Query 026474
Match_columns 238
No_of_seqs 149 out of 205
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 08:27:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026474.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026474hhsearch_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 2.9E-44 6.2E-49 324.9 9.9 120 84-208 126-248 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 1.9E-38 4.1E-43 233.1 5.9 62 141-202 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 5.5E-36 1.2E-40 217.7 4.4 57 143-199 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 2E-21 4.3E-26 172.1 3.4 67 142-210 157-223 (248)
5 PF06203 CCT: CCT motif; Inte 78.6 2.9 6.3E-05 29.6 3.2 27 177-204 19-45 (45)
6 KOG1561 CCAAT-binding factor, 69.9 1.2 2.6E-05 41.8 -0.6 47 156-207 14-60 (307)
7 PF15046 DUF4532: Protein of u 31.5 52 0.0011 31.1 3.4 49 142-201 131-196 (279)
8 TIGR02976 phageshock_pspB phag 18.5 86 0.0019 24.0 1.8 28 1-28 1-28 (75)
9 PF02162 XYPPX: XYPPX repeat ( 18.1 1E+02 0.0022 17.9 1.6 13 107-119 2-14 (15)
10 PRK09458 pspB phage shock prot 17.4 91 0.002 24.3 1.8 28 1-28 1-28 (75)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=2.9e-44 Score=324.86 Aligned_cols=120 Identities=48% Similarity=0.783 Sum_probs=102.6
Q ss_pred cccccccC-CCCCCCCCcccccccCCCCCCCCCCCCCCCcchhhhhcccc-CCCCCCCCCCC-CceeechhhhHHHHHHH
Q 026474 84 AGHAMAPA-AYPYPDPYYRSIFAPYDAQPYPPQPYGGQPMVHLQLMGIQQ-AGVPLPTDAVE-EPVFVNAKQYHGILRRR 160 (238)
Q Consensus 84 ~ghs~a~~-~yPY~Dpyygg~~aaY~~q~~~~~~y~~q~m~h~q~~G~~~-~r~pLp~~~~e-ePvyVNaKQY~rIlRRR 160 (238)
..|..+++ .+||.+|||+|++..++ +|.+++.. .+++|++||.+ .|+|||.++.| |||||||||||||||||
T Consensus 126 ~~~~~~~~s~~~~~~p~~~g~~~~~~--~y~~~~~~---~~~~q~~g~~~~~r~pLP~~~~e~ePl~VNaKQY~~IlrRR 200 (307)
T KOG1561|consen 126 SMSPANNTSGNPITSPHYRGVLDMSG--AYSGQPTN---TASTQYSGPVPHDRTPLPQTDSETEPLYVNAKQYHRILRRR 200 (307)
T ss_pred ccccccccccCCCCCCcccceecccc--cccCCCCc---cccccccCCCCcCcccCCccccCCCceeEcHHHHHHHHHHH
Confidence 34444544 48999999999999544 22222332 36779999988 99999999877 99999999999999999
Q ss_pred HHHHHHHhhhhhhhcCCCcccchhhHHHhhccCCCCCcccccccchhh
Q 026474 161 QSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNENQ 208 (238)
Q Consensus 161 q~RaklE~~~kl~k~RKpYLHESRH~HAm~R~RG~gGRFL~~k~~~~~ 208 (238)
++|||||+++||+|.||||||||||+|||||+||+||||||+||.+++
T Consensus 201 q~RaKlEa~~klik~RkpYLHESRH~HAmkR~RG~GGRFln~k~~~~~ 248 (307)
T KOG1561|consen 201 QARAKLEATTKLIKARKPYLHESRHLHAMKRARGEGGRFLNTKEYHDD 248 (307)
T ss_pred HHHhhhhhcccchhhcCccccchhhHHHhhcccCCCCCCCchhhhhhh
Confidence 999999999999999999999999999999999999999999997655
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=1.9e-38 Score=233.08 Aligned_cols=62 Identities=76% Similarity=1.183 Sum_probs=60.1
