Query 025303
Match_columns 255
No_of_seqs 150 out of 227
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 04:27:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025303.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025303hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1561 CCAAT-binding factor, 100.0 6.8E-44 1.5E-48 326.6 12.0 117 48-164 126-250 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 5.9E-38 1.3E-42 232.4 5.9 62 95-156 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 1.9E-35 4.2E-40 216.6 5.0 57 97-153 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 1.8E-20 3.9E-25 167.5 2.7 67 96-164 157-223 (248)
5 PF06203 CCT: CCT motif; Inte 75.6 3.8 8.1E-05 29.3 3.2 27 131-158 19-45 (45)
6 PF15046 DUF4532: Protein of u 40.3 75 0.0016 30.4 5.8 49 96-155 131-196 (279)
7 KOG1561 CCAAT-binding factor, 27.8 12 0.00026 35.7 -1.4 46 110-160 14-59 (307)
8 KOG2796 Uncharacterized conser 23.2 1E+02 0.0022 30.4 3.7 47 91-137 278-324 (366)
9 cd01183 INT_SG1_C INT_SG1, DNA 16.1 3.4E+02 0.0075 21.8 4.9 43 105-147 124-171 (196)
10 PF04615 Utp14: Utp14 protein; 13.8 1.3E+02 0.0028 31.1 2.3 44 104-147 231-293 (735)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=6.8e-44 Score=326.63 Aligned_cols=117 Identities=56% Similarity=0.790 Sum_probs=106.5
Q ss_pred cccceeecc-CCCCCCccccccc---cCCCCcc--cCCcccCCCC-CCCCCCCCCCC-CceeechhhhHHHHHHHHHHHH
Q 025303 48 VGHSIVLTS-YPYTDPQHVGVIT---PYVPQAM--IPPQLYGMHQ-ARMPLPLEMEE-EPVYVNAKQYRGILRRRQSRAK 119 (255)
Q Consensus 48 ~g~s~a~~~-yPy~dpyygg~~a---aYg~q~~--~~pq~~G~~~-~R~pLP~~~~e-ePvyVNaKQY~rIlrRRq~RaK 119 (255)
+.+..++++ +||.+|||+|++. +|++|++ +++++.||.. .|+|||.++.| |||||||||||||||||++|||
T Consensus 126 ~~~~~~~~s~~~~~~p~~~g~~~~~~~y~~~~~~~~~~q~~g~~~~~r~pLP~~~~e~ePl~VNaKQY~~IlrRRq~RaK 205 (307)
T KOG1561|consen 126 SMSPANNTSGNPITSPHYRGVLDMSGAYSGQPTNTASTQYSGPVPHDRTPLPQTDSETEPLYVNAKQYHRILRRRQARAK 205 (307)
T ss_pred ccccccccccCCCCCCcccceecccccccCCCCccccccccCCCCcCcccCCccccCCCceeEcHHHHHHHHHHHHHHhh
Confidence 556666664 8999999999999 8998875 5789999987 99999999866 9999999999999999999999
Q ss_pred HHHhhhhhhhcCcchhhhhhHHHhhccCCCCCcccccccccchhh
Q 025303 120 AELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKLNDNAA 164 (255)
Q Consensus 120 ~e~~~kl~k~rkpYlHESRH~HAm~R~RG~gGRFl~~k~~~~~~~ 164 (255)
||+++||+|.||||||||||+|||||+||+|||||++||.+++..
