Query 020752
Match_columns 322
No_of_seqs 284 out of 896
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 04:51:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020752.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020752hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00073 H15 linker histone 1 a 99.8 2.1E-20 4.6E-25 149.5 9.6 70 147-216 2-77 (88)
2 smart00526 H15 Domain in histo 99.8 1.5E-20 3.2E-25 142.3 8.2 64 147-210 2-66 (66)
3 PF00538 Linker_histone: linke 99.8 1.2E-20 2.7E-25 147.0 7.6 69 148-216 1-77 (77)
4 KOG4012 Histone H1 [Chromatin 99.5 2.7E-14 5.9E-19 133.8 6.6 76 143-218 38-120 (243)
5 PF00249 Myb_DNA-binding: Myb- 99.3 3.8E-12 8.2E-17 90.6 3.9 47 5-57 1-48 (48)
6 smart00717 SANT SANT SWI3, AD 99.0 6.3E-10 1.4E-14 76.0 5.3 48 5-58 1-48 (49)
7 PLN03212 Transcription repress 98.9 1.2E-09 2.5E-14 102.8 5.0 56 1-61 21-76 (249)
8 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 2.4E-09 5.3E-14 72.2 4.9 45 7-57 1-45 (45)
9 PF13921 Myb_DNA-bind_6: Myb-l 98.8 5E-09 1.1E-13 77.0 5.3 44 8-58 1-44 (60)
10 KOG0048 Transcription factor, 98.7 2.7E-08 5.8E-13 92.5 5.2 52 5-61 9-60 (238)
11 PLN03091 hypothetical protein; 98.7 2.4E-08 5.2E-13 100.4 5.1 54 3-61 12-65 (459)
12 PLN03212 Transcription repress 98.5 9.2E-08 2E-12 90.2 4.6 52 3-61 76-127 (249)
13 PLN03091 hypothetical protein; 98.4 2.6E-07 5.7E-12 93.1 5.0 51 3-60 65-115 (459)
14 KOG0048 Transcription factor, 97.9 1E-05 2.2E-10 75.4 4.5 50 3-59 60-109 (238)
15 TIGR01557 myb_SHAQKYF myb-like 97.8 4.2E-05 9.2E-10 57.4 5.4 47 3-54 1-51 (57)
16 KOG0051 RNA polymerase I termi 97.5 8.1E-05 1.8E-09 77.9 3.5 49 4-60 383-431 (607)
17 KOG0049 Transcription factor, 97.5 0.00012 2.5E-09 77.3 4.6 51 2-58 357-407 (939)
18 PF13837 Myb_DNA-bind_4: Myb/S 97.3 0.00017 3.6E-09 56.3 2.7 54 5-60 1-67 (90)
19 KOG0457 Histone acetyltransfer 97.2 0.00036 7.7E-09 70.6 4.3 50 6-61 73-122 (438)
20 KOG0049 Transcription factor, 97.0 0.00033 7.2E-09 73.9 2.0 50 3-58 410-459 (939)
21 PF13873 Myb_DNA-bind_5: Myb/S 96.5 0.0044 9.4E-08 47.7 4.4 53 5-59 2-71 (78)
22 PF09111 SLIDE: SLIDE; InterP 96.4 0.0027 5.8E-08 54.1 3.4 57 3-59 47-112 (118)
23 KOG1279 Chromatin remodeling f 95.3 0.021 4.6E-07 59.3 4.7 50 5-61 253-302 (506)
24 PF08074 CHDCT2: CHDCT2 (NUC03 94.9 0.017 3.7E-07 52.2 2.5 47 6-53 4-58 (173)
25 KOG0050 mRNA splicing protein 94.9 0.015 3.2E-07 60.5 2.4 50 6-61 8-57 (617)
26 PF13325 MCRS_N: N-terminal re 94.9 0.021 4.6E-07 52.8 3.0 56 4-61 72-130 (199)
27 COG5147 REB1 Myb superfamily p 94.3 0.012 2.7E-07 61.1 0.1 49 4-60 290-338 (512)
28 PLN03142 Probable chromatin-re 94.2 0.06 1.3E-06 60.3 5.1 57 4-60 925-987 (1033)
29 COG5259 RSC8 RSC chromatin rem 93.7 0.064 1.4E-06 55.3 3.7 46 5-57 279-324 (531)
30 COG5114 Histone acetyltransfer 93.6 0.055 1.2E-06 53.7 3.0 46 7-58 65-110 (432)
31 PF10264 Stork_head: Winged he 93.3 0.32 6.9E-06 39.2 6.4 67 149-215 9-77 (80)
32 PF14338 Mrr_N: Mrr N-terminal 93.3 0.24 5.2E-06 39.6 5.8 66 151-216 1-82 (92)
33 PF00250 Fork_head: Fork head 93.2 0.16 3.4E-06 41.7 4.7 57 149-209 3-63 (96)
34 cd00059 FH Forkhead (FH), also 91.7 0.33 7.1E-06 38.6 4.6 35 148-183 2-36 (78)
35 KOG4282 Transcription factor G 91.3 0.21 4.6E-06 48.7 3.9 53 6-60 55-116 (345)
36 COG5147 REB1 Myb superfamily p 90.3 0.35 7.5E-06 50.6 4.5 52 2-60 69-120 (512)
37 smart00339 FH FORKHEAD. FORKHE 90.1 0.34 7.4E-06 39.2 3.4 33 150-183 4-36 (89)
38 PF12776 Myb_DNA-bind_3: Myb/S 88.8 0.56 1.2E-05 36.8 3.7 52 7-60 1-65 (96)
39 PF08914 Myb_DNA-bind_2: Rap1 88.7 0.65 1.4E-05 35.8 3.8 50 5-59 2-59 (65)
40 KOG0384 Chromodomain-helicase 88.1 0.27 5.8E-06 55.9 1.9 51 7-57 1135-1191(1373)
41 KOG2656 DNA methyltransferase 87.7 0.56 1.2E-05 47.7 3.7 50 6-56 131-180 (445)
42 KOG0051 RNA polymerase I termi 85.6 0.79 1.7E-05 48.8 3.7 53 3-61 434-511 (607)
43 KOG0050 mRNA splicing protein 79.4 1.6 3.5E-05 45.9 3.1 48 4-59 58-105 (617)
44 PF11839 DUF3359: Protein of u 78.6 16 0.00036 30.4 8.2 52 264-315 35-86 (96)
45 PF08672 APC2: Anaphase promot 75.6 2.6 5.6E-05 32.0 2.5 25 190-214 36-60 (60)
46 PF09420 Nop16: Ribosome bioge 74.2 8 0.00017 34.3 5.7 50 4-56 113-162 (164)
47 PRK13923 putative spore coat p 71.1 1.6 3.5E-05 39.7 0.5 60 1-61 1-60 (170)
48 PF04504 DUF573: Protein of un 68.2 4.9 0.00011 33.1 2.7 57 4-60 3-65 (98)
49 COG5118 BDP1 Transcription ini 65.7 9 0.00019 39.3 4.5 49 4-59 364-412 (507)
50 PF05402 PqqD: Coenzyme PQQ sy 64.5 16 0.00034 26.9 4.7 40 167-206 28-68 (68)
51 PF14947 HTH_45: Winged helix- 58.3 8.2 0.00018 29.9 2.2 56 153-216 5-60 (77)
52 PF05732 RepL: Firmicute plasm 51.3 29 0.00063 31.1 4.9 70 152-225 42-126 (165)
53 smart00550 Zalpha Z-DNA-bindin 48.9 79 0.0017 23.9 6.3 59 150-216 5-66 (68)
54 PF01726 LexA_DNA_bind: LexA D 46.5 58 0.0012 24.8 5.2 22 191-212 42-63 (65)
55 PF08784 RPA_C: Replication pr 45.3 37 0.00081 27.2 4.2 52 149-207 45-97 (102)
56 PF11626 Rap1_C: TRF2-interact 43.8 22 0.00048 28.3 2.6 21 5-25 47-75 (87)
57 PF05066 HARE-HTH: HB1, ASXL, 42.9 56 0.0012 24.7 4.6 62 151-214 2-69 (72)
58 COG4742 Predicted transcriptio 40.2 36 0.00078 33.0 3.9 48 161-216 20-67 (260)
59 PF13325 MCRS_N: N-terminal re 38.0 53 0.0011 30.7 4.5 49 7-60 1-49 (199)
60 PF06969 HemN_C: HemN C-termin 36.6 60 0.0013 23.7 3.9 46 166-217 18-63 (66)
61 cd00092 HTH_CRP helix_turn_hel 34.6 49 0.0011 23.6 3.1 41 169-216 26-67 (67)
62 TIGR02894 DNA_bind_RsfA transc 33.0 16 0.00034 33.2 0.2 54 5-61 4-59 (161)
63 PF15054 DUF4535: Domain of un 30.4 25 0.00053 25.7 0.8 20 177-197 15-34 (46)
64 smart00595 MADF subfamily of S 29.4 33 0.00071 26.5 1.5 26 27-59 29-54 (89)
65 smart00346 HTH_ICLR helix_turn 29.1 1.7E+02 0.0037 22.1 5.5 52 156-216 10-63 (91)
66 TIGR01932 hflC HflC protein. H 28.5 1.9E+02 0.004 28.3 6.8 24 278-302 243-266 (317)
67 smart00419 HTH_CRP helix_turn_ 28.4 68 0.0015 21.3 2.8 25 190-214 23-47 (48)
68 PF05928 Zea_mays_MuDR: Zea ma 28.2 1.7E+02 0.0036 27.1 5.9 26 266-291 12-37 (207)
69 PF12363 DUF3647: Phage protei 26.8 1.8E+02 0.004 24.3 5.6 52 152-205 53-104 (113)
70 KOG4329 DNA-binding protein [G 26.7 95 0.0021 32.0 4.5 44 7-56 279-322 (445)
71 PF08343 RNR_N: Ribonucleotide 26.1 55 0.0012 26.3 2.3 50 156-207 3-59 (82)
72 PF08671 SinI: Anti-repressor 25.9 1.2E+02 0.0027 20.2 3.5 25 152-181 5-29 (30)
73 TIGR01933 hflK HflK protein. H 25.7 2.5E+02 0.0055 26.0 7.0 12 298-309 206-217 (261)
74 cd01392 HTH_LacI Helix-turn-he 25.7 71 0.0015 22.0 2.5 36 163-198 3-38 (52)
75 PRK11029 FtsH protease regulat 24.6 2.4E+02 0.0053 28.1 6.9 15 296-310 272-286 (334)
76 KOG2009 Transcription initiati 23.6 96 0.0021 33.5 4.1 51 4-61 408-458 (584)
77 KOG4468 Polycomb-group transcr 23.5 88 0.0019 34.1 3.7 26 5-31 88-113 (782)
78 PF08461 HTH_12: Ribonuclease 23.2 3.3E+02 0.0071 20.6 6.0 47 155-207 2-49 (66)
79 smart00420 HTH_DEOR helix_turn 23.2 2.3E+02 0.005 18.7 4.9 47 156-212 5-51 (53)
80 PF03234 CDC37_N: Cdc37 N term 22.6 1.9E+02 0.004 26.6 5.2 40 143-182 100-140 (177)
81 KOG2668 Flotillins [Intracellu 21.9 2.8E+02 0.0061 28.6 6.7 36 278-314 320-355 (428)
82 smart00354 HTH_LACI helix_turn 21.6 81 0.0018 23.7 2.3 38 162-199 5-42 (70)
83 KOG3563 Forkhead/HNF-3-related 21.4 2E+02 0.0043 29.7 5.6 56 150-209 176-235 (454)
84 smart00347 HTH_MARR helix_turn 21.2 1.5E+02 0.0032 22.3 3.7 48 152-209 11-58 (101)
85 COG3432 Predicted transcriptio 21.0 68 0.0015 26.7 1.9 56 153-216 17-76 (95)
86 PF02295 z-alpha: Adenosine de 20.8 2E+02 0.0043 22.0 4.3 51 152-210 5-55 (66)
87 cd03404 Band_7_HflK Band_7_Hfl 20.5 3.6E+02 0.0078 25.0 6.9 16 289-304 222-237 (266)
88 PF13412 HTH_24: Winged helix- 20.4 1.9E+02 0.0042 19.7 3.9 37 162-205 11-47 (48)
89 PF08220 HTH_DeoR: DeoR-like h 20.0 1.8E+02 0.004 21.1 3.9 26 191-216 30-55 (57)
No 1
>cd00073 H15 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber
Probab=99.83 E-value=2.1e-20 Score=149.49 Aligned_cols=70 Identities=33% Similarity=0.486 Sum_probs=66.7
Q ss_pred CCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCc-hhHHHHHHHHHHhhhhcCceeecc-----cccccCC
Q 020752 147 EPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAP-ANLRKLLATKLKFLSANGTLIKAK-----HKYRITP 216 (322)
Q Consensus 147 ~~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp-~nf~~lL~~~LKrlVa~GkLvkvK-----~syKi~~ 216 (322)
.+||+|.+||+|||.+|+||+|||+++|++||+++|++. ++|+.+|+.+|+++|++|.|++++ |+|+|+.
