 E-value=1.1e+02 Score=28.44 Aligned_cols=50 Identities=22% Similarity=0.359 Sum_probs=38.4
Q ss_pred HHHHHHHHHHhhcCCCCChH-------HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Q 034673 4 EQNKKFERALAVYDKDTPDR-------WQNVARAVGGGKSPDDVKRHYDRLVEDLIFI 54 (87)
Q Consensus 4 eenK~FE~ALa~~~~~tpdR-------WekIA~~VpgGKS~~evk~hY~~LveDV~~I 54 (87)
+|+.++|.++..+.+...+- =.+|+. |-+|-|+.+++.+|..|.+|+..+
T Consensus 774 ~E~~~lEe~~d~~~ee~~el~a~v~~~~~qi~~-lE~g~~~a~lr~~~~slk~~l~e~ 830 (984)
T COG4717 774 EELALLEEAIDALDEEVEELHAQVAALSRQIAQ-LEGGGTVAELRQRRESLKEDLEEK 830 (984)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCChHHHHHHHHHHHHHHHHHH
Confidence 67788888888887764332 344554 455999999999999999999874
No 103
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=26.66 E-value=99 Score=22.35 Aligned_cols=33 Identities=18% Similarity=0.255 Sum_probs=26.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCCC
Q 034673 33 GGKSPDDVKRHYDRLVEDLIFIESAQFPLPNYK 65 (87)
Q Consensus 33 gGKS~~evk~hY~~LveDV~~IEsg~v~~P~y~ 65 (87)
|+||.+++++-.+.+.+-++.+.-..+.+|++.
T Consensus 62 Gaks~~~~~~a~~~~~~~l~~~g~~~~~~~~f~ 94 (174)
T cd04517 62 GATSEEEAKQAARRAARLLQKLGFKVVRFSNFR 94 (174)
T ss_pred ccCCHHHHHHHHHHHHHHHHHcCCCcccCCceE
Confidence 589999999999999998887654444667664
No 104
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=26.34 E-value=2.4e+02 Score=26.21 Aligned_cols=49 Identities=14% Similarity=0.310 Sum_probs=39.9
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcC-----------CCCCHHHHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVG-----------GGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~Vp-----------gGKS~~evk~hY~~LveDV~ 52 (87)
.|.+|++.+-..+..|.-+. |++|-..+- -.+|..|+.+|...|+.-|.
T Consensus 929 ~~~~~d~~~~~~~~~~g~~~---~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~ 988 (1033)
T PLN03142 929 YNEECDRFMLCMVHKLGYGN---WDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIE 988 (1033)
T ss_pred CCHHHHHHHHHHHHHhccch---HHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHH
Confidence 47899999999998887543 999977762 14899999999999988774
No 105
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=26.31 E-value=1.3e+02 Score=22.88 Aligned_cols=35 Identities=31% Similarity=0.487 Sum_probs=28.5
Q ss_pred hhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 034673 14 AVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVED 50 (87)
Q Consensus 14 a~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveD 50 (87)
...-+..|-+=..||+.++ -|..-|++|.+.|+.+
T Consensus 18 ~lL~~~g~~sa~elA~~Lg--is~~avR~HL~~Le~~ 52 (218)
T COG2345 18 ELLKKSGPVSADELAEELG--ISPMAVRRHLDDLEAE 52 (218)
T ss_pred HHHhccCCccHHHHHHHhC--CCHHHHHHHHHHHHhC
Confidence 3334566777889999996 9999999999999764
No 106
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=26.08 E-value=1.2e+02 Score=19.18 Aligned_cols=40 Identities=13% Similarity=0.236 Sum_probs=30.4
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHH-HHhC-CCCCCCCC
Q 034673 25 QNVARAVGGGKSPDDVKRHYDRLVEDLIF-IESA-QFPLPNYK 65 (87)
Q Consensus 25 ekIA~~VpgGKS~~evk~hY~~LveDV~~-IEsg-~v~~P~y~ 65 (87)
+.||+.-+ |-|..++..-.+.+++-+.. +..| .|.||+.+
T Consensus 8 ~~ia~~~~-~~s~~~~~~vv~~~~~~i~~~L~~g~~V~l~gfG 49 (94)
T PRK00199 8 ERLAARNP-HLSAKDVENAVKEILEEMSDALARGDRIEIRGFG 49 (94)
T ss_pred HHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCCE
Confidence 45676556 79999999999988887754 5554 58898875
No 107
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=25.94 E-value=66 Score=21.70 Aligned_cols=21 Identities=19% Similarity=0.154 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~P 62 (87)
..++.|.+=|..||+|.+||-
T Consensus 12 eal~~LEeIV~~LEsgdl~LE 32 (95)
T PRK14069 12 DALRELEQIAEKLERQDFSLE 32 (95)
T ss_pred HHHHHHHHHHHHHHCCCCCHH
Confidence 445677788889999998874
No 108
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=25.90 E-value=68 Score=20.48 Aligned_cols=21 Identities=19% Similarity=0.257 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~P 62 (87)
.....|.+=|..+|+|.+||-
T Consensus 8 eal~~LE~IV~~LE~g~l~Le 28 (75)
T PRK14066 8 TALKKLEEVVKKLEGGELSLD 28 (75)
T ss_pred HHHHHHHHHHHHHHCCCCCHH
Confidence 345677888889999998874
No 109
>smart00426 TEA TEA domain.
