Query 020653
Match_columns 323
No_of_seqs 305 out of 888
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 04:05:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020653hhsearch_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 8.5E-21 1.8E-25 151.8 9.6 71 147-217 2-78 (88)
2 PF00538 Linker_histone: linke 99.8 5.1E-21 1.1E-25 149.2 7.7 69 148-216 1-77 (77)
3 smart00526 H15 Domain in histo 99.8 7.3E-21 1.6E-25 144.0 8.2 64 147-210 2-66 (66)
4 KOG4012 Histone H1 [Chromatin 99.5 1.2E-14 2.6E-19 136.2 6.6 76 143-218 38-120 (243)
5 PF00249 Myb_DNA-binding: Myb- 99.3 4E-12 8.6E-17 90.5 4.2 47 5-57 1-48 (48)
6 smart00717 SANT SANT SWI3, AD 99.0 7E-10 1.5E-14 75.8 5.5 48 5-58 1-48 (49)
7 PLN03212 Transcription repress 98.9 1.3E-09 2.9E-14 102.5 5.2 56 1-61 21-76 (249)
8 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 2.8E-09 6.1E-14 71.9 5.2 45 7-57 1-45 (45)
9 PF13921 Myb_DNA-bind_6: Myb-l 98.8 6.7E-09 1.5E-13 76.4 5.1 44 8-58 1-44 (60)
10 KOG0048 Transcription factor, 98.7 2.3E-08 4.9E-13 93.0 5.2 52 5-61 9-60 (238)
11 PLN03091 hypothetical protein; 98.7 2.2E-08 4.8E-13 100.7 5.0 54 3-61 12-65 (459)
12 PLN03212 Transcription repress 98.5 9.6E-08 2.1E-12 90.1 4.9 51 3-60 76-126 (249)
13 PLN03091 hypothetical protein; 98.4 2.7E-07 5.9E-12 93.0 5.3 51 3-60 65-115 (459)
14 KOG0048 Transcription factor, 97.9 9.8E-06 2.1E-10 75.5 4.8 50 3-59 60-109 (238)
15 TIGR01557 myb_SHAQKYF myb-like 97.8 4E-05 8.6E-10 57.5 5.6 47 3-54 1-51 (57)
16 KOG0051 RNA polymerase I termi 97.5 7.3E-05 1.6E-09 78.3 3.8 49 4-60 383-431 (607)
17 KOG0049 Transcription factor, 97.5 0.00013 2.8E-09 77.0 4.8 51 2-58 357-407 (939)
18 PF13837 Myb_DNA-bind_4: Myb/S 97.3 0.00017 3.7E-09 56.2 3.0 55 5-61 1-68 (90)
19 KOG0457 Histone acetyltransfer 97.3 0.00026 5.7E-09 71.5 4.6 50 6-61 73-122 (438)
20 KOG0049 Transcription factor, 97.0 0.00044 9.6E-09 73.1 3.1 50 3-58 410-459 (939)
21 PF13873 Myb_DNA-bind_5: Myb/S 96.5 0.0042 9E-08 47.8 4.6 54 5-60 2-72 (78)
22 PF09111 SLIDE: SLIDE; InterP 96.2 0.0049 1.1E-07 52.6 3.8 57 3-59 47-112 (118)
23 PF13325 MCRS_N: N-terminal re 95.1 0.018 3.9E-07 53.3 3.3 56 4-61 72-130 (199)
24 KOG1279 Chromatin remodeling f 95.1 0.027 5.7E-07 58.7 4.9 50 5-61 253-302 (506)
25 KOG0050 mRNA splicing protein 95.1 0.012 2.6E-07 61.1 2.3 50 6-61 8-57 (617)
26 PF08074 CHDCT2: CHDCT2 (NUC03 94.6 0.025 5.4E-07 51.1 2.7 47 6-53 4-58 (173)
27 COG5147 REB1 Myb superfamily p 94.5 0.011 2.3E-07 61.6 0.2 49 4-60 290-338 (512)
28 COG5114 Histone acetyltransfer 93.9 0.049 1.1E-06 54.0 3.2 46 7-58 65-110 (432)
29 COG5259 RSC8 RSC chromatin rem 93.8 0.064 1.4E-06 55.3 4.0 46 5-57 279-324 (531)
30 PLN03142 Probable chromatin-re 93.4 0.11 2.4E-06 58.3 5.3 57 4-60 925-987 (1033)
31 PF14338 Mrr_N: Mrr N-terminal 93.4 0.24 5.1E-06 39.6 5.9 66 151-216 1-82 (92)
32 PF00250 Fork_head: Fork head 93.1 0.17 3.7E-06 41.5 4.7 57 149-209 3-63 (96)
33 PF10264 Stork_head: Winged he 92.4 0.5 1.1E-05 38.1 6.4 67 149-215 9-77 (80)
34 cd00059 FH Forkhead (FH), also 91.8 0.31 6.8E-06 38.7 4.6 34 149-183 3-36 (78)
35 KOG4282 Transcription factor G 91.5 0.22 4.8E-06 48.6 4.2 53 6-60 55-116 (345)
36 COG5147 REB1 Myb superfamily p 90.5 0.33 7.2E-06 50.8 4.6 52 2-60 69-120 (512)
37 PF12776 Myb_DNA-bind_3: Myb/S 90.2 0.36 7.9E-06 37.9 3.6 53 7-61 1-66 (96)
38 smart00339 FH FORKHEAD. FORKHE 89.9 0.36 7.9E-06 39.1 3.4 33 150-183 4-36 (89)
39 PF08914 Myb_DNA-bind_2: Rap1 89.9 0.55 1.2E-05 36.2 4.2 49 5-58 2-58 (65)
40 KOG0384 Chromodomain-helicase 87.7 0.3 6.6E-06 55.5 2.1 51 7-57 1135-1191(1373)
41 KOG2656 DNA methyltransferase 85.3 0.85 1.8E-05 46.4 3.6 47 6-53 131-177 (445)
42 KOG0051 RNA polymerase I termi 84.5 1 2.2E-05 48.0 3.9 53 3-61 434-511 (607)
43 KOG0050 mRNA splicing protein 81.4 1.3 2.9E-05 46.5 3.3 49 4-60 58-106 (617)
44 PF11839 DUF3359: Protein of u 78.7 16 0.00035 30.5 8.2 52 264-315 35-86 (96)
45 PF09420 Nop16: Ribosome bioge 75.0 8 0.00017 34.3 5.9 50 4-56 113-162 (164)
46 PF08672 APC2: Anaphase promot 74.6 2.8 6.2E-05 31.8 2.5 26 189-214 35-60 (60)
47 PF04504 DUF573: Protein of un 72.2 3.7 7.9E-05 33.8 2.8 57 4-60 3-65 (98)
48 PRK13923 putative spore coat p 63.4 2.9 6.3E-05 38.1 0.6 58 1-61 1-60 (170)
49 PF05402 PqqD: Coenzyme PQQ sy 62.4 18 0.00039 26.6 4.7 39 167-205 28-67 (68)
50 COG5118 BDP1 Transcription ini 61.7 13 0.00029 38.1 4.9 51 4-61 364-414 (507)
51 PF14947 HTH_45: Winged helix- 56.7 25 0.00055 27.2 4.7 56 153-216 5-60 (77)
52 PF05732 RepL: Firmicute plasm 55.6 23 0.0005 31.8 4.9 70 152-225 42-126 (165)
53 PF01726 LexA_DNA_bind: LexA D 53.4 39 0.00084 25.8 5.2 22 191-212 42-63 (65)
54 smart00550 Zalpha Z-DNA-bindin 52.5 64 0.0014 24.4 6.3 60 149-216 4-66 (68)
55 KOG4329 DNA-binding protein [G 49.8 1.8E+02 0.0038 30.1 10.5 47 7-59 279-325 (445)
56 PF08784 RPA_C: Replication pr 45.7 34 0.00074 27.4 4.1 53 148-207 44-97 (102)
57 PF11626 Rap1_C: TRF2-interact 45.5 19 0.00041 28.7 2.5 21 5-25 47-75 (87)
58 COG4742 Predicted transcriptio 42.0 32 0.0007 33.3 3.9 48 161-216 20-67 (260)
59 PF05066 HARE-HTH: HB1, ASXL, 40.0 66 0.0014 24.2 4.7 62 151-214 2-69 (72)
60 PF13325 MCRS_N: N-terminal re 37.9 60 0.0013 30.4 4.9 49 7-60 1-49 (199)
61 PF15054 DUF4535: Domain of un 36.9 17 0.00036 26.5 0.9 20 177-197 15-34 (46)
62 cd00092 HTH_CRP helix_turn_hel 35.0 48 0.001 23.7 3.1 41 169-216 26-67 (67)
63 PF06969 HemN_C: HemN C-termin 34.3 70 0.0015 23.3 3.9 46 166-217 18-63 (66)
64 smart00346 HTH_ICLR helix_turn 33.3 1.3E+02 0.0029 22.8 5.5 52 156-216 10-63 (91)
65 PF08220 HTH_DeoR: DeoR-like h 32.2 1E+02 0.0023 22.4 4.5 26 191-216 30-55 (57)
66 smart00595 MADF subfamily of S 30.0 33 0.00073 26.4 1.6 26 27-59 29-54 (89)
67 KOG4468 Polycomb-group transcr 28.7 29 0.00063 37.6 1.4 26 5-31 88-113 (782)
68 PF05928 Zea_mays_MuDR: Zea ma 28.6 1.6E+02 0.0035 27.2 5.9 27 266-292 12-38 (207)