T Consensus 2 ~~hP~y~~MI~eAI~~l~er~GsS~~aI~kyI~~~y~~~~~~~~~~l~~aLkk~v~~G~l~~~kG~g~~gsfkl~~ 77 (88)
T cd00073 2 PSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSK 77 (88)
T ss_pred CCCCCHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHCCCeEeecCCCCccceEeCC
Confidence 479999999999999999999999999999999999865 999999999999999999999999 8999974
No 2
>smart00526 H15 Domain in histone families 1 and 5.
Probab=99.83 E-value=1.5e-20 Score=142.27 Aligned_cols=64 Identities=42% Similarity=0.568 Sum_probs=61.5
Q ss_pred CCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC-CchhHHHHHHHHHHhhhhcCceeeccc
Q 020752 147 EPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW-APANLRKLLATKLKFLSANGTLIKAKH 210 (322)
Q Consensus 147 ~~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~-vp~nf~~lL~~~LKrlVa~GkLvkvK~ 210 (322)
.+||+|.+||+|||.+|+||+|||+++|++||+++|+ .+++|+.+|+.+|+++|++|.|+|+||
T Consensus 2 ~~hP~~~~mI~eAI~~l~er~GsS~~aI~kyi~~~~~~~~~~~~~~l~~~Lk~~v~~G~l~q~kg 66 (66)
T smart00526 2 PSHPPYSEMITEAISALKERKGSSLQAIKKYIEANYKVLPNNFRSLLKLALKKLVASGKLVQVKG 66 (66)
T ss_pred CCCCCHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcCceeecCC
Confidence 4799999999999999999999999999999999998 488999999999999999999999987
No 3
>PF00538 Linker_histone: linker histone H1 and H5 family; InterPro: IPR005818 Histone proteins have central roles in both chromatin organisation (as structural units of the nucleosome) and gene regulation (as dynamic components that have a direct impact on DNA transcription and replication). Eukaryotic DNA wraps around a histone octamer to form a nucleosome, the first order of compaction of eukaryotic chromatin. The core histone octamer is composed of a central H3-H4 tetramer and two flanking H2A-H2B dimers. Each of the core histone contains a common structural motif, called the histone fold, which facilitates the interactions between the individual core histones. In addition to the core histones, there is a "linker histone" called H1 (or H5 in avian species). The linker histones present in all multicellular eukaryotes are the most divergent group of histones, with numerous cell type- and stage-specific variant. Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures. Histone H5 performs the same function as histone H1, and replaces H1 in certain cells. The structure of GH5, the globular domain of the linker histone H5 is known [, ]. The fold is similar to the DNA-binding domain of the catabolite gene activator protein, CAP, thus providing a possible model for the binding of GH5 to DNA. The linker histones, which do not contain the histone fold motif, are critical to the higher-order compaction of chromatin, because they bind to internucleosomal DNA and facilitate interactions between individual nucleosomes. In addition, H1 variants have been shown to be involved in the regulation of developmental genes. A common feature of this protein family is a tripartite structure in which a globular (H15) domain of about 80 amino acids is flanked by two less structured N- and C-terminal tails. The H15 domain is also characterised by high sequence homology among the family of linker histones. The highly conserved H15 domain is essential for the binding of H1 or H5 to the nucleosome. It consists of a three helix bundle (I-III), with a beta-hairpin at the C terminus. There is also a short three-residue stretch between helices I and II that is in the beta-strand conformation. Together with the C-terminal beta-hairpin, this strand forms the third strand of an antiparallel beta-sheet [, , , ]. Proteins known to contain a H15 domain are: - Eukaryotic histone H1. The histones H1 constitute a family with many variants, differing in their affinity for chromatin. Several variants are simultaneously present in a single cell. For example, the nucleated erythrocytes of birds contain both H1 and H5, the latter being an extreme variant of H1. - Eukaryotic MHYST family of histone acetyltransferase. Histone acetyltransferases transfer an acetyl group from acetyl-CoA to the epsylon- amino group of lysine within the basic NH2-termini of histones, which bind the acidic phosphates of DNA []. This entry represents the H15 domain.; GO: 0003677 DNA binding, 0006334 nucleosome assembly, 0000786 nucleosome, 0005634 nucleus; PDB: 2LSO_A 2RQP_A 1UHM_A 1UST_A 1GHC_A 1HST_A 1YQA_A 1USS_A.
Probab=99.83 E-value=1.2e-20 Score=147.01 Aligned_cols=69 Identities=30% Similarity=0.465 Sum_probs=64.3
Q ss_pred CCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC--Cch-hHHHHHHHHHHhhhhcCceeecc-----cccccCC
Q 020752 148 PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW--APA-NLRKLLATKLKFLSANGTLIKAK-----HKYRITP 216 (322)
Q Consensus 148 ~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~--vp~-nf~~lL~~~LKrlVa~GkLvkvK-----~syKi~~ 216 (322)
+||+|.+||+|||.+|+||+|||+++|.+||+++|+ +++ +|+.+|+.+|+++|++|.|+|++ |+|||+.
T Consensus 1 shP~y~~mI~eAI~~l~er~GsS~~aI~kyI~~~y~~~~~~~~~~~~l~~aLk~~v~~G~l~~~kg~G~sgsfkl~k 77 (77)
T PF00538_consen 1 SHPPYSDMILEAIKALKERKGSSLQAIKKYIKAKYKVDLNPANFKSRLKRALKRGVEKGKLVQVKGKGASGSFKLSK 77 (77)
T ss_dssp -SSCHHHHHHHHHHHCCSSSSEEHHHHHHHHHHHSSCCCCHTTHHHHHHHHHHHHHHCTSEEECSCSTTSSEEEESS
T ss_pred CCCCHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhcCcCCChHHHHHHHHHHHHHHHHCCcEEeecccCCccceecCC
Confidence 599999999999999999999999999999999997 444 89999999999999999999999 8999963
No 4
>KOG4012 consensus Histone H1 [Chromatin structure and dynamics]
Probab=99.50 E-value=2.7e-14 Score=133.76 Aligned_cols=76 Identities=29% Similarity=0.369 Sum_probs=68.2
Q ss_pred CCCCCCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC--CchhHHHHHHHHHHhhhhcCceeeccc-----ccccC
Q 020752 143 SGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW--APANLRKLLATKLKFLSANGTLIKAKH-----KYRIT 215 (322)
Q Consensus 143 ~~~~~~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~--vp~nf~~lL~~~LKrlVa~GkLvkvK~-----syKi~ 215 (322)
.-....||+|.+||.|||.+|+||+|+|+.+|++||.++|. .-++|+.+|+..|+++|.+|.|+|++| +|||.
T Consensus 38 ~k~~a~~P~~~~mi~eAi~a~keR~GsS~aAikK~i~~~Y~g~~v~k~n~~lk~alK~~v~~g~l~QtkG~GAsGsFk~~ 117 (243)
T KOG4012|consen 38 VKKKAAHPPYSEMITEAISALKERKGSSLAAIKKYIAANYPGDDVEKNNSRLKLALKKGVSKGVLVQTKGTGASGSFKLA 117 (243)
T ss_pred cccccCCCcHHHHHHHHHHHhhhcccchHHHHHHHHhhcCccchhhhhhHHHHHHHHhhhccCceeeeccCCcccccccc
Confidence 34466899999999999999999999999999999999994 245789999999999999999999986 89987
Q ss_pred CCC
Q 020752 216 PNT 218 (322)
Q Consensus 216 ~~~ 218 (322)
...
T Consensus 118 KK~ 120 (243)
T KOG4012|consen 118 KKA 120 (243)
T ss_pred ccc
Confidence 754
No 5
>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=99.27 E-value=3.8e-12 Score=90.58 Aligned_cols=47 Identities=26% Similarity=0.607 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccC-CCCHHhHHHHHHHhc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILH-SRSNVDLKDKWRNIN 57 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~-~RT~vdLKDKWRnl~ 57 (322)
|++||+||++.|+++|.+||.++|..|+. . |. +||..+|+++|+++.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~--~----~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAK--R----MPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHH--H----HSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHH--H----cCCCCCHHHHHHHHHhhC
Confidence 67999999999999999999988999998 2 45 999999999999874
No 6
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.00 E-value=6.3e-10 Score=76.02 Aligned_cols=48 Identities=31% Similarity=0.608 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k 58 (322)
+..||++|+..|+.+|..||.++|..|.. .|.+||..+|+++|+++.+
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~------~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAK------ELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHH------HcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999779999998 3469999999999999865
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.91 E-value=1.2e-09 Score=102.83 Aligned_cols=56 Identities=27% Similarity=0.529 Sum_probs=50.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 1 MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 1 Mg~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
+|.+|++||+|||+.|+..|++||.++|..|.+. + -.+||..||++||.|.+.+..