Probab=25.82 E-value=59 Score=20.87 Aligned_cols=17 Identities=29% Similarity=0.511 Sum_probs=13.3
Q ss_pred HHHHHHHHHHhhcCCCC
Q 034673 4 EQNKKFERALAVYDKDT 20 (87)
Q Consensus 4 eenK~FE~ALa~~~~~t 20 (87)
+=..+|..||+.|++..
T Consensus 9 ~lE~Af~~aL~~~~~~g 25 (68)
T smart00426 9 DIEQAFQEALAIYPPCG 25 (68)
T ss_pred HHHHHHHHHHHHcCccC
Confidence 34579999999998643
No 110
>PRK14070 exodeoxyribonuclease VII small subunit; Provisional
Probab=25.45 E-value=44 Score=21.18 Aligned_cols=18 Identities=28% Similarity=0.370 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhCCCCCC
Q 034673 45 DRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 45 ~~LveDV~~IEsg~v~~P 62 (87)
+.|.+=|..+|+|.+||-
T Consensus 2 ~~LEeIV~~LE~gel~Le 19 (69)
T PRK14070 2 KELEEIVNRLENEDLPLE 19 (69)
T ss_pred HHHHHHHHHHHCCCCCHH
Confidence 568888999999998874
No 111
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=25.43 E-value=43 Score=22.00 Aligned_cols=25 Identities=28% Similarity=0.753 Sum_probs=14.2
Q ss_pred HHHHHHhhcCCCCC-hHHHHHHHHcC
Q 034673 8 KFERALAVYDKDTP-DRWQNVARAVG 32 (87)
Q Consensus 8 ~FE~ALa~~~~~tp-dRWekIA~~Vp 32 (87)
.|..++-.+...-| ..|..+|..++
T Consensus 5 ~l~~~f~~i~~~V~~~~Wk~laR~LG 30 (96)
T cd08315 5 TLRRSFDHFIKEVPFDSWNRLMRQLG 30 (96)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHcC
Confidence 45555555544444 55666666664
No 112
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=25.09 E-value=99 Score=17.22 Aligned_cols=18 Identities=28% Similarity=0.505 Sum_probs=15.4
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 034673 34 GKSPDDVKRHYDRLVEDL 51 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV 51 (87)
+-|.++|++.|..|+.-.
T Consensus 12 ~~~~~~ik~ay~~l~~~~ 29 (60)
T smart00271 12 DASLDEIKKAYRKLALKY 29 (60)
T ss_pred CCCHHHHHHHHHHHHHHH
Confidence 679999999999997654
No 113
>cd07216 Pat17_PNPLA8_PNPLA9_like3 Patatin-like phospholipase. Patatin is a storage protein of the potato tuber that shows Phospholipase A2 activity (PLA2; EC 3.1.1.4). Patatin catalyzes the nonspecific hydrolysis of phospholipids, glycolipids, sulfolipids, and mono- and diacylglycerols, thereby showing lipid acyl hydrolase activity. The active site includes an oxyanion hole with a conserved GGxR motif; it is found in almost all the members of this family. The catalytic dyad is formed by a serine and an aspartate. Patatin belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). Members of this family have been found also in vertebrates. This family includes subfamily of PNPLA8 (iPLA2-gamma) and PNPLA9 (iPLA2-beta) like phospholipases from human as well as the Pat17 isozyme from Solanum cardiophyllum.
Probab=24.93 E-value=1e+02 Score=23.47 Aligned_cols=26 Identities=19% Similarity=0.263 Sum_probs=20.9
Q ss_pred HHHHHc--CCCCCHHHHHHHHHHHHHHHH
Q 034673 26 NVARAV--GGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 26 kIA~~V--pgGKS~~evk~hY~~LveDV~ 52 (87)
-||..+ + |.|++||.+.|..+..+|-
T Consensus 54 iiA~~l~~~-~~t~~e~~~~y~~~~~~iF 81 (309)
T cd07216 54 LIAIMLGRL-RMTVDECIDAYTRLAKKIF 81 (309)
T ss_pred HHHHHhccc-CCCHHHHHHHHHHHhHHhC
Confidence 356666 4 7899999999999887775
No 114
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=24.84 E-value=76 Score=19.69 Aligned_cols=20 Identities=20% Similarity=0.210 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHhCCCCCC
Q 034673 43 HYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 43 hY~~LveDV~~IEsg~v~~P 62 (87)
.++.|.+=|..+|+|.+||-
T Consensus 6 ~l~~Le~Iv~~LE~~~l~Le 25 (67)
T TIGR01280 6 ALSELEQIVQKLESGDLALE 25 (67)
T ss_pred HHHHHHHHHHHHHCCCCCHH
Confidence 45678888889999998864
No 115
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=24.72 E-value=2.1e+02 Score=18.73 Aligned_cols=47 Identities=17% Similarity=0.232 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhhcCCCC----------ChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 034673 4 EQNKKFERALAVYDKDT----------PDRWQNVARAVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 4 eenK~FE~ALa~~~~~t----------pdRWekIA~~VpgGKS~~evk~hY~~LveDV~ 52 (87)
+....++.+|...++.. .-.++.||..++ .|..-|+.+...-..-++
T Consensus 114 e~~~~l~~~l~~L~~~~r~i~~l~~~~~~~~~eIA~~lg--is~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 114 DDLARIDRCLDALPVKQREVFLLRYVEGLSYREIAEILG--VPVGTVKSRLRRARQLLR 170 (179)
T ss_pred HHHHHHHHHHHhCCHHHHHHhhHHHHcCCCHHHHHHHHC--CCHHHHHHHHHHHHHHHH
Confidence 34455666666554321 345778888885 888888877765555443
No 116
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=24.69 E-value=1.8e+02 Score=21.80 Aligned_cols=40 Identities=28% Similarity=0.425 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKR 42 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~ 42 (87)
||.+|-+.+|.+....-+-.|+|=.++|..++ -+.-+|..