69 TIGR01932 hflC HflC protein. H 28.4 1.9E+02 0.004 28.3 6.8 24 278-302 243-266 (317)
70 PF08343 RNR_N: Ribonucleotide 27.9 86 0.0019 25.2 3.7 49 157-207 4-59 (82)
71 TIGR02894 DNA_bind_RsfA transc 27.7 28 0.00062 31.6 1.0 53 6-61 5-59 (161)
72 smart00419 HTH_CRP helix_turn_ 27.7 71 0.0015 21.2 2.8 25 190-214 23-47 (48)
73 PF12363 DUF3647: Phage protei 27.6 1.8E+02 0.0038 24.4 5.6 53 152-206 53-105 (113)
74 smart00420 HTH_DEOR helix_turn 26.6 1.9E+02 0.0042 19.1 4.9 40 166-212 12-51 (53)
75 cd01392 HTH_LacI Helix-turn-he 26.3 67 0.0014 22.1 2.5 36 163-198 3-38 (52)
76 TIGR01933 hflK HflK protein. H 25.5 2.6E+02 0.0056 26.0 7.0 12 298-309 206-217 (261)
77 PRK11029 FtsH protease regulat 24.7 2.4E+02 0.0053 28.1 6.9 15 296-310 272-286 (334)
78 PF03234 CDC37_N: Cdc37 N term 24.6 1.6E+02 0.0035 27.0 5.2 41 143-183 100-141 (177)
79 PF13412 HTH_24: Winged helix- 24.4 1.4E+02 0.0031 20.4 3.9 37 162-205 11-47 (48)
80 PF08461 HTH_12: Ribonuclease 24.3 2.6E+02 0.0055 21.2 5.5 47 155-207 2-49 (66)
81 PF02295 z-alpha: Adenosine de 24.1 1.6E+02 0.0034 22.5 4.4 51 152-210 5-55 (66)
82 smart00347 HTH_MARR helix_turn 23.7 1.2E+02 0.0026 22.8 3.7 48 152-209 11-58 (101)
83 PF08671 SinI: Anti-repressor 23.0 1.5E+02 0.0033 19.7 3.5 25 152-181 5-29 (30)
84 PF07106 TBPIP: Tat binding pr 22.3 1.1E+02 0.0024 26.9 3.6 40 172-211 4-55 (169)
85 KOG2668 Flotillins [Intracellu 20.9 3E+02 0.0065 28.4 6.7 37 277-314 319-355 (428)
86 smart00354 HTH_LACI helix_turn 20.8 85 0.0018 23.6 2.3 39 161-199 4-42 (70)
87 cd03404 Band_7_HflK Band_7_Hfl 20.7 3.5E+02 0.0077 25.1 6.9 16 289-304 222-237 (266)
88 PRK10930 FtsH protease regulat 20.2 2.9E+02 0.0062 28.5 6.6 15 289-303 291-305 (419)
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=99.84 E-value=8.5e-21 Score=151.85 Aligned_cols=71 Identities=32% Similarity=0.483 Sum_probs=67.2
Q ss_pred CCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCc-hhHHHHHHHHHHhhhhcCceeecc-----cccccCCC
Q 020653 147 EPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAP-ANLRKLLATKLKFLSANGTLIKAK-----HKYRITPN 217 (323)
Q Consensus 147 ~~hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp-~nf~~lL~~aLKrlVasGkLvkvK-----gsyKl~~~ 217 (323)
.+||+|.+||+|||.+|+||+|||+++|++||+++|++. .+|+.+|+.+|+++|++|.|+|++ |+|+|+..
T Consensus 2 ~~hP~y~~MI~eAI~~l~er~GsS~~aI~kyI~~~y~~~~~~~~~~l~~aLkk~v~~G~l~~~kG~g~~gsfkl~~~ 78 (88)
T cd00073 2 PSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKK 78 (88)
T ss_pred CCCCCHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHCCCeEeecCCCCccceEeCCC
Confidence 579999999999999999999999999999999999965 899999999999999999999999 89999743
No 2
>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=99.84 E-value=5.1e-21 Score=149.22 Aligned_cols=69 Identities=30% Similarity=0.465 Sum_probs=64.3
Q ss_pred CCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC--Cch-hHHHHHHHHHHhhhhcCceeecc-----cccccCC
Q 020653 148 PVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW--APA-NLRKLLATKLKFLSANGTLIKAK-----HKYRITP 216 (323)
Q Consensus 148 ~hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~--vp~-nf~~lL~~aLKrlVasGkLvkvK-----gsyKl~~ 216 (323)
+||+|.+||+|||.+|+||+|||+++|.+||+++|+ +++ +|+.+|+.+|+++|++|.|+|++ |+|||+.
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 344 89999999999999999999999 8999963
No 3
>smart00526 H15 Domain in histone families 1 and 5.
Probab=99.84 E-value=7.3e-21 Score=144.04 Aligned_cols=64 Identities=42% Similarity=0.568 Sum_probs=61.5
Q ss_pred CCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC-CchhHHHHHHHHHHhhhhcCceeeccc
Q 020653 147 EPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW-APANLRKLLATKLKFLSANGTLIKAKH 210 (323)
Q Consensus 147 ~~hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~-vp~nf~~lL~~aLKrlVasGkLvkvKg 210 (323)
.+||+|.+||+|||.+|+||+|||+++|++||+++|+ .+.+|+.+|+.+|+++|++|.|+|+||
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 5799999999999999999999999999999999999 488999999999999999999999987
No 4
>KOG4012 consensus Histone H1 [Chromatin structure and dynamics]
Probab=99.53 E-value=1.2e-14 Score=136.21 Aligned_cols=76 Identities=29% Similarity=0.369 Sum_probs=68.1
Q ss_pred CCCCCCCCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC--CchhHHHHHHHHHHhhhhcCceeeccc-----ccccC
Q 020653 143 SGSKEPVARLDKLILEAISNLKEPNGSDRASIASYIEDQYW--APANLRKLLATKLKFLSANGTLIKAKH-----KYRIT 215 (323)
Q Consensus 143 ~~~~~~hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~--vp~nf~~lL~~aLKrlVasGkLvkvKg-----syKl~ 215 (323)
.-....||+|.+||.|||.+|+||+|+|+.+|++||.++|. .-.+|+.+|+..|+++|.+|.|+|++| +|+|.
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 34566899999999999999999999999999999999994 135789999999999999999999986 89987
Q ss_pred CCC
Q 020653 216 PNT 218 (323)
Q Consensus 216 ~~~ 218 (323)
...
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=4e-12 Score=90.52 Aligned_cols=47 Identities=26% Similarity=0.607 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccC-CCCHHhHHHHHHHhh
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILH-SRSNVDLKDKWRNIN 57 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~-~RT~vdLKDKWRnl~ 57 (323)
|++||+||++.|+++|.+||.++|..|+. . |. +||..||+++|+++.
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=7e-10 Score=75.81 Aligned_cols=48 Identities=31% Similarity=0.608 Sum_probs=43.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
+..||++|+..|+.+|.+||.++|..|.. .|.+||..+|+++|+++.+
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 3569999999999999865
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.90 E-value=1.3e-09 Score=102.47 Aligned_cols=56 Identities=27% Similarity=0.529 Sum_probs=49.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 1 MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 1 Mg~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
+|.+|++||+|||+.|+..|++||.++|..|.+. + -.+||..||++||.|.+.+..
