Query 024952
Match_columns 260
No_of_seqs 189 out of 278
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 08:46:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024952.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024952hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3163 Uncharacterized conser 100.0 3E-140 8E-145 932.6 16.5 260 1-260 1-260 (260)
2 PTZ00388 40S ribosomal protein 100.0 2E-121 5E-126 806.4 16.2 223 38-260 1-223 (223)
3 PF01201 Ribosomal_S8e: Riboso 100.0 4.4E-45 9.5E-50 302.8 -3.7 132 1-259 1-132 (132)
4 COG2007 RPS8A Ribosomal protei 100.0 4.5E-41 9.8E-46 278.2 7.8 127 1-260 1-127 (127)
5 PRK04049 30S ribosomal protein 100.0 1.2E-30 2.5E-35 216.4 7.0 70 175-259 56-125 (127)
6 TIGR00307 S8e ribosomal protei 100.0 1.2E-30 2.7E-35 216.2 7.1 70 175-259 56-125 (127)
7 PTZ00148 40S ribosomal protein 99.9 4.8E-27 1E-31 207.4 6.7 85 175-259 57-188 (205)
8 KOG3283 40S ribosomal protein 99.9 9.9E-23 2.2E-27 177.7 4.3 85 175-259 57-182 (200)
9 COG1872 Uncharacterized conser 29.0 32 0.0007 28.4 1.4 43 216-259 11-56 (102)
10 PF06815 RVT_connect: Reverse 27.3 36 0.00078 28.2 1.4 46 199-251 1-47 (102)
11 PHA01811 hypothetical protein 25.9 28 0.0006 27.4 0.5 17 3-19 22-38 (78)
12 PF04050 Upf2: Up-frameshift s 25.4 40 0.00087 28.9 1.4 28 98-125 69-98 (170)
13 PF13105 DUF3959: Protein of u 24.7 20 0.00043 33.3 -0.6 42 85-126 144-185 (239)
14 cd04477 RPA1N RPA1N: A subfami 22.6 36 0.00078 27.0 0.6 21 203-223 55-75 (97)
15 TIGR01665 put_anti_recept phag 21.5 1.4E+02 0.003 27.2 4.2 32 178-209 281-312 (317)
16 PF12158 DUF3592: Protein of u 20.3 80 0.0017 24.8 2.1 19 194-212 95-113 (148)
No 1
>KOG3163 consensus Uncharacterized conserved protein related to ribosomal protein S8E [General function prediction only]
Probab=100.00 E-value=3.5e-140 Score=932.62 Aligned_cols=260 Identities=79% Similarity=1.201 Sum_probs=259.1
Q ss_pred CCChhHHHHHHHhcCCCCChHHHHHhHHHHHHhHhhHHHHHhcccchhhhhhhhHHHHHHhHHHHHhhhhhcccCCCCCC
Q 024952 1 MPQGDYIELHRKRNGYRLDHFERKRKKEAREVHKRSEIAQKALGIKGKMFAKKRYAEKALMKKTLAMHEESSSRRKVDDE 80 (260)
Q Consensus 1 mpqne~ie~h~k~~g~rld~~er~rkk~ar~~h~~s~~a~~l~g~kakl~~k~r~~eki~mkk~i~~he~~~~k~~~~~~ 80 (260)
||||||||+|+|+||||||||||+||+|||++|.+|+.||+|+|||||||+++||+|||||||+|+||||++.+++.++.