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~--~---g~gRT~KQCReRW~N~L~P~I 76 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKR--A---GLLRCGKSCRLRWMNYLRPSV 76 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHh--h---hcCCCcchHHHHHHHhhchhc
Confidence 4778999999999999999999999999999872 2 158999999999999988776
No 8
>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=98.90 E-value=2.4e-09 Score=72.20 Aligned_cols=45 Identities=33% Similarity=0.697 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhc
Q 020752 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~ 57 (322)
.||.||+..|+.++.+||.++|..|.. .+.+||..+|+++|.++.
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~------~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAK------ELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHh------HcCCCCHHHHHHHHHHhC
Confidence 599999999999999999889999998 356899999999998863
No 9
>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=98.84 E-value=5e-09 Score=77.03 Aligned_cols=44 Identities=34% Similarity=0.641 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcc
Q 020752 8 WTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (322)
Q Consensus 8 WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k 58 (322)
||+||++.|+.+|.+||. +|+.|.. +|.+||..+|++||++.+.
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~------~l~~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAE------HLGNRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHH------HSTTS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHH------HHCcCCHHHHHHHHHHHCc
Confidence 999999999999999996 9999998 3556999999999999443
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.66 E-value=2.7e-08 Score=92.54 Aligned_cols=52 Identities=17% Similarity=0.294 Sum_probs=47.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
|++||+|||+.|++.|++||.|+|..|.++- + -+|+..+|+-||.|.+++..
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~--g---l~R~GKSCRlRW~NyLrP~i 60 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLA--G---LRRCGKSCRLRWTNYLRPDL 60 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhc--C---CCccchHHHHHhhcccCCCc
Confidence 4999999999999999999999999999942 2 29999999999999999986
No 11
>PLN03091 hypothetical protein; Provisional
Probab=98.65 E-value=2.4e-08 Score=100.45 Aligned_cols=54 Identities=22% Similarity=0.388 Sum_probs=47.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
.+|++||+|||+.|+..|.+||.++|..|.+. + ..+|+..||++||.|.+.+..
T Consensus 12 lrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~--~---g~gRT~KQCRERW~NyLdP~I 65 (459)
T PLN03091 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQ--A---GLQRCGKSCRLRWINYLRPDL 65 (459)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhh--h---ccCcCcchHhHHHHhccCCcc
Confidence 36789999999999999999999999999972 2 258999999999999887766
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.51 E-value=9.2e-08 Score=90.22 Aligned_cols=52 Identities=19% Similarity=0.357 Sum_probs=46.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
-.+.+||.|||+.|++.+.+||. +|..|.+ .|++||..+||+||.++++...
T Consensus 76 I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk------~LpGRTDnqIKNRWns~LrK~l 127 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGN-RWSLIAG------RIPGRTDNEIKNYWNTHLRKKL 127 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccc-cHHHHHh------hcCCCCHHHHHHHHHHHHhHHH
Confidence 35789999999999999999997 9999998 4689999999999998887643
No 13
>PLN03091 hypothetical protein; Provisional
Probab=98.40 E-value=2.6e-07 Score=93.10 Aligned_cols=51 Identities=18% Similarity=0.366 Sum_probs=46.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
-.+.+||.|||+.|++.+.+||. +|..|.. +|.|||..+||+||..+.+..
T Consensus 65 IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk------~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 65 LKRGTFSQQEENLIIELHAVLGN-RWSQIAA------QLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCc-chHHHHH------hcCCCCHHHHHHHHHHHHHHH
Confidence 35789999999999999999998 9999997 468999999999999887663
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.92 E-value=1e-05 Score=75.40 Aligned_cols=50 Identities=20% Similarity=0.372 Sum_probs=44.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (322)
-+|+.||+|||+.|+++-.+||. +|+.|+. .|+|||...+|.-|...++.
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GN-rWs~IA~------~LPGRTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGN-RWSLIAG------RLPGRTDNEVKNHWNTHLKK 109 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCc-HHHHHHh------hCCCcCHHHHHHHHHHHHHH
Confidence 36889999999999999999999 9999998 47999999999999655433
No 15
>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=97.81 E-value=4.2e-05 Score=57.35 Aligned_cols=47 Identities=19% Similarity=0.396 Sum_probs=39.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCc---hhhccCcccccccCCC-CHHhHHHHHH
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKW---RTILSDPEFSAILHSR-SNVDLKDKWR 54 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW---~~I~~d~~f~~~l~~R-T~vdLKDKWR 54 (322)
++|..||+||...++.||+.||.|+| +.|++. |. ..| |..+++....
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~--~~---~~~lT~~qV~SH~Q 51 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILEL--MV---VDGLTRDQVASHLQ 51 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHH--cC---CCCCCHHHHHHHHH
Confidence 57889999999999999999999999 999872 22 245 9999987654
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.46 E-value=8.1e-05 Score=77.93 Aligned_cols=49 Identities=37% Similarity=0.659 Sum_probs=45.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
.|++||+||++.|...|..||. .|+.|-+ .-+|.+.+|+|+||+..+..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~-------~lgr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGK-------ALGRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHH-------HHccCcHHHHHHHHHhhccc
Confidence 6889999999999999999998 9999998 35999999999999998875
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.46 E-value=0.00012 Score=77.30 Aligned_cols=51 Identities=20% Similarity=0.502 Sum_probs=45.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcc
Q 020752 2 GAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (322)
Q Consensus 2 g~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k 58 (322)
|-++++||++||..|+..|.+||...|.+|.. . |+||+..||++||.|.+.
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~--~----vPnRSdsQcR~RY~nvL~ 407 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQ--A----VPNRSDSQCRERYTNVLN 407 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCccchhhHHH--h----cCCccHHHHHHHHHHHHH
Confidence 45788999999999999999999999999998 3 589999999999977653
No 18
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.30 E-value=0.00017 Score=56.27 Aligned_cols=54 Identities=22% Similarity=0.463 Sum_probs=35.9
Q ss_pred CCCCCHHHHHHHHHHHHH------hCC-----C--CchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 5 KQKWTAEEEAALKAGVRK------HGT-----G--KWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k------~G~-----G--kW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
|..||.+|+..|++.+.. ++. + -|..|.. .+...=..||..+|++||.||.+.-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~--~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAE--ELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHH--HHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHH--HHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 578999999999999887 221 1 5999987 3332224899999999999998764
No 19
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.18 E-value=0.00036 Score=70.57 Aligned_cols=50 Identities=24% Similarity=0.484 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
--||.+||=.|+++++.||.|||..|.+. ...||..+||+.|.++...+-
T Consensus 73 ~~WtadEEilLLea~~t~G~GNW~dIA~h------IGtKtkeeck~hy~k~fv~s~ 122 (438)
T KOG0457|consen 73 PSWTADEEILLLEAAETYGFGNWQDIADH------IGTKTKEECKEHYLKHFVNSP 122 (438)
T ss_pred CCCChHHHHHHHHHHHHhCCCcHHHHHHH------HcccchHHHHHHHHHHHhcCc
Confidence 36999999999999999999999999982 357999999999999876644
No 20
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.98 E-value=0.00033 Score=73.94 Aligned_cols=50 Identities=22% Similarity=0.442 Sum_probs=42.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k 58 (322)
.++.+||-.||+.|+..|++||.|+|.+|.. +|.+||..|+..+-+.+..
T Consensus 410 ~K~~rW~l~edeqL~~~V~~YG~g~WakcA~------~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 410 AKVERWTLVEDEQLLYAVKVYGKGNWAKCAM------LLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred hccCceeecchHHHHHHHHHHccchHHHHHH------HccccchhHHHHHHHHHHH
Confidence 5788999999999999999999999999997 5789999877766554443
No 21
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.46 E-value=0.0044 Score=47.68 Aligned_cols=53 Identities=34% Similarity=0.546 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC-----------CCchhhccCccccccc-CCCCHHhHHHHHHHhccc
Q 020752 5 KQKWTAEEEAALKAGVRKH-----GT-----------GKWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~-----G~-----------GkW~~I~~d~~f~~~l-~~RT~vdLKDKWRnl~k~ 59 (322)
+..||.+|.+.|++.|++| |. .-|..|.. .|+... ..||..+|+.+|.||...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~--~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAE--ELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHH--HHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 4689999999999999997 41 26999998 555433 489999999999999765
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=96.45 E-value=0.0027 Score=54.15 Aligned_cols=57 Identities=25% Similarity=0.405 Sum_probs=44.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC---CCchhhcc----Ccccc--cccCCCCHHhHHHHHHHhccc
Q 020752 3 APKQKWTAEEEAALKAGVRKHGT---GKWRTILS----DPEFS--AILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~k~G~---GkW~~I~~----d~~f~--~~l~~RT~vdLKDKWRnl~k~ 59 (322)
..++.||++||..|+..+.+||- |.|..|.. .|.|. =+|..||+.+|..|=..|.+.
T Consensus 47 ~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 47 NKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp SS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 56788999999999999999999 99998765 45543 345899999999998877653
No 23
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=95.28 E-value=0.021 Score=59.34 Aligned_cols=50 Identities=16% Similarity=0.371 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
+..||.+|+-.|++||++||. .|.+|... ..+||.-||-.|+..|=....
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~d-dW~kVa~h------Vg~ks~eqCI~kFL~LPieD~ 302 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYGD-DWNKVADH------VGTKSQEQCILKFLRLPIEDP 302 (506)
T ss_pred CCCccHHHHHHHHHHHHHhcc-cHHHHHhc------cCCCCHHHHHHHHHhcCccch
Confidence 568999999999999999999 99999983 469999999999998855433
No 24
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=94.95 E-value=0.017 Score=52.15 Aligned_cols=47 Identities=34% Similarity=0.786 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccC--CC------CHHhHHHHH
Q 020752 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILH--SR------SNVDLKDKW 53 (322)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~--~R------T~vdLKDKW 53 (322)
.-|-..-|-+|+.||.+||-|.|..|+.||.|. +++ =+ ..-++|.|+
T Consensus 4 ~iw~r~hdywll~gi~~hgy~rwqdi~nd~~f~-IiNEPFk~e~~kgnfle~KNkF 58 (173)
T PF08074_consen 4 EIWHRRHDYWLLAGIVKHGYGRWQDIQNDPRFA-IINEPFKTESQKGNFLEMKNKF 58 (173)
T ss_pred hhhhhhhhHHHHhHHhhccchhHHHHhcCCcee-eecccccccccccchHHHHHHH
Confidence 458888999999999999999999999999996 442 12 235888887
No 25
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=94.94 E-value=0.015 Score=60.46 Aligned_cols=50 Identities=32% Similarity=0.577 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
+-|+.-||+.|..+|.+||...|+.|.+ .|+.-|..+|+.+|.....+..
T Consensus 8 gvwrntEdeilkaav~kyg~nqws~i~s------ll~~kt~rqC~~rw~e~ldp~i 57 (617)
T KOG0050|consen 8 GVWRNTEDEVLKAAVMKYGKNQWSRIAS------LLNRKTARQCKARWEEWLDPAI 57 (617)
T ss_pred ceecccHHHHHHHHHHHcchHHHHHHHH------HHhhcchhHHHHHHHHHhCHHH
Confidence 4699999999999999999999999998 3578899999999987766554
No 26
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=94.87 E-value=0.021 Score=52.84 Aligned_cols=56 Identities=21% Similarity=0.395 Sum_probs=46.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC--CCchhhccCccccccc-CCCCHHhHHHHHHHhccccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGT--GKWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~--GkW~~I~~d~~f~~~l-~~RT~vdLKDKWRnl~k~~~ 61 (322)
.|..||.+||+.|........+ ..+..|+.++ .++| .+||..+|.+.|+.|.+...
