Query 046689
Match_columns 203
No_of_seqs 39 out of 41
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 03:28:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046689.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046689hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04411 Ribosomal_P1_P2_L12p R 50.1 7.2 0.00016 30.7 0.7 10 173-182 93-102 (105)
2 PF01214 CK_II_beta: Casein ki 50.0 9.7 0.00021 32.5 1.5 61 55-120 98-160 (184)
3 smart00545 JmjN Small domain f 48.2 9.3 0.0002 25.8 0.9 20 2-23 23-42 (42)
4 PTZ00396 Casein kinase II subu 40.6 21 0.00046 32.2 2.3 64 54-122 118-183 (251)
5 PF07583 PSCyt2: Protein of un 40.6 11 0.00025 32.6 0.6 14 60-73 173-186 (208)
6 PF09026 CENP-B_dimeris: Centr 38.2 7.8 0.00017 31.1 -0.7 9 175-183 36-44 (101)
7 PTZ00373 60S Acidic ribosomal 36.3 16 0.00034 29.4 0.7 10 173-182 99-108 (112)
8 cd05833 Ribosomal_P2 Ribosomal 32.1 20 0.00043 28.5 0.6 10 173-182 96-105 (109)
9 PF11845 DUF3365: Protein of u 30.3 18 0.00039 29.0 0.1 68 7-74 84-159 (188)
10 PLN00138 large subunit ribosom 29.1 25 0.00055 28.1 0.8 11 173-183 100-110 (113)
11 PF03153 TFIIA: Transcription 25.5 37 0.0008 30.7 1.3 14 174-187 324-337 (375)
12 COG2015 Alkyl sulfatase and re 25.2 46 0.00099 33.8 1.9 20 181-201 116-141 (655)
13 cd05831 Ribosomal_P1 Ribosomal 23.6 38 0.00082 26.5 0.8 11 173-183 91-101 (103)
14 KOG1762 60s acidic ribosomal p 23.3 52 0.0011 26.9 1.6 9 174-182 102-110 (114)
15 PF00428 Ribosomal_60s: 60s Ac 22.9 35 0.00076 25.3 0.5 9 174-182 77-85 (88)
16 PF04931 DNA_pol_phi: DNA poly 21.1 62 0.0013 32.6 2.0 7 118-124 627-633 (784)
No 1
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=50.08 E-value=7.2 Score=30.66 Aligned_cols=10 Identities=20% Similarity=0.797 Sum_probs=7.5
Q ss_pred CcccCCccce
Q 046689 173 NDEDQDVMGY 182 (203)
Q Consensus 173 ~~eeeddm~f 182 (203)
++|+||||||
T Consensus 93 ~eE~dddmgf 102 (105)
T cd04411 93 EEEEDEDFGF 102 (105)
T ss_pred ccccccccCc
Confidence 4556789998
No 2
>PF01214 CK_II_beta: Casein kinase II regulatory subunit; InterPro: IPR000704 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Casein kinase, a ubiquitous, well-conserved protein kinase involved in cell metabolism and differentiation, is characterised by its preference for Ser or Thr in acidic stretches of amino acids. The enzyme is a tetramer of 2 alpha- and 2 beta-subunits [, ]. However, some species (e.g., mammals) possess 2 related forms of the alpha-subunit (alpha and alpha'), while others (e.g., fungi) possess 2 related beta-subunits (beta and beta') []. The alpha-subunit is the catalytic unit and contains regions characteristic of serine/threonine protein kinases. The beta-subunit is believed to be regulatory, possessing an N-terminal auto-phosphorylation site, an internal acidic domain, and a potential metal-binding motif []. The beta subunit is a highly conserved protein of about 25kDa that contains, in its central section, a cysteine-rich motif, CX(n)C, that could be involved in binding a metal such as zinc []. The mammalian beta-subunit gene promoter shares common features with those of other mammalian protein kinases and is closely related to the promoter of the regulatory subunit of cAMP-dependent protein kinase [].; GO: 0019887 protein kinase regulator activity, 0005956 protein kinase CK2 complex; PDB: 2R6M_B 1RQF_K 1DS5_G 1QF8_B 3EED_A 4DGL_A 1JWH_D.
