Query 035537
Match_columns 178
No_of_seqs 138 out of 249
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:50:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035537hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0829 60S ribosomal protein 100.0 1.9E-95 4E-100 589.2 11.8 169 7-178 1-169 (169)
2 PF01775 Ribosomal_L18ae: Ribo 100.0 1.5E-72 3.3E-77 441.5 12.2 124 6-129 1-124 (124)
3 PRK00773 rplX 50S ribosomal pr 100.0 3.6E-34 7.7E-39 208.0 6.4 73 74-146 2-74 (76)
4 COG2157 RPL20A Ribosomal prote 100.0 2.8E-30 6E-35 191.4 6.0 84 69-152 2-85 (85)
5 PRK00773 rplX 50S ribosomal pr 51.6 32 0.00069 25.0 4.3 60 6-68 2-61 (76)
6 KOG0704 ADP-ribosylation facto 44.7 33 0.0007 32.2 4.2 43 46-90 6-49 (386)
7 COG3500 Phage protein D [Gener 34.5 18 0.00039 33.5 0.9 40 106-154 122-161 (350)
8 KOG0149 Predicted RNA-binding 33.7 32 0.00069 30.6 2.2 24 57-80 36-59 (247)
9 COG5347 GTPase-activating prot 33.3 38 0.00083 30.8 2.7 40 50-90 10-50 (319)
10 PHA03066 Hypothetical protein; 32.8 30 0.00065 27.3 1.7 22 70-91 60-81 (110)
11 COG0509 GcvH Glycine cleavage 25.8 28 0.0006 28.1 0.5 27 56-82 75-104 (131)
12 KOG0126 Predicted RNA-binding 25.7 80 0.0017 27.5 3.3 30 58-88 60-89 (219)
13 COG1727 RPL18A Ribosomal prote 25.3 15 0.00032 29.5 -1.1 25 48-72 90-114 (122)
14 COG5242 TFB4 RNA polymerase II 23.2 48 0.001 29.7 1.5 42 78-120 75-127 (296)
15 COG5614 Bacteriophage head-tai 21.8 91 0.002 24.6 2.6 27 113-142 74-100 (109)
16 PF06129 Chordopox_G3: Chordop 21.6 63 0.0014 25.4 1.7 14 78-91 67-80 (109)
17 cd03749 proteasome_alpha_type_ 20.1 1.5E+02 0.0031 24.4 3.7 35 92-126 170-208 (211)
No 1
>KOG0829 consensus 60S ribosomal protein L18A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-95 Score=589.25 Aligned_cols=169 Identities=64% Similarity=1.057 Sum_probs=165.7
Q ss_pred EEEEEEeecCCCCCCCCCceEEEEeeecCceeeehhhHHHHHHHhhhhccCcceEEEEEeccCCCceeeeeeEEEEEecC
Q 035537 7 HQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAINEIFEKNPTKIKNYGIWLRYQSR 86 (178)
Q Consensus 7 ~eY~Vvgr~lPt~k~p~p~ly~m~iFApn~vvAKSrFWyfl~~l~K~Kk~~GeIv~~~~i~Ek~p~~vKNfGIwlrY~Sr 86 (178)
+||+|+||+||||++|.|+||+|+|||||||+|||||||||+||+||||++||||+|+||+|++|+.|||||||||||||
T Consensus 1 kEY~VvGr~lPTe~~p~p~l~~m~ifa~N~V~AKsrfwyfl~~l~KvKks~Geiv~i~qi~E~~p~~vkNfGIwlrYdSR 80 (169)
T KOG0829|consen 1 KEYQVVGRALPTEKEPTPKLYRMRIFAPNHVVAKSRFWYFLSKLKKVKKSSGEIVAINQIFEKSPLKVKNFGIWLRYDSR 80 (169)
T ss_pred CceEEeeeecCCCCCCCCceEEEEEeccceeehhHHHHHHHHHHHHHhhcCceEEEeceecCCCCceeeeeEEEEEEccC