T Consensus 1 MPQndyie~h~k~~GrRlDheerkrKkeaR~~h~~s~~Akkl~G~KaKl~~kkr~aeKiqmkK~ik~hee~~~k~~~~e~ 80 (260)
T KOG3163|consen 1 MPQNDYIERHRKRHGRRLDHEERKRKKEAREAHDRSKMAKKLRGIKAKLFAKKRYAEKIQMKKTIKMHEEKKKKQKNDEK 80 (260)
T ss_pred CCchhHHHHHHHHhccccCHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceeecccCccchhhhhHHHHHHhhhhhccccccCCccccCcchhhheeeecCccccccccccceeeeeeCCCC
Q 024952 81 VQEGAVPAYLLDRENTTRAKVLSNTIKQKRKEKAGKWEVPLPKVRPVAEDEMFKVIRSGKRRTKQWKRMVTKATFVGPGF 160 (260)
Q Consensus 81 ~~~~a~p~ylldr~~~~~ak~lsn~ikqkrkeka~k~~vplpkv~~~~e~e~fkv~~tgk~~~k~wkrmvtk~~fvg~~f 160 (260)
+++||||+||||||++++|++|||||||||+||||||+|||||||+++|+|||+||+|||+++|+|||||||+|||||+|
T Consensus 81 ~~~gavP~yLLDRe~q~~ak~ls~~iKQkRkeKa~K~~VPlPkvr~~~e~E~fkVi~tgK~k~k~WKRmvTk~tFVg~~F 160 (260)
T KOG3163|consen 81 TPQGAVPAYLLDREQQSRAKVLSNMIKQKRKEKAGKWEVPLPKVRAQSETEVFKVIRTGKRKKKAWKRMVTKVTFVGDGF 160 (260)
T ss_pred CCCCCcchhhhchhhhhHHHHHHHHHHHHHHhhcccccccCcccccccHHHHHHHHhcCccchhHHHhhhheeeeecCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcccccccccceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecce
Q 024952 161 TRKPPKYERFIRPSGLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGK 240 (260)
Q Consensus 161 trkppk~erfirp~aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGk 240 (260)
||+|||||||||||||||++|||||||+++||+++|++|++|||||+|+.+|+|||||||||||||||+||++|+||||+
T Consensus 161 TRkPpKyERfIRPm~lRfkkAhVthpEL~~Tf~LpIigvKKNP~sp~yT~LGvitkGTviEvnVseLGlVt~~GkvvWGK 240 (260)
T KOG3163|consen 161 TRKPPKYERFIRPMGLRFKKAHVTHPELKVTFCLPIIGVKKNPSSPMYTSLGVITKGTVIEVNVSELGLVTQGGKVVWGK 240 (260)
T ss_pred ccCCchHhhhhchhhhhhhhccccChhhceEEEeeeeEeccCCCCcceeecceeecceEEEEeccccceeccCceEEeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEccCCCCceeeeeEEcC
Q 024952 241 YAQVTNNPENDGCINAVLLV 260 (260)
Q Consensus 241 YAqVTSRPGQDG~iNavLLv 260 (260)
||||||+|++||||||||||
T Consensus 241 yAQvTNnPenDGciNAvLLv 260 (260)
T KOG3163|consen 241 YAQVTNNPENDGCINAVLLV 260 (260)
T ss_pred hhhccCCccccceeeeEEeC
Confidence 99999999999999999997
No 2
>PTZ00388 40S ribosomal protein S8-like; Provisional
Probab=100.00 E-value=2.2e-121 Score=806.38 Aligned_cols=223 Identities=76% Similarity=1.185 Sum_probs=221.0
Q ss_pred HHHHhcccchhhhhhhhHHHHHHhHHHHHhhhhhcccCCCCCCCCCCCCCceeecccCccchhhhhHHHHHHhhhhhccc
Q 024952 38 IAQKALGIKGKMFAKKRYAEKALMKKTLAMHEESSSRRKVDDEVQEGAVPAYLLDRENTTRAKVLSNTIKQKRKEKAGKW 117 (260)
Q Consensus 38 ~a~~l~g~kakl~~k~r~~eki~mkk~i~~he~~~~k~~~~~~~~~~a~p~ylldr~~~~~ak~lsn~ikqkrkeka~k~ 117 (260)
+||+|+||||||||++||+|||||||+|++|||++++++++++.++||||+|||||+++++||+|||||||||+||||||
T Consensus 1 ~a~~l~g~kaKl~~k~r~~eK~~mkk~ik~hee~~~k~~~~~~~~~~a~p~ylldr~~~~~ak~lsn~iKqkrkeka~k~ 80 (223)
T PTZ00388 1 KAQKLRGIKAKLFNKKRYAEKAEMKKTIKAHEEKDVKEKVPEKVPDGAVPSYLLDREQVNRAKVLSNMLKQKRKEKAGKW 80 (223)
T ss_pred CchhhhhHHHHHHhHHHHHHHHHHHHHHHHHHhhhccCCCCcCCCCCCCccceeCCCCcchhHHHHHHHHHHHHhhcccc
