Query 028403
Match_columns 209
No_of_seqs 192 out of 1142
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 10:59:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028403.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028403hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05592 rplO 50S ribosomal pr 100.0 8.5E-50 1.8E-54 326.3 12.0 125 74-208 1-125 (146)
2 TIGR01071 rplO_bact ribosomal 100.0 8.3E-48 1.8E-52 313.0 11.4 126 75-208 1-126 (145)
3 COG0200 RplO Ribosomal protein 100.0 4.9E-40 1.1E-44 271.6 9.4 126 74-207 1-128 (152)
4 KOG0846 Mitochondrial/chloropl 100.0 2.4E-37 5.3E-42 273.0 5.9 132 69-208 17-152 (274)
5 PF00828 Ribosomal_L18e: Ribos 99.9 3.5E-25 7.6E-30 175.1 -3.1 101 100-208 3-108 (129)
6 PRK06419 rpl15p 50S ribosomal 98.9 7.1E-09 1.5E-13 85.5 9.6 105 88-208 6-124 (148)
7 PTZ00160 60S ribosomal protein 98.2 2.4E-06 5.2E-11 71.0 4.8 110 86-207 4-124 (147)
8 PRK04005 50S ribosomal protein 98.0 1.8E-06 4E-11 68.8 1.1 55 128-208 18-73 (111)
9 COG1727 RPL18A Ribosomal prote 63.5 4.6 0.0001 33.2 1.7 54 128-206 29-82 (122)
10 PF09494 Slx4: Slx4 endonuclea 19.4 46 0.001 23.6 0.5 27 150-176 21-51 (64)
No 1
>PRK05592 rplO 50S ribosomal protein L15; Reviewed
Probab=100.00 E-value=8.5e-50 Score=326.29 Aligned_cols=125 Identities=50% Similarity=0.778 Sum_probs=116.5
Q ss_pred eecCCCCCCCCCCccccccccCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCCCeEEecccccCCCCCCCCCCCeeEe
Q 028403 74 FRLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRIPKLRGIAGGMHAGLPKYVP 153 (209)
Q Consensus 74 m~L~nL~p~pGark~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~~r~GFEGGQtPLyRRlPK~RGF~ng~~~~~~~y~~ 153 (209)
|+||||+|++||++++||+|||+|||+|||||||||||+||+|+.+++||||||||||||||| |||+|. ++++|.+
T Consensus 1 m~L~~l~~~~ga~~~~kRvGRG~gsG~GkT~GrG~KGqksR~g~~~~~gFEGGQ~Pl~rrlPk-~Gf~~~---~~~~y~~ 76 (146)
T PRK05592 1 MKLNELKPAPGSRKARKRVGRGIGSGLGKTAGRGHKGQKARSGGGVRPGFEGGQMPLYRRLPK-RGFTNI---FRKEYAV 76 (146)
T ss_pred CccccCcCCCCCcCCCccEecCCCCCCCCcCCCCCCcccCCCCCCCCCccccCCCceEEEccc-CCcCCC---CcceEEE
Confidence 799999999999999999999999999999999999999999988999999999999999999 699873 5789999
Q ss_pred EechhhhhccCCCCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEEec
Q 028403 154 VNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCFHI 208 (209)
Q Consensus 154 VNL~~L~~~r~~~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~Ihi 208 (209)
|||++|+. ++++++||+++|+++++|+.+ .++|||||+|+++.++.|+.
T Consensus 77 VNL~~L~~--~~~~~~I~~~~L~~~gli~~~----~~~vKvLg~G~l~~~i~I~a 125 (146)
T PRK05592 77 VNLGDLNK--FEEGTEVTLEALKAAGLIRKN----IKGVKVLGNGELTKKLTVKA 125 (146)
T ss_pred EeHHHhhc--cCCCCeECHHHHHHCCcccCC----CcceEEEecCccccCEEEEE
Confidence 99999984 888999999999999999863 46899999999999988864
No 2
>TIGR01071 rplO_bact ribosomal protein L15, bacterial/organelle.
