Query 030496
Match_columns 176
No_of_seqs 148 out of 207
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 14:35:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030496.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030496hhsearch_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 3.4E-45 7.3E-50 319.1 10.3 118 22-146 126-248 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 1.9E-39 4.1E-44 230.0 5.9 62 79-140 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 6.2E-37 1.3E-41 214.8 4.5 57 81-137 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 6E-22 1.3E-26 169.3 3.6 66 80-147 157-222 (248)
5 PF06203 CCT: CCT motif; Inte 81.1 2 4.3E-05 29.1 2.9 27 115-142 19-45 (45)
6 KOG1561 CCAAT-binding factor, 72.3 0.99 2.1E-05 40.7 -0.5 47 94-145 14-60 (307)
7 PF15046 DUF4532: Protein of u 38.1 97 0.0021 28.2 5.9 49 80-139 131-196 (279)
8 PF04615 Utp14: Utp14 protein; 17.6 83 0.0018 30.7 1.9 44 88-131 231-293 (735)
9 KOG4823 Uncharacterized conser 17.3 60 0.0013 30.1 0.9 21 116-136 141-171 (328)
10 KOG3088 Secretory carrier memb 14.7 5.1E+02 0.011 24.1 6.1 32 69-101 44-75 (313)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=3.4e-45 Score=319.14 Aligned_cols=118 Identities=50% Similarity=0.825 Sum_probs=102.3
Q ss_pred CCccccccC-CCCCCCCcccccccCCCCCCCCCCCCCCC--cchhhhcccCC-CCCCCCCCCCC-CceeechhhhHHHHH
Q 030496 22 AGHAMAPAA-YPYPDPYYRSIFAPYDAQPYPPQPYGGQP--MVHLQLMGIQQ-AGVPLPTDAVE-EPVFVNAKQYHGILR 96 (176)
Q Consensus 22 ~g~s~a~~~-yPy~Dpyygg~~a~y~~q~~~~~~y~~q~--~~~~q~~G~~~-~r~plp~~~~e-ePvyVNaKQY~rIlr 96 (176)
..|..++++ +||.+|+|+|++..++ . |++++ .+++|+.||.+ .|+|||.++.| |||||||||||+|||
T Consensus 126 ~~~~~~~~s~~~~~~p~~~g~~~~~~--~-----y~~~~~~~~~~q~~g~~~~~r~pLP~~~~e~ePl~VNaKQY~~Ilr 198 (307)
T KOG1561|consen 126 SMSPANNTSGNPITSPHYRGVLDMSG--A-----YSGQPTNTASTQYSGPVPHDRTPLPQTDSETEPLYVNAKQYHRILR 198 (307)
T ss_pred ccccccccccCCCCCCcccceecccc--c-----ccCCCCccccccccCCCCcCcccCCccccCCCceeEcHHHHHHHHH
Confidence 445555554 8899999999999543 2 33333 36789999998 99999998877 999999999999999
Q ss_pred HHHHHHHHHHhchhhhcCCCcccchhhHHHhhccCCCCCccccchhhhhh
Q 030496 97 RRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNENQ 146 (176)
Q Consensus 97 RRq~Rakle~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFL~~~~~~~~ 146 (176)
||++|||||+++||+|.||||||||||+|||||+||+||||||+||.+.+
T Consensus 199 RRq~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ 248 (307)
T KOG1561|consen 199 RRQARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDD 248 (307)
T ss_pred HHHHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhh
Confidence 99999999999999999999999999999999999999999999997654
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=1.9e-39 Score=230.02 Aligned_cols=62 Identities=76% Similarity=1.183 Sum_probs=60.1
Q ss_pred CCCCceeechhhhHHHHHHHHHHHHHHHhchhhhcCCCcccchhhHHHhhccCCCCCccccc
Q 030496 79 AVEEPVFVNAKQYHGILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNS 140 (176)
Q Consensus 79 ~~eePvyVNaKQY~rIlrRRq~Rakle~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFL~~ 140 (176)
++|+|||||||||++|||||++|||+|++++|++.||||||||||+|||+|+||+||||||+
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 46899999999999999999999999999999999999999999999999999999999985
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=6.2e-37 Score=214.80 Aligned_cols=57 Identities=75% Similarity=1.184 Sum_probs=56.3
Q ss_pred CCceeechhhhHHHHHHHHHHHHHHHhchh-hhcCCCcccchhhHHHhhccCCCCCcc
Q 030496 81 EEPVFVNAKQYHGILRRRQSRAKAESENKV-LKSRKPYLHESRHLHALRRARGCGGRF 137 (176)
Q Consensus 81 eePvyVNaKQY~rIlrRRq~Rakle~~~kl-~k~rk~YlHESRH~HAm~R~RG~gGRF 137 (176)
|+|||||||||++|||||++|||||+++|+ ++.||+|||||||+|||+|+||+||||
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=99.84 E-value=6e-22 Score=169.28 Aligned_cols=66 Identities=39% Similarity=0.508 Sum_probs=60.8
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHHhchhhhcCCCcccchhhHHHhhccCCCCCccccchhhhhhh
Q 030496 80 VEEPVFVNAKQYHGILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNENQQ 147 (176)
Q Consensus 80 ~eePvyVNaKQY~rIlrRRq~Rakle~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFL~~~~~~~~~ 147 (176)
.++|.|||+|||++|++||-+|++||.. |.-.|..|||||||+|||+|+|+++||||++.|.+..+
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~~--~~~~r~~ylHesrhkham~r~r~ptgrfLtasEi~~ln 222 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDDS--VSAGRAFYLHESRHKHAMLRVRDPTGRFLTASEIDPLN 222 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHHH--hhhhhhhccccchhhhhhhcccCCCcceecHHhhhhhh
Confidence 4789999999999999999999999986 55677779999999999999999999999999998775
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=81.05 E-value=2 Score=29.12 Aligned_cols=27 Identities=37% Similarity=0.401 Sum_probs=22.9
Q ss_pred CCcccchhhHHHhhccCCCCCccccchh
Q 030496 115 KPYLHESRHLHALRRARGCGGRFLNSKK 142 (176)
Q Consensus 115 k~YlHESRH~HAm~R~RG~gGRFL~~~~ 142 (176)
|.-.++||..=|..|+|-. |||++.++
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 4577899999999999975 99997653
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=72.27 E-value=0.99 Score=40.65 Aligned_cols=47 Identities=49% Similarity=0.841 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHhchhhhcCCCcccchhhHHHhhccCCCCCccccchhhhh
Q 030496 94 ILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNEN 145 (176)
Q Consensus 94 IlrRRq~Rakle~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFL~~~~~~~ 145 (176)
+++++..+++.+.. -.....+|+++|+.++|.+ +.+++|++..+.+.