T Consensus 57 lt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~Lg--L~pRQVav 96 (198)
T KOG0483|consen 57 LTSEQVKFLEKSFESEKKLEPERKKKLAKELG--LQPRQVAV 96 (198)
T ss_pred ccHHHHHHhHHhhccccccChHHHHHHHHhhC--CChhHHHH
Confidence 78999999999988888888999999999885 77766653
No 117
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=24.69 E-value=95 Score=19.39 Aligned_cols=20 Identities=30% Similarity=0.644 Sum_probs=17.4
Q ss_pred CCHHHHHHHHHHHhhcCCCC
Q 034673 1 MDPEQNKKFERALAVYDKDT 20 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~t 20 (87)
||.+|.+.|..+...|+.+.
T Consensus 4 ls~~~~~~l~~~F~~~D~d~ 23 (96)
T smart00027 4 ISPEDKAKYEQIFRSLDKNQ 23 (96)
T ss_pred CCHHHHHHHHHHHHHhCCCC
Confidence 78999999999999998653
No 118
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=24.29 E-value=81 Score=21.87 Aligned_cols=29 Identities=7% Similarity=0.030 Sum_probs=21.0
Q ss_pred hHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKSPDDVKRHYDRLVEDL 51 (87)
Q Consensus 22 dRWekIA~~VpgGKS~~evk~hY~~LveDV 51 (87)
+.+.+|=..-| +-|.+||+++|+.|+..-
T Consensus 65 ~eAy~ILGv~~-~As~~eIkkaYRrLa~~~ 93 (116)
T PTZ00100 65 SEAYKILNISP-TASKERIREAHKQLMLRN 93 (116)
T ss_pred HHHHHHcCCCC-CCCHHHHHHHHHHHHHHh
Confidence 34444444445 899999999999997654
No 119
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=24.26 E-value=2e+02 Score=18.43 Aligned_cols=49 Identities=16% Similarity=0.156 Sum_probs=37.9
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Q 034673 6 NKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIE 55 (87)
Q Consensus 6 nK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IE 55 (87)
...++-|-..+..+..--...|-..++ +-|...|.+|++...+....-.
T Consensus 4 e~V~~Aa~~L~~~G~~pT~~~Vr~~lG-~GS~~ti~~~l~~w~~~~~~~~ 52 (120)
T PF11740_consen 4 EDVIEAADELLAAGKKPTVRAVRERLG-GGSMSTISKHLKEWREEREAQV 52 (120)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHC-CCCHHHHHHHHHHHHHhhhccc
Confidence 456666777777665556899999999 8899999999998877766433
No 120
>PF04081 DNA_pol_delta_4: DNA polymerase delta, subunit 4 ; InterPro: IPR007218 DNA polymerase is responsible for effective DNA replication. The function of the delta subunit 4 of DNA polymerase is not yet known.; GO: 0006260 DNA replication, 0005634 nucleus
Probab=23.32 E-value=1.3e+02 Score=21.31 Aligned_cols=37 Identities=27% Similarity=0.526 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhhcCCCC----------ChHHHHHHHHcCCCCCHHHHHH
Q 034673 4 EQNKKFERALAVYDKDT----------PDRWQNVARAVGGGKSPDDVKR 42 (87)
Q Consensus 4 eenK~FE~ALa~~~~~t----------pdRWekIA~~VpgGKS~~evk~ 42 (87)
++.-..|..|.+||-+. -.||++ |..++ =....||..
T Consensus 59 e~~~~~e~~Lr~FDl~~~yGPC~GitRl~RW~R-A~~lg-L~PP~ev~~ 105 (124)
T PF04081_consen 59 EDLSQHEKILRQFDLSSQYGPCIGITRLERWER-AKRLG-LNPPIEVLA 105 (124)
T ss_pred chhhHHHHHHHHhccccccCCccCchHHHHHHH-HHHcC-CCCCHHHHH
Confidence 45568899999998654 389999 66676 456666653
No 121
>TIGR01690 ICE_RAQPRD integrative conjugative element protein, RAQPRD family. This model represents a small family of proteins about 100 amino acids in length, including a predicted signal sequence and a perfectly conserved motif RAQPRD towards the C-terminus. Members are found in the Pseudomonas putida TOL plasmid pWW0 and in cryptic plasmid regions of Salmonella enterica subsp. enterica serovar Typhi and Pseudomonas syringae DC3000. The function is unknown.