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 158999999999999988766
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=98.89 E-value=2.8e-09 Score=71.90 Aligned_cols=45 Identities=33% Similarity=0.697 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhh
Q 020653 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~ 57 (323)
.||.||+..|+.++.+||.++|..|.. .|.+||..+|+++|.++.
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 356799999999998863
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=98.81 E-value=6.7e-09 Score=76.40 Aligned_cols=44 Identities=34% Similarity=0.641 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 8 WTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 8 WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
||.||++.|+.+|.+||. +|+.|.. +|.+||..+|++||++.+.
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=98.67 E-value=2.3e-08 Score=93.03 Aligned_cols=52 Identities=17% Similarity=0.294 Sum_probs=47.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
|++||+|||+.|++.|++||.|+|..|.++- + .+|+..+|+-||.|.+++..
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 4999999999999999999999999999842 2 28999999999999999976
No 11
>PLN03091 hypothetical protein; Provisional
Probab=98.66 E-value=2.2e-08 Score=100.74 Aligned_cols=54 Identities=22% Similarity=0.388 Sum_probs=47.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
.+|++||+|||+.|+..|++||.++|..|.+. + ..+||..||++||.|.+.+..
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 1 258999999999999887765
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.52 E-value=9.6e-08 Score=90.13 Aligned_cols=51 Identities=20% Similarity=0.345 Sum_probs=46.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
-.+.+||.|||+.|+..+.+||. +|+.|.. +|.+||..+||+||.++++..
T Consensus 76 I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk------~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGN-RWSLIAG------RIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccc-cHHHHHh------hcCCCCHHHHHHHHHHHHhHH
Confidence 35789999999999999999997 9999998 468999999999999888764
No 13
>PLN03091 hypothetical protein; Provisional
Probab=98.41 E-value=2.7e-07 Score=93.00 Aligned_cols=51 Identities=18% Similarity=0.366 Sum_probs=46.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
-.+++||.|||+.|++.+.+||. +|+.|.. +|.+||..+||+||..++++.
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 468999999999999887763
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.94 E-value=9.8e-06 Score=75.52 Aligned_cols=50 Identities=20% Similarity=0.372 Sum_probs=44.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (323)
-+|+.||+|||..|+.+-..||. +|+.|++ .|+|||...+|.-|...++.
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 47899999999999665533
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=97.83 E-value=4e-05 Score=57.52 Aligned_cols=47 Identities=19% Similarity=0.396 Sum_probs=39.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCh---hhhhcCcccccccCCC-CHHhHHHHHH
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKW---RTILSDPEFSAILHSR-SNVDLKDKWR 54 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW---~~I~~~~~f~~~l~~R-T~vdLKDKWR 54 (323)
++|..||+||...++.||+.||.|+| +.|+.. |. ..| |..+++....
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 9999997654
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.50 E-value=7.3e-05 Score=78.27 Aligned_cols=49 Identities=37% Similarity=0.659 Sum_probs=45.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
.|++||+||++.|...|.+||. .|++|-+ +-+|.+.+|+|+||++.+..
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 35899999999999999875
No 17
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.45 E-value=0.00013 Score=76.97 Aligned_cols=51 Identities=20% Similarity=0.502 Sum_probs=45.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 2 GAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 2 g~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
|-++++||++||..|+..|.+||...|.+|.. . |++|+..||++||.|.+.
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 579999999999977653
No 18
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.32 E-value=0.00017 Score=56.22 Aligned_cols=55 Identities=22% Similarity=0.442 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHH------hCC-----C--ChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 5 KQKWTAEEEAALKAGVRK------HGT-----G--KWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k------~G~-----G--kW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
|..||.+|+..|++.+.. ++. + .|..|.. .+...=..||..||++||.||.+.-.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~--~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAE--ELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHH--HHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHH--HHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 578999999999999887 221 1 5999987 33322247999999999999987743
No 19
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.28 E-value=0.00026 Score=71.51 Aligned_cols=50 Identities=24% Similarity=0.484 Sum_probs=44.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
--||.+||-.|+++++.||-|||..|++. ...||.-+||+.|.++....-
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 35999999999999999999999999982 347999999999999877654
No 20
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.00 E-value=0.00044 Score=73.06 Aligned_cols=50 Identities=22% Similarity=0.442 Sum_probs=42.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
.++..||-.||+.|+..|++||.|+|.+|.. +|.+||..|+..+-+.+..
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 5778999999999999999999999999997 5789999887766544433
No 21
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.53 E-value=0.0042 Score=47.81 Aligned_cols=54 Identities=35% Similarity=0.551 Sum_probs=44.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC-----------CChhhhhcCccccccc-CCCCHHhHHHHHHHhhccc
Q 020653 5 KQKWTAEEEAALKAGVRKH-----GT-----------GKWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~-----G~-----------GkW~~I~~~~~f~~~l-~~RT~vdLKDKWRnl~k~~ 60 (323)
+..||.+|.+.|++.|++| |. ..|..|.. .|+... ..||..+|+.+|.||....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~--~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAE--ELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHH--HHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 4689999999999999997 41 27999998 565444 3799999999999997653
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=96.23 E-value=0.0049 Score=52.60 Aligned_cols=57 Identities=25% Similarity=0.405 Sum_probs=44.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC---CChhhhhc----Ccccc--cccCCCCHHhHHHHHHHhhcc
Q 020653 3 APKQKWTAEEEAALKAGVRKHGT---GKWRTILS----DPEFS--AILHSRSNVDLKDKWRNINVT 59 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~k~G~---GkW~~I~~----~~~f~--~~l~~RT~vdLKDKWRnl~k~ 59 (323)
..++.||.+||..|+-.+.+||- |.|..|.. .|.|. =+|..||+.+|..|=..|.+.
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 55553 345899999999998877653
No 23
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=95.14 E-value=0.018 Score=53.34 Aligned_cols=56 Identities=21% Similarity=0.386 Sum_probs=46.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhC--CCChhhhhcCccccccc-CCCCHHhHHHHHHHhhcccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHG--TGKWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G--~GkW~~I~~~~~f~~~l-~~RT~vdLKDKWRnl~k~~~ 61 (323)
.|..||.+||+.|........ ..++.+|+.++ .++| ..||..+|.+.|+.|.++..
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 567899999999999877764 45899999954 4566 57999999999999887755
No 24
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=95.14 E-value=0.027 Score=58.65 Aligned_cols=50 Identities=16% Similarity=0.371 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
+..||.+|+-.|+.||++||. .|.+|..+ ..+||.-||-.|+..|=....
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 358999999999998855544
No 25
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=95.11 E-value=0.012 Score=61.11 Aligned_cols=50 Identities=32% Similarity=0.577 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
+-|+.-||+.|..+|.+||...|+.|.+ .|+.-|..+|+.+|.....+..
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 3567899999999987766654
No 26
>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=94.62 E-value=0.025 Score=51.15 Aligned_cols=47 Identities=34% Similarity=0.790 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccC--CCC------HHhHHHHH
Q 020653 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILH--SRS------NVDLKDKW 53 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~--~RT------~vdLKDKW 53 (323)
.-|-..-|-+|+.||.+||-|.|..|..||.|. +++ =++ .-++|.|+
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 442 122 24788887
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=94.53 E-value=0.011 Score=61.57 Aligned_cols=49 Identities=35% Similarity=0.563 Sum_probs=44.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
.++.||.||+..|...+.++|. .|+.|-+. .+|-+.+|+|+||+..+..
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 4899999999999999885
No 28
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.88 E-value=0.049 Score=54.02 Aligned_cols=46 Identities=26% Similarity=0.511 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
.|+..||-.|+++.+..|.|+|..|.. ....|+..+||+.|-.+..
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 599999999999999999999999996 2457999999999977765
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=93.78 E-value=0.064 Score=55.32 Aligned_cols=46 Identities=13% Similarity=0.382 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhh
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~ 57 (323)
...||.+|.-.|++||+.||. .|.+|+.+ ..++|-.||--|+-+|=
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 46899999999997663
No 30
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.39 E-value=0.11 Score=58.35 Aligned_cols=57 Identities=19% Similarity=0.328 Sum_probs=47.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhc----Ccc--cccccCCCCHHhHHHHHHHhhccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILS----DPE--FSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~----~~~--f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
+++.||.|||..|+-.+.+||-|+|..|.. .|. |.-||..||+..|..|-..|.+..
