Query 017825
Match_columns 365
No_of_seqs 150 out of 210
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 03:45:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017825.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017825hhsearch_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 2.8E-45 6.1E-50 350.2 17.6 218 22-244 16-250 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 2.3E-36 5E-41 232.9 5.9 62 175-236 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 5.6E-34 1.2E-38 217.4 4.2 57 177-233 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 2.8E-19 6.2E-24 166.2 9.2 66 176-243 157-222 (248)
5 PF06203 CCT: CCT motif; Inte 55.8 17 0.00038 27.2 3.5 26 210-236 18-43 (45)
6 KOG1561 CCAAT-binding factor, 55.2 3.8 8.3E-05 40.8 -0.1 45 189-238 13-57 (307)
7 PF15046 DUF4532: Protein of u 34.4 62 0.0013 32.4 4.5 23 176-198 131-153 (279)
8 PF04615 Utp14: Utp14 protein; 13.4 1.3E+02 0.0028 32.7 2.2 44 184-227 231-293 (735)
9 cd01183 INT_SG1_C INT_SG1, DNA 12.6 4E+02 0.0086 22.7 4.6 45 183-227 122-171 (196)
10 KOG2796 Uncharacterized conser 12.4 2.4E+02 0.0052 29.1 3.6 42 176-217 283-324 (366)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=2.8e-45 Score=350.18 Aligned_cols=218 Identities=33% Similarity=0.429 Sum_probs=150.5
Q ss_pred CCCCcccCccccCCCCCCcccccccCCCCCC--CCCCCCCCcccccccccccccCCCCC-CCccccccccccccCC----
Q 017825 22 NSFTISSQPWWRGVGHDSTSRAMLQGGIGNI--SSPREPINGVLVAKTSKSQVNSGMDG-GADATKEMLMSVASQA---- 94 (365)
Q Consensus 22 ~p~sv~S~PWW~~~G~~~~~~a~~g~~~s~~--ssS~e~~ng~~~~~~~ks~~~g~~~~-~~d~~k~sq~t~~~qs---- 94 (365)
.-..+...|||+.++....+.....+-..++ +......+|.....+....+-+..++ .+.+.+++|++....+
T Consensus 16 ~~~~~~q~~~~~~~~~~~~p~~~~s~~~~q~~~s~~~~s~~g~~~~~~~e~~~~~~~~~~~~~~~~~~~v~~s~~s~~~~ 95 (307)
T KOG1561|consen 16 KRREARQKPEERGVQTTKKPYLHESGHKHQMGPGGRFLSADGVSKLRAQEAANGGSTGDDVNATNNDAQVAATVSSEVTH 95 (307)
T ss_pred ccccccccccccccccccccccCcccccccccccccccCccccccccccccccccccccccccccccceeeeccCCccee
Confidence 3456778999998887765444443333332 22222224444433333222233322 2334477777766555
Q ss_pred CCCCCCCCCCccccccccCCCccccCCCCcc--ccccccccccc-CCCCCCccCCccc---ccCcccc--cCCCCcCcCC
Q 017825 95 DGKFGGQQPSQHSVSLMHPQFSEYLTQPSQL--ELVGHSIACAS-YPYSDSYYGGAVP---AYGQQAL--VHPQSMGVHS 166 (365)
Q Consensus 95 ~~~~g~~q~~q~~~s~~~~~~~~~~~~~~q~--el~g~s~a~~~-ypy~Dpyygg~~a---aYg~q~~--~~~~~~Gm~~ 166 (365)
...+.... +...+++.... ..+.+++ ..+.+..++++ +||.+|+|+|++. +|++|++ ++++++||..