Q ss_pred CCCCceeechhhhHHHHHHHHHHHHHHhhhhhhhcCCCcccchhhHHHhhccCCCCCccccc
Q 026474 141 AVEEPVFVNAKQYHGILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNS 202 (238)
Q Consensus 141 ~~eePvyVNaKQY~rIlRRRq~RaklE~~~kl~k~RKpYLHESRH~HAm~R~RG~gGRFL~~ 202 (238)
++|+|||||||||++|||||++|||+|+++|+++.||||||||||+|||+|+||+||||||+
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 36899999999999999999999999999999999999999999999999999999999985
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=5.5e-36 Score=217.71 Aligned_cols=57 Identities=75% Similarity=1.184 Sum_probs=56.3
Q ss_pred CCceeechhhhHHHHHHHHHHHHHHhhhhh-hhcCCCcccchhhHHHhhccCCCCCcc
Q 026474 143 EEPVFVNAKQYHGILRRRQSRAKAESENKV-LKSRKPYLHESRHLHALRRARGCGGRF 199 (238)
Q Consensus 143 eePvyVNaKQY~rIlRRRq~RaklE~~~kl-~k~RKpYLHESRH~HAm~R~RG~gGRF 199 (238)
|+|||||||||++|||||++|||||+++|+ ++.||||||||||+|||+|+||+||||
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=99.83 E-value=2e-21 Score=172.07 Aligned_cols=67 Identities=39% Similarity=0.490 Sum_probs=61.1
Q ss_pred CCCceeechhhhHHHHHHHHHHHHHHhhhhhhhcCCCcccchhhHHHhhccCCCCCcccccccchhhhc
Q 026474 142 VEEPVFVNAKQYHGILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNENQQK 210 (238)
Q Consensus 142 ~eePvyVNaKQY~rIlRRRq~RaklE~~~kl~k~RKpYLHESRH~HAm~R~RG~gGRFL~~k~~~~~~~ 210 (238)
..+|.|||+|||++|++||-+|++||.. |.-.|..|||||||+|||+|+|+++||||++.|.+..+.
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~~--~~~~r~~ylHesrhkham~r~r~ptgrfLtasEi~~ln~ 223 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDDS--VSAGRAFYLHESRHKHAMLRVRDPTGRFLTASEIDPLNL 223 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHHH--hhhhhhhccccchhhhhhhcccCCCcceecHHhhhhhhh
Confidence 4789999999999999999999999985 556777799999999999999999999999999987753
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=78.57 E-value=2.9 Score=29.57 Aligned_cols=27 Identities=37% Similarity=0.401 Sum_probs=23.2
Q ss_pred CCcccchhhHHHhhccCCCCCccccccc
Q 026474 177 KPYLHESRHLHALRRARGCGGRFLNSKK 204 (238)
Q Consensus 177 KpYLHESRH~HAm~R~RG~gGRFL~~k~ 204 (238)
|.-.+++|..=|..|+|-. |||++.++
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 4677899999999999997 99987654
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=69.91 E-value=1.2 Score=41.78 Aligned_cols=47 Identities=49% Similarity=0.841 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhhhhhhhcCCCcccchhhHHHhhccCCCCCcccccccchh
Q 026474 156 ILRRRQSRAKAESENKVLKSRKPYLHESRHLHALRRARGCGGRFLNSKKNEN 207 (238)
Q Consensus 156 IlRRRq~RaklE~~~kl~k~RKpYLHESRH~HAm~R~RG~gGRFL~~k~~~~ 207 (238)
+++++..+++.+.. -.....+|+++|+.+.|.+ +.+++|++..+.+.
