Query 019003
Match_columns 347
No_of_seqs 147 out of 211
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 05:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019003.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019003hhsearch_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 3.6E-46 7.8E-51 354.2 17.5 211 19-235 16-244 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 2.1E-36 4.5E-41 231.9 6.0 62 172-233 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 3.1E-34 6.6E-39 217.7 4.5 57 174-230 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 1.4E-19 3.1E-24 167.3 3.7 61 173-235 157-217 (248)
5 PF06203 CCT: CCT motif; Inte 82.9 1.5 3.2E-05 32.6 3.1 28 207-235 18-45 (45)
6 KOG1561 CCAAT-binding factor, 32.9 14 0.00031 36.7 -0.1 41 187-232 14-54 (307)
7 PF15046 DUF4532: Protein of u 24.7 81 0.0018 31.4 3.5 23 173-195 131-153 (279)
8 cd01183 INT_SG1_C INT_SG1, DNA 16.6 3E+02 0.0064 23.3 4.8 44 181-224 123-171 (196)
9 PF04615 Utp14: Utp14 protein; 13.5 1.3E+02 0.0028 32.5 2.3 15 181-195 231-245 (735)
10 KOG2796 Uncharacterized conser 13.3 2.3E+02 0.0049 29.1 3.7 42 173-214 283-324 (366)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=3.6e-46 Score=354.23 Aligned_cols=211 Identities=35% Similarity=0.493 Sum_probs=153.7
Q ss_pred CCCCccccccccccCCCCCcccccCCCC-CCCCCCCCC--CCCCCc-cccccccCCCCCcccccccchhhhcccCc----
Q 019003 19 PPGAAYTEPWWRGVGYNSISPALAGANV-SNSSSLDCP--NGSESN-DAKSISNDGLNEEDDDANKESQATASSRS---- 90 (347)
Q Consensus 19 ~~~~~~s~PWW~~~g~~~v~~a~~g~~~-s~sss~e~~--Ngs~sn-~~qs~sn~~~~~e~dda~kesq~t~~~qs---- 90 (347)
....+++.|||+.++....+.....+.. ....++-.+ +|.++. +.++.+-+.++.+-+.++++.+.+++..+
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 3456689999998886665443332222 212222222 555554 23333334444444556788888887766
Q ss_pred CCCccccccccccccCCCCCccCCCCCCCCcc--ccccccccccC-CCCCCCccccccc---ccCCCCCC--CCcccCCC
Q 019003 91 AGNHGQKNQNVQQGASAMPTIRDECFTQPPQL--ELVGHSIACAS-NPYQDPYYGGMMA---AYGHQPVG--YPQFVGMP 162 (347)
Q Consensus 91 ~g~~gqe~~~~~~~~s~~~~~~~~~~~~~~q~--el~g~sia~~~-~py~Dpyygg~~a---aYg~q~~~--~p~~~Gm~ 162 (347)
..+++...+... +++... ...+.+.+ +.+.+..++++ +||.+|||+|++. +|++|+.. .+++.||.
T Consensus 96 v~~~~~~~~~~~---~~~~~~---~~~~~~~~~~~a~~~~~~~~s~~~~~~p~~~g~~~~~~~y~~~~~~~~~~q~~g~~ 169 (307)
T KOG1561|consen 96 VEGYADSNDSRP---SSISNS---SESPAPINSATASMSPANNTSGNPITSPHYRGVLDMSGAYSGQPTNTASTQYSGPV 169 (307)
T ss_pred cccccccccccc---cccccc---ccccCcccccccccccccccccCCCCCCcccceecccccccCCCCccccccccCCC
Confidence 556666553322 111111 11122333 45778777775 7999999999999 89999874 67889998
Q ss_pred C-CCCCCCCCCCC-CceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCcchhchhHHHhhcCCCCCCcccccCC
Q 019003 163 H-ARMPLPLEMAQ-EPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAKKTD 235 (347)
Q Consensus 163 ~-~R~pLP~e~~e-ePvyVNaKQY~rIlrRRq~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~~~e 235 (347)
. .|+|||.++.| |||||||||||||||||++|||||+++||+|.||||||||||+|||||+||+|||||++++
T Consensus 170 ~~~r~pLP~~~~e~ePl~VNaKQY~~IlrRRq~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~ 244 (307)
T KOG1561|consen 170 PHDRTPLPQTDSETEPLYVNAKQYHRILRRRQARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKE 244 (307)
T ss_pred CcCcccCCccccCCCceeEcHHHHHHHHHHHHHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhh
Confidence 8 99999999876 9999999999999999999999999999999999999999999999999999999999988
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=2.1e-36 Score=231.86 Aligned_cols=62 Identities=74% Similarity=1.065 Sum_probs=60.1
Q ss_pred CCCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCcchhchhHHHhhcCCCCCCccccc
Q 019003 172 MAQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAKK 233 (347)
Q Consensus 172 ~~eePvyVNaKQY~rIlrRRq~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~~ 233 (347)
++++|||||||||++|||||++|||+|++++|++.||||||||||+|||+|+||+|||||++
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=3.1e-34 Score=217.68 Aligned_cols=57 Identities=79% Similarity=1.182 Sum_probs=56.2
Q ss_pred CCceeechhhhHHHHHHHHHHHHHHHhhhh-hhhCCCcchhchhHHHhhcCCCCCCcc
Q 019003 174 QEPVYVNAKQYMGILRRRQARAKAELEKKL-IKVRKPYLHESRHQHAMRRARGSGGRF 230 (347)
