Query 021806
Match_columns 307
No_of_seqs 151 out of 227
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 05:49:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021806.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021806hhsearch_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 8.2E-44 1.8E-48 333.8 15.2 119 98-216 124-250 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 2.4E-37 5.3E-42 233.9 6.1 62 147-208 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 7.5E-35 1.6E-39 218.1 4.4 57 149-205 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 4E-20 8.7E-25 168.8 2.9 66 148-215 157-222 (248)
5 PF06203 CCT: CCT motif; Inte 75.9 4.1 8.9E-05 29.8 3.5 28 182-210 18-45 (45)
6 PF15046 DUF4532: Protein of u 31.9 89 0.0019 30.7 5.1 22 148-169 131-152 (279)
7 KOG1561 CCAAT-binding factor, 28.8 13 0.00028 36.4 -1.1 45 162-211 14-58 (307)
8 KOG2796 Uncharacterized conser 21.9 1.1E+02 0.0023 30.9 3.7 47 143-189 278-324 (366)
9 cd01183 INT_SG1_C INT_SG1, DNA 15.6 3E+02 0.0065 22.8 4.6 45 155-199 122-171 (196)
10 PF04615 Utp14: Utp14 protein; 13.9 1.3E+02 0.0027 32.1 2.3 44 156-199 231-293 (735)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=8.2e-44 Score=333.82 Aligned_cols=119 Identities=55% Similarity=0.773 Sum_probs=107.6
Q ss_pred hhcccceeecc-CCCCCCccccccc---CCCCCcc--CCCcccCCCC-CCCCCCCCCCC-CceeechhhhHHHHHHHHHH
Q 021806 98 ELVGHSIVLTS-YPYTDPQHVGVIT---PYVPQAM--IPPQLYGMHQ-ARMPLPLEMEE-EPVYVNAKQYRGILRRRQSR 169 (307)
Q Consensus 98 el~g~s~a~~~-~Py~dp~ygg~~a---aYg~q~~--~~pq~~G~~~-~R~pLP~~~~e-ePvyVNaKQY~rIlrRRq~R 169 (307)
+.+.+..++++ +||.+|||+|++. +|++|.+ +++++.||.. .|+|||.++.| |||||||||||||||||++|
T Consensus 124 ~a~~~~~~~~s~~~~~~p~~~g~~~~~~~y~~~~~~~~~~q~~g~~~~~r~pLP~~~~e~ePl~VNaKQY~~IlrRRq~R 203 (307)
T KOG1561|consen 124 TASMSPANNTSGNPITSPHYRGVLDMSGAYSGQPTNTASTQYSGPVPHDRTPLPQTDSETEPLYVNAKQYHRILRRRQAR 203 (307)
T ss_pred ccccccccccccCCCCCCcccceecccccccCCCCccccccccCCCCcCcccCCccccCCCceeEcHHHHHHHHHHHHHH
Confidence 34667667664 7999999999999 8988765 5788999988 99999999866 99999999999999999999
Q ss_pred HHHHHhhhhhhhCCCccccchhHHhhhcCCCCCCccccccccccchh
Q 021806 170 AKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKLNDNAA 216 (307)
Q Consensus 170 aK~e~~~k~~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~~~~~~~~~ 216 (307)
||||+++||+|.||||||||||+|||||+||+|||||++||.+++..
T Consensus 204 aKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ss 250 (307)
T KOG1561|consen 204 AKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDDSS 250 (307)
T ss_pred hhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhhcc
Confidence 99999999999999999999999999999999999999999776554
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=2.4e-37 Score=233.90 Aligned_cols=62 Identities=77% Similarity=1.142 Sum_probs=60.3
Q ss_pred CCCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCccccchhHHhhhcCCCCCCccccc
Q 021806 147 MEEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNT 208 (307)
Q Consensus 147 ~~eePvyVNaKQY~rIlrRRq~RaK~e~~~k~~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~ 208 (307)
++++|||||||||++|||||++|||+|+++++++.||||||||||+|||+|+||+||||||+
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=7.5e-35 Score=218.08 Aligned_cols=57 Identities=77% Similarity=1.171 Sum_probs=56.2
Q ss_pred CCceeechhhhHHHHHHHHHHHHHHHhhhh-hhhCCCccccchhHHhhhcCCCCCCcc
Q 021806 149 EEPVYVNAKQYRGILRRRQSRAKAELEKKV-IKARKPYLHESRHQHAMRRARGCGGRF 205 (307)
Q Consensus 149 eePvyVNaKQY~rIlrRRq~RaK~e~~~k~-~k~rk~YlHESRH~HAm~R~Rg~gGRF 205 (307)
|+|||||||||++|||||++|||+|+++++ ++.||+|||||||+|||+|+||+||||
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=99.78 E-value=4e-20 Score=168.75 Aligned_cols=66 Identities=42% Similarity=0.540 Sum_probs=59.4
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCccccchhHHhhhcCCCCCCccccccccccch
Q 021806 148 EEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKLNDNA 215 (307)
Q Consensus 148 ~eePvyVNaKQY~rIlrRRq~RaK~e~~~k~~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~~~~~~~~ 215 (307)