Probab=23.29 E-value=47 Score=22.49 Aligned_cols=51 Identities=22% Similarity=0.262 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhcCCCCChHHHHHHHHcCCCCCHHHHHHHHHH--HHHHHHHHHhCC
Q 034673 4 EQNKKFERALAVYDKDTPDRWQNVARAVGGGKSPDDVKRHYDR--LVEDLIFIESAQ 58 (87)
Q Consensus 4 eenK~FE~ALa~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~--LveDV~~IEsg~ 58 (87)
.|...+..++.+.+- -++--.=|+... .+-...+.||+. |..|+..|.+|-
T Consensus 21 ~Ere~La~~~rQLd~--le~~~~ra~~~a--~~~~~~Ry~FDY~rl~~Dl~~ir~GI 73 (94)
T TIGR01690 21 SEREQLAAAIRQLDA--LERSAQRAAVVA--PQSPGDRYHFDYPRLRADLKRIRQGI 73 (94)
T ss_pred hHHHHHHHHHHHHHH--HHHHHHHHHhcC--CCCCCcCeecCHHHHHHHHHHHHHHH
Confidence 455566666666542 233323344444 333345888887 999999999996
No 122
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=23.09 E-value=83 Score=20.06 Aligned_cols=21 Identities=19% Similarity=0.244 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCC
Q 034673 42 RHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 42 ~hY~~LveDV~~IEsg~v~~P 62 (87)
..+..|.+=|..+|+|.+||-
T Consensus 9 eal~~LE~Iv~~LE~~~l~Le 29 (76)
T PRK14063 9 EAISQLEHLVSKLEQGDVPLE 29 (76)
T ss_pred HHHHHHHHHHHHHHCCCCCHH
Confidence 345677788888999998874
No 123
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=23.07 E-value=57 Score=20.31 Aligned_cols=16 Identities=31% Similarity=0.345 Sum_probs=13.8
Q ss_pred CHHHHHHHHHHHhhcC
Q 034673 2 DPEQNKKFERALAVYD 17 (87)
Q Consensus 2 T~eenK~FE~ALa~~~ 17 (87)
++.|.++|-.||+.|-
T Consensus 23 ~WDQ~Rl~~aALa~FL 38 (57)
T PF10929_consen 23 NWDQYRLFQAALAGFL 38 (57)
T ss_pred CchHHHHHHHHHHHHH
Confidence 4689999999999984
No 124
>COG4387 Mu-like prophage protein gp36 [Function unknown]
Probab=23.05 E-value=1.2e+02 Score=21.90 Aligned_cols=29 Identities=21% Similarity=0.342 Sum_probs=25.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 034673 34 GKSPDDVKRHYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV~~IEsg~v~~P 62 (87)
++--+|.+.||+.-+.-++..=+|.|++-
T Consensus 80 ~r~Tdq~r~rYe~av~~L~~va~G~V~lG 108 (139)
T COG4387 80 NRATDQARQRYEDAVRFLEKVASGAVSLG 108 (139)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHcCCCccc
Confidence 57789999999988888888889999974
No 125
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=22.93 E-value=84 Score=23.70 Aligned_cols=35 Identities=20% Similarity=0.472 Sum_probs=25.1
Q ss_pred ChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhC
Q 034673 21 PDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESA 57 (87)
Q Consensus 21 pdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg 57 (87)
-+||+ +++.++-|+++.++..-|+.-++++.+ |.|
T Consensus 30 ~e~we-~~~~~~~~~~~~~i~~a~~~eid~l~~-e~G 64 (181)
T COG1791 30 FERWE-ATALIKHGAEKEHIIDAYETEIDRLIR-ERG 64 (181)
T ss_pred hhhhh-hccccccCcchhhhHhhHHHHHHHHHH-hhC
Confidence 48999 444445588999999999887777763 444
No 126
>PLN02249 indole-3-acetic acid-amido synthetase
Probab=22.75 E-value=2.2e+02 Score=24.53 Aligned_cols=48 Identities=15% Similarity=0.156 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHhhcCC---------CCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 034673 3 PEQNKKFERALAVYDK---------DTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQ 58 (87)
Q Consensus 3 ~eenK~FE~ALa~~~~---------~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~ 58 (87)
+.|++.|...|+.-.. ..-..++..++.|| ..-|+.|...|.+|-.|.