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n--~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQPSLETFQELLDKN--RSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhC--hhhhccccCHHHHHHHHHHHHHhch
Confidence 5678999999999998777644 6899999954 3455 68999999999999888755
No 27
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=94.32 E-value=0.012 Score=61.11 Aligned_cols=49 Identities=35% Similarity=0.563 Sum_probs=44.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
.++.||.||+..|...+.++|. .|+.|-.. .+|-+.+|+|+||+..+..
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~~-~w~~ig~~-------~~rmp~~crd~wr~~~~~g 338 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHGG-SWTEIGKL-------LGRMPNDCRDRWRDYVKCG 338 (512)
T ss_pred hhccCccccccccccccccccc-hhhHhhhh-------hccCcHHHHHHHhhhcccc
Confidence 4789999999999999999998 99999883 4899999999999998875
No 28
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.18 E-value=0.06 Score=60.29 Aligned_cols=57 Identities=18% Similarity=0.280 Sum_probs=47.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhcc----C--cccccccCCCCHHhHHHHHHHhcccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILS----D--PEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~----d--~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
+++.||.|||..|+-.+.+||-|+|..|.. . +.|.-||..||+..|..|-..|.+..
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~ 987 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLI 987 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHH
Confidence 456799999999999999999999999843 3 34544568999999999998887654
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=93.67 E-value=0.064 Score=55.30 Aligned_cols=46 Identities=13% Similarity=0.382 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~ 57 (322)
...||.+|.-.|++||+.||. .|.+|..+ ..++|-.||--++-+|=
T Consensus 279 dk~WS~qE~~LLLEGIe~ygD-dW~kVA~H------VgtKt~EqCIl~FL~LP 324 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGD-DWDKVARH------VGTKTKEQCILHFLQLP 324 (531)
T ss_pred cccccHHHHHHHHHHHHHhhh-hHHHHHHH------hCCCCHHHHHHHHHcCC
Confidence 348999999999999999999 99999983 46999999999987663
No 30
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.57 E-value=0.055 Score=53.65 Aligned_cols=46 Identities=26% Similarity=0.511 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcc
Q 020752 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k 58 (322)
.|+..||-.|+++.+..|.|+|..|.. +...|+-.+||+.|-.+..
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIad------yiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIAD------YIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHH------HHhhhhhHHHHHHHHHHHh
Confidence 599999999999999999999999997 2458999999999987765
No 31
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=93.28 E-value=0.32 Score=39.20 Aligned_cols=67 Identities=15% Similarity=0.199 Sum_probs=55.9
Q ss_pred CCChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhCC-CchhHHHHHHHHHHhhhhcCceeecccccccC
Q 020752 149 VARLDKLILEAISNLKE-PNGSDRASIASYIEDQYW-APANLRKLLATKLKFLSANGTLIKAKHKYRIT 215 (322)
Q Consensus 149 hp~y~~MI~EAI~~Lke-r~GSS~~AI~kyIe~~y~-vp~nf~~lL~~~LKrlVa~GkLvkvK~syKi~ 215 (322)
--++.+.|..+|..|+- ....+..+|..++..+|+ +..--...|...|-.|+..|||....+-|.|-
T Consensus 9 fiPL~EvlC~~I~dln~~~~~at~E~l~~~L~~~yp~i~~Ps~e~l~~~L~~Li~erkIY~tg~GYfiv 77 (80)
T PF10264_consen 9 FIPLPEVLCWVISDLNAAGQPATQETLREHLRKHYPGIAIPSQEVLYNTLGTLIKERKIYHTGEGYFIV 77 (80)
T ss_pred ceeHHHHHHHHHHHHhccCCcchHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHcCceeeCCCceEee
Confidence 34689999999999994 667899999999999997 32222578899999999999999998877763
No 32
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=93.27 E-value=0.24 Score=39.55 Aligned_cols=66 Identities=20% Similarity=0.374 Sum_probs=56.3
Q ss_pred ChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhCCC---------c-----hhHHHHHHHHHHhhhhcCceeecc-ccccc
Q 020752 151 RLDKLILEAISNLKE-PNGSDRASIASYIEDQYWA---------P-----ANLRKLLATKLKFLSANGTLIKAK-HKYRI 214 (322)
Q Consensus 151 ~y~~MI~EAI~~Lke-r~GSS~~AI~kyIe~~y~v---------p-----~nf~~lL~~~LKrlVa~GkLvkvK-~syKi 214 (322)
+|++|+.-.|..|++ .+..++..|...|.+++.+ | +-|+..++=++..|+..|-|..++ |.|+|
T Consensus 1 ~~~~~~~piL~~L~~~g~~~~~~ei~~~v~~~~~ls~e~~~~~~~sg~~~~~~~~ri~Wa~~~L~~aGli~~~~rG~~~i 80 (92)
T PF14338_consen 1 TYDELMPPILEALKDLGGSASRKEIYERVAERFGLSDEERNERLPSGQGYSRFKNRIRWARSYLKKAGLIERPKRGIWRI 80 (92)
T ss_pred CHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHhCCCHHHHHHHcccCCcchhHHHhHHHHHHHHHHCCCccCCCCCceEE
Confidence 589999999999999 7778999999999998753 1 148888999999999999999975 68999
Q ss_pred CC
Q 020752 215 TP 216 (322)
Q Consensus 215 ~~ 216 (322)
.+
T Consensus 81 T~ 82 (92)
T PF14338_consen 81 TE 82 (92)
T ss_pred CH
Confidence 76
No 33
>PF00250 Fork_head: Fork head domain; InterPro: IPR001766 The fork head protein of Drosophila melanogaster, a transcription factor that promotes terminal rather than segmental development, contains neither homeodomains nor zinc-fingers characteristic of other transcription factors []. Instead, it contains a distinct type of DNA-binding region, containing around 100 amino acids, which has since been identified in a number of transcription factors (including D. melanogaster FD1-5, mammalian HNF-3, human HTLF, Saccharomyces cerevisiae HCM1, etc.). This is referred to as the fork head domain but is also known as a 'winged helix' [, , ]. The fork head domain binds B-DNA as a monomer [], but shows no similarity to previously identified DNA-binding motifs. Although the domain is found in several different transcription factors, a common function is their involvement in early developmental decisions of cell fates during embryogenesis [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2UZK_A 2K86_A 1JXS_A 2C6Y_A 2A3S_A 2D2W_A 2KIU_A 1VTN_C 2A07_J 2AS5_F ....
Probab=93.18 E-value=0.16 Score=41.67 Aligned_cols=57 Identities=21% Similarity=0.234 Sum_probs=43.5
Q ss_pred CCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC----CchhHHHHHHHHHHhhhhcCceeecc
Q 020752 149 VARLDKLILEAISNLKEPNGSDRASIASYIEDQYW----APANLRKLLATKLKFLSANGTLIKAK 209 (322)
Q Consensus 149 hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~----vp~nf~~lL~~~LKrlVa~GkLvkvK 209 (322)
.-+|..||..||.. -..++.+..-|.+||+.+|+ .+..++.-|++.| ..+.-|++|.
T Consensus 3 p~sY~~LI~~Ai~~-sp~~~Ltl~eIy~~i~~~~pyyr~~~~~WknSIRHnL---S~~~~F~kv~ 63 (96)
T PF00250_consen 3 PYSYATLIAMAILS-SPDKRLTLSEIYEWIEENFPYYRDASKGWKNSIRHNL---SLNKCFVKVP 63 (96)
T ss_dssp SS-HHHHHHHHHHT-STTSEBEHHHHHHHHHHHCGHHHCTHCHHHHHHHHHH---HHSTTEEEES
T ss_pred CCcHHHHHHHHHHh-CCCCCccHHHHHHHHHHhhccccccchhhhhHHhhhc---cccceeeecC
Confidence 45799999999998 34456899999999999996 3566777777776 3456777764
No 34
>cd00059 FH Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix.
Probab=91.71 E-value=0.33 Score=38.56 Aligned_cols=35 Identities=23% Similarity=0.241 Sum_probs=30.4
Q ss_pred CCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC
Q 020752 148 PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW 183 (322)
Q Consensus 148 ~hp~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~ 183 (322)
+.-+|..||..||.... .++.+..-|.+||+++|+
T Consensus 2 P~~sY~~LI~~Ai~~sp-~~~lTL~eIy~~I~~~~p 36 (78)
T cd00059 2 PPYSYSALIAMAIQSSP-EKRLTLSEIYKWISDNFP 36 (78)
T ss_pred CCCCHHHHHHHHHHhCC-CCCeeHHHHHHHHHHhCC
Confidence 34579999999999955 567999999999999986
No 35
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.33 E-value=0.21 Score=48.65 Aligned_cols=53 Identities=23% Similarity=0.352 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHH----hCCCC-----chhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 6 QKWTAEEEAALKAGVRK----HGTGK-----WRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 6 ~~WT~EEe~~L~~GV~k----~G~Gk-----W~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
..|+.+|...|+....+ ++.|+ |..|.. .+...=..||..+|+.||.||.+..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~--k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVAR--KMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHH--HHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 78999999999988764 44555 999987 2322225899999999999999873
No 36
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=90.27 E-value=0.35 Score=50.60 Aligned_cols=52 Identities=23% Similarity=0.365 Sum_probs=45.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 2 GAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 2 g~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
-.++..|+.||++.|+..-..+|. +|++|... ..+||.-+|.++|-+.....