Probab=50.03 E-value=9.7 Score=32.50 Aligned_cols=61 Identities=21% Similarity=0.293 Sum_probs=35.6
Q ss_pred ccccCCccccccCCCCcccccCCCCCceeeeecc--CCccccceeeEEEEecCCCCCCCCCccHHHHH
Q 046689 55 FTGKCGRARCVDCHMHPACKSKDKTKGTHKLINS--RGLVSNYKMITWRVVDGRPGLNFSGLSATEML 120 (203)
Q Consensus 55 ~tgkc~r~rc~~Ch~~P~~KSr~K~KGr~K~~~~--~Dv~snh~L~~WRV~~~~~~~~~~G~SA~~~L 120 (203)
.=|+|.|+.|.++++.|..-|-.=++.+.|+.=+ +||..... .....++| .|.|.|---+|
T Consensus 98 ~FG~CPRv~C~~~~lLPiGlsd~~g~~~vKlyCP~C~dvY~p~~-~~~~~iDG----A~FG~sFph~f 160 (184)
T PF01214_consen 98 DFGRCPRVYCNGQPLLPIGLSDTPGESTVKLYCPRCKDVYHPPS-SRHSNIDG----AYFGPSFPHLF 160 (184)
T ss_dssp TT-B-SBGGGTT-B-EEEBS-SSTTS-BBEEEETTTTEEE--SS-GGGTTSBG----GGTTSSHHHHH
T ss_pred cCCcCCcccCCCCceeCccCCCCCCccceeEECCCCccccCCCC-ccccceec----cccCCccHHHH
Confidence 4589999999999999999886556788888633 67775411 11234466 57777755554
No 3
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=48.15 E-value=9.3 Score=25.79 Aligned_cols=20 Identities=25% Similarity=0.860 Sum_probs=17.3
Q ss_pred cccccccceEEEeeeCCCCCCC
Q 046689 2 RREGRQHGMVRTYRIAPSPWNP 23 (203)
Q Consensus 2 rREGrQhG~VR~y~ilp~p~np 23 (203)
++.|.+-|+|++ +.|+.|+|
T Consensus 23 ~~~~~~yGi~KI--vPP~~w~p 42 (42)
T smart00545 23 RPQAEKYGICKV--VPPKSWKP 42 (42)
T ss_pred HHHHhhCCEEEE--ECCCCCCc
Confidence 567999999999 88888876
No 4
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=40.57 E-value=21 Score=32.17 Aligned_cols=64 Identities=20% Similarity=0.219 Sum_probs=45.5
Q ss_pred cccccCCccccccCCCCcccccCCCCCceeeeecc--CCccccceeeEEEEecCCCCCCCCCccHHHHHHh
Q 046689 54 KFTGKCGRARCVDCHMHPACKSKDKTKGTHKLINS--RGLVSNYKMITWRVVDGRPGLNFSGLSATEMLDH 122 (203)
Q Consensus 54 k~tgkc~r~rc~~Ch~~P~~KSr~K~KGr~K~~~~--~Dv~snh~L~~WRV~~~~~~~~~~G~SA~~~L~~ 122 (203)
..-|+|.|+.|.+|+..|.--|-.=+..+.|+.=+ +||+.... ......+| .|.|.|---||..
T Consensus 118 g~FG~CPRv~C~~q~~LPvGlSd~~g~~~VKlyCP~C~DvY~p~s-~~~~~iDG----A~FGtsFph~fl~ 183 (251)
T PTZ00396 118 GKFGHCPRVLCEGQNVLPIGLSDVLKTSRVKVYCPRCQEVYHPKK-SSLLDIDG----AFFGTSFPHLFLM 183 (251)
T ss_pred CCCCCCCCccCCCCcccccccCCCcCcCceeEeCCCchhhcCCCC-cccccccc----ceecCcHHHHHHH
Confidence 44599999999999999998887777888888633 68885332 22224577 6778886665433
No 5
>PF07583 PSCyt2: Protein of unknown function (DUF1549); InterPro: IPR011444 The function is not known. It is found associated with IPR022655 from INTERPRO. It is also found associated with the Planctomycete cytochrome C domain IPR011429 from INTERPRO.
Probab=40.55 E-value=11 Score=32.55 Aligned_cols=14 Identities=43% Similarity=0.876 Sum_probs=11.6
Q ss_pred CccccccCCCCccc
Q 046689 60 GRARCVDCHMHPAC 73 (203)
Q Consensus 60 ~r~rc~~Ch~~P~~ 73 (203)
-+..|..||.||-.