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~ 987 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLI 987 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHH
Confidence 456699999999999999999999999843 343 444568999999999998887654
No 31
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=93.36 E-value=0.24 Score=39.63 Aligned_cols=66 Identities=18% Similarity=0.338 Sum_probs=56.2
Q ss_pred ChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhCCCc--------------hhHHHHHHHHHHhhhhcCceeecc-ccccc
Q 020653 151 RLDKLILEAISNLKE-PNGSDRASIASYIEDQYWAP--------------ANLRKLLATKLKFLSANGTLIKAK-HKYRI 214 (323)
Q Consensus 151 ~Y~~MI~EAI~aLke-r~GSS~~AI~kyIe~~y~vp--------------~nf~~lL~~aLKrlVasGkLvkvK-gsyKl 214 (323)
+|++|+.-.|..|++ .+..++..|...|.+++.+. .-|+..++=++..|+..|-|..++ |.|+|
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 77789999999999987632 147788899999999999999975 68999
Q ss_pred CC
Q 020653 215 TP 216 (323)
Q Consensus 215 ~~ 216 (323)
.+
T Consensus 81 T~ 82 (92)
T PF14338_consen 81 TE 82 (92)
T ss_pred CH
Confidence 76
No 32
>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=93.07 E-value=0.17 Score=41.54 Aligned_cols=57 Identities=19% Similarity=0.209 Sum_probs=42.8
Q ss_pred CCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC----CchhHHHHHHHHHHhhhhcCceeecc
Q 020653 149 VARLDKLILEAISNLKEPNGSDRASIASYIEDQYW----APANLRKLLATKLKFLSANGTLIKAK 209 (323)
Q Consensus 149 hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~----vp~nf~~lL~~aLKrlVasGkLvkvK 209 (323)
.-+|..||..||.+. ..++.++.-|.+||+.+|+ .+..++.-|++.|. .+.-|+++.
T Consensus 3 p~sY~~LI~~Ai~~s-p~~~Ltl~eIy~~i~~~~pyyr~~~~~WknSIRHnLS---~~~~F~kv~ 63 (96)
T PF00250_consen 3 PYSYATLIAMAILSS-PDKRLTLSEIYEWIEENFPYYRDASKGWKNSIRHNLS---LNKCFVKVP 63 (96)
T ss_dssp SS-HHHHHHHHHHTS-TTSEBEHHHHHHHHHHHCGHHHCTHCHHHHHHHHHHH---HSTTEEEES
T ss_pred CCcHHHHHHHHHHhC-CCCCccHHHHHHHHHHhhccccccchhhhhHHhhhcc---ccceeeecC
Confidence 357999999999993 3456899999999999997 35567777777763 345677664
No 33
>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=92.43 E-value=0.5 Score=38.09 Aligned_cols=67 Identities=15% Similarity=0.199 Sum_probs=55.9
Q ss_pred CCChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhCC-CchhHHHHHHHHHHhhhhcCceeecccccccC
Q 020653 149 VARLDKLILEAISNLKE-PNGSDRASIASYIEDQYW-APANLRKLLATKLKFLSANGTLIKAKHKYRIT 215 (323)
Q Consensus 149 hP~Y~~MI~EAI~aLke-r~GSS~~AI~kyIe~~y~-vp~nf~~lL~~aLKrlVasGkLvkvKgsyKl~ 215 (323)
--++.+.|..+|..|+- ....+..+|..++..+|+ +..--...|...|-.|+..||+....+-|.|-
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 35689999999999985 566899999999999998 32222678899999999999999998777663
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=91.82 E-value=0.31 Score=38.68 Aligned_cols=34 Identities=21% Similarity=0.173 Sum_probs=30.0
Q ss_pred CCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC
Q 020653 149 VARLDKLILEAISNLKEPNGSDRASIASYIEDQYW 183 (323)
Q Consensus 149 hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~ 183 (323)
.-+|..||..||.... .++.++.-|.+||+++|+
T Consensus 3 ~~sY~~LI~~Ai~~sp-~~~lTL~eIy~~I~~~~p 36 (78)
T cd00059 3 PYSYSALIAMAIQSSP-EKRLTLSEIYKWISDNFP 36 (78)
T ss_pred CCCHHHHHHHHHHhCC-CCCeeHHHHHHHHHHhCC
Confidence 3579999999999965 567999999999999996
No 35
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.48 E-value=0.22 Score=48.58 Aligned_cols=53 Identities=23% Similarity=0.352 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHHH----hCCCC-----hhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 6 QKWTAEEEAALKAGVRK----HGTGK-----WRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k----~G~Gk-----W~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
..|+.+|...|+....+ ++.|+ |..|.. .+...=..||..+|+.||.||.+..
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 68999999999988764 44455 999987 2222224799999999999999874
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=90.51 E-value=0.33 Score=50.77 Aligned_cols=52 Identities=23% Similarity=0.365 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 2 GAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 2 g~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
-.++..|+.||++.|+..-..+|. +|++|... ..+||.-+|.++|-+.....
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 35799999999997766553
No 37
>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=90.22 E-value=0.36 Score=37.94 Aligned_cols=53 Identities=25% Similarity=0.452 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHHHHh-------CCC-----ChhhhhcCccccccc-CCCCHHhHHHHHHHhhcccc
Q 020653 7 KWTAEEEAALKAGVRKH-------GTG-----KWRTILSDPEFSAIL-HSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~-------G~G-----kW~~I~~~~~f~~~l-~~RT~vdLKDKWRnl~k~~~ 61 (323)
+||+++++.|++.+... +.| .|..|.. .|...+ ...|..+|++||..|.+.-.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~--~~~~~~~~~~t~~qlknk~~~lk~~y~ 66 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAE--EFNEKTGLNYTKKQLKNKWKTLKKDYR 66 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHH--HHHHHhCCcccHHHHHHHHHHHHHHHH
Confidence 59999999999998654 222 4777887 566544 45688999999999887743
No 38
>smart00339 FH FORKHEAD. FORKHEAD, also known as a "winged helix"
Probab=89.91 E-value=0.36 Score=39.11 Aligned_cols=33 Identities=24% Similarity=0.164 Sum_probs=29.1
Q ss_pred CChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC
Q 020653 150 ARLDKLILEAISNLKEPNGSDRASIASYIEDQYW 183 (323)
Q Consensus 150 P~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~ 183 (323)
-+|..||..||... ..++.+...|.+||+.+|.
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 36999999999995 4567999999999999986
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=89.91 E-value=0.55 Score=36.17 Aligned_cols=49 Identities=20% Similarity=0.387 Sum_probs=30.4
Q ss_pred CCCCCHHHHHHHHHHHHHh---C---CC--ChhhhhcCcccccccCCCCHHhHHHHHHHhhc
Q 020653 5 KQKWTAEEEAALKAGVRKH---G---TG--KWRTILSDPEFSAILHSRSNVDLKDKWRNINV 58 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~---G---~G--kW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k 58 (323)
|.++|.|||.+|++-|..+ | .| =|+.+.... ...+|-..++|||+..+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~-----~t~HtwQSwR~Ry~K~L~ 58 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKH-----PTRHTWQSWRDRYLKHLR 58 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS------SSS--SHHHHHHHHHHT-
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHc-----CCCCCHHHHHHHHHHHHh
Confidence 6789999999999999655 3 22 477777632 248999999999965544
No 40
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=87.73 E-value=0.3 Score=55.48 Aligned_cols=51 Identities=27% Similarity=0.582 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhcCcccc---ccc---CCCCHHhHHHHHHHhh
Q 020653 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFS---AIL---HSRSNVDLKDKWRNIN 57 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~---~~l---~~RT~vdLKDKWRnl~ 57 (323)
-|..++|..|+-||-+||-|+|-.|..||.+. .+| ..=+.++|.-|-.-|+
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 111 0234566666654333
No 41
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=85.31 E-value=0.85 Score=46.44 Aligned_cols=47 Identities=21% Similarity=0.334 Sum_probs=39.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHH
Q 020653 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKW 53 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKW 53 (323)
..||.+|.+.|.+..++|.- .|=-|...|.-..+=.+||-.||||||
T Consensus 131 n~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRy 177 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERY 177 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHH
Confidence 46999999999999999999 999999865322222569999999998
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=84.48 E-value=1 Score=48.02 Aligned_cols=53 Identities=23% Similarity=0.478 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHH-------Hh------------------CCCChhhhhcCcccccccCCCCHHhHHHHHHHhh
Q 020653 3 APKQKWTAEEEAALKAGVR-------KH------------------GTGKWRTILSDPEFSAILHSRSNVDLKDKWRNIN 57 (323)
Q Consensus 3 ~~k~~WT~EEe~~L~~GV~-------k~------------------G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~ 57 (323)
+.+..||-||++.|++.|+ .| -.=+|..|.+ .+..|+.++|+-||-.|.