Confidence 48999999999999999999999999999999999999988889999999999999999999999999999999999999
Q ss_pred cccCCccccCcchhhheeeecCccccccccccceeeeeeCCCCccCCCCcccccccccceeeeEEEEcCCCCeEEEEEee
Q 024952 118 EVPLPKVRPVAEDEMFKVIRSGKRRTKQWKRMVTKATFVGPGFTRKPPKYERFIRPSGLRFTKAHVTHPELKCTFNLEII 197 (260)
Q Consensus 118 ~vplpkv~~~~e~e~fkv~~tgk~~~k~wkrmvtk~~fvg~~ftrkppk~erfirp~aLR~~kANVt~Pelk~T~klkIi 197 (260)
+||||||++|+|+|||+||+||||++|+|||||||+||||||||||||||||||||||||+++|||+||+++.|++++|+
T Consensus 81 ~vplpkv~~~~e~E~fkv~~tGk~~~k~WkRmvtk~tfvg~~ftrkppk~erfiRp~glr~~~AnVt~p~~~~t~~~kIi 160 (223)
T PTZ00388 81 DVPIPKVKAMNEDEMFKVVKSGKRKKKSWKRLVNKVTFVGEDFTRKPPKYERFIRPTGLRFKKAHVTHPELKTTFYLDII 160 (223)
T ss_pred ccccccccccCHHHHhHhhhcCCccccchhheeccceecCCCcccCCcccccccccchhhcceeEEeccccCcEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceeeeeEEcC
Q 024952 198 GVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCINAVLLV 260 (260)
Q Consensus 198 ~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~iNavLLv 260 (260)
+|++||+|++|+|+|+||||||||+|+|+||++|++|+|+||+||||||||||||||||||||
T Consensus 161 ~V~kNPan~~Ytr~nvITKGTIIEtnvselG~vt~~gkvvwgkyAqVTsrPgQDG~VNAVLLv 223 (223)
T PTZ00388 161 GVKKNPQSNLYTSLGVITKGTIIEVNVSELGLVTQTGKVVWGKYAQVTNNPENDGCINAVLLV 223 (223)
T ss_pred EEeeCCCChhhhhcCceeeeeEEEeehhhhccccccCceeeeeeEEEecCCCcCceeeEEEeC
Confidence 999999999999999999999999999999999999999999999999999999999999997
No 3
>PF01201 Ribosomal_S8e: Ribosomal protein S8e; InterPro: IPR022309 A number of eukaryotic and archaeal ribosomal proteins have been grouped based on sequence similarities []. One of these families, S8e, consists of a number of proteins with either about 220 amino acids (in eukaryotes) or about 125 amino acids (in archaea). This entry also contains proteins annotated as NSA2, which are though to be involved in ribosomal biogenesis of the 60S ribosomal subunit, having a role in the quality control of pre-60S particles. They are a component of the pre-66S ribosomal particle. ; PDB: 2KCY_A 2KCP_A 3U5G_I 3U5C_I 2KCO_A 2XZM_2 2XZN_2.
Probab=100.00 E-value=4.4e-45 Score=302.77 Aligned_cols=132 Identities=44% Similarity=0.595 Sum_probs=106.2
Q ss_pred CCChhHHHHHHHhcCCCCChHHHHHhHHHHHHhHhhHHHHHhcccchhhhhhhhHHHHHHhHHHHHhhhhhcccCCCCCC
Q 024952 1 MPQGDYIELHRKRNGYRLDHFERKRKKEAREVHKRSEIAQKALGIKGKMFAKKRYAEKALMKKTLAMHEESSSRRKVDDE 80 (260)
Q Consensus 1 mpqne~ie~h~k~~g~rld~~er~rkk~ar~~h~~s~~a~~l~g~kakl~~k~r~~eki~mkk~i~~he~~~~k~~~~~~ 80 (260)
|||++|++.|+|.+|.|+|+++++||.|++.+
T Consensus 1 M~i~~~~~~krk~tGgr~~~~rkKRK~e~Gr~------------------------------------------------ 32 (132)
T PF01201_consen 1 MGINQGIRHKRKKTGGRRDPHRKKRKYELGRP------------------------------------------------ 32 (132)
T ss_dssp --EE--CCCSEETTTEE----S---GGGEE--------------------------------------------------
T ss_pred CCcchhhhhhhCCCcCcCCHHHHhHHHHhccc------------------------------------------------