T Consensus 14 ~~~~~~~~q~~~~~-~~~~~~~p~~~~s~~~~q~----~~s~~~~s~~g~~~ 60 (307)
T KOG1561|consen 14 ILKRREARQKPEER-GVQTTKKPYLHESGHKHQM----GPGGRFLSADGVSK 60 (307)
T ss_pred cccccccccccccc-ccccccccccCcccccccc----cccccccCcccccc
Confidence 77777777776654 4567899999999999999 88999998444433
No 7
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=38.13 E-value=97 Score=28.24 Aligned_cols=49 Identities=33% Similarity=0.506 Sum_probs=33.3
Q ss_pred CCCceeechhhhHHHHHHHHH------HHHHHHhchh-----------hhcCCCcccchhhHHHhhccCCCCCcccc
Q 030496 80 VEEPVFVNAKQYHGILRRRQS------RAKAESENKV-----------LKSRKPYLHESRHLHALRRARGCGGRFLN 139 (176)
Q Consensus 80 ~eePvyVNaKQY~rIlrRRq~------Rakle~~~kl-----------~k~rk~YlHESRH~HAm~R~RG~gGRFL~ 139 (176)
.+.||||++++=+.++.|=++ |.||.++.|+ ++.=|+|-|-| .||||-.
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 468999999999888877543 3445555553 35567775544 4999953
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=17.60 E-value=83 Score=30.67 Aligned_cols=44 Identities=25% Similarity=0.395 Sum_probs=28.3
Q ss_pred hhhhHHHHHHHHHHHHHHH-------------------hchhhhcCCCcccchhhHHHhhccC
Q 030496 88 AKQYHGILRRRQSRAKAES-------------------ENKVLKSRKPYLHESRHLHALRRAR 131 (176)
Q Consensus 88 aKQY~rIlrRRq~Rakle~-------------------~~kl~k~rk~YlHESRH~HAm~R~R 131 (176)
-|.||||+|+...|+.+.. +.+-++.|-.--|-+.-++|-+-.|
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 3679999999988843211 1111345666677777788877666
No 9
>KOG4823 consensus Uncharacterized conserved protein [Function unknown]
Probab=17.34 E-value=60 Score=30.11 Aligned_cols=21 Identities=43% Similarity=0.537 Sum_probs=15.3
Q ss_pred CcccchhhHHH----------hhccCCCCCc
Q 030496 116 PYLHESRHLHA----------LRRARGCGGR 136 (176)
Q Consensus 116 ~YlHESRH~HA----------m~R~RG~gGR 136 (176)
--|||+||+|+ .+|.|=+.|+
T Consensus 141 ~~lhenRdkht~r~~~ssVlr~r~lri~eg~ 171 (328)
T KOG4823|consen 141 VVLHENRDKHTQRITESSVLRKRRLRISEGE 171 (328)
T ss_pred hhhhhccchhhhhhhHHHHhhhhcccCCcCC
Confidence 34899999999 4555656665
No 10
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=14.73 E-value=5.1e+02 Score=24.09 Aligned_cols=32 Identities=19% Similarity=0.221 Sum_probs=14.7
Q ss_pred CCCCCCCCCCCCCCceeechhhhHHHHHHHHHH
Q 030496 69 QQAGVPLPTDAVEEPVFVNAKQYHGILRRRQSR 101 (176)
Q Consensus 69 ~~~r~plp~~~~eePvyVNaKQY~rIlrRRq~R 101 (176)
.+.++..|+|.. .+.=...+.=..=|.|||..
T Consensus 44 ~~~tv~~P~~~~-~~~a~~~~~kq~eL~~rqeE 75 (313)
T KOG3088|consen 44 QGPTVDIPLDSP-STQAKDLAKKQAELLKKQEE 75 (313)
T ss_pred CCCccccCCCCC-cchhhHHHHHHHHHHHHHHH
Confidence 456677777632 22222333333444455443
Done!