T Consensus 69 ~lk~~~~~~eed~~li~l~~~~~~-~wstia~~------~d~rt~~~~~ery~~~~~~~ 120 (512)
T COG5147 69 QLKKKNWSEEEDEQLIDLDKELGT-QWSTIADY------KDRRTAQQCVERYVNTLEDL 120 (512)
T ss_pred hcccccccHHHHHHHHHHHHhcCc-hhhhhccc------cCccchHHHHHHHHHHhhhh
Confidence 356889999999999999999999 89999973 35799999999998766553
No 37
>smart00339 FH FORKHEAD. FORKHEAD, also known as a "winged helix"
Probab=90.08 E-value=0.34 Score=39.24 Aligned_cols=33 Identities=24% Similarity=0.164 Sum_probs=29.1
Q ss_pred CChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC
Q 020752 150 ARLDKLILEAISNLKEPNGSDRASIASYIEDQYW 183 (322)
Q Consensus 150 p~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~ 183 (322)
-+|..||..||... ..++.+...|.+||+++|+
T Consensus 4 ~sY~~lI~~ai~~s-p~~~ltl~~Iy~~I~~~~p 36 (89)
T smart00339 4 YSYIALIAMAILSS-PDKRLTLSEIYKWIEDNFP 36 (89)
T ss_pred CCHHHHHHHHHHhC-CCCCeeHHHHHHHHHHhCc
Confidence 46999999999995 4567999999999999986
No 38
>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=88.82 E-value=0.56 Score=36.85 Aligned_cols=52 Identities=25% Similarity=0.476 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHHHHh-------CCC-----CchhhccCccccccc-CCCCHHhHHHHHHHhcccc
Q 020752 7 KWTAEEEAALKAGVRKH-------GTG-----KWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~-------G~G-----kW~~I~~d~~f~~~l-~~RT~vdLKDKWRnl~k~~ 60 (322)
+||+++++.|++.+... +.| .|..|.. .|...+ ..-|..+|++||..|.+.-
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~--~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAE--EFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHH--HHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 59999999999998654 222 4777877 565544 4668899999999888763
No 39
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=88.67 E-value=0.65 Score=35.77 Aligned_cols=50 Identities=20% Similarity=0.372 Sum_probs=30.1
Q ss_pred CCCCCHHHHHHHHHHHHHh---C---CC--CchhhccCcccccccCCCCHHhHHHHHHHhccc
Q 020752 5 KQKWTAEEEAALKAGVRKH---G---TG--KWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~---G---~G--kW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (322)
|.++|.|||.+|++-|..+ | .| =|+.+.... ...+|-..++|||+.-+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~-----~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKH-----PTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS------SSS--SHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHc-----CCCCCHHHHHHHHHHHHhc
Confidence 6789999999999999655 3 23 377776531 2489999999999655443
No 40
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=88.05 E-value=0.27 Score=55.85 Aligned_cols=51 Identities=27% Similarity=0.582 Sum_probs=38.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhccCcccc---ccc---CCCCHHhHHHHHHHhc
Q 020752 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFS---AIL---HSRSNVDLKDKWRNIN 57 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~---~~l---~~RT~vdLKDKWRnl~ 57 (322)
-|..++|..|+-||-+||-|+|-.|..||.+. .+| ..=+.++|.-|-.-|+
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~~yLl 1191 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRADYLL 1191 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHHHHHH
Confidence 59999999999999999999999999999764 112 1334566666654443
No 41
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=87.72 E-value=0.56 Score=47.69 Aligned_cols=50 Identities=20% Similarity=0.329 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHh
Q 020752 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNI 56 (322)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl 56 (322)
..||.+|.+.|.+..++|.- .|=-|..-|.-..+=.+||-.||||||...
T Consensus 131 n~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 46999999999999999999 999999865322222569999999999433
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=85.65 E-value=0.79 Score=48.84 Aligned_cols=53 Identities=23% Similarity=0.478 Sum_probs=43.1
Q ss_pred CCCCCCCHHHHHHHHHHHH-------Hh------------------CCCCchhhccCcccccccCCCCHHhHHHHHHHhc
Q 020752 3 APKQKWTAEEEAALKAGVR-------KH------------------GTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (322)
Q Consensus 3 ~~r~~WT~EEe~~L~~GV~-------k~------------------G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~ 57 (322)
+.|..||-||++.|+..|+ .| -.-+|..|.+ .+..|+.++|+-||-.|.
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse------~~~TR~~~qCr~Kw~kl~ 507 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSE------MLGTRSRIQCRYKWYKLT 507 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhH------hhcCCCcchHHHHHHHHH
Confidence 4788999999999999996 23 1228999887 357899999999999888
Q ss_pred cccc
Q 020752 58 VTAI 61 (322)
Q Consensus 58 k~~~ 61 (322)
....
T Consensus 508 ~~~s 511 (607)
T KOG0051|consen 508 TSPS 511 (607)
T ss_pred hhHH
Confidence 7654
No 43
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=79.40 E-value=1.6 Score=45.90 Aligned_cols=48 Identities=25% Similarity=0.476 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (322)
++--||.|||+.|+....-+-. .|..|.. +-+||+.+|-.||-+++-.
T Consensus 58 ~~tews~eederlLhlakl~p~-qwrtIa~-------i~gr~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPT-QWRTIAD-------IMGRTSQQCLERYNNLLDV 105 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCC-ccchHHH-------HhhhhHHHHHHHHHHHHHH
Confidence 3557999999999999988877 9999996 4699999999999888754
No 44
>PF11839 DUF3359: Protein of unknown function (DUF3359); InterPro: IPR021793 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 80 amino acids in length.
Probab=78.63 E-value=16 Score=30.44 Aligned_cols=52 Identities=44% Similarity=0.346 Sum_probs=38.2
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020752 264 MTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKAL 315 (322)
Q Consensus 264 ~t~~EAA~aAA~aVAEAE~~~~~AeeA~~Eae~~e~~AE~a~~fa~aa~~~~ 315 (322)
.|++++-..+.-+-..|+.+...|.+|...|+.+.+.|+.||.-++.|..-+
T Consensus 35 ~~a~~a~~~a~~a~~~A~~A~~~AdeA~~kA~~A~aaA~~Aqq~A~eAnek~ 86 (96)
T PF11839_consen 35 STAEQAQATAASAQSAAASAQQRADEAASKADAALAAAEAAQQTADEANEKA 86 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666667777778888888888888888888888777775544
No 45
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=75.55 E-value=2.6 Score=31.97 Aligned_cols=25 Identities=24% Similarity=0.284 Sum_probs=21.0
Q ss_pred HHHHHHHHhhhhcCceeeccccccc
Q 020752 190 KLLATKLKFLSANGTLIKAKHKYRI 214 (322)
Q Consensus 190 ~lL~~~LKrlVa~GkLvkvK~syKi 214 (322)
..|..-|-++|+.|+|+.+.|+|||
T Consensus 36 ~eL~~fL~~lv~e~~L~~~~G~YkL 60 (60)
T PF08672_consen 36 EELQEFLDRLVEEGKLECSGGSYKL 60 (60)
T ss_dssp HHHHHHHHHHHHTTSEE--TTEEEE
T ss_pred HHHHHHHHHHHHCCcEEecCCEEeC
Confidence 4688899999999999999999997
No 46
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=74.23 E-value=8 Score=34.29 Aligned_cols=50 Identities=16% Similarity=0.313 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHh
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNI 56 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl 56 (322)
+.+.-|..|...|...|++||. .+..+..|...+ ....|..+|+.+-+..
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN--~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLN--YMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCC--cccCCHHHHHHHHHHh
Confidence 5667899999999999999997 999999988765 3578999999887654
No 47
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=71.09 E-value=1.6 Score=39.72 Aligned_cols=60 Identities=17% Similarity=0.180 Sum_probs=39.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 1 MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 1 Mg~~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
|--....||.|||..|-+-|-+|+.--=..+.. .+.-...-+||...|.+||-..++..|
T Consensus 1 mk~rqdawt~e~d~llae~vl~~i~eg~tql~a-fe~~g~~L~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 1 MKTRQDAWTQERDGLLAEVVLRHIREGGTQLKA-FEEVGDALKRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred CcchhhhhhhHHHHHHHHHHHHHHhccchHHHH-HHHHHHHHhhhHHHHHhHHHHHHHHHH
Confidence 445567899999999999999987621122221 111112358999999999966666544
No 48
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=68.19 E-value=4.9 Score=33.07 Aligned_cols=57 Identities=21% Similarity=0.295 Sum_probs=37.3
Q ss_pred CCCCCCHHHHHHHHHHHHHh----CCCCchhhccCccc-cccc-CCCCHHhHHHHHHHhcccc
Q 020752 4 PKQKWTAEEEAALKAGVRKH----GTGKWRTILSDPEF-SAIL-HSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~----G~GkW~~I~~d~~f-~~~l-~~RT~vdLKDKWRnl~k~~ 60 (322)
..+.||+|+|=.|++|+--| |.+....+-.-++| .+.+ ..=|..||.||-|.|.+.-
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 45789999999999999877 76433332211111 1111 2348899999999998773
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=65.72 E-value=9 Score=39.28 Aligned_cols=49 Identities=18% Similarity=0.321 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (322)
.--+||.+|-+.+-..+..+|. .+..|.. .|++|...|+|-||.+-.+.
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~------lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISS------LFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHH------hcCchhHHHHHHHHHHHhhh
Confidence 3458999999999999999999 9999988 46899999999999876655
No 50
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=64.52 E-value=16 Score=26.95 Aligned_cols=40 Identities=13% Similarity=0.144 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHhhCCCchh-HHHHHHHHHHhhhhcCcee
Q 020752 167 NGSDRASIASYIEDQYWAPAN-LRKLLATKLKFLSANGTLI 206 (322)
Q Consensus 167 ~GSS~~AI~kyIe~~y~vp~n-f~~lL~~~LKrlVa~GkLv 206 (322)
++.|...|.+.+.++|.+++. ...-+..-|..|.+.|-|+
T Consensus 28 g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~~~glIe 68 (68)
T PF05402_consen 28 GPRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLREKGLIE 68 (68)
T ss_dssp SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT---
T ss_pred CCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCcCcC
Confidence 469999999999999997554 7788899999999988763
No 51
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=58.28 E-value=8.2 Score=29.93 Aligned_cols=56 Identities=30% Similarity=0.432 Sum_probs=37.5
Q ss_pred HHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCC
Q 020752 153 DKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITP 216 (322)
Q Consensus 153 ~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~syKi~~ 216 (322)
.++|++-+..|. .+|.+.+-|. |...=|+ ..+...|+.|+..|-+...++.|+|.+
T Consensus 5 ~~Ii~~IL~~l~-~~~~~~t~i~------~~~~L~~-~~~~~yL~~L~~~gLI~~~~~~Y~lTe 60 (77)
T PF14947_consen 5 LEIIFDILKILS-KGGAKKTEIM------YKANLNY-STLKKYLKELEEKGLIKKKDGKYRLTE 60 (77)
T ss_dssp THHHHHHHHHH--TT-B-HHHHH------TTST--H-HHHHHHHHHHHHTTSEEEETTEEEE-H
T ss_pred HHHHHHHHHHHH-cCCCCHHHHH------HHhCcCH-HHHHHHHHHHHHCcCeeCCCCEEEECc
Confidence 567888888887 6777777666 2221122 346788999999999988888999865
No 52
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=51.32 E-value=29 Score=31.09 Aligned_cols=70 Identities=16% Similarity=0.211 Sum_probs=50.3
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC----C---chhH-------HHHHHHHHHhhhhcCceeecc-cccccCC
Q 020752 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYW----A---PANL-------RKLLATKLKFLSANGTLIKAK-HKYRITP 216 (322)
Q Consensus 152 y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~----v---p~nf-------~~lL~~~LKrlVa~GkLvkvK-~syKi~~ 216 (322)
|.+.|...+.. -|.....|..||-++.. + ...+ ..-++..||.|.+.|-|.+++ |.|.|.|
T Consensus 42 ~~~ni~~~l~l----~g~k~~~Vl~~il~~~d~~N~v~~t~~~ia~~l~iS~~Tv~r~ik~L~e~~iI~k~~~G~Y~iNP 117 (165)
T PF05732_consen 42 YLENIIKVLDL----IGNKAFRVLMYILENMDKDNAVVATQKEIAEKLGISKPTVSRAIKELEEKNIIKKIRNGAYMINP 117 (165)
T ss_pred HHHHHHHHhhh----hchhHHHHHHHHHHhcCCCCeEEeeHHHHHHHhCCCHHHHHHHHHHHHhCCcEEEccCCeEEECc
Confidence 45555555544 46678999999998843 1 1101 235889999999999999988 7899999
Q ss_pred CCCCCCCCC
Q 020752 217 NTPVSVPKR 225 (322)
Q Consensus 217 ~~~~~~~~~ 225 (322)
..+..|.+.