Confidence 99999999999999999999999999999877
Q ss_pred CCCCCCCceeecccCccchhhhhHHHHHHhhhhhccccccCCccccCcchhhheeeecCccccccccccceeeeeeCCCC
Q 024952 81 VQEGAVPAYLLDRENTTRAKVLSNTIKQKRKEKAGKWEVPLPKVRPVAEDEMFKVIRSGKRRTKQWKRMVTKATFVGPGF 160 (260)
Q Consensus 81 ~~~~a~p~ylldr~~~~~ak~lsn~ikqkrkeka~k~~vplpkv~~~~e~e~fkv~~tgk~~~k~wkrmvtk~~fvg~~f 160 (260)
|.|+|| +.+|+++|+++| ++.|+.|.+
T Consensus 33 ----p~~t~l--------g~~~~~~ik~~R-------------------------~rGGn~K~r---------------- 59 (132)
T PF01201_consen 33 ----PANTKL--------GEVLSNRIKQVR-------------------------VRGGNRKIR---------------- 59 (132)
T ss_dssp -------BEE--------SC-C-HEEEEEE-------------------------TSSS-EEEE----------------
T ss_pred ----ccccEE--------ccccceeEEEEE-------------------------ccCCcEeee----------------
Confidence 778888 778889999988 788888876
Q ss_pred ccCCCCcccccccccceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecce
Q 024952 161 TRKPPKYERFIRPSGLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGK 240 (260)
Q Consensus 161 trkppk~erfirp~aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGk 240 (260)
+||+++|||+||+++.|++++|++|+||||||+|+|+|+|||||||++|+||||.
T Consensus 60 --------------~lr~~~anv~~~~~~~t~k~~I~~V~~Npan~~~vR~~iitKGaII~~d~s~lg~----------- 114 (132)
T PF01201_consen 60 --------------ALRLDYANVSWPSEGKTKKVKIISVVYNPANNEYVRRNIITKGAIIETDVSELGY----------- 114 (132)
T ss_dssp --------------ECCESEEEEEETTTTEEEEEEEEEECSSSSTHHHHHTTBB-TT-EEEEESHTSSE-----------
T ss_pred --------------eeeecccEEEecccCceEEeeeEEEEEcCCChhhhhcCceecceEEEEeecccce-----------
Confidence 8999999999999999999999999999999999999999999999999999994
Q ss_pred eeEEccCCCCceeeeeEEc
Q 024952 241 YAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 241 YAqVTSRPGQDG~iNavLL 259 (260)
|+||||||||||||||||
T Consensus 115 -A~vtSRPGQdG~vnavLl 132 (132)
T PF01201_consen 115 -ARVTSRPGQDGVVNAVLL 132 (132)
T ss_dssp -EEEESEHHHHSCEEEEEE
T ss_pred -EEEEeCCCCcceeeEEEC
Confidence 999999999999999997
No 4
>COG2007 RPS8A Ribosomal protein S8E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.5e-41 Score=278.16 Aligned_cols=127 Identities=42% Similarity=0.564 Sum_probs=119.4
Q ss_pred CCChhHHHHHHHhcCCCCChHHHHHhHHHHHHhHhhHHHHHhcccchhhhhhhhHHHHHHhHHHHHhhhhhcccCCCCCC
Q 024952 1 MPQGDYIELHRKRNGYRLDHFERKRKKEAREVHKRSEIAQKALGIKGKMFAKKRYAEKALMKKTLAMHEESSSRRKVDDE 80 (260)
Q Consensus 1 mpqne~ie~h~k~~g~rld~~er~rkk~ar~~h~~s~~a~~l~g~kakl~~k~r~~eki~mkk~i~~he~~~~k~~~~~~ 80 (260)
|| +.+.+.++|-+|. +|++.|+++|
T Consensus 1 M~-~~qg~~~rk~tGg-~~~~~RkKrK----------------------------------------------------- 25 (127)
T COG2007 1 MG-IWQGRSKRKPTGG-KRHQARKKRK----------------------------------------------------- 25 (127)
T ss_pred CC-ccccccccCCccc-chhhhhhhhh-----------------------------------------------------
Confidence 88 8999999999999 8998887776
Q ss_pred CCCCCCCceeecccCccchhhhhHHHHHHhhhhhccccccCCccccCcchhhheeeecCccccccccccceeeeeeCCCC