Probab=100.00 E-value=8.3e-48 Score=312.99 Aligned_cols=126 Identities=47% Similarity=0.722 Sum_probs=114.7
Q ss_pred ecCCCCCCCCCCccccccccCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCCCeEEecccccCCCCCCCCCCCeeEeE
Q 028403 75 RLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRIPKLRGIAGGMHAGLPKYVPV 154 (209)
Q Consensus 75 ~L~nL~p~pGark~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~~r~GFEGGQtPLyRRlPK~RGF~ng~~~~~~~y~~V 154 (209)
+||||+|+|||++++||+|||+|||+|||||||||||+||+|+.+++||||||||||||||| +||+|.+ ++++|.+|
T Consensus 1 ~l~~l~~~~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~R~g~~~~~gfEGGQ~Pl~rrlPK-~GF~~~~--~~~~~~~V 77 (145)
T TIGR01071 1 KLNELKPAKGAKKRRKRVGRGIGSGLGKTSGRGHKGQKARSGGKVRRGFEGGQMPLYRRLPK-RGFSNKR--FKKEYAEV 77 (145)
T ss_pred CcccCcCCCCCcCCCcceeCCCCCCCCCcCCCCCCcCcCCCCCCCCCeecCCCCceEEECCC-CCCCCcc--cCcceeEE
Confidence 48999999999999999999999999999999999999999989999999999999999999 6998742 57899999
Q ss_pred echhhhhccCCCCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEEec
Q 028403 155 NLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCFHI 208 (209)
Q Consensus 155 NL~~L~~~r~~~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~Ihi 208 (209)
||++|+. .++++++||+++|+++++|+.. ...|||||+|+++.++.|+.
T Consensus 78 NL~~L~~-~~~~g~~i~~~~L~~~gli~~~----~~~vKvLg~G~l~~~l~I~a 126 (145)
T TIGR01071 78 NLGKLAK-LFPNGEVVTLETLKEKGLITKK----IKFVKVLGNGKLTKPLTVKA 126 (145)
T ss_pred EHHHHhh-hhhcCCEecHHHHhhCccCcCC----CCceEEeCCCCcCcCEEEEE
Confidence 9999984 3577889999999999999752 45799999999999988864
No 3
>COG0200 RplO Ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.9e-40 Score=271.55 Aligned_cols=126 Identities=47% Similarity=0.700 Sum_probs=113.3
Q ss_pred eecCCCCCCCCCCccccccccCCCCCCCCccccCCCCCCCCCCCC-CCCcccCCCCCeEEecccccCCCCCCCCCCC-ee
Q 028403 74 FRLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPG-VRKGFEGGQMPLYRRIPKLRGIAGGMHAGLP-KY 151 (209)
Q Consensus 74 m~L~nL~p~pGark~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~-~r~GFEGGQtPLyRRlPK~RGF~ng~~~~~~-~y 151 (209)
|+|++|+|..|+++.++|+|||++||+|||+|||||||+||+|+. +++||||||||||||||| |||+| ..+.+ +|
T Consensus 1 m~l~~l~~~~G~~~~~~rvgrG~~sG~Gkt~GRG~kGqkaRsg~~~~~~gfeGgq~Pl~rrlpK-~GF~~--~~~~~~~~ 77 (152)
T COG0200 1 MRLNDLKPARGSKKTRKRVGRGIGSGLGKTGGRGHKGQKARSGHKWVRPGFEGGQMPLYRRLPK-RGFTN--SKFKKVEY 77 (152)
T ss_pred CcccccCcCCCCccccCCcccCCCCCCCCCCCCCCCCCccccCCceecceeecCCcchhhhcCC-CCCcc--ccccccce
Confidence 789999999999999999999999999999999999999999855 999999999999999999 69997 23444 89
Q ss_pred EeEechhhhhccCCCCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEEe
Q 028403 152 VPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCFH 207 (209)