T Consensus 96 v~~~~~~~--~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~s~~~~~~p~~~g~~~~~~~y~~~~~~~~~~q~~g~~~ 170 (307)
T KOG1561|consen 96 VEGYADSN--DSRPSSISNSS---ESPAPINSATASMSPANNTSGNPITSPHYRGVLDMSGAYSGQPTNTASTQYSGPVP 170 (307)
T ss_pred cccccccc--ccccccccccc---cccCcccccccccccccccccCCCCCCcccceecccccccCCCCccccccccCCCC
Confidence 22222221 11111111111 1122333 34667777764 7999999999999 8999977 4788999987
Q ss_pred -CcccCCCCCCC-CceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCccccchhhHhhhcCCCCCCccccccccCcCCC
Q 017825 167 -ARMALPLEMAE-EPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNTKKLDSQTS 244 (365)
Q Consensus 167 -~R~pLP~e~~e-ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~kk~~~~~~ 244 (365)
.|+|||.++.| |||||||||||||||||++|||||+++||+|.||||||||||+|||||+||+||||||+|+..++.+
T Consensus 171 ~~r~pLP~~~~e~ePl~VNaKQY~~IlrRRq~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ss 250 (307)
T KOG1561|consen 171 HDRTPLPQTDSETEPLYVNAKQYHRILRRRQARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDDSS 250 (307)
T ss_pred cCcccCCccccCCCceeEcHHHHHHHHHHHHHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhhcc
Confidence 99999999976 9999999999999999999999999999999999999999999999999999999999999776543
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=2.3e-36 Score=232.86 Aligned_cols=62 Identities=79% Similarity=1.159 Sum_probs=60.2
Q ss_pred CCCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCccccchhhHhhhcCCCCCCccccc
Q 017825 175 MAEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNT 236 (365)
Q Consensus 175 ~~eePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~ 236 (365)
++++|||||||||++|||||++|||+|++++|++.||||||||||+|||+|+||+|||||++
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 46899999999999999999999999999999999999999999999999999999999975
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=5.6e-34 Score=217.43 Aligned_cols=57 Identities=81% Similarity=1.174 Sum_probs=56.2
Q ss_pred CCceeecchhhHHHHHHHHHHHHHHHhhhh-hhcCCCccccchhhHhhhcCCCCCCcc
Q 017825 177 EEPVYVNAKQYHGILRRRQLRAKAELERKL-IKVRKPYLHESRHLHAMRRARGCGGRF 233 (365)
Q Consensus 177 eePvyVNaKQY~rIlrRR~~Rak~e~~~kl-~k~rk~YlHESRH~HAm~R~Rg~gGRF 233 (365)
|+|||||||||++|||||++|||+|+++|| ++.||||||||||+|||+|+||+||||
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=2.8e-19 Score=166.18 Aligned_cols=66 Identities=42% Similarity=0.571 Sum_probs=58.4
Q ss_pred CCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCccccchhhHhhhcCCCCCCccccccccCcCC
Q 017825 176 AEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNTKKLDSQT 243 (365)
Q Consensus 176 ~eePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~kk~~~~~ 243 (365)
.++|.|||||||++|+|||-+|++++ .+|+-.|..|||||||+|||+|+|+++||||++.+++.-+
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld--~~~~~~r~~ylHesrhkham~r~r~ptgrfLtasEi~~ln 222 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLD--DSVSAGRAFYLHESRHKHAMLRVRDPTGRFLTASEIDPLN 222 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHH--HHhhhhhhhccccchhhhhhhcccCCCcceecHHhhhhhh
Confidence 57899999999999999999999865 5666777779999999999999999999999887776543
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=55.76 E-value=17 Score=27.23 Aligned_cols=26 Identities=42% Similarity=0.438 Sum_probs=21.9
Q ss_pred CCCccccchhhHhhhcCCCCCCccccc
Q 017825 210 RKPYLHESRHLHAMRRARGCGGRFVNT 236 (365)
Q Consensus 210 rk~YlHESRH~HAm~R~Rg~gGRFl~~ 236 (365)
-|.-.+++|..=|..|+|-. |||+..