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 1127998887 357899999999999887
Q ss_pred cccc
Q 020653 58 VTAI 61 (323)
Q Consensus 58 k~~~ 61 (323)
....
T Consensus 508 ~~~s 511 (607)
T KOG0051|consen 508 TSPS 511 (607)
T ss_pred hhHH
Confidence 7644
No 43
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=81.41 E-value=1.3 Score=46.51 Aligned_cols=49 Identities=24% Similarity=0.451 Sum_probs=42.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
++--||.|||+.|+....-+-. .|.+|.. +-+||+.+|-.||-+++-..
T Consensus 58 ~~tews~eederlLhlakl~p~-qwrtIa~-------i~gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPT-QWRTIAD-------IMGRTSQQCLERYNNLLDVY 106 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCC-ccchHHH-------HhhhhHHHHHHHHHHHHHHH
Confidence 3557999999999999988877 9999996 46899999999999887553
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=78.70 E-value=16 Score=30.49 Aligned_cols=52 Identities=44% Similarity=0.346 Sum_probs=38.4
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020653 264 MTAQEAAAAAAQAIAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKAL 315 (323)
Q Consensus 264 ~t~~EAA~aAA~aVAEAE~~~~~AeeA~~Eae~~e~~AE~a~~f~~aa~~~~ 315 (323)
.|++++-..+.-+-..|+.+...|.+|...|+.+.+.|+.||.-++.|..-+
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 4556666666666667777788888888888888888888888777775544
No 45
>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=74.97 E-value=8 Score=34.29 Aligned_cols=50 Identities=16% Similarity=0.313 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHh
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNI 56 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl 56 (323)
+...-|..|...|..+|++||. .+..+..|...+ ....|..||+.+.+.+
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 999999987755 2468999999887654
No 46
>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=74.59 E-value=2.8 Score=31.76 Aligned_cols=26 Identities=23% Similarity=0.245 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhhcCceeeccccccc
Q 020653 189 RKLLATKLKFLSANGTLIKAKHKYRI 214 (323)
Q Consensus 189 ~~lL~~aLKrlVasGkLvkvKgsyKl 214 (323)
...|..-|-++|+.|+|+.+.|+|||
T Consensus 35 ~~eL~~fL~~lv~e~~L~~~~G~YkL 60 (60)
T PF08672_consen 35 LEELQEFLDRLVEEGKLECSGGSYKL 60 (60)
T ss_dssp HHHHHHHHHHHHHTTSEE--TTEEEE
T ss_pred HHHHHHHHHHHHHCCcEEecCCEEeC
Confidence 35688999999999999999999997
No 47
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=72.23 E-value=3.7 Score=33.81 Aligned_cols=57 Identities=21% Similarity=0.295 Sum_probs=37.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh----CCCChhhhhcCccc-cccc-CCCCHHhHHHHHHHhhccc
Q 020653 4 PKQKWTAEEEAALKAGVRKH----GTGKWRTILSDPEF-SAIL-HSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~----G~GkW~~I~~~~~f-~~~l-~~RT~vdLKDKWRnl~k~~ 60 (323)
..+.||+|+|=.|++|+--| |.+....+-.-++| ...+ ..=|..||.||-|.|.+..
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 76433332210011 1111 2348899999999998874
No 48
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=63.37 E-value=2.9 Score=38.09 Aligned_cols=58 Identities=17% Similarity=0.250 Sum_probs=38.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccc--cccCCCCHHhHHHHHHHhhcccc
Q 020653 1 MGAPKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFS--AILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 1 Mg~~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~--~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
|--....||.|||..|-.-|-+|+.--=..+. .|. ...-+||...|.+||-..++..+
T Consensus 1 mk~rqdawt~e~d~llae~vl~~i~eg~tql~---afe~~g~~L~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 1 MKTRQDAWTQERDGLLAEVVLRHIREGGTQLK---AFEEVGDALKRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred CcchhhhhhhHHHHHHHHHHHHHHhccchHHH---HHHHHHHHHhhhHHHHHhHHHHHHHHHH
Confidence 44456789999999998888888762222222 121 11248999999999965555444
No 49
>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=62.41 E-value=18 Score=26.63 Aligned_cols=39 Identities=13% Similarity=0.170 Sum_probs=29.9
Q ss_pred CCCCHHHHHHHHHhhCCCchh-HHHHHHHHHHhhhhcCce
Q 020653 167 NGSDRASIASYIEDQYWAPAN-LRKLLATKLKFLSANGTL 205 (323)
Q Consensus 167 ~GSS~~AI~kyIe~~y~vp~n-f~~lL~~aLKrlVasGkL 205 (323)
++.|...|.+.+.++|.+++. ...-+..-|..|.+.|-|
T Consensus 28 g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~~~glI 67 (68)
T PF05402_consen 28 GPRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLREKGLI 67 (68)
T ss_dssp SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT--
T ss_pred CCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCcCc
Confidence 469999999999999997554 677888999999998866
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=61.70 E-value=13 Score=38.10 Aligned_cols=51 Identities=18% Similarity=0.290 Sum_probs=44.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcccc
Q 020653 4 PKQKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 4 ~k~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~~ 61 (323)
..-+||.+|.+.+-.++..+|+ .+..|.. .|++|...|+|-||.+-.+...
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~------lfP~R~RkqIKaKfi~Eek~nP 414 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISS------LFPNRERKQIKAKFIKEEKVNP 414 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHH------hcCchhHHHHHHHHHHHhhhCH
Confidence 3458999999999999999999 9999997 4679999999999987766643
No 51
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=56.68 E-value=25 Score=27.20 Aligned_cols=56 Identities=29% Similarity=0.364 Sum_probs=37.6
Q ss_pred HHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCC
Q 020653 153 DKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITP 216 (323)
Q Consensus 153 ~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvKgsyKl~~ 216 (323)
.++|.+=+..+. .+|.+.+-|.. ...=| -..+...|+.|+..|-+...++.|+|.+
T Consensus 5 ~~Ii~~IL~~l~-~~~~~~t~i~~------~~~L~-~~~~~~yL~~L~~~gLI~~~~~~Y~lTe 60 (77)
T PF14947_consen 5 LEIIFDILKILS-KGGAKKTEIMY------KANLN-YSTLKKYLKELEEKGLIKKKDGKYRLTE 60 (77)
T ss_dssp THHHHHHHHHH--TT-B-HHHHHT------TST---HHHHHHHHHHHHHTTSEEEETTEEEE-H
T ss_pred HHHHHHHHHHHH-cCCCCHHHHHH------HhCcC-HHHHHHHHHHHHHCcCeeCCCCEEEECc
Confidence 567888888887 66777776662 22112 2356888999999999988888999865
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=55.57 E-value=23 Score=31.75 Aligned_cols=70 Identities=16% Similarity=0.211 Sum_probs=50.6
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCC----C---chhH-------HHHHHHHHHhhhhcCceeecc-cccccCC
Q 020653 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYW----A---PANL-------RKLLATKLKFLSANGTLIKAK-HKYRITP 216 (323)
Q Consensus 152 Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~----v---p~nf-------~~lL~~aLKrlVasGkLvkvK-gsyKl~~ 216 (323)
|.+.|...+.- -|.....|..||-++.. + ...+ ..-++..||.|.+.|-|.+.+ |.|.|.|
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 45555555543 46678999999998853 1 0101 345899999999999999998 7999999
Q ss_pred CCCCCCCCC
Q 020653 217 NTPVSVPKR 225 (323)
Q Consensus 217 ~~~~~~~~~ 225 (323)
..+..|.+.