Q Consensus 152 ~~VNL~~L~~~r~~~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~Ih 207 (209)
.+|||++|+ ..++++++||+++|.+.++|... .+.|||||+|+|+.+++|+
T Consensus 78 ~~vn~~~l~-~~~~~~~~v~~~~l~~~~~i~~~----~~~vKvLg~G~l~~~~~~~ 128 (152)
T COG0200 78 AVVNLGKLA-ELLPEGEEVTLASLKAAGVIRKL----KDLVKVLGNGKLTKAVPVK 128 (152)
T ss_pred eEEEHHHhh-hhccccccccHHHHhhCCeEecc----ccccEEeccCeeccceeEE
Confidence 999999998 46788999999999999999874 5679999999999555554
No 4
>KOG0846 consensus Mitochondrial/chloroplast ribosomal protein L15/L10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-37 Score=272.95 Aligned_cols=132 Identities=42% Similarity=0.728 Sum_probs=116.8
Q ss_pred CCCCeeecCCCCCCCCCCccccccccCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCCCeEEecccccCCCCCCCCCC
Q 028403 69 VTNVRFRLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRIPKLRGIAGGMHAGL 148 (209)
Q Consensus 69 ~~~~rm~L~nL~p~pGark~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~~r~GFEGGQtPLyRRlPK~RGF~ng~~~~~ 148 (209)
+..+|+.|+||+|++|+++ +||+|||++||+|||||||||||++|++ ..+.||||||||||||+||+ ||.++ ++
T Consensus 17 r~~sr~~L~dLrpn~gskk-~kR~GRg~~sG~Gkt~GrG~KGqkqR~~-~~~lGfEgGqtP~yrr~Pk~-~~~~~---~~ 90 (274)
T KOG0846|consen 17 RALSRVRLNDLRPNPGSKK-KKRKGRGISSGLGKTSGRGHKGQKQRGG-RKILGFEGGQTPLYRRFPKF-GFGNG---GR 90 (274)
T ss_pred hhhhhhhhhccCCCCCccc-ccccCCCcCCCCccccCCCCcchhhccC-CCccccccCCchhHHhcccc-ccccc---cc
Confidence 7788999999999999999 7799999999999999999999999987 44569999999999999996 99764 57
Q ss_pred CeeEeEechhhh----hccCCCCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEEec
Q 028403 149 PKYVPVNLKDIE----AAGFLEGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCFHI 208 (209)
Q Consensus 149 ~~y~~VNL~~L~----~~r~~~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~Ihi 208 (209)
++|.+++|.+|+ .++||+.++|||++|++.|+|.+. .++++|+|+++|...++.+|+|
T Consensus 91 r~~~pl~L~rlq~lID~grid~~q~Idm~tL~~~g~i~p~--~~eyGv~L~~~G~d~~~~~i~i 152 (274)
T KOG0846|consen 91 RQYLPLSLGRLQKLIDTGRIDPSQPIDMKTLKDSGLINPK--GREYGVQLTADGADEFKAKINI 152 (274)
T ss_pred ccCCcccHHHHHHHHHhcCCCccCceeHHHHHhccCCCcc--ccccCceeeccCCccccceEEE
Confidence 899999999985 589999999999999999987664 3678999999887777766665
No 5
>PF00828 Ribosomal_L18e: Ribosomal protein L18e/L15; InterPro: IPR021131 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 both L15 and L18e ribosomal proteins, which share a common structure consisting mainly of parallel beta sheets (beta-alpha-beta units) with a core of three turns of irregular (beta-beta-alpha)n superhelix [, ].; PDB: 3O58_Y 1S1I_V 3O5H_Y 3IZS_O 3IZR_R 2OTL_L 1M1K_M 3G6E_L 1VQ9_L 1YIT_L ....