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcceecceeeccCChhhHHHHHHHHhhhccccCCCCceEEEeeeeCCCccCCccccccccCCCcCcccccccCCCCcccc
Q 035537 87 TGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPSRKLR 166 (178)
Q Consensus 87 sgthNmyKEyRdlt~~gAV~q~Y~dmgsRHrar~~sIqIikVeeI~~~e~rrp~vkQf~~~kikFPl~~r~~~~~~~~~~ 166 (178)
||||||||||||+|.+|||||||+|||||||||+++||||+|+||++++|+|+.+|||||++|+||||||++.. +.+
T Consensus 81 sG~HNmYkEyRd~t~~gAV~q~y~dMaaRhRar~~~I~Iikv~~v~a~~~kR~~vkqFhd~kikFPL~~rv~~~---k~~ 157 (169)
T KOG0829|consen 81 SGTHNMYKEYRDTTRVGAVEQCYRDMAARHRARFRSIQIIKVAEVPAEDCKRAYVKQFHDSKIKFPLPHRVVNR---KSK 157 (169)
T ss_pred CcchHHHHHHHHhhhhhHHHHHHHHHHHHhhhcccceeEEEEeeeeHHHhchHHHHHhhccCcccccccccccc---ccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998866 557
Q ss_pred CceeecCCCCCC
Q 035537 167 TTYKATRPNLFM 178 (178)
Q Consensus 167 ~~F~~~rP~t~~ 178 (178)
++|++.||||||
T Consensus 158 ~~fs~~rP~tf~ 169 (169)
T KOG0829|consen 158 KTFSTKRPSTFF 169 (169)
T ss_pred cccccCCCcccC
Confidence 899999999997
No 2
>PF01775 Ribosomal_L18ae: Ribosomal L18ae/LX protein domain; InterPro: IPR023573 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 [, ]. This entry represents the eukaryotic 60S ribosomal protein L18ae [] and the archaea 50S ribosomal protein LX. Rat ribosomal protein L18 is homologous to Xenopus laevis L14 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A1D_X 4A1B_X 4A18_X 4A19_X 2JXT_A 3IZR_S 3IZS_S.
Probab=100.00 E-value=1.5e-72 Score=441.46 Aligned_cols=124 Identities=64% Similarity=1.124 Sum_probs=112.4
Q ss_pred eEEEEEEeecCCCCCCCCCceEEEEeeecCceeeehhhHHHHHHHhhhhccCcceEEEEEeccCCCceeeeeeEEEEEec
Q 035537 6 FHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAINEIFEKNPTKIKNYGIWLRYQS 85 (178)
Q Consensus 6 l~eY~Vvgr~lPt~k~p~p~ly~m~iFApn~vvAKSrFWyfl~~l~K~Kk~~GeIv~~~~i~Ek~p~~vKNfGIwlrY~S 85 (178)
|+||+|+||+||||++|+|+||+|+|||||+|+|||||||||+||+|+||++||||+|++|+|++|+.||||||||+|||
T Consensus 1 l~ey~vvgr~lpt~k~~~p~iy~m~ifa~n~vvAkSrfwy~~~~~~K~Kk~~geiv~~~~i~ek~p~~VKnfgI~lry~s 80 (124)
T PF01775_consen 1 LKEYQVVGRKLPTEKEPNPPIYRMRIFAPNHVVAKSRFWYFLRKLKKMKKTSGEIVSCKEIFEKNPTKVKNFGIWLRYDS 80 (124)
T ss_dssp -EEEEEEEEETT-STTS---EEEEEEEESSHHHHHHHHHHHHHHCTS--STTEEEEEEEEE-SSSTTS-EEEEEEEEEEE
T ss_pred CeEEEEEEecCCCCCCCCCCeEEEEEecCCcEEEEhhHHHHHHHHHhhhcccceEEEeEcccCCCCcceeEEEEEEEEec
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceecceeeccCChhhHHHHHHHHhhhccccCCCCceEEEee