T Consensus 118 ~~~~kG~~~ 126 (165)
T PF05732_consen 118 NFFFKGDRD 126 (165)
T ss_pred HHheeCcHH
Confidence 877665554
No 53
>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=53.36 E-value=39 Score=25.77 Aligned_cols=22 Identities=23% Similarity=0.252 Sum_probs=18.7
Q ss_pred HHHHHHHhhhhcCceeeccccc
Q 020653 191 LLATKLKFLSANGTLIKAKHKY 212 (323)
Q Consensus 191 lL~~aLKrlVasGkLvkvKgsy 212 (323)
.+..+|+.|...|-|.+..|.-
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 4788999999999999887753
No 54
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=52.54 E-value=64 Score=24.42 Aligned_cols=60 Identities=23% Similarity=0.305 Sum_probs=42.2
Q ss_pred CCChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc---cccccCC
Q 020653 149 VARLDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK---HKYRITP 216 (323)
Q Consensus 149 hP~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvK---gsyKl~~ 216 (323)
+..+.+-|++.|..-.++ |.+..-|++-+. ++ ++-++.+|.+|...|.+++.. +.|+|..
T Consensus 4 ~~~~~~~IL~~L~~~g~~-~~ta~eLa~~lg----l~---~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~~ 66 (68)
T smart00550 4 QDSLEEKILEFLENSGDE-TSTALQLAKNLG----LP---KKEVNRVLYSLEKKGKVCKQGGTPPLWKLTD 66 (68)
T ss_pred chHHHHHHHHHHHHCCCC-CcCHHHHHHHHC----CC---HHHHHHHHHHHHHCCCEEecCCCCCceEeec
Confidence 345677788888765433 588777776654 33 346889999999999998853 5677653
No 55
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=49.77 E-value=1.8e+02 Score=30.12 Aligned_cols=47 Identities=19% Similarity=0.340 Sum_probs=37.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhcc
Q 020653 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (323)
-||++|=..+-+|++.||. ..-.|..+ -++.|+-..|-.=|.-..+.
T Consensus 279 ~wsEeEcr~FEegl~~yGK-DF~lIr~n-----kvrtRsvgElVeyYYlWKkS 325 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGK-DFHLIRAN-----KVRTRSVGELVEYYYLWKKS 325 (445)
T ss_pred cCCHHHHHHHHHHHHHhcc-cHHHHHhc-----ccccchHHHHHHHHHHhhcC
Confidence 5999999999999999999 99999874 25788888887765444333
No 56
>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=45.70 E-value=34 Score=27.43 Aligned_cols=53 Identities=21% Similarity=0.314 Sum_probs=39.8
Q ss_pred CCCChHHHHHHHHHh-CCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceee
Q 020653 148 PVARLDKLILEAISN-LKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIK 207 (323)
Q Consensus 148 ~hP~Y~~MI~EAI~a-Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvk 207 (323)
...+..++|++.|.. .....|.++.-|.+-+ + ++ ..-|+.+|..|+..|.|.-
T Consensus 44 ~~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l--~--~~---~~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 44 GLSPLQDKVLNFIKQQPNSEEGVHVDEIAQQL--G--MS---ENEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp -S-HHHHHHHHHHHC----TTTEEHHHHHHHS--T--S----HHHHHHHHHHHHHTTSEEE
T ss_pred CCCHHHHHHHHHHHhcCCCCCcccHHHHHHHh--C--cC---HHHHHHHHHHHHhCCeEec
Confidence 345679999999999 7778999999999877 3 33 3468999999999999864
No 57
>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=45.48 E-value=19 Score=28.70 Aligned_cols=21 Identities=33% Similarity=0.688 Sum_probs=12.0
Q ss_pred CCCCCHHHHHHH--------HHHHHHhCC
Q 020653 5 KQKWTAEEEAAL--------KAGVRKHGT 25 (323)
Q Consensus 5 k~~WT~EEe~~L--------~~GV~k~G~ 25 (323)
.+-||+|+|+.| .+.++|||.
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 344456653
No 58
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=42.05 E-value=32 Score=33.34 Aligned_cols=48 Identities=17% Similarity=0.282 Sum_probs=35.1
Q ss_pred HhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCC
Q 020653 161 SNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITP 216 (323)
Q Consensus 161 ~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvKgsyKl~~ 216 (323)
..|++ +.-+..-|+.++.-. ...+..+||+|.+.|-++|..+.|+|++
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 34555 334666666665432 3457888999999999999999999976
No 59
>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=40.03 E-value=66 Score=24.23 Aligned_cols=62 Identities=10% Similarity=0.103 Sum_probs=35.1
Q ss_pred ChHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCc---hhHHHHHHHHHHhh--hhcCceeec-cccccc
Q 020653 151 RLDKLILEAISNLKEPNGSDRASIASYIEDQYWAP---ANLRKLLATKLKFL--SANGTLIKA-KHKYRI 214 (323)
Q Consensus 151 ~Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp---~nf~~lL~~aLKrl--VasGkLvkv-KgsyKl 214 (323)
+|.+.+.+.|...+ ...+..-|.+.|.++.... .+....|...|-.- -..|.|+++ .|.|-|
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 35666666666666 6689999999999875422 23333444344333 488899998 566654
No 60
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=37.85 E-value=60 Score=30.36 Aligned_cols=49 Identities=14% Similarity=0.387 Sum_probs=37.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhcCcccccccCCCCHHhHHHHHHHhhccc
Q 020653 7 KWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAILHSRSNVDLKDKWRNINVTA 60 (323)
Q Consensus 7 ~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~~ 60 (323)
+|+++.|-.|+.+|..-. .=..|...=.|+ ..-|-..+.+||..|+-..
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 699999999999998642 455555533454 5678899999999887543
No 61
>PF15054 DUF4535: Domain of unknown function (DUF4535)
Probab=36.89 E-value=17 Score=26.55 Aligned_cols=20 Identities=40% Similarity=0.732 Sum_probs=14.8
Q ss_pred HHHhhCCCchhHHHHHHHHHH
Q 020653 177 YIEDQYWAPANLRKLLATKLK 197 (323)
Q Consensus 177 yIe~~y~vp~nf~~lL~~aLK 197 (323)
||.+||.|| |.++++...|.
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 56777666443
No 62
>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=34.98 E-value=48 Score=23.70 Aligned_cols=41 Identities=32% Similarity=0.521 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc-cccccCC
Q 020653 169 SDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK-HKYRITP 216 (323)
Q Consensus 169 SS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvK-gsyKl~~ 216 (323)
.+...|+..+.- . ...++..|+.|...|.|.... |.|.|.+
T Consensus 26 ~s~~ela~~~g~----s---~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 26 LTRQEIADYLGL----T---RETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred cCHHHHHHHHCC----C---HHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 455555554432 1 445788899999999999887 8888753
No 63
>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=34.31 E-value=70 Score=23.34 Aligned_cols=46 Identities=17% Similarity=0.285 Sum_probs=31.2
Q ss_pred CCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecccccccCCC
Q 020653 166 PNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKYRITPN 217 (323)
Q Consensus 166 r~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvKgsyKl~~~ 217 (323)
..|.|...+.. +|.. +|...+...|..+++.|-|+...+++++++.
T Consensus 18 ~~Gi~~~~~~~----~~g~--~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~ 63 (66)
T PF06969_consen 18 NEGIDLSEFEQ----RFGI--DFAEEFQKELEELQEDGLLEIDGGRLRLTEK 63 (66)
T ss_dssp HSEEEHHHHHH----HTT----THHH-HHHHHHHHHTTSEEE-SSEEEE-TT
T ss_pred HCCcCHHHHHH----HHCc--CHHHHHHHHHHHHHHCCCEEEeCCEEEECcc
Confidence 55677665543 3432 3666778889999999999999999999763
No 64
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=33.30 E-value=1.3e+02 Score=22.81 Aligned_cols=52 Identities=23% Similarity=0.362 Sum_probs=36.6
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeec--ccccccCC
Q 020653 156 ILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKA--KHKYRITP 216 (323)
Q Consensus 156 I~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkv--KgsyKl~~ 216 (323)
|++.|..- +.+.+...|.+.+ .++ +..+...|+.|++.|-|.+. .|.|.+.+
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 2578999998888 333 45678889999999999875 34677654
No 65
>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=32.17 E-value=1e+02 Score=22.42 Aligned_cols=26 Identities=12% Similarity=0.169 Sum_probs=22.7
Q ss_pred HHHHHHHhhhhcCceeecccccccCC
Q 020653 191 LLATKLKFLSANGTLIKAKHKYRITP 216 (323)
Q Consensus 191 lL~~aLKrlVasGkLvkvKgsyKl~~ 216 (323)
-++.-|..|...|.|.++.|.+.+..
T Consensus 30 TiRRDl~~L~~~g~i~r~~GG~~~~~ 55 (57)
T PF08220_consen 30 TIRRDLNKLEKQGLIKRTHGGAVLND 55 (57)
T ss_pred HHHHHHHHHHHCCCEEEEcCEEEeCC
Confidence 47888999999999999999888765
No 66
>smart00595 MADF subfamily of SANT domain.