Q 024952 81 VQEGAVPAYLLDRENTTRAKVLSNTIKQKRKEKAGKWEVPLPKVRPVAEDEMFKVIRSGKRRTKQWKRMVTKATFVGPGF 160 (260)
Q Consensus 81 ~~~~a~p~ylldr~~~~~ak~lsn~ikqkrkeka~k~~vplpkv~~~~e~e~fkv~~tgk~~~k~wkrmvtk~~fvg~~f 160 (260)
|+|||| |....|+| ++|+++++|+|.+|
T Consensus 26 --------~elGre---------------------------P~~t~ige-----------------~~~~~~vr~rGgn~ 53 (127)
T COG2007 26 --------FELGRE---------------------------PTETKIGE-----------------KRKRKKVRTRGGNF 53 (127)
T ss_pred --------hhcCCC---------------------------CcccccCc-----------------cceEEEEEeecCCe
Confidence 999999 89999999 89999999999999
Q ss_pred ccCCCCcccccccccceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecce
Q 024952 161 TRKPPKYERFIRPSGLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGK 240 (260)
Q Consensus 161 trkppk~erfirp~aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGk 240 (260)
+++ +||+++|||+||+++.+++++|++|++||||++|+|+|||||||||++| + |
T Consensus 54 K~r-----------~~~~~~aNV~~p~~g~~~k~~Ii~V~~nPan~~y~rrniitKGaiI~t~---~-----------G- 107 (127)
T COG2007 54 KVR-----------ALRAKTANVSDPETGKTKKAKIIGVVENPANPEYVRRNIITKGAIIETE---I-----------G- 107 (127)
T ss_pred EEE-----------EEEeccceecccccCcEEEEEEEEEEcCCCChHHhhccceecceEEEEe---e-----------e-
Confidence 998 9999999999999999999999999999999999999999999999955 2 3
Q ss_pred eeEEccCCCCceeeeeEEcC
Q 024952 241 YAQVTNNPENDGCINAVLLV 260 (260)
Q Consensus 241 YAqVTSRPGQDG~iNavLLv 260 (260)
||+||||||||||||||||.
T Consensus 108 ~A~VTsRPgQdG~vNavLl~ 127 (127)
T COG2007 108 YAVVTSRPGQDGVVNAVLLE 127 (127)
T ss_pred EEEEecCCCccceeEEEEeC
Confidence 69999999999999999984
No 5
>PRK04049 30S ribosomal protein S8e; Validated
Probab=99.96 E-value=1.2e-30 Score=216.41 Aligned_cols=70 Identities=46% Similarity=0.678 Sum_probs=67.6
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceee
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCI 254 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~i 254 (260)
+||+++|||+||+++.|++++|++|+||||||+|+|+|||||||||+ ||+|+ |+|||||||||||
T Consensus 56 ~lr~~~~Nv~~~~~~~tkk~kI~~Vv~N~aN~~yvRrniitKGaII~---te~G~------------A~VTSRPGQdG~v 120 (127)
T PRK04049 56 LLRANYANVADPKTGKTKKVKILTVVENPANPHYARRNIITKGAIIE---TELGK------------AKVTSRPGQDGVV 120 (127)
T ss_pred EEEecceEEeecccCeEEEEEEEEEEECCCCHHHhhcCCEecceEEE---eccce------------EEEecCCCcCceE
Confidence 79999999999999999999999999999999999999999999999 66666 9999999999999
Q ss_pred eeEEc
Q 024952 255 NAVLL 259 (260)
Q Consensus 255 NavLL 259 (260)
|||||
T Consensus 121 NavLi 125 (127)
T PRK04049 121 NAVLI 125 (127)
T ss_pred EEEEe
Confidence 99997
No 6
>TIGR00307 S8e ribosomal protein S8.e. Archaeal and eukaryotic ribosomal protein S8. This model could easily have been split into two models, one for eukaryotic S8 and one for archaeal S8; eukaryotic forms invariably have in insert of about 80 residues that archaeal forms of S8 do not.