T Consensus 118 ~~~~kG~~~ 126 (165)
T PF05732_consen 118 NFFFKGDRD 126 (165)
T ss_pred HHheeCcHH
Confidence 876665554
No 53
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=48.89 E-value=79 Score=23.89 Aligned_cols=59 Identities=24% Similarity=0.300 Sum_probs=41.5
Q ss_pred CChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc---cccccCC
Q 020752 150 ARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK---HKYRITP 216 (322)
Q Consensus 150 p~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK---~syKi~~ 216 (322)
..+.+-|++.|..-.++ |.+..-|++-+ .++ ++-++..|.+|...|.+++.. +.|+|..
T Consensus 5 ~~~~~~IL~~L~~~g~~-~~ta~eLa~~l----gl~---~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~~ 66 (68)
T smart00550 5 DSLEEKILEFLENSGDE-TSTALQLAKNL----GLP---KKEVNRVLYSLEKKGKVCKQGGTPPLWKLTD 66 (68)
T ss_pred hHHHHHHHHHHHHCCCC-CcCHHHHHHHH----CCC---HHHHHHHHHHHHHCCCEEecCCCCCceEeec
Confidence 44677788888765333 58877777655 444 346788999999999998853 5677653
No 54
>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=46.48 E-value=58 Score=24.81 Aligned_cols=22 Identities=23% Similarity=0.252 Sum_probs=18.7
Q ss_pred HHHHHHHhhhhcCceeeccccc
Q 020752 191 LLATKLKFLSANGTLIKAKHKY 212 (322)
Q Consensus 191 lL~~~LKrlVa~GkLvkvK~sy 212 (322)
.+..+|+.|...|-|.+..|+-
T Consensus 42 tv~~~L~~Le~kG~I~r~~~~~ 63 (65)
T PF01726_consen 42 TVQRHLKALERKGYIRRDPGKA 63 (65)
T ss_dssp HHHHHHHHHHHTTSEEEGCCSC
T ss_pred HHHHHHHHHHHCcCccCCCCCC
Confidence 4788899999999999887753
No 55
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=45.29 E-value=37 Score=27.21 Aligned_cols=52 Identities=21% Similarity=0.333 Sum_probs=39.5
Q ss_pred CCChHHHHHHHHHh-CCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceee
Q 020752 149 VARLDKLILEAISN-LKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIK 207 (322)
Q Consensus 149 hp~y~~MI~EAI~~-Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvk 207 (322)
..+..++|++.|.. ....-|.++.-|.+-+ .+ + ..-|+.+|..|+..|.|.-
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l--~~--~---~~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQL--GM--S---ENEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHS--TS------HHHHHHHHHHHHHTTSEEE
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHh--Cc--C---HHHHHHHHHHHHhCCeEec
Confidence 45679999999999 7778999999999877 33 3 3368999999999999863
No 56
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=43.82 E-value=22 Score=28.32 Aligned_cols=21 Identities=33% Similarity=0.688 Sum_probs=12.0
Q ss_pred CCCCCHHHHHHH--------HHHHHHhCC
Q 020752 5 KQKWTAEEEAAL--------KAGVRKHGT 25 (322)
Q Consensus 5 r~~WT~EEe~~L--------~~GV~k~G~ 25 (322)
.+-||+|+|+.| .+.++|||.
T Consensus 47 ~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 47 PGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 567999999999 344456664
No 57
>PF05066 HARE-HTH: HB1, ASXL, restriction endonuclease HTH domain; InterPro: IPR007759 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and 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 []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The delta protein is a dispensable subunit of Bacillus subtilis RNA polymerase (RNAP) that has major effects on the biochemical properties of the purified enzyme. In the presence of delta, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling []. The delta protein, contains two distinct regions, an N-terminal domain and a glutamate and aspartate residue-rich C-terminal region [].; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent; PDB: 2KRC_A.
Probab=42.90 E-value=56 Score=24.65 Aligned_cols=62 Identities=10% Similarity=0.098 Sum_probs=35.9
Q ss_pred ChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCC---chhHHHHHHHHHHhh--hhcCceeec-cccccc
Q 020752 151 RLDKLILEAISNLKEPNGSDRASIASYIEDQYWA---PANLRKLLATKLKFL--SANGTLIKA-KHKYRI 214 (322)
Q Consensus 151 ~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~v---p~nf~~lL~~~LKrl--Va~GkLvkv-K~syKi 214 (322)
+|.+++.+.|...+ ...+..-|.+.|.++... ..+....|...|-.- -..|.|+++ .|.|-|
T Consensus 2 t~~eaa~~vL~~~~--~pm~~~eI~~~i~~~~~~~~~~k~p~~~i~a~ly~~~~~~d~~F~~vg~~~~~L 69 (72)
T PF05066_consen 2 TFKEAAYEVLEEAG--RPMTFKEIWEEIQERGLYKKSGKTPEATIAAQLYTDIKNEDSRFVKVGPGRWGL 69 (72)
T ss_dssp -HHHHHHHHHHHH---S-EEHHHHHHHHHHHHTS---GGGGGHHHH-HHHHHHH-T-SS-EESSSSEEE-
T ss_pred CHHHHHHHHHHhcC--CCcCHHHHHHHHHHhCCCCcccCCHHHHHHHHHHHHcccCCCCEEEeCCCcEEe
Confidence 45666777777666 669999999999987542 233334444444333 488899999 566654
No 58
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=40.22 E-value=36 Score=33.01 Aligned_cols=48 Identities=17% Similarity=0.282 Sum_probs=34.3
Q ss_pred HhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCC
Q 020752 161 SNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITP 216 (322)
Q Consensus 161 ~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~syKi~~ 216 (322)
..|++ +.-+..-|+.++.-. ...+..+||+|.+.|-++|..+.|+|+.
T Consensus 20 llL~e-gPkti~EI~~~l~vs-------~~ai~pqiKkL~~~~LV~~~~~~Y~LS~ 67 (260)
T COG4742 20 LLLKE-GPKTIEEIKNELNVS-------SSAILPQIKKLKDKGLVVQEGDRYSLSS 67 (260)
T ss_pred HHHHh-CCCCHHHHHHHhCCC-------cHHHHHHHHHHhhCCCEEecCCEEEecc
Confidence 34444 334566666655332 2357888999999999999999999975
No 59
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=38.02 E-value=53 Score=30.72 Aligned_cols=49 Identities=14% Similarity=0.387 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhcccc
Q 020752 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (322)
+|+++.|-.|+.+|..-. .=..|...=.|+ ..-|-..+.+||..|.-..
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS---~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFS---CKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcC---CcCcHHHHHHHHHHHHcCh
Confidence 699999999999998632 445554433554 5678899999999887553
No 60
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=36.59 E-value=60 Score=23.68 Aligned_cols=46 Identities=17% Similarity=0.290 Sum_probs=31.3
Q ss_pred CCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCCC
Q 020752 166 PNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPN 217 (322)
Q Consensus 166 r~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~syKi~~~ 217 (322)
..|.|...+. ++|.. +|...+...|..+++.|-|+...+++++++.
T Consensus 18 ~~Gi~~~~~~----~~~g~--~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~ 63 (66)
T PF06969_consen 18 NEGIDLSEFE----QRFGI--DFAEEFQKELEELQEDGLLEIDGGRLRLTEK 63 (66)
T ss_dssp HSEEEHHHHH----HHTT----THHH-HHHHHHHHHTTSEEE-SSEEEE-TT
T ss_pred HCCcCHHHHH----HHHCc--CHHHHHHHHHHHHHHCCCEEEeCCEEEECcc
Confidence 5677765554 34432 3666778889999999999999999999763
No 61
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=34.61 E-value=49 Score=23.65 Aligned_cols=41 Identities=32% Similarity=0.544 Sum_probs=28.8
Q ss_pred CCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc-cccccCC
Q 020752 169 SDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK-HKYRITP 216 (322)
Q Consensus 169 SS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK-~syKi~~ 216 (322)
.+...|+..+. +. +..++..|+.|...|-|.... |.|.|.+
T Consensus 26 ~s~~ela~~~g----~s---~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 26 LTRQEIADYLG----LT---RETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred cCHHHHHHHHC----CC---HHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 45555555443 21 345788899999999999887 8888753
No 62
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=33.03 E-value=16 Score=33.20 Aligned_cols=54 Identities=24% Similarity=0.340 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccc--cCCCCHHhHHHHHHHhccccc
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAI--LHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~--l~~RT~vdLKDKWRnl~k~~~ 61 (322)
.-.||.|||..|-+-|-+|=. .=++=+. .|..+ --+||+.-|-=||-..++..|
T Consensus 4 QDAWT~eeDlLLAEtVLrhIR-eG~TQL~--AFeEvg~~L~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIR-EGSTQLS--AFEEVGRALNRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred ccccccHHHHHHHHHHHHHHh-cchHHHH--HHHHHHHHHcccHHHhcchHHHHHHHHH
Confidence 347999999999999999822 1112222 23211 148999999999999998877
No 63
>PF15054 DUF4535: Domain of unknown function (DUF4535)
Probab=30.39 E-value=25 Score=25.67 Aligned_cols=20 Identities=40% Similarity=0.732 Sum_probs=14.4
Q ss_pred HHHhhCCCchhHHHHHHHHHH
Q 020752 177 YIEDQYWAPANLRKLLATKLK 197 (322)
Q Consensus 177 yIe~~y~vp~nf~~lL~~~LK 197 (322)
||.+||.|| |.++++...|.
T Consensus 15 Y~AQNY~VP-nv~kl~~~~~~ 34 (46)
T PF15054_consen 15 YVAQNYEVP-NVKKLAETGLD 34 (46)
T ss_pred EeeecccCC-chHHHHHHHHH
Confidence 788999997 55776665443
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=29.42 E-value=33 Score=26.47 Aligned_cols=26 Identities=27% Similarity=0.607 Sum_probs=20.7
Q ss_pred CchhhccCcccccccCCCCHHhHHHHHHHhccc
Q 020752 27 KWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (322)
Q Consensus 27 kW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (322)
-|..|.. .+ +-|..+|+.||++|...