Probab=99.89 E-value=3.5e-25 Score=175.09 Aligned_cols=101 Identities=37% Similarity=0.574 Sum_probs=83.0
Q ss_pred CCCccccCCCCCCCCCCC-CCCCcccCCCCCeEEecccccCCCCCCC-CCCCeeEeEechhhhhc--cCC-CCCccCHHH
Q 028403 100 QGNSCGFGMRGQKSRSGP-GVRKGFEGGQMPLYRRIPKLRGIAGGMH-AGLPKYVPVNLKDIEAA--GFL-EGDEVSLET 174 (209)
Q Consensus 100 ~GKTsGRGhKGQkaRsG~-~~r~GFEGGQtPLyRRlPK~RGF~ng~~-~~~~~y~~VNL~~L~~~--r~~-~~~~It~e~ 174 (209)
+|||||||||||++|+|+ ..+++|||||||+|||||| +||++.+. .++.+|.+|||++|+.. .+. ++.++|.+.
T Consensus 3 ~gkt~grG~kG~~~rsG~~~~~~~feggq~pl~rr~pK-~Gf~~~~~~~~~~~~~~vnL~~L~~~i~~~~~~~~~~~~~~ 81 (129)
T PF00828_consen 3 KGKTRGRGHKGGRGRSGGHKHRPGFEGGQMPLYRRLPK-RGFNNPHLRKNRREYPPVNLSKLQELIEKLKIDGTEIDGKI 81 (129)
T ss_dssp SSSSSSSSSSSSSSSTTTSSTSSHHHHHHSHHHHHSSS-SSHHHCCHCSGTCCCEEEEHHHHHHHTTTSSSSSCECTTSE
T ss_pred CCccCcccCCCCCCCCCCCCCCchhcccccccccccCc-ccccccccccCcceeEeeeHHHHHHHHHhccccccccCCce
Confidence 699999999999999997 7889999999999999999 69987432 13468999999999841 111 112789999
Q ss_pred HHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEEec
Q 028403 175 LKKKGLINPSGRERKLPLKVQDTIIVVLFVCFHI 208 (209)
Q Consensus 175 L~~~glI~~~~~~~~~~VKILg~Gelt~~l~Ihi 208 (209)
|++.+++ . +.+||||+|+++.++.|+.
T Consensus 82 ~~~~~~~-~------~~~KvLg~G~l~~~l~I~a 108 (129)
T PF00828_consen 82 LVDAGLI-K------GYVKVLGKGELTKPLTIKA 108 (129)
T ss_dssp EEECCEE-S------SEEEEESSSSSSSSEEEEE
T ss_pred eeecccc-c------cceeeeccCCcccceEEEE
Confidence 9999988 2 5799999999999988864
No 6
>PRK06419 rpl15p 50S ribosomal protein L15P; Reviewed
Probab=98.93 E-value=7.1e-09 Score=85.49 Aligned_cols=105 Identities=17% Similarity=0.176 Sum_probs=63.5
Q ss_pred cccccccCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCCCeE--------EecccccCCCCCCCCCCCeeEeEechhh
Q 028403 88 RGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLY--------RRIPKLRGIAGGMHAGLPKYVPVNLKDI 159 (209)
Q Consensus 88 ~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~~r~GFEGGQtPLy--------RRlPK~RGF~ng~~~~~~~y~~VNL~~L 159 (209)
++.|.=||. .|||+|..|+..-+|..--.|--||+-.-+ --+|| +||++.+ ..+.+|.+|||++|
T Consensus 6 ~k~rk~RG~-----~t~G~G~~~~~R~~G~~GGrG~aG~~~h~~~~~~k~~p~~fpK-~GF~~~~-~~~~~~~~INL~~L 78 (148)
T PRK06419 6 KKSRKLRGS-----RTHGGGTHKNHRGAGSRGGRGMAGRHKHKWTWVVKYGPDWYGK-HGFKRPP-KLIKEVSTINVGEL 78 (148)
T ss_pred ccccCCCcC-----CCcCCCCcCcCCCCCCCCCCcccCCCcccceEeeeeCCCCCCC-CCccCCC-cCcceeeeEEHHHH
Confidence 344555662 456666655543333222234555542211 13789 6999742 22478999999999
Q ss_pred hhccCCCCCccCHHHHHHCCCCCCCC-----C-CCCCCeEEEcCCeeeeeEEEec
Q 028403 160 EAAGFLEGDEVSLETLKKKGLINPSG-----R-ERKLPLKVQDTIIVVLFVCFHI 208 (209)
Q Consensus 160 ~~~r~~~~~~It~e~L~~~glI~~~~-----~-~~~~~VKILg~Gelt~~l~Ihi 208 (209)
+. + ++.|.+.+++.... + .....+||||+|+++.++.|+.