T Consensus 36 ~~Q~~vL~~iL~~n~~Teyg~~~gf~~i~~~~~F~~~VP--------v~~Yedl~pyIeRi~~Ge 92 (597)
T PLN02249 36 SVQEKVLGEILSRNSNTEYLKRFDLNGAVDRKTFKSKVP--------VVTYEDLKTEIQRISNGD 92 (597)
T ss_pred HHHHHHHHHHHHhcccChhHHhcCCCCCCCHHHHHHhCC--------CccHHHhHHHHHHHHcCC
Confidence 3577777777765321 12234788889999 567999999999999883
No 127
>COG3416 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.71 E-value=1.4e+02 Score=23.39 Aligned_cols=57 Identities=18% Similarity=0.306 Sum_probs=40.9
Q ss_pred CCHHHHHHHHHHHhhcCC-----CCChHHHHHHHHcCCCCC----------------HHHHHHHHHHHHHHHHHHHhCC
Q 034673 1 MDPEQNKKFERALAVYDK-----DTPDRWQNVARAVGGGKS----------------PDDVKRHYDRLVEDLIFIESAQ 58 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~-----~tpdRWekIA~~VpgGKS----------------~~evk~hY~~LveDV~~IEsg~ 58 (87)
||.+|.+++|+-|...-+ ..|.-=..||++|- +.. .+-...|-++|..-|...++|+
T Consensus 1 MtpeE~qlle~lf~rlk~a~~~~rD~~Ae~lI~~~~~-~qP~a~Y~laQ~vliqE~ALk~a~~~i~eLe~ri~~lq~~~ 78 (233)
T COG3416 1 MTPEEKQLLENLFHRLKKAEANERDPQAEALIAEAVA-KQPDAAYYLAQRVLIQEQALKKASTQIKELEKRIAILQAGE 78 (233)
T ss_pred CCHHHHHHHHHHHHHHhhcccCCCChHHHHHHHHHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 999999999999887632 23555578888886 222 2334557788888888888874
No 128
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=22.57 E-value=1.5e+02 Score=25.82 Aligned_cols=53 Identities=15% Similarity=0.128 Sum_probs=42.8
Q ss_pred HHHHHHHHhhc------CCCCChHH-HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 034673 6 NKKFERALAVY------DKDTPDRW-QNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQ 58 (87)
Q Consensus 6 nK~FE~ALa~~------~~~tpdRW-ekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~ 58 (87)
+..|-.||.+= |-.+..-| .-|=+++|.|.+.+==+-+|+.|..-+..++++.
T Consensus 243 trcll~aLk~r~k~~dLPi~~stf~~~hi~sc~P~gr~ldiKKts~KKlakfLQ~~~~eg 302 (560)
T KOG2522|consen 243 TRCLLYALKQRDKGLDLPISASTFISNHIMSCLPPGRHLDIKKTSWKKLAKFLQHFEKEG 302 (560)
T ss_pred HHHHHHHhhhhcccccCCccHHHHHHhhhhccCCCcceeccchhhHHHHHHHHHHHhhcc
Confidence 45678888873 34556888 7788999999997777889999999999998765
No 129
>cd02962 TMX2 TMX2 family; composed of proteins similar to human TMX2, a 372-amino acid TRX-related transmembrane protein, identified and characterized through the cloning of its cDNA from a human fetal library. It contains a TRX domain but the redox active CXXC motif is replaced with SXXC. Sequence analysis predicts that TMX2 may be a Type I membrane protein, with its C-terminal half protruding on the luminal side of the endoplasmic reticulum (ER). In addition to the TRX domain, transmembrane region and ER-retention signal, TMX2 also contains a Myb DNA-binding domain repeat signature and a dileucine motif in the tail.
Probab=22.56 E-value=40 Score=23.73 Aligned_cols=17 Identities=47% Similarity=0.542 Sum_probs=13.7
Q ss_pred HHcCCCCCHHHHHHHHH
Q 034673 29 RAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 29 ~~VpgGKS~~evk~hY~ 45 (87)
.++|++-|.++|.+||+
T Consensus 133 ~~~~~~~~~~~~~~~~~ 149 (152)
T cd02962 133 RAVPFTFSKENVIRHFD 149 (152)
T ss_pred ccccccccHHHHHHhcc
Confidence 45677889999999986
No 130
>COG1003 GcvP Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]
Probab=22.25 E-value=67 Score=27.59 Aligned_cols=32 Identities=25% Similarity=0.458 Sum_probs=27.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Q 034673 32 GGGKSPDDVKRHYDRLVEDLIFIESAQFPLPNY 64 (87)
Q Consensus 32 pgGKS~~evk~hY~~LveDV~~IEsg~v~~P~y 64 (87)
| ..|--|++|||..|.+-=-.+.+|.+||=.+
T Consensus 43 P-e~SE~e~~Rh~~rLs~kn~avd~~m~PLGSC 74 (496)
T COG1003 43 P-EHSETEMVRHYTRLSQKDLAVDRGMIPLGSC 74 (496)
T ss_pred c-cccHHHHHHHHHHHHhcccccccCccCCccc
Confidence 8 7999999999999998888888998887433
No 131
>PRK14067 exodeoxyribonuclease VII small subunit; Provisional
Probab=22.24 E-value=88 Score=20.24 Aligned_cols=20 Identities=30% Similarity=0.416 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhCCCCCC
Q 034673 43 HYDRLVEDLIFIESAQFPLP 62 (87)
Q Consensus 43 hY~~LveDV~~IEsg~v~~P 62 (87)
.++.|.+=|..+|+|.+||-
T Consensus 12 al~~LEeIV~~LE~~~l~Le 31 (80)
T PRK14067 12 QLARLQEIVDALEGGDLPLE 31 (80)
T ss_pred HHHHHHHHHHHHHCCCCCHH
Confidence 44566677778888888764
No 132
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=22.19 E-value=94 Score=14.77 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=8.2
Q ss_pred HHHHHHHHhhcCC
Q 034673 6 NKKFERALAVYDK 18 (87)
Q Consensus 6 nK~FE~ALa~~~~ 18 (87)
.+.|+..+..||.