T Consensus 29 aW~~Ia~--~l-----~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAE--EL-----GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHH--HH-----CcCHHHHHHHHHHHHHH
Confidence 5888887 33 34999999999999755
No 65
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=29.06 E-value=1.7e+02 Score=22.15 Aligned_cols=52 Identities=23% Similarity=0.362 Sum_probs=36.3
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeec--ccccccCC
Q 020752 156 ILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKA--KHKYRITP 216 (322)
Q Consensus 156 I~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkv--K~syKi~~ 216 (322)
|++.|..- +.+.+...|.+.+ .++ +.-+...|+.|++.|-|++. .+.|.+.+
T Consensus 10 Il~~l~~~--~~~~t~~~ia~~l----~i~---~~tv~r~l~~L~~~g~l~~~~~~~~y~l~~ 63 (91)
T smart00346 10 VLRALAEE--PGGLTLAELAERL----GLS---KSTAHRLLNTLQELGYVEQDGQNGRYRLGP 63 (91)
T ss_pred HHHHHHhC--CCCcCHHHHHHHh----CCC---HHHHHHHHHHHHHCCCeeecCCCCceeecH
Confidence 55555442 2578999998887 333 34577789999999999875 34677754
No 66
>TIGR01932 hflC HflC protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH protease appears to be negative (PubMed:8947034, PubMed:96367)
Probab=28.46 E-value=1.9e+02 Score=28.27 Aligned_cols=24 Identities=38% Similarity=0.309 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 020752 278 AEAEVAIAEAEEAAREAERAEAEAE 302 (322)
Q Consensus 278 AEAE~~~~~AeeA~~Eae~~e~~AE 302 (322)
||+|+....| ||-+++..+.+++|
T Consensus 243 A~~e~~~~~a-eA~a~a~~~~Aege 266 (317)
T TIGR01932 243 AEYEVRKILS-EAYRTARIIKGEGD 266 (317)
T ss_pred HHHHHHHHHH-HHHHHHHHHHhhHH
Confidence 3333333333 23444444444443
No 67
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=28.37 E-value=68 Score=21.32 Aligned_cols=25 Identities=20% Similarity=0.294 Sum_probs=20.6
Q ss_pred HHHHHHHHhhhhcCceeeccccccc
Q 020752 190 KLLATKLKFLSANGTLIKAKHKYRI 214 (322)
Q Consensus 190 ~lL~~~LKrlVa~GkLvkvK~syKi 214 (322)
..++..|+.|.+.|-|...++.|.|
T Consensus 23 ~tv~~~l~~L~~~g~l~~~~~~~~i 47 (48)
T smart00419 23 ETVSRTLKRLEKEGLISREGGRIVI 47 (48)
T ss_pred HHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 3467889999999999988777765
No 68
>PF05928 Zea_mays_MuDR: Zea mays MURB-like protein (MuDR); InterPro: IPR009227 This family consists of several Zea mays (Maize) specific MURB-like proteins. The transposition of Mu elements underlying Mutator activity in maize requires a transcriptionally active MuDR element. Despite variation in MuDR copy number and RNA levels in Mutator lines, transposition events are consistently late in plant development, and Mu excision frequencies are similar [].
Probab=28.17 E-value=1.7e+02 Score=27.12 Aligned_cols=26 Identities=42% Similarity=0.372 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020752 266 AQEAAAAAAQAIAEAEVAIAEAEEAA 291 (322)
Q Consensus 266 ~~EAA~aAA~aVAEAE~~~~~AeeA~ 291 (322)
+.|||.+||.+-+||.-..+.||--+
T Consensus 12 ~v~aaraaavaa~earc~~~vaekea 37 (207)
T PF05928_consen 12 VVDAARAAAVAASEARCVVFVAEKEA 37 (207)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhhHHH
Confidence 56789999888888888777775433
No 69
>PF12363 DUF3647: Phage protein ; InterPro: IPR024410 Proteins in this entry are frequently annotated as phage proteins, however there is little accompanying literature to back this up or to describe the nature of these phage proteins.
Probab=26.79 E-value=1.8e+02 Score=24.27 Aligned_cols=52 Identities=27% Similarity=0.357 Sum_probs=38.9
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCce
Q 020752 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTL 205 (322)
Q Consensus 152 y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkL 205 (322)
..++|.-|....+++- |+..|-.||++-+.....+..++..-|+.|..+|-+
T Consensus 53 l~d~i~~a~~~~~~~~--s~~eIe~~ie~~~e~~~~~~~l~~~vl~el~~s~~~ 104 (113)
T PF12363_consen 53 LADIIYAATAHEKKRP--SREEIEDYIEDIIEDEDDIEELFDEVLKELKKSNFF 104 (113)
T ss_pred HHHHHHHHhcccCCCC--CHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhChhH
Confidence 4666777777666665 999999999985554455778888888888877755
No 70
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=26.70 E-value=95 Score=31.99 Aligned_cols=44 Identities=20% Similarity=0.358 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHh
Q 020752 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNI 56 (322)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl 56 (322)
-||++|=..+-+|++.||. ....|... -+..|+-..|-.=|.-.
T Consensus 279 ~wsEeEcr~FEegl~~yGK-DF~lIr~n-----kvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGK-DFHLIRAN-----KVRTRSVGELVEYYYLW 322 (445)
T ss_pred cCCHHHHHHHHHHHHHhcc-cHHHHHhc-----ccccchHHHHHHHHHHh
Confidence 5999999999999999999 89999874 25789888887654433
No 71
>PF08343 RNR_N: Ribonucleotide reductase N-terminal; InterPro: IPR013554 This domain is found at the N terminus of bacterial ribonucleoside-diphosphate reductases (ribonucleotide reductases, RNRs) which catalyse the formation of deoxyribonucleotides []. It occurs together with the RNR all-alpha domain (IPR013509 from INTERPRO) and the RNR barrel domain (IPR000788 from INTERPRO). ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0006260 DNA replication, 0055114 oxidation-reduction process, 0005971 ribonucleoside-diphosphate reductase complex; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A.
Probab=26.05 E-value=55 Score=26.32 Aligned_cols=50 Identities=24% Similarity=0.401 Sum_probs=32.8
Q ss_pred HHHHHHhCCCCCCC-----CHHHHHHHHHhhCCCchhHHH--HHHHHHHhhhhcCceee
Q 020752 156 ILEAISNLKEPNGS-----DRASIASYIEDQYWAPANLRK--LLATKLKFLSANGTLIK 207 (322)
Q Consensus 156 I~EAI~~Lker~GS-----S~~AI~kyIe~~y~vp~nf~~--lL~~~LKrlVa~GkLvk 207 (322)
.+.|...+.+.+|. ++.|+..|++++- -+|... -+.-+|+-||++|=...
T Consensus 3 ~LNn~~~~~~~~G~~~l~kD~eA~~~y~~~~V--~pnt~~F~S~~Erl~yLv~~~YYe~ 59 (82)
T PF08343_consen 3 ELNNELNIYDEDGKIQLEKDKEAVRAYFKEHV--NPNTVKFNSLKERLDYLVENDYYEK 59 (82)
T ss_dssp HHHHGGG---TTS---THHHHHHHHHHHHHTT--GGGB---SSHHHHHHHHHHTTSB-H
T ss_pred HHHHHHcCCCCCCCcCchhHHHHHHHHHHHhc--ccceeecCCHHHHHHHHHHcCcHHH
Confidence 35666777788887 7899999999853 344443 37888999999986654
No 72
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=25.90 E-value=1.2e+02 Score=20.16 Aligned_cols=25 Identities=28% Similarity=0.371 Sum_probs=19.1
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhh
Q 020752 152 LDKLILEAISNLKEPNGSDRASIASYIEDQ 181 (322)
Q Consensus 152 y~~MI~EAI~~Lker~GSS~~AI~kyIe~~ 181 (322)
+-++|.||+.. |.|..-|..|++.+
T Consensus 5 W~~Li~eA~~~-----Gls~eeir~FL~~~ 29 (30)
T PF08671_consen 5 WVELIKEAKES-----GLSKEEIREFLEFN 29 (30)
T ss_dssp HHHHHHHHHHT-----T--HHHHHHHHHHH
T ss_pred HHHHHHHHHHc-----CCCHHHHHHHHHhC
Confidence 56789999875 99999999999754
No 73
>TIGR01933 hflK HflK protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH by HflKC appears to be negative (PubMed:8947034,PubMed:96367)
Probab=25.70 E-value=2.5e+02 Score=25.99 Aligned_cols=12 Identities=0% Similarity=0.011 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHH
Q 020752 298 EAEAEAAQVFAK 309 (322)
Q Consensus 298 e~~AE~a~~fa~ 309 (322)
+.+|++...+++
T Consensus 206 ~g~a~~~~~~~~ 217 (261)
T TIGR01933 206 KGDVARFTKLLA 217 (261)
T ss_pred hhhHHHHHHHHH
Confidence 344444444444
No 74
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=25.68 E-value=71 Score=21.95 Aligned_cols=36 Identities=8% Similarity=0.141 Sum_probs=25.2
Q ss_pred CCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHh
Q 020752 163 LKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKF 198 (322)
Q Consensus 163 Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKr 198 (322)
|.++-|.|..+|..++..+..+.+.....+...++.
T Consensus 3 lA~~~gvs~~tvs~~l~g~~~vs~~~~~~i~~~~~~ 38 (52)
T cd01392 3 IARAAGVSVATVSRVLNGKPRVSEETRERVLAAAEE 38 (52)
T ss_pred HHHHHCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHH
Confidence 445678999999999988876666555555444444
No 75
>PRK11029 FtsH protease regulator HflC; Provisional
Probab=24.64 E-value=2.4e+02 Score=28.06 Aligned_cols=15 Identities=60% Similarity=0.853 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHH
Q 020752 296 RAEAEAEAAQVFAKA 310 (322)
Q Consensus 296 ~~e~~AE~a~~fa~a 310 (322)
+++.+||+.+.++++
T Consensus 272 ~aegeA~a~~~~~~a 286 (334)
T PRK11029 272 RGEGDAEAAKLFADA 286 (334)
T ss_pred HhhhHHHHHHHHHHH
Confidence 456677777777654
No 76
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=23.61 E-value=96 Score=33.47 Aligned_cols=51 Identities=18% Similarity=0.319 Sum_probs=43.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCchhhccCcccccccCCCCHHhHHHHHHHhccccc
Q 020752 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (322)
Q Consensus 4 ~r~~WT~EEe~~L~~GV~k~G~GkW~~I~~d~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (322)
...+||.+|.+....+...+|. +-+.|... |++|+..++|-|+++-.+...
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs-~~slis~l------~p~R~rk~iK~K~~~eE~r~p 458 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGS-DFSLISNL------FPLRDRKQIKAKFKKEEKRNP 458 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcc-cccccccc------cccccHHHHHHHHhhhhhccc
Confidence 3568999999999999999999 89999883 579999999999987665543
No 77
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=23.48 E-value=88 Score=34.12 Aligned_cols=26 Identities=27% Similarity=0.616 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCchhh
Q 020752 5 KQKWTAEEEAALKAGVRKHGTGKWRTI 31 (322)
Q Consensus 5 r~~WT~EEe~~L~~GV~k~G~GkW~~I 31 (322)
|.-||-.|++.+.++++.||. .+-.|
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~V 113 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKV 113 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHH
Confidence 678999999999999999999 77777
No 78
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=23.23 E-value=3.3e+02 Score=20.63 Aligned_cols=47 Identities=17% Similarity=0.330 Sum_probs=33.8
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHhh-CCCchhHHHHHHHHHHhhhhcCceee
Q 020752 155 LILEAISNLKEPNGSDRASIASYIEDQ-YWAPANLRKLLATKLKFLSANGTLIK 207 (322)
Q Consensus 155 MI~EAI~~Lker~GSS~~AI~kyIe~~-y~vp~nf~~lL~~~LKrlVa~GkLvk 207 (322)
+|++.|...+.| .++..|++.++.+ |.+. ...|...|+.|=..| |+.