Probab=99.96 E-value=1.2e-30 Score=216.20 Aligned_cols=70 Identities=44% Similarity=0.692 Sum_probs=66.4
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceee
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCI 254 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~i 254 (260)
+||+++|||+||+++.|++++|++|+||||||+|+|+|||||||||+ +++| ||+|||||||||||
T Consensus 56 alr~~~~Nv~~~~~~~t~k~kIl~Vv~NpaN~~yvR~niitKGaIIe---td~g------------~A~VTsrPgQdG~v 120 (127)
T TIGR00307 56 LLRDETANVSDPETGKVKKVEIAGVVENPANNHYVRRNVITKGAIVE---TDIG------------YARVTSRPGQDGVV 120 (127)
T ss_pred EEEeeeeEEecccCCeEEEEEEEEEEECCCCHHHhhcCcEecceEEE---Eeee------------EEEEecCCCcCceE
Confidence 79999999999999999999999999999999999999999999999 3344 49999999999999
Q ss_pred eeEEc
Q 024952 255 NAVLL 259 (260)
Q Consensus 255 NavLL 259 (260)
|||||
T Consensus 121 Navll 125 (127)
T TIGR00307 121 NGVLI 125 (127)
T ss_pred eEEEe
Confidence 99997
No 7
>PTZ00148 40S ribosomal protein S8; Provisional
Probab=99.94 E-value=4.8e-27 Score=207.43 Aligned_cols=85 Identities=16% Similarity=0.277 Sum_probs=73.8
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEccccccc------ccCCCc-------------
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGL------VTPAGK------------- 235 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~------vT~~Gk------------- 235 (260)
+||++.|||+||+.++|.+++|++|+||||||+|+|+|||||||||++|++||-. ..+.|+
T Consensus 57 alr~~~gNv~~~se~~tkk~kIl~Vv~N~sNne~vRrniitKGAII~tda~Pfrqwy~~hy~~~lg~kk~~~~~~~~~~~ 136 (205)
T PTZ00148 57 ALRLDTGNFSWGSQGIAKKTRILDVVYNASNNELVRTKTLVKNAIVQIDAAPFKQWYAKHYGIDLGKKKKYKKEEENKKA 136 (205)
T ss_pred EEeecceEEeecCCCeEEeeEEEEEEecCcCHHHHhhcceeeceEEeeccchHHHHHHHhhCcccccccccccchhhhhh
Confidence 7999999999999999999999999999999999999999999999999888652 000111
Q ss_pred ----------------------ee-----cc-eeeEEccCCCCceeeeeEEc
Q 024952 236 ----------------------VV-----WG-KYAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 236 ----------------------vv-----wG-kYAqVTSRPGQDG~iNavLL 259 (260)
.+ -| +||+|||||||+|.+||+||
T Consensus 137 ~k~s~~~~kk~~~r~~~~~~~~~leeqf~~GrllA~IsSRPGQ~Gr~dGyIL 188 (205)
T PTZ00148 137 KKKSESLVAKLEVRKKNHKIDKALLEQFQSGRLLARISSRPGQSGRADGYIL 188 (205)
T ss_pred hhhhHHHHHHHHHhhhhccccHHHHHHHhhCeEEEEEeCCCCCccceeEEEE
Confidence 01 26 89999999999999999998
No 8
>KOG3283 consensus 40S ribosomal protein S8 [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=9.9e-23 Score=177.69 Aligned_cols=85 Identities=18% Similarity=0.302 Sum_probs=74.0
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEccccccc---------------ccC-------
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGL---------------VTP------- 232 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~---------------vT~------- 232 (260)
|||++.|||+|.++++|.+++|++|+|||||||+||+|+|||+|||.||++|+-. ++.