T Consensus 20 ~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 20 IEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHSTT
T ss_pred HHHHHHHHHHCcC
Confidence 3566667777664
No 133
>PF12006 DUF3500: Protein of unknown function (DUF3500); InterPro: IPR021889 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 335 to 438 amino acids in length. This protein has a conserved GHH sequence motif. This protein has two completely conserved G residues that may be functionally important.
Probab=22.17 E-value=44 Score=26.39 Aligned_cols=27 Identities=11% Similarity=0.245 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHHHhhcCCC-----CChHHHHH
Q 034673 1 MDPEQNKKFERALAVYDKD-----TPDRWQNV 27 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~~-----tpdRWekI 27 (87)
||.+|+.+|...|+.|-.. ...+|.+|
T Consensus 221 Lt~~Qq~ll~~li~~y~~~~~~~~a~~~~~~i 252 (313)
T PF12006_consen 221 LTADQQELLLALIKEYLGRLPEEDAAERMAEI 252 (313)
T ss_pred CCHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 7999999999999998433 23556666
No 134
>PRK01112 phosphoglyceromutase; Provisional
Probab=21.87 E-value=62 Score=23.82 Aligned_cols=41 Identities=12% Similarity=0.222 Sum_probs=26.5
Q ss_pred HHHhhcCCCCChHHHH-HHHHcCCCCCHHHHHHHHHHHHHHH
Q 034673 11 RALAVYDKDTPDRWQN-VARAVGGGKSPDDVKRHYDRLVEDL 51 (87)
Q Consensus 11 ~ALa~~~~~tpdRWek-IA~~VpgGKS~~evk~hY~~LveDV 51 (87)
.....|+.....+|.. .....|||-|..||..|....++++
T Consensus 124 ei~~~~~~~~~~~w~~~~~~~~p~GES~~d~~~Rv~~~l~~~ 165 (228)
T PRK01112 124 ETAEKFGEEQVKLWRRSYKTAPPQGESLEDTGQRTLPYFQNR 165 (228)
T ss_pred HHHHHCcHHHHHHHhCcCCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 3344454443455652 1224688999999999998777765
No 135
>cd07212 Pat_PNPLA9 Patatin-like phospholipase domain containing protein 9. PNPLA9 is a Ca-independent phospholipase that catalyzes the hydrolysis of glycerophospholipids at the sn-2 position. PNPLA9 is also known as PLA2G6 (phospholipase A2 group VI) or iPLA2beta. PLA2G6 is stimulated by ATP and inhibited by bromoenol lactone (BEL). In humans, PNPLA9 in expressed ubiquitously and is involved in signal transduction, cell proliferation, and apoptotic cell death. Mutations in human PLA2G6 leads to infantile neuroaxonal dystrophy (INAD) and idiopathic neurodegeneration with brain iron accumulation (NBIA). This family includes PLA2G6 from Homo sapiens and Rattus norvegicus.
Probab=21.83 E-value=1e+02 Score=23.94 Aligned_cols=27 Identities=30% Similarity=0.373 Sum_probs=20.6
Q ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 034673 26 NVARAVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 26 kIA~~VpgGKS~~evk~hY~~LveDV~ 52 (87)
-||.++.-|+|.+||.+.|..+...|-
T Consensus 44 iIA~~la~g~s~~e~~~~y~~~~~~iF 70 (312)
T cd07212 44 ILALALLHGKSLREARRLYLRMKDRVF 70 (312)
T ss_pred HHHHHHHcCCCHHHHHHHHHHhhhhhC
Confidence 456665558999999999998876553
No 136
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=21.80 E-value=3.4e+02 Score=21.39 Aligned_cols=47 Identities=13% Similarity=0.102 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHHHhhcCC-CCChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 1 MDPEQNKKFERALAVYDK-DTPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 1 ~T~eenK~FE~ALa~~~~-~tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
+|-.|-++.|..|+.... +.--.=..||+.++ -|..-|.++.+.|..