T Consensus 2 ~IL~~L~~~~~P--~g~~~l~~~L~~~g~~~s---e~avRrrLr~me~~G-lt~ 49 (66)
T PF08461_consen 2 FILRILAESDKP--LGRKQLAEELKLRGEELS---EEAVRRRLRAMERDG-LTR 49 (66)
T ss_pred HHHHHHHHcCCC--CCHHHHHHHHHhcChhhh---HHHHHHHHHHHHHCC-Ccc
Confidence 578888776666 6778888888876 2231 356788899999999 544
No 79
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=23.17 E-value=2.3e+02 Score=18.71 Aligned_cols=47 Identities=17% Similarity=0.218 Sum_probs=31.0
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeeccccc
Q 020752 156 ILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKY 212 (322)
Q Consensus 156 I~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~sy 212 (322)
|++.|.. ..+.+...|..++ .++ ..-+...|+.|...|.|.+..+-+
T Consensus 5 il~~l~~---~~~~s~~~l~~~l----~~s---~~tv~~~l~~L~~~g~i~~~~~~~ 51 (53)
T smart00420 5 ILELLAQ---QGKVSVEELAELL----GVS---EMTIRRDLNKLEEQGLLTRVHGGA 51 (53)
T ss_pred HHHHHHH---cCCcCHHHHHHHH----CCC---HHHHHHHHHHHHHCCCEEEeecCc
Confidence 4444432 3567888777776 332 234677789999999998776543
No 80
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=22.58 E-value=1.9e+02 Score=26.56 Aligned_cols=40 Identities=10% Similarity=0.251 Sum_probs=31.3
Q ss_pred CCCCCCCCChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhC
Q 020752 143 SGSKEPVARLDKLILEAISNLKE-PNGSDRASIASYIEDQY 182 (322)
Q Consensus 143 ~~~~~~hp~y~~MI~EAI~~Lke-r~GSS~~AI~kyIe~~y 182 (322)
....+.+|+|+.||..-+..+++ ..+.+..++..+|..+.
T Consensus 100 ~~~~~~~p~y~~Mi~~L~~qvk~~~de~~~~~~~~~l~~H~ 140 (177)
T PF03234_consen 100 ENKDPEQPTYDEMIEDLLDQVKKEPDEKSGKAELEELQEHR 140 (177)
T ss_pred ccCCCCCCCHHHHHHHHHHHHhcccCcccHHHHHHHHHHHH
Confidence 45567789999999999888874 55566888888888765
No 81
>KOG2668 consensus Flotillins [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=21.88 E-value=2.8e+02 Score=28.61 Aligned_cols=36 Identities=44% Similarity=0.441 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020752 278 AEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKA 314 (322)
Q Consensus 278 AEAE~~~~~AeeA~~Eae~~e~~AE~a~~fa~aa~~~ 314 (322)
-|||+...+| .|.-|+|++.+.||..+.+.++|...
T Consensus 320 geAEA~~ieA-~akaeaeqm~~ka~v~~~y~~aa~l~ 355 (428)
T KOG2668|consen 320 GEAEAFAIEA-DAKAEAEQMAAKAEVYQAYAQAAYLR 355 (428)
T ss_pred hhHHHHHHHh-hhhhHHHHHHHHHHHHHHhhhhHHHH
Confidence 3444443333 34567888888899999988888653
No 82
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=21.56 E-value=81 Score=23.71 Aligned_cols=38 Identities=11% Similarity=0.219 Sum_probs=25.4
Q ss_pred hCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhh
Q 020752 162 NLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFL 199 (322)
Q Consensus 162 ~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrl 199 (322)
.|.+.-|.|+.+|..++..+..+.+..+..+...++.+
T Consensus 5 ~iA~~~gvS~~TVSr~ln~~~~v~~~t~~~i~~~~~~~ 42 (70)
T smart00354 5 DVARLAGVSKATVSRVLNGNGRVSEETREKVLAAMEEL 42 (70)
T ss_pred HHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHh
Confidence 44455689999999988877667555555555554443
No 83
>KOG3563 consensus Forkhead/HNF-3-related transcription factor [Transcription]
Probab=21.38 E-value=2e+02 Score=29.70 Aligned_cols=56 Identities=20% Similarity=0.139 Sum_probs=39.9
Q ss_pred CChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCC----chhHHHHHHHHHHhhhhcCceeecc
Q 020752 150 ARLDKLILEAISNLKEPNGSDRASIASYIEDQYWA----PANLRKLLATKLKFLSANGTLIKAK 209 (322)
Q Consensus 150 p~y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~v----p~nf~~lL~~~LKrlVa~GkLvkvK 209 (322)
=+|..||..||..-..| =....-|..||-+-|+. ++.+..-|+.. |-=+.-||||-
T Consensus 176 YSYISLITMAIQ~~psk-mLTLSEIYqwIMDLFPyYrqNQQRWQNSIRHS---LSFNDCFVKVa 235 (454)
T KOG3563|consen 176 YSYISLITMAIQQAPSK-MLTLSEIYQWIMDLFPYYRQNQQRWQNSIRHS---LSFNDCFVKVA 235 (454)
T ss_pred hhHHHHHHHHHHhCCcc-ceeHHHHHHHHHHhhhHhhhhHHHHHhhhhhh---ccccceeeecc
Confidence 35799999999875443 46888999999999873 44455555544 34577788873
No 84
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=21.21 E-value=1.5e+02 Score=22.34 Aligned_cols=48 Identities=13% Similarity=0.137 Sum_probs=33.8
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc
Q 020752 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK 209 (322)
Q Consensus 152 y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK 209 (322)
..-.|+..|... .+.+...|..++. +. ...++..|++|++.|-|+..+
T Consensus 11 ~~~~il~~l~~~---~~~~~~~la~~~~----~s---~~~i~~~l~~L~~~g~v~~~~ 58 (101)
T smart00347 11 TQFLVLRILYEE---GPLSVSELAKRLG----VS---PSTVTRVLDRLEKKGLIRRLP 58 (101)
T ss_pred HHHHHHHHHHHc---CCcCHHHHHHHHC----CC---chhHHHHHHHHHHCCCeEecC
Confidence 455677777663 3678888877752 22 234788999999999998664
No 85
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=21.03 E-value=68 Score=26.72 Aligned_cols=56 Identities=21% Similarity=0.345 Sum_probs=36.9
Q ss_pred HHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccc----cccCC
Q 020752 153 DKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHK----YRITP 216 (322)
Q Consensus 153 ~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~s----yKi~~ 216 (322)
.++|++.|.. ...+|.-.+-|. |.+--|++ .....|+-|+++|-+++.++. |.|.+
T Consensus 17 ~eIi~dIL~~-~~~~~~~~Tri~------y~aNlny~-~~~~yi~~L~~~Gli~~~~~~~~~~y~lT~ 76 (95)
T COG3432 17 LEIIFDILKA-ISEGGIGITRII------YGANLNYK-RAQKYIEMLVEKGLIIKQDNGRRKVYELTE 76 (95)
T ss_pred HHHHHHHHHH-hcCCCCCceeee------eecCcCHH-HHHHHHHHHHhCCCEEeccCCccceEEECh
Confidence 8899999987 556666555554 33322333 347779999999955555543 88765
No 86
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=20.83 E-value=2e+02 Score=21.98 Aligned_cols=51 Identities=27% Similarity=0.361 Sum_probs=37.9
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeeccc
Q 020752 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKH 210 (322)
Q Consensus 152 y~~MI~EAI~~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkLvkvK~ 210 (322)
..+.|++.|..+. |++..+|.+.+.=+ +| ++-+|..|-+|-.+|+|.+..+
T Consensus 5 ~ee~Il~~L~~~g---~~~a~~ia~~~~L~--~~---kk~VN~~LY~L~k~g~v~k~~~ 55 (66)
T PF02295_consen 5 LEEKILDFLKELG---GSTATAIAKALGLS--VP---KKEVNRVLYRLEKQGKVCKEGG 55 (66)
T ss_dssp HHHHHHHHHHHHT---SSEEEHHHHHHHHT--S----HHHHHHHHHHHHHTTSEEEECS
T ss_pred HHHHHHHHHHhcC---CccHHHHHHHhCcc--hh---HHHHHHHHHHHHHCCCEeeCCC
Confidence 4678888888877 66777777666533 22 5678999999999999987654
No 87
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=20.53 E-value=3.6e+02 Score=25.00 Aligned_cols=16 Identities=56% Similarity=0.518 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 020752 289 EAAREAERAEAEAEAA 304 (322)
Q Consensus 289 eA~~Eae~~e~~AE~a 304 (322)
+|-+++..+.+++|+.
T Consensus 222 ~a~~~~~~~~ae~~a~ 237 (266)
T cd03404 222 EAYKEEVIAEAQGEAA 237 (266)
T ss_pred HHHHHhHHHHHHHHHH
Confidence 3444444444444433
No 88
>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=20.35 E-value=1.9e+02 Score=19.69 Aligned_cols=37 Identities=22% Similarity=0.245 Sum_probs=23.7
Q ss_pred hCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCce
Q 020752 162 NLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTL 205 (322)
Q Consensus 162 ~Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~~LKrlVa~GkL 205 (322)
.|.+..|.|..-|++-+.=. ...++..|++|+..|.|
T Consensus 11 ~l~~~~~~t~~ela~~~~is-------~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 11 YLRENPRITQKELAEKLGIS-------RSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHCTTS-HHHHHHHHTS--------HHHHHHHHHHHHHTTSE
T ss_pred HHHHcCCCCHHHHHHHhCCC-------HHHHHHHHHHHHHCcCc
Confidence 33445557777776655321 34678899999999976
No 89
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=20.01 E-value=1.8e+02 Score=21.09 Aligned_cols=26 Identities=12% Similarity=0.169 Sum_probs=22.1
Q ss_pred HHHHHHHhhhhcCceeecccccccCC
Q 020752 191 LLATKLKFLSANGTLIKAKHKYRITP 216 (322)
Q Consensus 191 lL~~~LKrlVa~GkLvkvK~syKi~~ 216 (322)
-++.-|..|...|.|.++.|.+.+..
T Consensus 30 TiRRDl~~L~~~g~i~r~~GG~~~~~ 55 (57)
T PF08220_consen 30 TIRRDLNKLEKQGLIKRTHGGAVLND 55 (57)
T ss_pred HHHHHHHHHHHCCCEEEEcCEEEeCC
Confidence 46777899999999999999887754
Done!