Probab=30.00 E-value=33 Score=26.41 Aligned_cols=26 Identities=27% Similarity=0.607 Sum_probs=20.7
Q ss_pred ChhhhhcCcccccccCCCCHHhHHHHHHHhhcc
Q 020653 27 KWRTILSDPEFSAILHSRSNVDLKDKWRNINVT 59 (323)
Q Consensus 27 kW~~I~~~~~f~~~l~~RT~vdLKDKWRnl~k~ 59 (323)
-|..|.. .+ +-|..+|+.||++|...
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 34999999999999765
No 67
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=28.75 E-value=29 Score=37.63 Aligned_cols=26 Identities=27% Similarity=0.616 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhh
Q 020653 5 KQKWTAEEEAALKAGVRKHGTGKWRTI 31 (323)
Q Consensus 5 k~~WT~EEe~~L~~GV~k~G~GkW~~I 31 (323)
|.-||..|++.+.++++.||. ....|
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 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=28.57 E-value=1.6e+02 Score=27.20 Aligned_cols=27 Identities=44% Similarity=0.416 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020653 266 AQEAAAAAAQAIAEAEVAIAEAEEAAR 292 (323)
Q Consensus 266 ~~EAA~aAA~aVAEAE~~~~~AeeA~~ 292 (323)
+.|||.+||.+-+||.-..+.||--+|
T Consensus 12 ~v~aaraaavaa~earc~~~vaekea~ 38 (207)
T PF05928_consen 12 VVDAARAAAVAASEARCVVFVAEKEAR 38 (207)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhhHHHH
Confidence 467889998888888887777754333
No 69
>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=28.43 E-value=1.9e+02 Score=28.28 Aligned_cols=24 Identities=38% Similarity=0.309 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 020653 278 AEAEVAIAEAEEAAREAERAEAEAE 302 (323)
Q Consensus 278 AEAE~~~~~AeeA~~Eae~~e~~AE 302 (323)
||+|+....| ||-+++..+.+++|
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 23444444444444
No 70
>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=27.92 E-value=86 Score=25.23 Aligned_cols=49 Identities=24% Similarity=0.463 Sum_probs=31.8
Q ss_pred HHHHHhCCCCCCC-----CHHHHHHHHHhhCCCchhHHHH--HHHHHHhhhhcCceee
Q 020653 157 LEAISNLKEPNGS-----DRASIASYIEDQYWAPANLRKL--LATKLKFLSANGTLIK 207 (323)
Q Consensus 157 ~EAI~aLker~GS-----S~~AI~kyIe~~y~vp~nf~~l--L~~aLKrlVasGkLvk 207 (323)
+.|...+.+.+|. ++.|+..|++++ |-+|...+ +.-+|+-||++|-...
T Consensus 4 LNn~~~~~~~~G~~~l~kD~eA~~~y~~~~--V~pnt~~F~S~~Erl~yLv~~~YYe~ 59 (82)
T PF08343_consen 4 LNNELNIYDEDGKIQLEKDKEAVRAYFKEH--VNPNTVKFNSLKERLDYLVENDYYEK 59 (82)
T ss_dssp HHHGGG---TTS---THHHHHHHHHHHHHT--TGGGB---SSHHHHHHHHHHTTSB-H
T ss_pred HHHHHcCCCCCCCcCchhHHHHHHHHHHHh--cccceeecCCHHHHHHHHHHcCcHHH
Confidence 4566677777886 789999999986 33454443 7888999999987654
No 71
>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=27.70 E-value=28 Score=31.57 Aligned_cols=53 Identities=25% Similarity=0.337 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhcCcccccc--cCCCCHHhHHHHHHHhhcccc
Q 020653 6 QKWTAEEEAALKAGVRKHGTGKWRTILSDPEFSAI--LHSRSNVDLKDKWRNINVTAI 61 (323)
Q Consensus 6 ~~WT~EEe~~L~~GV~k~G~GkW~~I~~~~~f~~~--l~~RT~vdLKDKWRnl~k~~~ 61 (323)
-.||.|||..|-.-|-+|=. .=++=+. .|..+ --+||+--|-=||-..+++.|
T Consensus 5 DAWT~eeDlLLAEtVLrhIR-eG~TQL~--AFeEvg~~L~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIR-EGSTQLS--AFEEVGRALNRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred cccccHHHHHHHHHHHHHHh-cchHHHH--HHHHHHHHHcccHHHhcchHHHHHHHHH
Confidence 47999999999999998822 1112222 23321 148999999999999988776
No 72
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=27.70 E-value=71 Score=21.22 Aligned_cols=25 Identities=20% Similarity=0.294 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhhcCceeeccccccc
Q 020653 190 KLLATKLKFLSANGTLIKAKHKYRI 214 (323)
Q Consensus 190 ~lL~~aLKrlVasGkLvkvKgsyKl 214 (323)
..++..|+.|.+.|-|...++.|.|
T Consensus 23 ~tv~~~l~~L~~~g~l~~~~~~~~i 47 (48)
T smart00419 23 ETVSRTLKRLEKEGLISREGGRIVI 47 (48)
T ss_pred HHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 4568889999999999988777765
No 73
>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=27.57 E-value=1.8e+02 Score=24.41 Aligned_cols=53 Identities=26% Similarity=0.337 Sum_probs=39.3
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCcee
Q 020653 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLI 206 (323)
Q Consensus 152 Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLv 206 (323)
..++|.-|....+++- |+..|-.||++-+.....+..++..-|+.|..+|-+.
T Consensus 53 l~d~i~~a~~~~~~~~--s~~eIe~~ie~~~e~~~~~~~l~~~vl~el~~s~~~k 105 (113)
T PF12363_consen 53 LADIIYAATAHEKKRP--SREEIEDYIEDIIEDEDDIEELFDEVLKELKKSNFFK 105 (113)
T ss_pred HHHHHHHHhcccCCCC--CHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhChhHH
Confidence 4566666666666665 9999999999855544557888888888888877553
No 74
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=26.60 E-value=1.9e+02 Score=19.12 Aligned_cols=40 Identities=13% Similarity=0.131 Sum_probs=28.3
Q ss_pred CCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeeccccc
Q 020653 166 PNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKHKY 212 (323)
Q Consensus 166 r~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvKgsy 212 (323)
..+.+...|..++ .++ ..-+...|+.|...|.|.+..+-+
T Consensus 12 ~~~~s~~~l~~~l----~~s---~~tv~~~l~~L~~~g~i~~~~~~~ 51 (53)
T smart00420 12 QGKVSVEELAELL----GVS---EMTIRRDLNKLEEQGLLTRVHGGA 51 (53)
T ss_pred cCCcCHHHHHHHH----CCC---HHHHHHHHHHHHHCCCEEEeecCc
Confidence 3567877777776 332 345677889999999998776543
No 75
>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=26.30 E-value=67 Score=22.09 Aligned_cols=36 Identities=8% Similarity=0.141 Sum_probs=25.2
Q ss_pred CCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHh
Q 020653 163 LKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKF 198 (323)
Q Consensus 163 Lker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKr 198 (323)
|.++-|.|..+|..++..+..+.+.....+...++.
T Consensus 3 lA~~~gvs~~tvs~~l~g~~~vs~~~~~~i~~~~~~ 38 (52)
T cd01392 3 IARAAGVSVATVSRVLNGKPRVSEETRERVLAAAEE 38 (52)
T ss_pred HHHHHCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHH
Confidence 445678999999999998877665555555444444
No 76
>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=25.49 E-value=2.6e+02 Score=25.97 Aligned_cols=12 Identities=0% Similarity=0.011 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHH
Q 020653 298 EAEAEAAQVFAK 309 (323)
Q Consensus 298 e~~AE~a~~f~~ 309 (323)
+.+||+...+++
T Consensus 206 ~g~a~~~~~~~~ 217 (261)
T TIGR01933 206 KGDVARFTKLLA 217 (261)
T ss_pred hhhHHHHHHHHH
Confidence 334444444443
No 77
>PRK11029 FtsH protease regulator HflC; Provisional
Probab=24.66 E-value=2.4e+02 Score=28.08 Aligned_cols=15 Identities=60% Similarity=0.853 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHH
Q 020653 296 RAEAEAEAAQVFAKA 310 (323)
Q Consensus 296 ~~e~~AE~a~~f~~a 310 (323)
+++.+||+.+.++++
T Consensus 272 ~aegeA~a~~~~~~a 286 (334)
T PRK11029 272 RGEGDAEAAKLFADA 286 (334)
T ss_pred HhhhHHHHHHHHHHH
Confidence 456677777777654
No 78
>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=24.55 E-value=1.6e+02 Score=26.97 Aligned_cols=41 Identities=10% Similarity=0.216 Sum_probs=32.0
Q ss_pred CCCCCCCCChHHHHHHHHHhCCC-CCCCCHHHHHHHHHhhCC
Q 020653 143 SGSKEPVARLDKLILEAISNLKE-PNGSDRASIASYIEDQYW 183 (323)
Q Consensus 143 ~~~~~~hP~Y~~MI~EAI~aLke-r~GSS~~AI~kyIe~~y~ 183 (323)
....+.+|+|+.||..-+..+++ ..+.+..++..+|..+..