Q 035537 86 RTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQIIKTA 129 (178)
Q Consensus 86 rsgthNmyKEyRdlt~~gAV~q~Y~dmgsRHrar~~sIqIikVe 129 (178)
|+|+|||||||||+|++|||||||+||||||++|+++|||++|+
T Consensus 81 r~g~~nfyKEyra~s~~~Aveq~YsdmGSrHrvkr~~I~I~~Ve 124 (124)
T PF01775_consen 81 RSGTHNFYKEYRALSENGAVEQVYSDMGSRHRVKRSSIQIIKVE 124 (124)
T ss_dssp SSCEEEEEEEEEESCHHHHHHHHHHHHHHTTT--GGGEEEEEEE
T ss_pred CCccEEEEEEeccCCHHHHHHHHHHHhhhhhCCCccceEEEEeC
Confidence 99999999999999999999999999999999999999999996
No 3
>PRK00773 rplX 50S ribosomal protein LX; Validated
Probab=100.00 E-value=3.6e-34 Score=208.01 Aligned_cols=73 Identities=19% Similarity=0.351 Sum_probs=71.8
Q ss_pred eeeeeEEEEEecCCcceecceeeccCChhhHHHHHHHHhhhccccCCCCceEEEeeeeCCCccCCcccccccc
Q 035537 74 IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQIIKTATIPAKLCKRESTKQFHN 146 (178)
Q Consensus 74 vKNfGIwlrY~SrsgthNmyKEyRdlt~~gAV~q~Y~dmgsRHrar~~sIqIikVeeI~~~e~rrp~vkQf~~ 146 (178)
+||||||++|+||+|+|||||||||++++|||||||+||||||++++++|+|++|+||+++||+||+++||+.
T Consensus 2 ~k~f~V~g~~~~~~~~~~f~Ke~ra~~~~~Ave~~Ys~~gSrH~~kr~~I~I~~V~ei~~~e~~~~~vkq~~~ 74 (76)
T PRK00773 2 MKIYRVKGTFLAGDEWQKFTKEVRALNEKDALEKVYSLFGSKHKVKRTQIKIEEVSEISPEEAEDPRVRELAK 74 (76)
T ss_pred ceEEEEEEEEEcCCCeEEEEEEEecCCHHHHHHHHHHHHHhhcCCCcccEEEEEEEEeCHHHcCCHHHHHHhh
Confidence 7999999999999999999999999999999999999999999999999999999999999999999999974
No 4
>COG2157 RPL20A Ribosomal protein L20A (L18A) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2.8e-30 Score=191.42 Aligned_cols=84 Identities=31% Similarity=0.601 Sum_probs=81.6
Q ss_pred CCCceeeeeeEEEEEecCCcceecceeeccCChhhHHHHHHHHhhhccccCCCCceEEEeeeeCCCccCCccccccccCC
Q 035537 69 KNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQIIKTATIPAKLCKRESTKQFHNSK 148 (178)
Q Consensus 69 k~p~~vKNfGIwlrY~SrsgthNmyKEyRdlt~~gAV~q~Y~dmgsRHrar~~sIqIikVeeI~~~e~rrp~vkQf~~~k 148 (178)
..|..++|+|||+.|||++|+||||||+||+++++|+|.+||||||||++++++|+|++|+||+++|+.||.|+||++.+
T Consensus 2 ~~~K~f~V~G~~~~~~~~~~~~kf~Kevra~~e~~AiE~vYS~~gsrhkvkR~~I~I~~V~Ei~pedv~d~~vk~L~~~~ 81 (85)
T COG2157 2 PMPKIFRVKGIWIFYDSRSGWHKFTKEVRALKEEDAIEKVYSDFGSRHKVKRSSIKIEEVEEIEPEDVEDPVVKRLLTED 81 (85)
T ss_pred CcceEEEEeeEEEEecCCCcceehhHHhhhcCHHHHHHHHHHHhhhhccccccceeEEEEEecChhhcccHHHHHHhccc
Confidence 45778999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcCc
Q 035537 149 IKFP 152 (178)
Q Consensus 149 ikFP 152 (178)
++||
T Consensus 82 ~~~~ 85 (85)
T COG2157 82 LKFP 85 (85)
T ss_pred ccCC
Confidence 9998