T Consensus 206 lEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ss 250 (307)
T KOG1561|consen 206 LEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDDSS 250 (307)
T ss_pred hhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhhcc
Confidence 999999999999999999999999999999999999999876654
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=5.9e-38 Score=232.36 Aligned_cols=62 Identities=77% Similarity=1.142 Sum_probs=60.3
Q ss_pred CCCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhcCcchhhhhhHHHhhccCCCCCccccc
Q 025303 95 MEEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNT 156 (255)
Q Consensus 95 ~~eePvyVNaKQY~rIlrRRq~RaK~e~~~kl~k~rkpYlHESRH~HAm~R~RG~gGRFl~~ 156 (255)
++++|||||||||++|||||++|||+|++++|++.||||||||||+|||+|+||+||||||+
T Consensus 1 ~~~~piyVNaKQy~~IlrRR~~Rak~e~~~kl~~~rkpYlhESRH~HAm~R~Rg~gGRFl~~ 62 (62)
T smart00521 1 AEEEPVYVNAKQYHRILRRRQARAKLEAQGKLPKERKPYLHESRHLHAMRRPRGSGGRFLNT 62 (62)
T ss_pred CCCcceeEcHHHHHHHHHHHHHHHHHHHhcchhhccCCcccchhHHHHHccCcCCCCCCCCC
Confidence 47899999999999999999999999999999999999999999999999999999999985
No 3
>PF02045 CBFB_NFYA: CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B; InterPro: IPR001289 The CCAAT-binding factor (CBFB/NF-YA) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin []. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding []. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The B subunit contains a region of similarity with the yeast protein HAP2 []. For the B subunit it has been suggested that the N-terminal portion of the conserved region is involved in subunit interaction and the C-terminal region involved in DNA-binding [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=1.9e-35 Score=216.64 Aligned_cols=57 Identities=77% Similarity=1.171 Sum_probs=56.2
Q ss_pred CCceeechhhhHHHHHHHHHHHHHHHhhhh-hhhcCcchhhhhhHHHhhccCCCCCcc
Q 025303 97 EEPVYVNAKQYRGILRRRQSRAKAELEKKV-IKARKPYLHESRHQHAMRRARGCGGRF 153 (255)
Q Consensus 97 eePvyVNaKQY~rIlrRRq~RaK~e~~~kl-~k~rkpYlHESRH~HAm~R~RG~gGRF 153 (255)
|+|||||||||++|||||++|||+|+++++ ++.||||||||||+|||+|+||+||||
T Consensus 1 ~~piyVNaKQY~rIlrRR~~Rakle~~~k~~~~~rk~YlheSRH~HA~~R~Rg~gGRF 58 (58)
T PF02045_consen 1 EEPIYVNAKQYHRILRRRQARAKLEAEGKLSPKKRKPYLHESRHKHAMRRPRGPGGRF 58 (58)
T ss_pred CCCeeECHHHHHHHHHHHHHHHHHHHhCCcchhhhHHHHHHHHHHHHHcCccCCCCCC
Confidence 689999999999999999999999999999 999999999999999999999999999
No 4
>COG5224 HAP2 CCAAT-binding factor, subunit B [Transcription]
Probab=99.79 E-value=1.8e-20 Score=167.53 Aligned_cols=67 Identities=42% Similarity=0.526 Sum_probs=60.1
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhcCcchhhhhhHHHhhccCCCCCcccccccccchhh
Q 025303 96 EEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKLNDNAA 164 (255)
Q Consensus 96 ~eePvyVNaKQY~rIlrRRq~RaK~e~~~kl~k~rkpYlHESRH~HAm~R~RG~gGRFl~~k~~~~~~~ 164 (255)
..+|.|||+|||++|+|||-+|++++. +|.-.|..|||||||+|||+|+|+++||||++.|++..+.
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~--~~~~~r~~ylHesrhkham~r~r~ptgrfLtasEi~~ln~ 223 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDD--SVSAGRAFYLHESRHKHAMLRVRDPTGRFLTASEIDPLNL 223 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHH--HhhhhhhhccccchhhhhhhcccCCCcceecHHhhhhhhh
Confidence 478999999999999999999987764 5667777799999999999999999999999999987663
No 5
>PF06203 CCT: CCT motif; InterPro: IPR010402 The CCT (CONSTANS, CO-like, and TOC1) domain is a highly conserved basic module of ~43 amino acids, which is found near the C terminus of plant proteins often involved in light signal transduction. The CCT domain is found in association with other domains, such as the B-box zinc finger, the GATA-type zinc finger, the ZIM motif or the response regulatory domain. The CCT domain contains a putative nuclear localisation signal within the second half of the CCT motif and has been shown to be involved in nuclear localization and probably also has a role in protein-protein interaction [].; GO: 0005515 protein binding
Probab=75.64 E-value=3.8 Score=29.29 Aligned_cols=27 Identities=37% Similarity=0.426 Sum_probs=23.0
Q ss_pred CcchhhhhhHHHhhccCCCCCccccccc
Q 025303 131 KPYLHESRHQHAMRRARGCGGRFLNTKK 158 (255)
Q Consensus 131 kpYlHESRH~HAm~R~RG~gGRFl~~k~ 158 (255)
|.-.+++|..=|..|+|-. |||++.++
T Consensus 19 kkirY~~Rk~~A~~R~Rvk-GRFvk~~e 45 (45)
T PF06203_consen 19 KKIRYESRKAVADKRPRVK-GRFVKKSE 45 (45)
T ss_pred ccCCcchHHHHHhhCCccC-CcccCCCC
Confidence 4567899999999999976 99997654
No 6
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=40.30 E-value=75 Score=30.43 Aligned_cols=49 Identities=29% Similarity=0.439 Sum_probs=32.2
Q ss_pred CCCceeechhhhHHHHHHHHHHH------HHHHhhhh-----------hhhcCcchhhhhhHHHhhccCCCCCcccc
Q 025303 96 EEEPVYVNAKQYRGILRRRQSRA------KAELEKKV-----------IKARKPYLHESRHQHAMRRARGCGGRFLN 155 (255)
Q Consensus 96 ~eePvyVNaKQY~rIlrRRq~Ra------K~e~~~kl-----------~k~rkpYlHESRH~HAm~R~RG~gGRFl~ 155 (255)
.+.||||++++=+.++.|=.+.. |+..|.|+ ++.=|+|-|-| .||||..