T Consensus 100 ~~~~~~~p~y~~Mi~~L~~qvk~~~de~~~~~~~~~l~~H~~ 141 (177)
T PF03234_consen 100 ENKDPEQPTYDEMIEDLLDQVKKEPDEKSGKAELEELQEHRA 141 (177)
T ss_pred ccCCCCCCCHHHHHHHHHHHHhcccCcccHHHHHHHHHHHHH
Confidence 45577789999999999888874 555668888888887753
No 79
>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=24.37 E-value=1.4e+02 Score=20.37 Aligned_cols=37 Identities=22% Similarity=0.245 Sum_probs=24.1
Q ss_pred hCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCce
Q 020653 162 NLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTL 205 (323)
Q Consensus 162 aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkL 205 (323)
.|.+..|.|..-|++-+.=. ...++.+|++|+..|.|
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 33445557777776655421 44678999999999976
No 80
>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=24.25 E-value=2.6e+02 Score=21.24 Aligned_cols=47 Identities=19% Similarity=0.408 Sum_probs=34.2
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhH-HHHHHHHHHhhhhcCceee
Q 020653 155 LILEAISNLKEPNGSDRASIASYIEDQYWAPANL-RKLLATKLKFLSANGTLIK 207 (323)
Q Consensus 155 MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf-~~lL~~aLKrlVasGkLvk 207 (323)
+|++.|...+.| .++..|++.++.+ +.+. ...|+..|+.|=..| |+.
T Consensus 2 ~IL~~L~~~~~P--~g~~~l~~~L~~~---g~~~se~avRrrLr~me~~G-lt~ 49 (66)
T PF08461_consen 2 FILRILAESDKP--LGRKQLAEELKLR---GEELSEEAVRRRLRAMERDG-LTR 49 (66)
T ss_pred HHHHHHHHcCCC--CCHHHHHHHHHhc---ChhhhHHHHHHHHHHHHHCC-Ccc
Confidence 577888776665 6677888888876 2233 457888899999999 544
No 81
>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=24.08 E-value=1.6e+02 Score=22.55 Aligned_cols=51 Identities=27% Similarity=0.361 Sum_probs=38.4
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeeccc
Q 020653 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAKH 210 (323)
Q Consensus 152 Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvKg 210 (323)
..+.|++.|..+. |++..+|.+.+.=+ +| ++-++..|-+|-.+|.|.+..+
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 3577888888877 67777777766543 22 5678999999999999987654
No 82
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=23.70 E-value=1.2e+02 Score=22.80 Aligned_cols=48 Identities=13% Similarity=0.137 Sum_probs=34.0
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhhhhcCceeecc
Q 020653 152 LDKLILEAISNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFLSANGTLIKAK 209 (323)
Q Consensus 152 Y~~MI~EAI~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrlVasGkLvkvK 209 (323)
..-.|+..|... .+.+...|..++. +. ...++..|++|++.|-|...+
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 3678888877753 22 335788999999999998764
No 83
>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=22.97 E-value=1.5e+02 Score=19.73 Aligned_cols=25 Identities=28% Similarity=0.371 Sum_probs=19.1
Q ss_pred hHHHHHHHHHhCCCCCCCCHHHHHHHHHhh
Q 020653 152 LDKLILEAISNLKEPNGSDRASIASYIEDQ 181 (323)
Q Consensus 152 Y~~MI~EAI~aLker~GSS~~AI~kyIe~~ 181 (323)
+-.+|.||+.. |.|..-|..|++.+
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 84
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=22.26 E-value=1.1e+02 Score=26.86 Aligned_cols=40 Identities=23% Similarity=0.356 Sum_probs=29.0
Q ss_pred HHHHHHHHhhCC------CchhH-----HHHHHHHHHhhhhcCceee-cccc
Q 020653 172 ASIASYIEDQYW------APANL-----RKLLATKLKFLSANGTLIK-AKHK 211 (323)
Q Consensus 172 ~AI~kyIe~~y~------vp~nf-----~~lL~~aLKrlVasGkLvk-vKgs 211 (323)
.+|..|+...|. +-.|+ +..+-..|..||++|+|+. +=|+
T Consensus 4 ~~Il~y~~~qNRPys~~di~~nL~~~~~K~~v~k~Ld~L~~~g~i~~K~~GK 55 (169)
T PF07106_consen 4 DAILEYMKEQNRPYSAQDIFDNLHNKVGKTAVQKALDSLVEEGKIVEKEYGK 55 (169)
T ss_pred HHHHHHHHHcCCCCcHHHHHHHHHhhccHHHHHHHHHHHHhCCCeeeeeecc
Confidence 578899998875 23443 3468899999999999973 4453
No 85
>KOG2668 consensus Flotillins [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=20.87 E-value=3e+02 Score=28.39 Aligned_cols=37 Identities=43% Similarity=0.412 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020653 277 IAEAEVAIAEAEEAAREAERAEAEAEAAQVFAKAAIKA 314 (323)
Q Consensus 277 VAEAE~~~~~AeeA~~Eae~~e~~AE~a~~f~~aa~~~ 314 (323)
.-|||+...+| .|.-|+|+..+.||..+.+.++|...
T Consensus 319 ~geAEA~~ieA-~akaeaeqm~~ka~v~~~y~~aa~l~ 355 (428)
T KOG2668|consen 319 QGEAEAFAIEA-DAKAEAEQMAAKAEVYQAYAQAAYLR 355 (428)
T ss_pred hhhHHHHHHHh-hhhhHHHHHHHHHHHHHHhhhhHHHH
Confidence 33444443333 34557888888889999888888654
No 86
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=20.82 E-value=85 Score=23.62 Aligned_cols=39 Identities=10% Similarity=0.214 Sum_probs=26.0
Q ss_pred HhCCCCCCCCHHHHHHHHHhhCCCchhHHHHHHHHHHhh
Q 020653 161 SNLKEPNGSDRASIASYIEDQYWAPANLRKLLATKLKFL 199 (323)
Q Consensus 161 ~aLker~GSS~~AI~kyIe~~y~vp~nf~~lL~~aLKrl 199 (323)
..|.+.-|.|+.+|..++..+..+.+..+..+...++.+
T Consensus 4 ~~iA~~~gvS~~TVSr~ln~~~~v~~~t~~~i~~~~~~~ 42 (70)
T smart00354 4 KDVARLAGVSKATVSRVLNGNGRVSEETREKVLAAMEEL 42 (70)
T ss_pred HHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHh
Confidence 344455689999999988887777655555555444443
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=20.74 E-value=3.5e+02 Score=25.07 Aligned_cols=16 Identities=56% Similarity=0.518 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 020653 289 EAAREAERAEAEAEAA 304 (323)
Q Consensus 289 eA~~Eae~~e~~AE~a 304 (323)
+|-+++..+.+++|+.
T Consensus 222 ~a~~~~~~~~ae~~a~ 237 (266)
T cd03404 222 EAYKEEVIAEAQGEAA 237 (266)
T ss_pred HHHHHhHHHHHHHHHH
Confidence 3444444444444433
No 88
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=20.22 E-value=2.9e+02 Score=28.54 Aligned_cols=15 Identities=27% Similarity=0.253 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHH
Q 020653 289 EAAREAERAEAEAEA 303 (323)
Q Consensus 289 eA~~Eae~~e~~AE~ 303 (323)
||.+++..+++++|+
T Consensus 291 eAyr~~~i~~AeGda 305 (419)
T PRK10930 291 RAYKAQTILEAQGEV 305 (419)
T ss_pred HHHHHHHHHHhhhhH
Confidence 677777777777775
Done!