..+|.|||+|||++|+|||-+|++++. +|+-.|..|||||||+|||+|+|+++||||++.|++..+
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~--~~~~~r~~ylHesrhkham~r~r~ptgrfLtasEi~~ln 222 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDD--SVSAGRAFYLHESRHKHAMLRVRDPTGRFLTASEIDPLN 222 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHH--HhhhhhhhccccchhhhhhhcccCCCcceecHHhhhhhh
Confidence 478999999999999999999997765 566677779999999999999999999999999988765
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=75.89 E-value=4.1 Score=29.83 Aligned_cols=28 Identities=36% Similarity=0.415 Sum_probs=23.5
Q ss_pred CCCccccchhHHhhhcCCCCCCccccccc
Q 021806 182 RKPYLHESRHQHAMRRARGCGGRFLNTKK 210 (307)
Q Consensus 182 rk~YlHESRH~HAm~R~Rg~gGRFl~~~~ 210 (307)
-|.-.+++|..=|..|+|-. |||++.++
T Consensus 18 ~kkirY~~Rk~~A~~R~Rvk-GRFvk~~e 45 (45)
T PF06203_consen 18 EKKIRYESRKAVADKRPRVK-GRFVKKSE 45 (45)
T ss_pred cccCCcchHHHHHhhCCccC-CcccCCCC
Confidence 35678899999999999976 99997653
No 6
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=31.88 E-value=89 Score=30.65 Aligned_cols=22 Identities=14% Similarity=0.388 Sum_probs=17.7
Q ss_pred CCCceeechhhhHHHHHHHHHH
Q 021806 148 EEEPVYVNAKQYRGILRRRQSR 169 (307)
Q Consensus 148 ~eePvyVNaKQY~rIlrRRq~R 169 (307)
.+.||||++++=+.++.|=++.
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KE 152 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKE 152 (279)
T ss_pred hcccceechhhhhHHHHHHHHH
Confidence 5689999999999888775543
No 7
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=28.78 E-value=13 Score=36.44 Aligned_cols=45 Identities=53% Similarity=0.903 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhhhhhhhCCCccccchhHHhhhcCCCCCCcccccccc
Q 021806 162 ILRRRQSRAKAELEKKVIKARKPYLHESRHQHAMRRARGCGGRFLNTKKL 211 (307)
Q Consensus 162 IlrRRq~RaK~e~~~k~~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~~~~ 211 (307)
+++++..+++.... -.....+||++|+.+.|.+ +.+++|++..+.
T Consensus 14 ~~~~~~~~q~~~~~-~~~~~~~p~~~~s~~~~q~----~~s~~~~s~~g~ 58 (307)
T KOG1561|consen 14 ILKRREARQKPEER-GVQTTKKPYLHESGHKHQM----GPGGRFLSADGV 58 (307)
T ss_pred cccccccccccccc-ccccccccccCcccccccc----cccccccCcccc
Confidence 77888877755433 5567889999999999999 889999984433
No 8
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.92 E-value=1.1e+02 Score=30.94 Aligned_cols=47 Identities=26% Similarity=0.202 Sum_probs=37.1
Q ss_pred CCCCCCCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCccccc
Q 021806 143 LPLEMEEEPVYVNAKQYRGILRRRQSRAKAELEKKVIKARKPYLHES 189 (307)
Q Consensus 143 LP~~~~eePvyVNaKQY~rIlrRRq~RaK~e~~~k~~k~rk~YlHES 189 (307)
+|.-.+.-|||||-|-.--.--||..-|-...+..++..=.+|||||
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 55556778999999998777778877776666666677778999995
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=15.56 E-value=3e+02 Score=22.83 Aligned_cols=45 Identities=24% Similarity=0.258 Sum_probs=26.0
Q ss_pred chhhhHHHHHHHHHHHHHHHhh-----hhhhhCCCccccchhHHhhhcCC
Q 021806 155 NAKQYRGILRRRQSRAKAELEK-----KVIKARKPYLHESRHQHAMRRAR 199 (307)
Q Consensus 155 NaKQY~rIlrRRq~RaK~e~~~-----k~~k~rk~YlHESRH~HAm~R~R 199 (307)
+..++.+|+++-..++...+.. .....+.--.|--||.+|..-.+
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~ 171 (196)
T cd01183 122 SSAQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDLA 171 (196)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHHH
Confidence 3456778887766555333221 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=13.88 E-value=1.3e+02 Score=32.05 Aligned_cols=44 Identities=27% Similarity=0.435 Sum_probs=26.8
Q ss_pred hhhhHHHHHHHHHHHHHH-------------------HhhhhhhhCCCccccchhHHhhhcCC
Q 021806 156 AKQYRGILRRRQSRAKAE-------------------LEKKVIKARKPYLHESRHQHAMRRAR 199 (307)
Q Consensus 156 aKQY~rIlrRRq~RaK~e-------------------~~~k~~k~rk~YlHESRH~HAm~R~R 199 (307)
-|.||||+|++..|+.+. ++.+-++.|----|-..-++|-+-.|
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 467999999998883211 11222445555567766667665555
Done!