T Consensus 57 ALRlD~Gnfsw~Se~~trktri~dvvY~~snneLVRT~TL~k~aiV~ida~Pfrqwyeshy~~~lg~kk~~~~~~k~sk~ 136 (200)
T KOG3283|consen 57 ALRLDMGNFSWGSEGTTRKTRILDVVYHPSNNELVRTNTLTKSAIVQIDAAPFRQWYESHYGLPLGRKKNKILNKKKSKH 136 (200)
T ss_pred eeeeccCcccccccceeeeeeeeeeEecCCccceeeecchhhceEEEeccchHHHHHHHhhccccccccCccccchhhHH
Confidence 8999999999999999999999999999999999999999999999999998751 000
Q ss_pred -------------CCcee---c--c-eeeEEccCCCCceeeeeEEc
Q 024952 233 -------------AGKVV---W--G-KYAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 233 -------------~Gkvv---w--G-kYAqVTSRPGQDG~iNavLL 259 (260)
.+..+ | | +||+|+|||||.|.+||++|
T Consensus 137 ~~rk~~~r~~~a~vds~l~eqF~~GrL~A~isSrpGQ~Gradgyil 182 (200)
T KOG3283|consen 137 VQRKYAERQKNAKVDSSLEEQFAAGRLYACISSRPGQCGRADGYIL 182 (200)
T ss_pred HHHHHHHhhccccccHHHHHHHhcCcEEEEEeCCCCcccccceeee
Confidence 01001 1 6 99999999999999999997
No 9
>COG1872 Uncharacterized conserved protein [Function unknown]
Probab=28.96 E-value=32 Score=28.45 Aligned_cols=43 Identities=26% Similarity=0.390 Sum_probs=29.8
Q ss_pred eceEEEEcccccccccCC-Cceecc--eeeEEccCCCCceeeeeEEc
Q 024952 216 KGTIIEVNVSELGLVTPA-GKVVWG--KYAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 216 KGTIIEVnvSeLG~vT~~-GkvvwG--kYAqVTSRPGQDG~iNavLL 259 (260)
-|.+|.|.++|-+.-... |-.-|. +=..||+-| +||.+|.-|+
T Consensus 11 ~~~~l~V~V~P~a~~~~i~g~~~~~~~Lkv~i~apP-~~GKAN~~li 56 (102)
T COG1872 11 DGVLLRVRVKPKAKRDSIVGLDEWRKRLKVRITAPP-VDGKANEELI 56 (102)
T ss_pred CceEEEEEECCCCccCcccceecCcceEEEEEecCC-CCcchhHHHH
Confidence 477889999887764443 555665 556677655 7899997654
No 10
>PF06815 RVT_connect: Reverse transcriptase connection domain; InterPro: IPR010659 This domain is known as the connection domain. This domain lies between the thumb and palm domains [].; GO: 0003964 RNA-directed DNA polymerase activity, 0006278 RNA-dependent DNA replication; PDB: 1MU2_B 1S9E_B 3QO9_A 1IKY_A 2ZE2_B 3KLF_J 3V6D_B 2YKN_A 1TV6_A 1S9G_B ....
Probab=27.30 E-value=36 Score=28.20 Aligned_cols=46 Identities=24% Similarity=0.296 Sum_probs=30.3
Q ss_pred eeeCCCCCCceeeccceeceEEEEcccccccccCCCceec-ceeeEEccCCCCc
Q 024952 199 VKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVW-GKYAQVTNNPEND 251 (260)
Q Consensus 199 VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~Gkvvw-GkYAqVTSRPGQD 251 (260)
|.|+|+-+.++..-.+-.|.+.. .+-+.++.+| |+||.+-|-..||
T Consensus 1 ~YYdp~k~Liaeiqk~g~~qwtY-------qi~Q~~k~LktGk~ak~k~~htN~ 47 (102)
T PF06815_consen 1 VYYDPEKELIAEIQKQGQGQWTY-------QIYQPFKNLKTGKYAKIKNAHTND 47 (102)
T ss_dssp E-BBTTSSEEEEEEEEETTEEEE-------EEEETTEEEEEEEEESSTSSEESH
T ss_pred CCCCCCCcEEEEEEEecCCeEEE-------EEEcCCccccccceeccccccccc
Confidence 45778877776665555555544 2445777888 7999987765554
No 11
>PHA01811 hypothetical protein
Probab=25.87 E-value=28 Score=27.39 Aligned_cols=17 Identities=29% Similarity=0.473 Sum_probs=14.2
Q ss_pred ChhHHHHHHHhcCCCCC
Q 024952 3 QGDYIELHRKRNGYRLD 19 (260)
Q Consensus 3 qne~ie~h~k~~g~rld 19 (260)
.|||||+++-.|.+.|.
T Consensus 22 ~neyieefip~heyhlt 38 (78)
T PHA01811 22 DNEYIEEFIPLHEYHLT 38 (78)
T ss_pred chHHHHhhcchhhhhcc
Confidence 58999999998877664
No 12
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=25.37 E-value=40 Score=28.91 Aligned_cols=28 Identities=18% Similarity=0.551 Sum_probs=8.4
Q ss_pred chhhhhHHHHHHhhh--hhccccccCCccc
Q 024952 98 RAKVLSNTIKQKRKE--KAGKWEVPLPKVR 125 (260)
Q Consensus 98 ~ak~lsn~ikqkrke--ka~k~~vplpkv~ 125 (260)
-++.++..+.+...+ |+..++||||-..
