Query 019446
Match_columns 341
No_of_seqs 123 out of 196
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 09:32:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019446.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019446hhsearch_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 2.5E-40 5.4E-45 313.6 14.4 199 22-220 16-250 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 3.2E-36 7E-41 230.4 5.6 62 151-212 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 5.7E-34 1.2E-38 215.8 4.4 57 153-209 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 1E-19 2.3E-24 167.8 9.0 85 131-217 133-220 (248)
5 PF06203 CCT: CCT motif; Inte 54.3 17 0.00037 27.0 3.2 25 186-211 18-42 (45)
6 KOG1561 CCAAT-binding factor, 43.1 7.1 0.00015 38.6 -0.3 46 164-214 12-57 (307)
7 PF15046 DUF4532: Protein of u 22.9 90 0.0019 31.0 3.4 21 153-173 132-152 (279)
8 KOG2796 Uncharacterized conser 14.8 1.9E+02 0.0041 29.6 3.7 47 147-193 278-324 (366)
9 cd01183 INT_SG1_C INT_SG1, DNA 13.8 3.8E+02 0.0082 22.5 4.8 44 160-203 123-171 (196)
10 PF04615 Utp14: Utp14 protein; 12.6 1.4E+02 0.003 32.1 2.2 15 160-174 231-245 (735)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=2.5e-40 Score=313.59 Aligned_cols=199 Identities=34% Similarity=0.453 Sum_probs=127.3
Q ss_pred CCCCccccccccCCCCCCcccccccCCCCCC--CCCCCCCCccccccccccccCCCCCC-CCcccccccccccccc----
Q 019446 22 NSFTISSQPWWRGVGHDSTSRAMLQGGIGNI--SSPREPINGVLVAKTSKSQVNSGMDG-GADATKEMLMSVASQA---- 94 (341)
Q Consensus 22 ~p~sv~S~PWW~~~G~~~~~~a~~g~~~s~~--ssS~E~png~~~s~~~ks~s~g~~~~-~~d~~k~sq~t~~~qs---- 94 (341)
.-..+...|||+.++....+.....+-..++ +.....++|.....+....+-+..+. .+.+.+++|++....+
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 3456678999998888765554444333333 22222225544433333222222222 2334477777766555
Q ss_pred cCCCCCCCCCcc-----cccccCCCCc---------ccC---CCCCcc--------ccccccc--ccCCCCCCCC-CCCC
Q 019446 95 DGKFGGQQPSQH-----SVSLMHPQFS---------EYL---TQPSQL--------ELVGHSI--VHPQSMGVHS-ARMA 146 (341)
Q Consensus 95 ~g~~g~~q~~q~-----~~S~~~~~~~---------~~~---~~~~ql--------el~gh~i--~~~q~~G~~~-~r~~ 146 (341)
...++....... ....+++.+. -+. .+.|.+ .|.++.. ..++..||.. .|++
T Consensus 96 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~s~~~~~~p~~~g~~~~~~~y~~~~~~~~~~q~~g~~~~~r~p 175 (307)
T KOG1561|consen 96 VEGYADSNDSRPSSISNSSESPAPINSATASMSPANNTSGNPITSPHYRGVLDMSGAYSGQPTNTASTQYSGPVPHDRTP 175 (307)
T ss_pred ccccccccccccccccccccccCcccccccccccccccccCCCCCCcccceecccccccCCCCccccccccCCCCcCccc
Confidence 333333211100 0110111110 000 000110 2333433 4567789988 9999
Q ss_pred CCCCCCC-CceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhchhHHhhhccCCCCCcccccccCCccCC
Q 019446 147 LPLEMAE-EPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNTKKLDSQTS 220 (341)
Q Consensus 147 LP~e~~e-ePiyVNaKQY~rIlrRRq~Rak~e~e~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~kk~~~~~~ 220 (341)