Q Consensus 174 eePvyVNaKQY~rIlrRRq~Rak~e~~~kl-~k~rk~YlHESRH~HAm~R~RG~gGRF 230 (347)
++|||||||||++|||||++|||+|+++++ ++.||+|||||||+|||+|+||+||||
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=99.77 E-value=1.4e-19 Score=167.30 Aligned_cols=61 Identities=43% Similarity=0.551 Sum_probs=55.8
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCcchhchhHHHhhcCCCCCCcccccCC
Q 019003 173 AQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAKKTD 235 (347)
Q Consensus 173 ~eePvyVNaKQY~rIlrRRq~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~~~e 235 (347)
.++|.|||||||++|+|||-+|++++. +|+-.|..|||||||+|||+|+|+++||||+++|
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~--~~~~~r~~ylHesrhkham~r~r~ptgrfLtasE 217 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDD--SVSAGRAFYLHESRHKHAMLRVRDPTGRFLTASE 217 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHH--HhhhhhhhccccchhhhhhhcccCCCcceecHHh
Confidence 588999999999999999999988664 5667777799999999999999999999999988
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=82.88 E-value=1.5 Score=32.61 Aligned_cols=28 Identities=43% Similarity=0.529 Sum_probs=23.7
Q ss_pred CCCcchhchhHHHhhcCCCCCCcccccCC
Q 019003 207 RKPYLHESRHQHAMRRARGSGGRFAKKTD 235 (347)
Q Consensus 207 rk~YlHESRH~HAm~R~RG~gGRFl~~~e 235 (347)
-|.-.+++|..=|..|+|-. |||++.+|
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 34567899999999999986 99998764
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=32.87 E-value=14 Score=36.71 Aligned_cols=41 Identities=59% Similarity=1.019 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHhhhhhhhCCCcchhchhHHHhhcCCCCCCcccc
Q 019003 187 ILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAK 232 (347)
Q Consensus 187 IlrRRq~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~ 232 (347)
+++++..+++.. ++-.....+||++|+.+.|.+ +.+++|++
T Consensus 14 ~~~~~~~~q~~~-~~~~~~~~~p~~~~s~~~~q~----~~s~~~~s 54 (307)
T KOG1561|consen 14 ILKRREARQKPE-ERGVQTTKKPYLHESGHKHQM----GPGGRFLS 54 (307)
T ss_pred cccccccccccc-ccccccccccccCcccccccc----cccccccC
Confidence 778888776644 335667899999999999999 88999997
No 7
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=24.74 E-value=81 Score=31.38 Aligned_cols=23 Identities=13% Similarity=0.332 Sum_probs=17.9
Q ss_pred CCCceeechhhhHHHHHHHHHHH
Q 019003 173 AQEPVYVNAKQYMGILRRRQARA 195 (347)
Q Consensus 173 ~eePvyVNaKQY~rIlrRRq~Ra 195 (347)
..-||||++++=+.++.|=.+..
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KEL 153 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKEL 153 (279)
T ss_pred hcccceechhhhhHHHHHHHHHH
Confidence 35699999999999887755443
No 8
>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=16.59 E-value=3e+02 Score=23.26 Aligned_cols=44 Identities=25% Similarity=0.283 Sum_probs=25.4
Q ss_pred hhhhHHHHHHHHHHHHHHHhh-----hhhhhCCCcchhchhHHHhhcCC
Q 019003 181 AKQYMGILRRRQARAKAELEK-----KLIKVRKPYLHESRHQHAMRRAR 224 (347)
Q Consensus 181 aKQY~rIlrRRq~Rak~e~~~-----kl~k~rk~YlHESRH~HAm~R~R 224 (347)
..++.+|+++--+++...+.. .....+.--.|-=||.+|..-.+
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~ 171 (196)
T cd01183 123 SAQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDLA 171 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHHH
Confidence 456777887765555433221 01112345589999999976543
No 9
>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=13.51 E-value=1.3e+02 Score=32.46 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=12.3
Q ss_pred hhhhHHHHHHHHHHH
Q 019003 181 AKQYMGILRRRQARA 195 (347)
Q Consensus 181 aKQY~rIlrRRq~Ra 195 (347)
-|.||||+|++..|+
T Consensus 231 SK~yhri~kk~k~k~ 245 (735)
T PF04615_consen 231 SKTYHRILKKEKEKE 245 (735)
T ss_pred hhHHHHHHHHHHHHh
Confidence 467999999988873
No 10
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=13.29 E-value=2.3e+02 Score=29.11 Aligned_cols=42 Identities=26% Similarity=0.267 Sum_probs=33.5
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHHhhhhhhhCCCcchhc
Q 019003 173 AQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHES 214 (347)
Q Consensus 173 ~eePvyVNaKQY~rIlrRRq~Rak~e~~~kl~k~rk~YlHES 214 (347)
...|||||-|-.--+--||..-|-..++..++..-.+|||||
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 467999999988777677777776667777777788999995
Done!