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KELkE~~kLKLRSe~RvPPlD~~GNIlPP~nFkky~h~s-----------aggr~~p 196 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKELKEFEKLKLRSEARVPPLDAQGNILPPENFKKYRHIS-----------AGGRFEP 196 (279)
T ss_pred hcccceechhhhhHHHHHHHHHHhhhHhhhhhhhccCCCcCCCCCCcCchhhccccccc-----------CCceecC
Confidence 56899999999988887754432 33333332 35667774444 4999964
No 7
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=27.83 E-value=12 Score=35.68 Aligned_cols=46 Identities=52% Similarity=0.890 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhhhhhhhcCcchhhhhhHHHhhccCCCCCccccccccc
Q 025303 110 ILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKLN 160 (255)
Q Consensus 110 IlrRRq~RaK~e~~~kl~k~rkpYlHESRH~HAm~R~RG~gGRFl~~k~~~ 160 (255)
+++++..+++.... -.....+|+++|+.+.+.+ +.+++|++..+..
T Consensus 14 ~~~~~~~~q~~~~~-~~~~~~~p~~~~s~~~~q~----~~s~~~~s~~g~~ 59 (307)
T KOG1561|consen 14 ILKRREARQKPEER-GVQTTKKPYLHESGHKHQM----GPGGRFLSADGVS 59 (307)
T ss_pred cccccccccccccc-ccccccccccCcccccccc----cccccccCccccc
Confidence 77777777655433 5567889999999999999 8899999844333
No 8
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.17 E-value=1e+02 Score=30.35 Aligned_cols=47 Identities=26% Similarity=0.202 Sum_probs=36.7
Q ss_pred CCCCCCCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhcCcchhhh
Q 025303 91 LPLEMEEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHES 137 (255)
Q Consensus 91 LP~~~~eePvyVNaKQY~rIlrRRq~RaK~e~~~kl~k~rkpYlHES 137 (255)
+|.-.+.-|||||-|-.--.--||..-|-...+..++..=.+|||||
T Consensus 278 i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~es 324 (366)
T KOG2796|consen 278 ILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLHES 324 (366)
T ss_pred ccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchhhh
Confidence 45555778999999998777777877776666666677778999995
No 9
>cd01183 INT_SG1_C INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in proteobacteria. These proteins have not been biochemically characerised as yet.
Probab=16.14 E-value=3.4e+02 Score=21.81 Aligned_cols=43 Identities=26% Similarity=0.254 Sum_probs=24.5
Q ss_pred hhhHHHHHHHHHHHHHHHhh-----hhhhhcCcchhhhhhHHHhhccC
Q 025303 105 KQYRGILRRRQSRAKAELEK-----KVIKARKPYLHESRHQHAMRRAR 147 (255)
Q Consensus 105 KQY~rIlrRRq~RaK~e~~~-----kl~k~rkpYlHESRH~HAm~R~R 147 (255)
..+.+|+++-..++...+.. .....+.--.|.-||.+|..-..
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~ 171 (196)
T cd01183 124 AQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDLA 171 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHHH
Confidence 45677787765555333221 01112344589999999976543
No 10
>PF04615 Utp14: Utp14 protein; InterPro: IPR006709 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. This entry contains Utp14, a large ribonuclear protein associated with snoRNA U3 [].; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=13.81 E-value=1.3e+02 Score=31.11 Aligned_cols=44 Identities=27% Similarity=0.435 Sum_probs=27.0
Q ss_pred hhhhHHHHHHHHHHHHHH-------------------HhhhhhhhcCcchhhhhhHHHhhccC
Q 025303 104 AKQYRGILRRRQSRAKAE-------------------LEKKVIKARKPYLHESRHQHAMRRAR 147 (255)
Q Consensus 104 aKQY~rIlrRRq~RaK~e-------------------~~~kl~k~rkpYlHESRH~HAm~R~R 147 (255)
-|.||||+|++..|+.+. ++.+-++.|-.--|-..-++|-+-.|
T Consensus 231 SK~yhri~kk~k~k~~~k~~e~l~~~dpe~a~e~~e~~e~~Ra~ERmtlkHkn~sKWAK~~~~ 293 (735)
T PF04615_consen 231 SKTYHRILKKEKEKEQEKEFEELEESDPEAAEEELEKLEKKRAEERMTLKHKNTSKWAKSMLR 293 (735)
T ss_pred hhHHHHHHHHHHHHhhcchHHHHhhcChhhhHHHHHHHHHHHHHHHhhccccccCHHHHHHHH
Confidence 366999999998883211 11222345555567767777766655
Done!