No 5
>PRK00773 rplX 50S ribosomal protein LX; Validated
Probab=51.64 E-value=32 Score=25.05 Aligned_cols=60 Identities=23% Similarity=0.306 Sum_probs=50.7
Q ss_pred eEEEEEEeecCCCCCCCCCceEEEEeeecCceeeehhhHHHHHHHhhhhccCcceEEEEEecc
Q 035537 6 FHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAINEIFE 68 (178)
Q Consensus 6 l~eY~Vvgr~lPt~k~p~p~ly~m~iFApn~vvAKSrFWyfl~~l~K~Kk~~GeIv~~~~i~E 68 (178)
++.|.|.|+-.... .+.=|.=-+=|+|+-.|-.+-.--|--.+++|.++=+|+.+.+|.+
T Consensus 2 ~k~f~V~g~~~~~~---~~~~f~Ke~ra~~~~~Ave~~Ys~~gSrH~~kr~~I~I~~V~ei~~ 61 (76)
T PRK00773 2 MKIYRVKGTFLAGD---EWQKFTKEVRALNEKDALEKVYSLFGSKHKVKRTQIKIEEVSEISP 61 (76)
T ss_pred ceEEEEEEEEEcCC---CeEEEEEEEecCCHHHHHHHHHHHHHhhcCCCcccEEEEEEEEeCH
Confidence 57899999966433 3455666677999999999999999999999999999999999954
No 6
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=44.69 E-value=33 Score=32.20 Aligned_cols=43 Identities=26% Similarity=0.332 Sum_probs=30.1
Q ss_pred HHHHHhhhhccCcceEEEEEeccCCCcee-eeeeEEEEEecCCcce
Q 035537 46 FLRKLKKVKKSNGQMLAINEIFEKNPTKI-KNYGIWLRYQSRTGYH 90 (178)
Q Consensus 46 fl~~l~K~Kk~~GeIv~~~~i~Ek~p~~v-KNfGIwlrY~Srsgth 90 (178)
-+|.|..+|+..+- =-|=+.--++|.-| =+||||++-+ |||.|
T Consensus 6 trr~L~~lkp~deN-k~CfeC~a~NPQWvSvsyGIfICLE-CSG~H 49 (386)
T KOG0704|consen 6 TRRVLLELKPQDEN-KKCFECGAPNPQWVSVSYGIFICLE-CSGKH 49 (386)
T ss_pred HHHHHHhcCccccC-CceeecCCCCCCeEeecccEEEEEe-cCCcc
Confidence 35777777774322 34556667899998 6899999988 45555
No 7
>COG3500 Phage protein D [General function prediction only]
Probab=34.53 E-value=18 Score=33.54 Aligned_cols=40 Identities=23% Similarity=0.382 Sum_probs=32.9
Q ss_pred HHHHHHhhhccccCCCCceEEEeeeeCCCccCCccccccccCCCcCccc
Q 035537 106 EQMYTEMASRHRVRSPCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLV 154 (178)
Q Consensus 106 ~q~Y~dmgsRHrar~~sIqIikVeeI~~~e~rrp~vkQf~~~kikFPl~ 154 (178)
..+-+|||++|.... .|++.++.-|+|-|.-.|++-|.+-
T Consensus 122 sdi~~eIAa~hgLt~---------av~~t~~~~~~idQ~~ESD~~FL~r 161 (350)
T COG3500 122 SDIASEIAAEHGLTA---------AVSATQVAHPHIDQYYESDINFLLR 161 (350)
T ss_pred HHHHHHHHHHcCCcc---------ccccccccchhhhhcccccHHHHHH
Confidence 445689999999954 4566888899999999999999763
No 8
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=33.65 E-value=32 Score=30.56 Aligned_cols=24 Identities=29% Similarity=0.451 Sum_probs=22.3
Q ss_pred CcceEEEEEeccCCCceeeeeeEE
Q 035537 57 NGQMLAINEIFEKNPTKIKNYGIW 80 (178)
Q Consensus 57 ~GeIv~~~~i~Ek~p~~vKNfGIw 80 (178)
=||||...-|-++++.+=|+||-.