T Consensus 79 ~~--l-------~~~l~~~g~i~~~~~~~vid~~~~g~~KVLG~G~l~~pl~Vka 124 (148)
T PRK06419 79 DE--L-------ADLLKAEGKAEEEDGKIVVDLTELGYDKVLGGGKVTRPLVIKA 124 (148)
T ss_pred HH--h-------HHHHHHCCcccccCCcceeeeccCCceEEeCCCccCcCEEEEE
Confidence 74 2 25677777775421 0 0124799999999999888864
No 7
>PTZ00160 60S ribosomal protein L27a; Provisional
Probab=98.17 E-value=2.4e-06 Score=70.95 Aligned_cols=110 Identities=23% Similarity=0.189 Sum_probs=62.0
Q ss_pred CccccccccCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCCCeEEecccc-------cCCCCCCCCCCCee--EeEec
Q 028403 86 RKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRIPKL-------RGIAGGMHAGLPKY--VPVNL 156 (209)
Q Consensus 86 rk~rKRvGRG~gSG~GKTsGRGhKGQkaRsG~~~r~GFEGGQtPLyRRlPK~-------RGF~ng~~~~~~~y--~~VNL 156 (209)
++++.|.=||. .|||.|..||.. .- .--.|..|||-.-+..+-|+ .||+.. +..+.++ .+|||
T Consensus 4 r~kK~rK~RG~-----rt~G~G~~gkhR-~~-~GGrG~AG~~kH~~~~~~ky~p~~fGK~Gfr~~-~~~~~~~~~~~INl 75 (147)
T PTZ00160 4 RFKKCRKMRGH-----VSHGYGRVGKHR-KH-PGGRGNAGGQHHHRINFDKYHPGYFGKVGMRHF-HLKKNKYYCPTINV 75 (147)
T ss_pred ccccccCCCCC-----CccCCCCCCCCC-CC-CCCCcccCCCcceEEEeeecCCCccCCCCccCC-ccccccccCceeEH
Confidence 34445566873 789999888763 21 11258999997766665554 466542 3334455 89999
Q ss_pred hhhhhccCCCCCccCHHH-HHHCCCCCCCCCCCCCCeEEEcCCee-eeeEEEe
Q 028403 157 KDIEAAGFLEGDEVSLET-LKKKGLINPSGRERKLPLKVQDTIIV-VLFVCFH 207 (209)
Q Consensus 157 ~~L~~~r~~~~~~It~e~-L~~~glI~~~~~~~~~~VKILg~Gel-t~~l~Ih 207 (209)
++|+.. +++........ --++-+|... ....+||||+|++ +.++.|.