T Consensus 18 ~kkirY~~Rk~~A~~R~Rvk-GRFvk~ 43 (45)
T PF06203_consen 18 EKKIRYESRKAVADKRPRVK-GRFVKK 43 (45)
T ss_pred cccCCcchHHHHHhhCCccC-CcccCC
Confidence 35678899999999999986 999944
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=55.23 E-value=3.8 Score=40.83 Aligned_cols=45 Identities=51% Similarity=0.849 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHhhhhhhcCCCccccchhhHhhhcCCCCCCccccccc
Q 017825 189 GILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNTKK 238 (365)
Q Consensus 189 rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~kk 238 (365)
-+++++..+++..- +-.....+||++|+.++|.| +.+++|++..+
T Consensus 13 ~~~~~~~~~q~~~~-~~~~~~~~p~~~~s~~~~q~----~~s~~~~s~~g 57 (307)
T KOG1561|consen 13 NILKRREARQKPEE-RGVQTTKKPYLHESGHKHQM----GPGGRFLSADG 57 (307)
T ss_pred cccccccccccccc-cccccccccccCcccccccc----cccccccCccc
Confidence 37778887776433 35567899999999999999 88999998433
No 7
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=34.44 E-value=62 Score=32.36 Aligned_cols=23 Identities=13% Similarity=0.348 Sum_probs=17.9
Q ss_pred CCCceeecchhhHHHHHHHHHHH
Q 017825 176 AEEPVYVNAKQYHGILRRRQLRA 198 (365)
Q Consensus 176 ~eePvyVNaKQY~rIlrRR~~Ra 198 (365)
.+.||||++++=+.++.|=.+..
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KEL 153 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKEL 153 (279)
T ss_pred hcccceechhhhhHHHHHHHHHH
Confidence 35799999999999887655443
No 8
>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=13.39 E-value=1.3e+02 Score=32.71 Aligned_cols=44 Identities=27% Similarity=0.406 Sum_probs=26.1
Q ss_pred chhhHHHHHHHHHHHHHH-------------------HhhhhhhcCCCccccchhhHhhhcCC
Q 017825 184 AKQYHGILRRRQLRAKAE-------------------LERKLIKVRKPYLHESRHLHAMRRAR 227 (365)
Q Consensus 184 aKQY~rIlrRR~~Rak~e-------------------~~~kl~k~rk~YlHESRH~HAm~R~R 227 (365)
-|.||||+|++..|+.+. ++.+-++.|-.--|-..-++|.+-.|
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 467999999998884211 11222344555566666666655544
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=12.63 E-value=4e+02 Score=22.67 Aligned_cols=45 Identities=24% Similarity=0.221 Sum_probs=25.5
Q ss_pred cchhhHHHHHHHHHHHHHHHhh-----hhhhcCCCccccchhhHhhhcCC
Q 017825 183 NAKQYHGILRRRQLRAKAELER-----KLIKVRKPYLHESRHLHAMRRAR 227 (365)
Q Consensus 183 NaKQY~rIlrRR~~Rak~e~~~-----kl~k~rk~YlHESRH~HAm~R~R 227 (365)
...++.+|+++--+++...+.. .....+.--.|-=||.+|..-.+
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~ 171 (196)
T cd01183 122 SSAQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDLA 171 (196)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHHH
Confidence 3456777887765555333221 01112345589999999976543
No 10
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=12.38 E-value=2.4e+02 Score=29.11 Aligned_cols=42 Identities=26% Similarity=0.240 Sum_probs=34.0
Q ss_pred CCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCccccc
Q 017825 176 AEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHES 217 (365)
Q Consensus 176 ~eePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHES 217 (365)
...|||||-|-.--.--||..-|-..++..+...-.+|||||
T Consensus 283 ~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~es 324 (366)
T KOG2796|consen 283 PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLHES 324 (366)
T ss_pred CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchhhh
Confidence 567999999988777777777776677777777888999995
Done!