T Consensus 36 fGeI~eavvitd~~t~rskGyGfV 59 (247)
T KOG0149|consen 36 FGEIVEAVVITDKNTGRSKGYGFV 59 (247)
T ss_pred hCceEEEEEEeccCCccccceeeE
Confidence 499999999999999999999964
No 9
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=33.26 E-value=38 Score=30.81 Aligned_cols=40 Identities=30% Similarity=0.331 Sum_probs=28.2
Q ss_pred HhhhhccCcceEEEEEeccCCCcee-eeeeEEEEEecCCcce
Q 035537 50 LKKVKKSNGQMLAINEIFEKNPTKI-KNYGIWLRYQSRTGYH 90 (178)
Q Consensus 50 l~K~Kk~~GeIv~~~~i~Ek~p~~v-KNfGIwlrY~Srsgth 90 (178)
+.+..+...+=-.|-..--.+|..+ =||||+||-| |+|.|
T Consensus 10 ~l~~l~~~~~Nk~CaDCga~~P~W~S~nlGvfiCi~-CagvH 50 (319)
T COG5347 10 LLKLLKSDSSNKKCADCGAPNPTWASVNLGVFLCID-CAGVH 50 (319)
T ss_pred HHHHHhhccccCccccCCCCCCceEecccCeEEEee-cchhh
Confidence 3333444445566777777888887 7999999988 56777
No 10
>PHA03066 Hypothetical protein; Provisional
Probab=32.75 E-value=30 Score=27.30 Aligned_cols=22 Identities=18% Similarity=0.279 Sum_probs=16.9
Q ss_pred CCceeeeeeEEEEEecCCccee
Q 035537 70 NPTKIKNYGIWLRYQSRTGYHN 91 (178)
Q Consensus 70 ~p~~vKNfGIwlrY~SrsgthN 91 (178)
+|...-.=-||+.|||++|+.-
T Consensus 60 ~~~~~~~~~v~~~Yds~~~~Vt 81 (110)
T PHA03066 60 DPETVISTQVNTYYNSSIGTVT 81 (110)
T ss_pred CCCCcccceEEEEEcCcCCeEE
Confidence 4555556679999999999864
No 11
>COG0509 GcvH Glycine cleavage system H protein (lipoate-binding) [Amino acid transport and metabolism]
Probab=25.80 E-value=28 Score=28.12 Aligned_cols=27 Identities=30% Similarity=0.726 Sum_probs=23.4
Q ss_pred cCcceEEEEEeccCCCceeee--ee-EEEE
Q 035537 56 SNGQMLAINEIFEKNPTKIKN--YG-IWLR 82 (178)
Q Consensus 56 ~~GeIv~~~~i~Ek~p~~vKN--fG-Iwlr 82 (178)
-+||||.+|+-.+++|..|.. || =||.
T Consensus 75 vsGeVvevN~~l~~~PeliN~dPyg~gWi~ 104 (131)
T COG0509 75 VSGEVVEVNEALVDSPELINSDPYGEGWIV 104 (131)
T ss_pred CceeEEEechhhhcChhhhccCCCCCceEE
Confidence 579999999999999999966 88 4765
No 12
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=25.74 E-value=80 Score=27.49 Aligned_cols=30 Identities=30% Similarity=0.544 Sum_probs=25.5
Q ss_pred cceEEEEEeccCCCceeeeeeEEEEEecCCc
Q 035537 58 GQMLAINEIFEKNPTKIKNYGIWLRYQSRTG 88 (178)
Q Consensus 58 GeIv~~~~i~Ek~p~~vKNfGIwlrY~Srsg 88 (178)
||||.++-|.+++.++-|+|.- |+|.....
T Consensus 60 Ge~vdinLiRDk~TGKSKGFaF-LcYEDQRS 89 (219)
T KOG0126|consen 60 GEIVDINLIRDKKTGKSKGFAF-LCYEDQRS 89 (219)
T ss_pred CceEEEEEEecCCCCcccceEE-EEecCccc
Confidence 9999999999999999999974 88864433
No 13
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=25.34 E-value=15 Score=29.45 Aligned_cols=25 Identities=28% Similarity=0.616 Sum_probs=22.2
Q ss_pred HHHhhhhccCcceEEEEEeccCCCc
Q 035537 48 RKLKKVKKSNGQMLAINEIFEKNPT 72 (178)
Q Consensus 48 ~~l~K~Kk~~GeIv~~~~i~Ek~p~ 72 (178)
.-..|+.++.||++.+.|+.|++|.