T Consensus 76 ~~L~~l-v~~~~~~~~a~~~~~~~vIDl~---~~g~~KVLG~G~l~~~~v~Vk 124 (147)
T PTZ00160 76 DKLWSL-VPEETRYKYAKKGDKAPVIDVT---KAGYFKVLGKGHLPKQPVIVK 124 (147)
T ss_pred HHHHHH-hHHHHHHhhhhccCCceEEEee---ccCceEEecCCeEcCccEEEE
Confidence 999741 11100000000 0011122221 1235999999999 6677775
No 8
>PRK04005 50S ribosomal protein L18e; Provisional
Probab=98.01 E-value=1.8e-06 Score=68.76 Aligned_cols=55 Identities=25% Similarity=0.371 Sum_probs=42.7
Q ss_pred CCeEEecccccCCCCCCCCCCCeeEeEechhhhhccCC-CCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEE
Q 028403 128 MPLYRRIPKLRGIAGGMHAGLPKYVPVNLKDIEAAGFL-EGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCF 206 (209)
Q Consensus 128 tPLyRRlPK~RGF~ng~~~~~~~y~~VNL~~L~~~r~~-~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~I 206 (209)
-|||+|+|| | +. ..+.+|.+|||++|+. +. ++++|+ .++||||+|+++.++.|
T Consensus 18 ~~~~~~v~~-r-l~----~~r~~y~vVNL~~L~~--~~~~~~vv~------------------~~~KVLg~G~l~k~l~V 71 (111)
T PRK04005 18 APIWKDVAE-R-LE----KPRRRRAEVNLSKINR--YAKEGDTVV------------------VPGKVLGSGKLDHKVTV 71 (111)
T ss_pred CcHHHHHHH-H-Hh----CCCCccceEEHHHHHh--hccCCCEEE------------------EeeEEEcCceEcCCEEE
Confidence 489999999 5 43 2467999999999983 53 555553 26899999999999887
Q ss_pred ec
Q 028403 207 HI 208 (209)
Q Consensus 207 hi 208 (209)
+.
T Consensus 72 ~a 73 (111)
T PRK04005 72 AA 73 (111)
T ss_pred EE
Confidence 63
No 9
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=63.52 E-value=4.6 Score=33.18 Aligned_cols=54 Identities=24% Similarity=0.252 Sum_probs=33.7
Q ss_pred CCeEEecccccCCCCCCCCCCCeeEeEechhhhhccCCCCCccCHHHHHHCCCCCCCCCCCCCCeEEEcCCeeeeeEEE
Q 028403 128 MPLYRRIPKLRGIAGGMHAGLPKYVPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKVQDTIIVVLFVCF 206 (209)
Q Consensus 128 tPLyRRlPK~RGF~ng~~~~~~~y~~VNL~~L~~~r~~~~~~It~e~L~~~glI~~~~~~~~~~VKILg~Gelt~~l~I 206 (209)
-|+++.+-+ |=+ ..+..|++|||+.|+.. ..++++| +| +=||||+|.+..++.|
T Consensus 29 a~iwk~vae-rL~-----~prr~ra~VnlsKI~r~-ak~~d~v---------vV---------pGkVLg~g~l~~kVtV 82 (122)
T COG1727 29 APIWKDVAE-RLE-----KPRRNRAEVNVSKINRY-AKEGDTV---------VV---------PGKVLGDGKLDKKVTV 82 (122)
T ss_pred CHHHHHHHH-HHh-----cccccCCceeHHHHHhh-cCCCCEE---------EE---------eeeEecCcccccceEE
Confidence 356666666 322 13678999999999741 2233322 22 3489999988777765
No 10
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=19.42 E-value=46 Score=23.55 Aligned_cols=27 Identities=33% Similarity=0.532 Sum_probs=16.8
Q ss_pred eeEeEechhhhh----ccCCCCCccCHHHHH
Q 028403 150 KYVPVNLKDIEA----AGFLEGDEVSLETLK 176 (209)
Q Consensus 150 ~y~~VNL~~L~~----~r~~~~~~It~e~L~ 176 (209)
.|+||+|++|.. ..++....|+...|.
T Consensus 21 ~YePI~L~el~~~L~~~g~~~~~~~~~~~l~ 51 (64)
T PF09494_consen 21 MYEPINLEELHAWLKASGIGFDRKVDPSKLK 51 (64)
T ss_pred cCCCccHHHHHHHHHHcCCCccceeCHHHHH
Confidence 599999999963 122223366666553
Done!