T Consensus 173 ~~l~CAqCHdHpfd 186 (208)
T PF07583_consen 173 VRLQCAQCHDHPFD 186 (208)
T ss_pred cccchhhccCCCCC
Confidence 56789999999953
No 6
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=38.22 E-value=7.8 Score=31.07 Aligned_cols=9 Identities=22% Similarity=0.246 Sum_probs=0.0
Q ss_pred ccCCcccee
Q 046689 175 EDQDVMGYY 183 (203)
Q Consensus 175 eeeddm~fc 183 (203)
+|++.+..|
T Consensus 36 ee~de~p~p 44 (101)
T PF09026_consen 36 EEEDEVPVP 44 (101)
T ss_dssp ---------
T ss_pred cccccccch
Confidence 333344433
No 7
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=36.31 E-value=16 Score=29.42 Aligned_cols=10 Identities=30% Similarity=0.930 Sum_probs=7.2
Q ss_pred CcccCCccce
Q 046689 173 NDEDQDVMGY 182 (203)
Q Consensus 173 ~~eeeddm~f 182 (203)
++|++|||||
T Consensus 99 ~ee~ddDmgf 108 (112)
T PTZ00373 99 EEEEEDDLGF 108 (112)
T ss_pred cccccccccc
Confidence 3456778998
No 8
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=32.11 E-value=20 Score=28.47 Aligned_cols=10 Identities=40% Similarity=0.880 Sum_probs=7.2
Q ss_pred CcccCCccce
Q 046689 173 NDEDQDVMGY 182 (203)
Q Consensus 173 ~~eeeddm~f 182 (203)
++|++|||||
T Consensus 96 eee~ddDmGf 105 (109)
T cd05833 96 EEESDDDMGF 105 (109)
T ss_pred ccccccccCC
Confidence 3345889998
No 9
>PF11845 DUF3365: Protein of unknown function (DUF3365); InterPro: IPR021796 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 198 to 657 amino acids in length.
Probab=30.34 E-value=18 Score=28.95 Aligned_cols=68 Identities=19% Similarity=0.383 Sum_probs=34.2
Q ss_pred ccceEEEeeeCCCCCCCCC-----CccccccCCCCCCccceeeecC--CCCCCcccccc-CCccccccCCCCcccc
Q 046689 7 QHGMVRTYRIAPSPWNPRP-----DARTVNKFDSPPTCGLFTKVSQ--RPTNHSKFTGK-CGRARCVDCHMHPACK 74 (203)
Q Consensus 7 QhG~VR~y~ilp~p~np~~-----~~r~v~~~~sp~~~g~f~~v~~--Kptnhsk~tgk-c~r~rc~~Ch~~P~~K 74 (203)
+.|.++.-+.-..|.||.. ..++++.+...+..+.|..... ....+=++..- =-..-|..||..|...
T Consensus 84 ~~g~~~~r~~S~~prNp~n~pd~~E~~~L~~f~~~~~~e~~~~~~~~~~g~~~~ry~~pi~~~~~CL~CHg~~~~~ 159 (188)
T PF11845_consen 84 KSGNYSFRRVSLKPRNPENKPDEFEKEALEQFEKNPEDEYFEYVEVEINGKPYFRYARPIRVEESCLSCHGDPDQA 159 (188)
T ss_pred hccceEEEecccCCCCcCCCCCHHHHHHHHHHHhCCCcCcceeeeeccCCCceEEEEeehhcchHHHHccCCcccc
Confidence 3455555555568889874 4456666665553333332211 11111111100 0134699999977543
No 10
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=29.13 E-value=25 Score=28.12 Aligned_cols=11 Identities=36% Similarity=0.739 Sum_probs=7.7
Q ss_pred CcccCCcccee
Q 046689 173 NDEDQDVMGYY 183 (203)
Q Consensus 173 ~~eeeddm~fc 183 (203)
++|+||||||=
T Consensus 100 eeE~ddDmGfg 110 (113)
T PLN00138 100 KEESDDDMGFS 110 (113)
T ss_pred ccccccccccc
Confidence 34567799983
No 11
>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.