T Consensus 177 LSySEleAv~~IL~~L~~~egrlse~eLAerlG--VSRs~ireAlrkLE~ 224 (251)
T TIGR02787 177 LSYSELEAVEHIFEELDGNEGLLVASKIADRVG--ITRSVIVNALRKLES 224 (251)
T ss_pred ccHhHHHHHHHHHHHhccccccccHHHHHHHHC--CCHHHHHHHHHHHHH
Confidence 467788999999999987 45555689999996 999999999998865
No 137
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=21.80 E-value=2.1e+02 Score=21.91 Aligned_cols=59 Identities=14% Similarity=0.307 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHh--------hcCCCCChHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCCC
Q 034673 2 DPEQNKKFERALA--------VYDKDTPDRWQNVARAVGGGKSPDDVKRHYDRLVEDLIFIESAQFPLPNYK 65 (87)
Q Consensus 2 T~eenK~FE~ALa--------~~~~~tpdRWekIA~~VpgGKS~~evk~hY~~LveDV~~IEsg~v~~P~y~ 65 (87)
|.+....+..||. .|..+..+ ..++..+- +.|.++++..|..-+..+-. +.| +.+|...
T Consensus 163 t~es~~r~q~Al~~~wp~~~elF~~~~~~--~~l~~~~~-~~~~~~lr~~w~~~v~~~l~-~~g-L~~P~~~ 229 (263)
T PF05138_consen 163 TEESRERMQAALDRLWPYTLELFGPDDSE--EALAWGGR-APDNEELRQRWLAEVVPVLE-EAG-LEVPEDP 229 (263)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHCC-S-HCH--HHHHCTTS-SS-HHHHHHHHHHHHHHHHH-HTT----S-ST
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCchH--HHHHHCCC-CCCHHHHHHHHHHHHHHHHH-HcC-CCCCCCC
Confidence 3444455555554 44444334 55555555 68999999999988888876 677 6777643
No 138
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=21.57 E-value=1.5e+02 Score=18.44 Aligned_cols=29 Identities=28% Similarity=0.476 Sum_probs=25.2
Q ss_pred CChHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 034673 20 TPDRWQNVARAVGGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 20 tpdRWekIA~~VpgGKS~~evk~hY~~Lve 49 (87)
.|-|+..+.+.+| |=|..-+.++-++|++
T Consensus 17 g~~rf~el~~~l~-~is~~~L~~~L~~L~~ 45 (90)
T PF01638_consen 17 GPMRFSELQRRLP-GISPKVLSQRLKELEE 45 (90)
T ss_dssp SSEEHHHHHHHST-TS-HHHHHHHHHHHHH
T ss_pred CCCcHHHHHHhcc-hhHHHHHHHHHHHHHH
Confidence 6899999999999 8999999999998865
No 139
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=21.33 E-value=1.2e+02 Score=15.80 Aligned_cols=23 Identities=13% Similarity=0.397 Sum_probs=17.0
Q ss_pred HHHHHHhhcCCCCChHHHHHHHHc
Q 034673 8 KFERALAVYDKDTPDRWQNVARAV 31 (87)
Q Consensus 8 ~FE~ALa~~~~~tpdRWekIA~~V 31 (87)
.|++||...|.+ ++-|.+.|...
T Consensus 1 ~y~kAie~~P~n-~~a~~nla~~~ 23 (34)
T PF13431_consen 1 CYKKAIELNPNN-AEAYNNLANLY 23 (34)
T ss_pred ChHHHHHHCCCC-HHHHHHHHHHH
Confidence 378899887665 67798888654
No 140
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=21.09 E-value=1e+02 Score=22.46 Aligned_cols=35 Identities=17% Similarity=0.237 Sum_probs=21.6
Q ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCCCC
Q 034673 31 VGGGKSPDDVKRHYDRLVEDLIFIESAQFPLPNYKN 66 (87)
Q Consensus 31 VpgGKS~~evk~hY~~LveDV~~IEsg~v~~P~y~~ 66 (87)
+| |.|+.||..|=-.-.--.-...+|++-+|.|.+
T Consensus 1 m~-gvtVkdV~~~~f~~a~asfLK~sgkv~vp~~~D 35 (143)
T KOG3411|consen 1 MP-GVTVKDVDPHKFTKAYASFLKRSGKVEVPQWVD 35 (143)
T ss_pred CC-ccchhhcCHHHHHHHHHHHHHhcCCccCcchhh
Confidence 46 788888887632211122224589988888754
No 141
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=20.95 E-value=2.7e+02 Score=18.65 Aligned_cols=26 Identities=8% Similarity=0.204 Sum_probs=21.1
Q ss_pred CChHHHHHHHHcCCCCCHHHHHHHHHHH
Q 034673 20 TPDRWQNVARAVGGGKSPDDVKRHYDRL 47 (87)
Q Consensus 20 tpdRWekIA~~VpgGKS~~evk~hY~~L 47 (87)
++.-=-+||+-.| +|.+|++--|-.+
T Consensus 66 ~e~~a~~I~nL~P--~~~dElrai~~~~ 91 (112)
T PRK14981 66 KEKTAVKIADILP--ETRDELRAIFAKE 91 (112)