||.++.+ ||||||||||+||||||++|||+|+++||+|.||||||||||+|||||+||+||||||+|+.+++.+
T Consensus 176 LP~~~~e~ePl~VNaKQY~~IlrRRq~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ss 250 (307)
T KOG1561|consen 176 LPQTDSETEPLYVNAKQYHRILRRRQARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDDSS 250 (307)
T ss_pred CCccccCCCceeEcHHHHHHHHHHHHHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhhcc
Confidence 9999876 9999999999999999999999999999999999999999999999999999999999999777654
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=3.2e-36 Score=230.38 Aligned_cols=62 Identities=79% Similarity=1.159 Sum_probs=60.1
Q ss_pred CCCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhchhHHhhhccCCCCCccccc
Q 019446 151 MAEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNT 212 (341)
Q Consensus 151 ~~eePiyVNaKQY~rIlrRRq~Rak~e~e~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~ 212 (341)
++++|||||||||++|||||++|||+|++++|++.||||||||||+|||+|+||+|||||++
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=5.7e-34 Score=215.79 Aligned_cols=57 Identities=81% Similarity=1.174 Sum_probs=56.2
Q ss_pred CCceeecchhhHHHHHHHHHHHHHHHhhhh-hhcCCCcchhchhHHhhhccCCCCCcc
Q 019446 153 EEPVYVNAKQYHGILRRRQLRAKAELERKL-IKVRKPYLHESRHLHAMRRARGCGGRF 209 (341)
Q Consensus 153 eePiyVNaKQY~rIlrRRq~Rak~e~e~kl-~k~rk~YlHESRH~HAm~R~Rg~gGRF 209 (341)
++|||||||||++|||||++|||+|+++++ ++.||+|||||||+|||+|+||+||||
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=99.80 E-value=1e-19 Score=167.83 Aligned_cols=85 Identities=38% Similarity=0.493 Sum_probs=70.6
Q ss_pred ccccCCCCCCCCCCCCCCCC-C--CCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhchhHHhhhccCCCCC
Q 019446 131 SIVHPQSMGVHSARMALPLE-M--AEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGG 207 (341)
Q Consensus 131 ~i~~~q~~G~~~~r~~LP~e-~--~eePiyVNaKQY~rIlrRRq~Rak~e~e~kl~k~rk~YlHESRH~HAm~R~Rg~gG 207 (341)
++++...+|........|.. . .++|.|||||||++|++||-+|++ ++.+|+-.|..|||||||+|||+|+|+++|
T Consensus 133 ~~~~qs~n~~ns~~~tt~~~~~p~sfqp~Yvnakq~n~i~kr~~~r~~--ld~~~~~~r~~ylHesrhkham~r~r~ptg 210 (248)
T COG5224 133 SFATQSTNGNNSTTTTTSSAAHPGSFQPDYVNAKQGNEISKRPGLRVY--LDDSVSAGRAFYLHESRHKHAMLRVRDPTG 210 (248)
T ss_pred hhhhhccccCCccccccccccCccccCcchhhhhhhhHHhcchhHHHH--HHHHhhhhhhhccccchhhhhhhcccCCCc
Confidence 34666677777777776653 2 479999999999999999999988 556777788889999999999999999999
Q ss_pred cccccccCCc
Q 019446 208 RFVNTKKLDS 217 (341)
Q Consensus 208 RFl~~kk~~~ 217 (341)
|||.+...+.
T Consensus 211 rfLtasEi~~ 220 (248)
T COG5224 211 RFLTASEIDP 220 (248)
T ss_pred ceecHHhhhh
Confidence 9997666554
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=54.33 E-value=17 Score=27.01 Aligned_cols=25 Identities=44% Similarity=0.454 Sum_probs=21.5
Q ss_pred CCCcchhchhHHhhhccCCCCCcccc
Q 019446 186 RKPYLHESRHLHAMRRARGCGGRFVN 211 (341)
Q Consensus 186 rk~YlHESRH~HAm~R~Rg~gGRFl~ 211 (341)
-|.-.+++|..=|..|+|-. |||+.