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 67777777776654 4567889999999999999 88999998444443
No 7
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=31.54 E-value=52 Score=31.10 Aligned_cols=49 Identities=35% Similarity=0.586 Sum_probs=32.6
Q ss_pred CCCceeechhhhHHHHHHHHH------HHHHHhhhhh-----------hhcCCCcccchhhHHHhhccCCCCCcccc
Q 026474 142 VEEPVFVNAKQYHGILRRRQS------RAKAESENKV-----------LKSRKPYLHESRHLHALRRARGCGGRFLN 201 (238)
Q Consensus 142 ~eePvyVNaKQY~rIlRRRq~------RaklE~~~kl-----------~k~RKpYLHESRH~HAm~R~RG~gGRFL~ 201 (238)
.+.||||++++=+.++.|=.+ |.|+.+|.|+ ++.=|+| ||+.| ||||-.
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KELkE~~kLKLRSe~RvPPlD~~GNIlPP~nFkky----~h~sa-------ggr~~p 196 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKELKEFEKLKLRSEARVPPLDAQGNILPPENFKKY----RHISA-------GGRFEP 196 (279)
T ss_pred hcccceechhhhhHHHHHHHHHHhhhHhhhhhhhccCCCcCCCCCCcCchhhccc----ccccC-------CceecC
Confidence 468999999999888877554 3445555443 3455667 44443 999943
No 8
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=18.46 E-value=86 Score=24.04 Aligned_cols=28 Identities=25% Similarity=0.299 Sum_probs=22.2
Q ss_pred CcchhhhhhhhhhHHhhhhhhhhhhhhh
Q 026474 1 MSLKLFATSLTSILLVVLPDLSCRFYMR 28 (238)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~ 28 (238)
|+.-.++.-++.++++|.|+...-||..
T Consensus 1 m~~~fl~~Pliif~ifVap~wl~lHY~~ 28 (75)
T TIGR02976 1 MSIFFLAIPLIIFVIFVAPLWLILHYRS 28 (75)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5666678888888999999988877763
No 9
>PF02162 XYPPX: XYPPX repeat (two copies); InterPro: IPR006031 This repeat is found in a wide variety of proteins and generally consists of the motif XYPPX where X can be any amino acid. The family includes annexin VII ANX7_DICDI, the carboxy tail of certain rhodopsins OPSD_LOLSU. This family also includes plaque matrix proteins, however this motif is embedded in a ten residue repeat in FP1_MYTED. The molecular function of this repeat is unknown. It is also not clear is all the members of this family share a common evolutionary ancestor due to its short length and biased amino acid composition.
Probab=18.05 E-value=1e+02 Score=17.86 Aligned_cols=13 Identities=54% Similarity=0.953 Sum_probs=7.6
Q ss_pred CCCCCCCCCCCCC
Q 026474 107 YDAQPYPPQPYGG 119 (238)
Q Consensus 107 Y~~q~~~~~~y~~ 119 (238)
|-+|.|+||.|..
T Consensus 2 ~ppqG~pPQ~~Pp 14 (15)
T PF02162_consen 2 YPPQGYPPQGYPP 14 (15)
T ss_pred CCCcCCCCCCCCC
Confidence 4556666666643
No 10
>PRK09458 pspB phage shock protein B; Provisional
Probab=17.40 E-value=91 Score=24.34 Aligned_cols=28 Identities=32% Similarity=0.320 Sum_probs=23.4
Q ss_pred CcchhhhhhhhhhHHhhhhhhhhhhhhh
Q 026474 1 MSLKLFATSLTSILLVVLPDLSCRFYMR 28 (238)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~ 28 (238)
|+.-+|+.-++..+++|.|+...=||--
T Consensus 1 m~~~fl~~PliiF~ifVaPiWL~LHY~s 28 (75)
T PRK09458 1 MSALFLAIPLTIFVLFVAPIWLWLHYRS 28 (75)
T ss_pred CcchHHHHhHHHHHHHHHHHHHHHhhcc
Confidence 5667788889999999999998888853
Done!