T ss_pred CHHHHHHHHhcCC--CCHHHHHHHHHHh
Confidence 4444678999999 9999999988766
No 142
>COG4680 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.90 E-value=2.4e+02 Score=19.36 Aligned_cols=39 Identities=31% Similarity=0.600 Sum_probs=31.6
Q ss_pred HHHHHHHHhhcCC-CCC-hHHHHHHHHcCCCCCHHHHHHHHH
Q 034673 6 NKKFERALAVYDK-DTP-DRWQNVARAVGGGKSPDDVKRHYD 45 (87)
Q Consensus 6 nK~FE~ALa~~~~-~tp-dRWekIA~~VpgGKS~~evk~hY~ 45 (87)
+|.|..|...||. ++| --|..+.+.-- =|+.+|+|.-|-
T Consensus 6 kk~lk~~~~k~P~ae~pL~aw~~~v~ka~-w~~P~diK~~f~ 46 (98)
T COG4680 6 KKALKDAMEKYPQAETPLKAWGNVVSKAY-WKKPEDIKSVFP 46 (98)
T ss_pred HhHHHHHHHhCccccchHHHHHHHHHhcc-cCCHHHHHHhcC
Confidence 5889999999984 566 77988887766 699999998874
No 143
>COG1426 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]
Probab=20.65 E-value=94 Score=24.14 Aligned_cols=27 Identities=26% Similarity=0.223 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 034673 34 GKSPDDVKRHYDRLVEDLIFIESAQFP 60 (87)
Q Consensus 34 GKS~~evk~hY~~LveDV~~IEsg~v~ 60 (87)
|.|.+||-.+=++-..=+.+||+|.++
T Consensus 16 gLsL~dva~~t~I~~~~L~aiEeg~~~ 42 (284)
T COG1426 16 GLSLEDVAARTKIRKSYLRALEEGNFD 42 (284)
T ss_pred CCCHHHHHHHhCccHHHHHHHhcCccc
Confidence 689999999888888889999999863
No 144
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=20.52 E-value=99 Score=25.47 Aligned_cols=30 Identities=13% Similarity=0.272 Sum_probs=24.3
Q ss_pred hHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 034673 22 DRWQNVARAVGGGKSPDDVKRHYDRLVEDLI 52 (87)
Q Consensus 22 dRWekIA~~VpgGKS~~evk~hY~~LveDV~ 52 (87)
..|+.||..|| --|..=+..|+.....|+.
T Consensus 316 ~~~~~ia~lVP-~tTl~Yl~~~~a~~~~~~~ 345 (352)
T COG3053 316 NDLEAIANLVP-ATTLNYLQQHLAEHIIDIA 345 (352)
T ss_pred CCHHHHHhhCc-HHHHHHHHHHHHHhHHHHh
Confidence 34999999999 6777778888888777765
No 145
>KOG0721 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=20.46 E-value=87 Score=24.42 Aligned_cols=17 Identities=35% Similarity=0.593 Sum_probs=15.0
Q ss_pred CCCCCHHHHHHHHHHHHH
Q 034673 32 GGGKSPDDVKRHYDRLVE 49 (87)
Q Consensus 32 pgGKS~~evk~hY~~Lve 49 (87)
| |-|..|+|+||+.|.-
T Consensus 109 p-gas~~eIKkaYR~LSi 125 (230)
T KOG0721|consen 109 P-GASEKEIKKAYRRLSI 125 (230)
T ss_pred C-CCCHHHHHHHHHHhhh
Confidence 6 8999999999998853
No 146
>KOG0817 consensus Acyl-CoA-binding protein [Lipid transport and metabolism]
Probab=20.43 E-value=1.3e+02 Score=21.54 Aligned_cols=24 Identities=33% Similarity=0.487 Sum_probs=19.3
Q ss_pred HcCCCCCHHHHHHHHHHHHHHHHHH
Q 034673 30 AVGGGKSPDDVKRHYDRLVEDLIFI 54 (87)
Q Consensus 30 ~VpgGKS~~evk~hY~~LveDV~~I 54 (87)
.++ |.|.+|.++.|-.+++.+...
T Consensus 64 ~l~-~~s~~eA~~~Yv~~~~~l~~~ 87 (142)
T KOG0817|consen 64 SLG-GMSKEEAMEAYVEKVEELIPK 87 (142)
T ss_pred hcC-CCCHHHHHHHHHHHHHHHHHH
Confidence 366 999999999998887766543
No 147
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=20.14 E-value=1.8e+02 Score=18.19 Aligned_cols=40 Identities=10% Similarity=0.258 Sum_probs=29.2
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHH-HHhC-CCCCCCCC
Q 034673 25 QNVARAVGGGKSPDDVKRHYDRLVEDLIF-IESA-QFPLPNYK 65 (87)
Q Consensus 25 ekIA~~VpgGKS~~evk~hY~~LveDV~~-IEsg-~v~~P~y~ 65 (87)
+.||+.-+ +-|..+|..-++.+.+-+.. +.+| .|.||+.+
T Consensus 8 ~~i~~~~~-~~s~~~v~~vv~~~~~~i~~~L~~g~~V~l~gfG 49 (94)
T TIGR00988 8 ERIATQQS-HLPAKDVEDAVKTMLEHMASALAQGDRIEIRGFG 49 (94)
T ss_pred HHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHcCCeEEEcCcE
Confidence 45666555 68999999999888877743 5555 58888875
Done!