T Consensus 18 ~kkirY~~Rk~~A~~R~Rvk-GRFvk 42 (45)
T PF06203_consen 18 EKKIRYESRKAVADKRPRVK-GRFVK 42 (45)
T ss_pred cccCCcchHHHHHhhCCccC-CcccC
Confidence 34577899999999999986 99994
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=43.12 E-value=7.1 Score=38.64 Aligned_cols=46 Identities=52% Similarity=0.862 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhhcCCCcchhchhHHhhhccCCCCCccccccc
Q 019446 164 HGILRRRQLRAKAELERKLIKVRKPYLHESRHLHAMRRARGCGGRFVNTKK 214 (341)
Q Consensus 164 ~rIlrRRq~Rak~e~e~kl~k~rk~YlHESRH~HAm~R~Rg~gGRFl~~kk 214 (341)
+-+++++..+++.. ++-.....+||++|+.+.|.| +.+++|++..+
T Consensus 12 ~~~~~~~~~~q~~~-~~~~~~~~~p~~~~s~~~~q~----~~s~~~~s~~g 57 (307)
T KOG1561|consen 12 VNILKRREARQKPE-ERGVQTTKKPYLHESGHKHQM----GPGGRFLSADG 57 (307)
T ss_pred cccccccccccccc-ccccccccccccCcccccccc----cccccccCccc
Confidence 33777887777533 345667899999999999999 88999997333
No 7
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=22.90 E-value=90 Score=31.02 Aligned_cols=21 Identities=14% Similarity=0.382 Sum_probs=16.9
Q ss_pred CCceeecchhhHHHHHHHHHH
Q 019446 153 EEPVYVNAKQYHGILRRRQLR 173 (341)
Q Consensus 153 eePiyVNaKQY~rIlrRRq~R 173 (341)
..||||++++=+.+|.|=.+.
T Consensus 132 ~~pif~D~~rK~qvI~rt~KE 152 (279)
T PF15046_consen 132 CTPIFVDPNRKNQVILRTVKE 152 (279)
T ss_pred cccceechhhhhHHHHHHHHH
Confidence 479999999999988765544
No 8
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=14.77 E-value=1.9e+02 Score=29.57 Aligned_cols=47 Identities=23% Similarity=0.167 Sum_probs=36.9
Q ss_pred CCCCCCCCceeecchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhc
Q 019446 147 LPLEMAEEPVYVNAKQYHGILRRRQLRAKAELERKLIKVRKPYLHES 193 (341)
Q Consensus 147 LP~e~~eePiyVNaKQY~rIlrRRq~Rak~e~e~kl~k~rk~YlHES 193 (341)
+|.--...|||||-|-.--.--||..-|-..++..++..-.+|||||
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 44334568999999998777777777777777788788889999995
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=13.78 E-value=3.8e+02 Score=22.53 Aligned_cols=44 Identities=25% Similarity=0.219 Sum_probs=25.1
Q ss_pred chhhHHHHHHHHHHHHHHHhh-----hhhhcCCCcchhchhHHhhhccC
Q 019446 160 AKQYHGILRRRQLRAKAELER-----KLIKVRKPYLHESRHLHAMRRAR 203 (341)
Q Consensus 160 aKQY~rIlrRRq~Rak~e~e~-----kl~k~rk~YlHESRH~HAm~R~R 203 (341)
..++.+|+++--.++...+.. .....+.--.|--||.+|..-.+
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~ 171 (196)
T cd01183 123 SAQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDLA 171 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHHH
Confidence 445777887765555333321 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=12.64 E-value=1.4e+02 Score=32.12 Aligned_cols=15 Identities=33% Similarity=0.718 Sum_probs=12.5
Q ss_pred chhhHHHHHHHHHHH
Q 019446 160 AKQYHGILRRRQLRA 174 (341)
Q Consensus 160 aKQY~rIlrRRq~Ra 174 (341)
-|.||||+|++..|+
T Consensus 231 SK~yhri~kk~k~k~ 245 (735)
T PF04615_consen 231 SKTYHRILKKEKEKE 245 (735)
T ss_pred hhHHHHHHHHHHHHh
Confidence 467999999988884
Done!