Probab=25.50 E-value=37 Score=30.67 Aligned_cols=14 Identities=21% Similarity=0.010 Sum_probs=5.8
Q ss_pred cccCCccceeEEee
Q 046689 174 DEDQDVMGYYDVAF 187 (203)
Q Consensus 174 ~eeeddm~fc~VG~ 187 (203)
++++++++-+||.+
T Consensus 324 ~~~~~~~~~~~~c~ 337 (375)
T PF03153_consen 324 DEDDFDTDNVVLCQ 337 (375)
T ss_dssp ----STTS-EEEEE
T ss_pred cccccCcCCEEEEE
Confidence 34555677777755
No 12
>COG2015 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.19 E-value=46 Score=33.79 Aligned_cols=20 Identities=40% Similarity=0.923 Sum_probs=16.4
Q ss_pred ceeEE-ee-----ecccCCCcceEEee
Q 046689 181 GYYDV-AF-----DQVNEEDEGWCLLG 201 (203)
Q Consensus 181 ~fc~V-G~-----e~~d~gdEdW~vv~ 201 (203)
+.|.| || -|++ ||-+||||.
T Consensus 116 ~iYQVRG~DisNITfve-Gdtg~IViD 141 (655)
T COG2015 116 GIYQVRGFDISNITFVE-GDTGWIVID 141 (655)
T ss_pred ceeEeecccccceEEEc-CCcceEEEc
Confidence 56777 77 7888 999999985
No 13
>cd05831 Ribosomal_P1 Ribosomal protein P1. This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and
Probab=23.58 E-value=38 Score=26.47 Aligned_cols=11 Identities=36% Similarity=0.679 Sum_probs=7.9
Q ss_pred CcccCCcccee
Q 046689 173 NDEDQDVMGYY 183 (203)
Q Consensus 173 ~~eeeddm~fc 183 (203)
++|++|||||-
T Consensus 91 eee~d~dmgfg 101 (103)
T cd05831 91 EEESDDDMGFG 101 (103)
T ss_pred ccccccccccc
Confidence 44578999983
No 14
>KOG1762 consensus 60s acidic ribosomal protein P1 [Translation, ribosomal structure and biogenesis]
Probab=23.29 E-value=52 Score=26.91 Aligned_cols=9 Identities=44% Similarity=0.944 Sum_probs=6.6
Q ss_pred cccCCccce
Q 046689 174 DEDQDVMGY 182 (203)
Q Consensus 174 ~eeeddm~f 182 (203)
+|-+|||||
T Consensus 102 eesddDmgf 110 (114)
T KOG1762|consen 102 EESDDDMGF 110 (114)
T ss_pred ccccccccc
Confidence 446778998
No 15
>PF00428 Ribosomal_60s: 60s Acidic ribosomal protein; InterPro: IPR001813 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The 60S acidic ribosomal protein plays an important role in the elongation step of protein synthesis. This family includes archaebacterial L12, eukaryotic P0, P1 and P2 []. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Alt a 6, Alt a 12, Cla h 3, Cla h 4 and Cla h 12.; GO: 0003735 structural constituent of ribosome, 0006414 translational elongation, 0005622 intracellular, 0005840 ribosome; PDB: 3A1Y_C 3N2D_B 2LBF_A 3IZS_t 3IZR_t 1S4J_A 2JDL_C 2W1O_B 1S4H_A 2ZKR_g.
Probab=22.91 E-value=35 Score=25.31 Aligned_cols=9 Identities=44% Similarity=1.025 Sum_probs=6.1
Q ss_pred cccCCccce
Q 046689 174 DEDQDVMGY 182 (203)
Q Consensus 174 ~eeeddm~f 182 (203)
+|+++||||
T Consensus 77 EEed~dmGf 85 (88)
T PF00428_consen 77 EEEDDDMGF 85 (88)
T ss_dssp SS-SSSSST
T ss_pred cccccccCc
Confidence 467789996
No 16
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=21.07 E-value=62 Score=32.63 Aligned_cols=7 Identities=43% Similarity=0.496 Sum_probs=4.4
Q ss_pred HHHHhhc
Q 046689 118 EMLDHLA 124 (203)
Q Consensus 118 ~~L~~La 124 (203)
.||+-|.
T Consensus 627 ~ll~vl~ 633 (784)
T PF04931_consen 627 LLLDVLD 633 (784)
T ss_pred HHHHHhc
Confidence 3477776
Done!