T Consensus 69 f~kmm~eS~~srk~e~~k~~~~di~iP~~~ 98 (170)
T PF04050_consen 69 FQKMMAESLESRKNESRKKPQFDIPIPMNV 98 (170)
T ss_dssp HHHHHHHHHHCH------------------
T ss_pred HHHHHHHHHHhhccccccCcccccccCccc
Confidence 356777777777778 8999999998643
No 13
>PF13105 DUF3959: Protein of unknown function (DUF3959)
Probab=24.71 E-value=20 Score=33.28 Aligned_cols=42 Identities=26% Similarity=0.401 Sum_probs=33.7
Q ss_pred CCCceeecccCccchhhhhHHHHHHhhhhhccccccCCcccc
Q 024952 85 AVPAYLLDRENTTRAKVLSNTIKQKRKEKAGKWEVPLPKVRP 126 (260)
Q Consensus 85 a~p~ylldr~~~~~ak~lsn~ikqkrkeka~k~~vplpkv~~ 126 (260)
.+-|-|+.|...+.-+.=.|..+||.|.|--.|.+|||..--
T Consensus 144 GLlA~~~hRke~d~~kEn~nlf~qKKKR~~~sfkir~PrLPk 185 (239)
T PF13105_consen 144 GLLAMLIHRKEKDNNKENINLFKQKKKRKRLSFKIRIPRLPK 185 (239)
T ss_pred HHHHHHHHhcccccchhhhHHHhhHhhccCCceeecCCCcch
Confidence 345566777766777777899999999999999999997654
No 14
>cd04477 RPA1N RPA1N: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA1N is known to specifically interact with the p53 tumor suppressor, DNA polymerase alpha, and transcription factors. In addition to RPA1N, RPA1 contains three other OB folds: ssDNA-binding domain (DBD)-A, DBD-B, and DBD-C.
Probab=22.57 E-value=36 Score=27.04 Aligned_cols=21 Identities=19% Similarity=0.333 Sum_probs=17.7
Q ss_pred CCCCCceeeccceeceEEEEc
Q 024952 203 PNGPMYTSLGVITKGTIIEVN 223 (260)
Q Consensus 203 PSNneyvR~niITKGTIIEVn 223 (260)
.+-|+++..|.|.+||||.+.
T Consensus 55 tqln~~v~~g~l~~~sIirl~ 75 (97)
T cd04477 55 TQLNPLVESGQLQRGSIIRLK 75 (97)
T ss_pred hhhhhHHhcCCccCCcEEEEC
Confidence 345788899999999999964
No 15
>TIGR01665 put_anti_recept phage minor structural protein, N-terminal region. This model represents the conserved N-terminal region, typically from about residue 25 to about residue 350, of a family of uncharacterized phage proteins 500 to 1700 residues in length.
Probab=21.47 E-value=1.4e+02 Score=27.21 Aligned_cols=32 Identities=16% Similarity=0.259 Sum_probs=29.2
Q ss_pred eeeEEEEcCCCCeEEEEEeeeeeeCCCCCCce
Q 024952 178 FTKAHVTHPELKCTFNLEIIGVKKNPNGPMYT 209 (260)
Q Consensus 178 ~~kANVt~Pelk~T~klkIi~VkkNPSNneyv 209 (260)
.+...|.|+.++....++|+.+.+||.+|.+.
T Consensus 281 GDtV~v~~~~~~i~~~~RVi~~~~~~~~~~~~ 312 (317)
T TIGR01665 281 GDTVRLKHTDFNIKVYARVIKVEYSPVTPKQN 312 (317)
T ss_pred CCEEEEEcCCCCceeEEEEEEEecccCCCCcc
Confidence 57888999999999999999999999999875
No 16
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=20.27 E-value=80 Score=24.76 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=15.4
Q ss_pred EEeeeeeeCCCCCCceeec
Q 024952 194 LEIIGVKKNPNGPMYTSLG 212 (260)
Q Consensus 194 lkIi~VkkNPSNneyvR~n 212 (260)
=..+.|.|||+||+-++..
T Consensus 95 G~~V~V~Y~P~~P~~~~l~ 113 (148)
T PF12158_consen 95 GDTVTVYYNPNNPEEARLE 113 (148)
T ss_pred cCEEEEEECCcCCCeEEEe
Confidence 3578999999999986554
Done!