T Consensus 90 ~A~~KI~~aGGe~~tl~el~e~nPk 114 (122)
T COG1727 90 TAREKIEEAGGECLTLEELAERNPK 114 (122)
T ss_pred HHHHHHHHcCCeEeeHHHHHHHCCC
Confidence 3457999999999999999999995
No 14
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=23.20 E-value=48 Score=29.72 Aligned_cols=42 Identities=19% Similarity=0.428 Sum_probs=32.3
Q ss_pred eEEEEEecCCc-----------ceecceeeccCChhhHHHHHHHHhhhccccCC
Q 035537 78 GIWLRYQSRTG-----------YHNMYKEYRDTTLNGAVEQMYTEMASRHRVRS 120 (178)
Q Consensus 78 GIwlrY~Srsg-----------thNmyKEyRdlt~~gAV~q~Y~dmgsRHrar~ 120 (178)
|+-.-|+|-.. --|||+.||.+... .|+.+|+-|.+-|+.-+
T Consensus 75 ~~~yLypss~s~~k~se~e~tr~sd~yrrfr~vde~-~i~eiyrl~e~~~k~sq 127 (296)
T COG5242 75 GKTYLYPSSESALKASESENTRNSDMYRRFRNVDET-DITEIYRLIEHPHKNSQ 127 (296)
T ss_pred ceEEeccCcchhhhhhcccCccchhhhhhhcccchH-HHHHHHHHHhCcccccc
Confidence 56666776443 34899999999876 47899999999998543
No 15
>COG5614 Bacteriophage head-tail adaptor [General function prediction only]
Probab=21.82 E-value=91 Score=24.59 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=18.5
Q ss_pred hhccccCCCCceEEEeeeeCCCccCCcccc
Q 035537 113 ASRHRVRSPCIQIIKTATIPAKLCKRESTK 142 (178)
Q Consensus 113 gsRHrar~~sIqIikVeeI~~~e~rrp~vk 142 (178)
|+|-+... +|+.|.-+++.|+++.++-
T Consensus 74 ~~Ri~~~~---RilnI~~v~~pd~~r~~le 100 (109)
T COG5614 74 ASRLHVLS---RILNIVGVPDPDVTGGRLE 100 (109)
T ss_pred eeEEEEcC---eeEEEEecCChhHhCcEEE
Confidence 34444433 8888888888888876653
No 16
>PF06129 Chordopox_G3: Chordopoxvirus G3 protein; InterPro: IPR010367 This family consists of several poxvirus specific G3 proteins. The function of this family is unknown.
Probab=21.63 E-value=63 Score=25.38 Aligned_cols=14 Identities=36% Similarity=0.544 Sum_probs=11.3
Q ss_pred eEEEEEecCCccee
Q 035537 78 GIWLRYQSRTGYHN 91 (178)
Q Consensus 78 GIwlrY~SrsgthN 91 (178)
-+|+.|||++|+.-
T Consensus 67 ~v~l~Yds~~~~Vt 80 (109)
T PF06129_consen 67 QVILYYDSRSGTVT 80 (109)
T ss_pred ceEEEEccCCCeEE
Confidence 47799999999653
No 17
>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=20.11 E-value=1.5e+02 Score=24.44 Aligned_cols=35 Identities=11% Similarity=0.293 Sum_probs=25.1
Q ss_pred cceeeccCChhhHHHHHHHHhhhccc----cCCCCceEE
Q 035537 92 MYKEYRDTTLNGAVEQMYTEMASRHR----VRSPCIQII 126 (178)
Q Consensus 92 myKEyRdlt~~gAV~q~Y~dmgsRHr----ar~~sIqIi 126 (178)
-|+++.|+|.++|++.+.+-+..... ....+|.|-
T Consensus 170 ~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ 208 (211)
T cd03749 170 HFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIA 208 (211)
T ss_pred hhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEE
Confidence 34444499999999999998887765 444555543
Done!