Query psy5891
Match_columns 259
No_of_seqs 174 out of 339
Neff 3.0
Searched_HMMs 29240
Date Fri Aug 16 20:54:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5891.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5891hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wb1_A Translation elongation 99.6 2.5E-17 8.5E-22 154.1 2.5 88 54-147 387-480 (482)
2 4a18_H RPL35A; ribosome, eukar 76.5 2.8 9.6E-05 34.0 4.3 77 68-146 16-110 (113)
3 1sqr_A 50S ribosomal protein L 74.4 4.5 0.00015 31.9 4.9 54 80-134 18-76 (95)
4 3j21_c 50S ribosomal protein L 71.5 3.5 0.00012 32.0 3.6 54 80-134 18-76 (87)
5 3iz5_j 60S ribosomal protein L 68.3 3.7 0.00013 33.2 3.2 65 80-146 28-108 (111)
6 3izc_j 60S ribosomal protein R 66.4 3.2 0.00011 33.4 2.4 65 80-146 24-104 (107)
7 2v3m_A NAF1; ribosomal protein 17.8 3.9E+02 0.013 21.4 7.3 72 69-141 29-111 (131)
8 2akk_A RP4479, PHNA-like prote 16.4 57 0.0019 24.7 1.5 39 47-85 2-40 (74)
9 3dm3_A Replication factor A; p 15.7 1.2E+02 0.0042 22.9 3.3 45 104-148 32-82 (105)
10 2akl_A PHNA-like protein PA012 12.9 84 0.0029 26.3 1.8 37 49-85 68-104 (138)
No 1
>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*
Probab=99.65 E-value=2.5e-17 Score=154.14 Aligned_cols=88 Identities=20% Similarity=0.250 Sum_probs=75.6
Q ss_pred CCccccCCCCeeEEEeEEEEeeeeE-----EeeceEEEeccCCChhhhcccccceEEecccc-cceeecccCCCCceeEE
Q psy5891 54 DETVEPKVFYAEVTKKLKLTGVPMK-----IYKKTAFIKDMFNSTLEVAKFEGAKIRTVSGI-RGQIKKALNKPQGAFRA 127 (259)
Q Consensus 54 ~gt~~~~d~~~~IvKKlKLtG~P~K-----I~K~TAfIk~MF~S~lEV~kFkga~LrTvsGI-RG~IKkalgtp~G~FRa 127 (259)
-|.+..+.+ +++++|.....| ++++|+++++||++..|++||.|.+|+|++|. +|+|+.++|+ +|.|||
T Consensus 387 ~G~v~~~~~----~~~l~v~k~~~k~g~v~~~~~~~i~~~lf~~~~~~~~f~g~~v~~~~g~~~G~I~~~fg~-~G~~~~ 461 (482)
T 1wb1_A 387 HGLIEEFKP----IKDLNIKKEVLREGKVKIDKGRTVIDGLAQSKVAAEKLIGEEISIEGKDIVGKIKGTFGT-KGLLTA 461 (482)
T ss_dssp BCCEEECCC----GGGSCCCCCCEEEEEEECCSSCCEETTSCSSHHHHHHSCSCCCEETTTCCCBCCCCCBTT-TTBBCC
T ss_pred EEEEEeccc----chhceeeehhhccCcEEEcCCEEEEEcCccchhhhHHhcCcEEEEcCCceEEEEeccCCC-CceEEE
Confidence 356655544 455555555444 78899999999999999999999999999999 9999999999 999999
Q ss_pred EeccccccCCEEEecccccc
Q psy5891 128 TFEDKIMLSDIVFCRTWYKV 147 (259)
Q Consensus 128 tFEdkIl~sDiVfLR~wYkr 147 (259)
+|+++|.+||+||| .+|+|
T Consensus 462 ~f~~~~~~~d~v~~-~~~~~ 480 (482)
T 1wb1_A 462 EFSGNVENRDKVIL-NRLRR 480 (482)
T ss_dssp CBSSCCCSSCEEEE-ECCCS
T ss_pred EecCCCCCCCeeee-ehhhc
Confidence 99999999999999 77765
No 2
>4a18_H RPL35A; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_H 4a1b_H 4a1d_H
Probab=76.53 E-value=2.8 Score=34.00 Aligned_cols=77 Identities=25% Similarity=0.370 Sum_probs=54.7
Q ss_pred EeEEEEeee---eEEeeceEEEecc-CCChhhhcccccceEE----ec--cc-----ccceeecccCCCCceeEEEeccc
Q psy5891 68 KKLKLTGVP---MKIYKKTAFIKDM-FNSTLEVAKFEGAKIR----TV--SG-----IRGQIKKALNKPQGAFRATFEDK 132 (259)
Q Consensus 68 KKlKLtG~P---~KI~K~TAfIk~M-F~S~lEV~kFkga~Lr----Tv--sG-----IRG~IKkalgtp~G~FRatFEdk 132 (259)
-|-++.||= -.-+-|||.||=- =++.+|+.+|.|-.+- ++ .| |-|.|..+-|. .|.+||.|...
T Consensus 16 ~Kgv~lgYkRg~~nQ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~g~k~RviwGKVtR~HGn-sGvVrAkF~~n 94 (113)
T 4a18_H 16 VKAAFTGFRRSKHTQNSNQALLKLQNVNTKEDVAFYQGKRVVYIYKGQKKNGSNYRTIWGRIGKAHGN-NGVAVARFAHN 94 (113)
T ss_dssp EEEEEEEEEEETTEEEEEEEEEEETTCCSHHHHHTTTTCEEEEEEEEEEETTEEEEEEEEEEEEEETT-TTEEEEEESSC
T ss_pred EEEEEEecccccCCCCCCeEEEEEcCcCCHHHHHhhcCCeEEEEEecCCCCCCeEEEEEEEEEeeeCC-CCeEEEEeCCC
Confidence 334445542 2256678888743 6889999999886543 22 34 34999999988 89999999988
Q ss_pred cc---cCCEEEeccccc
Q psy5891 133 IM---LSDIVFCRTWYK 146 (259)
Q Consensus 133 Il---~sDiVfLR~wYk 146 (259)
+- +++.|.+ +|||
T Consensus 95 LP~kA~G~~VrV-mLyP 110 (113)
T 4a18_H 95 LPPQAIGSVLRV-MLYP 110 (113)
T ss_dssp CCGGGGGSEEEE-ECCC
T ss_pred CChHHcCCeEEE-EEec
Confidence 74 5677877 7775
No 3
>1sqr_A 50S ribosomal protein L35AE; PFR48, structure, autostructure, northeast structural genomics consortium, beta-barrel; NMR {Pyrococcus furiosus} SCOP: b.43.3.3 PDB: 2lp6_A
Probab=74.36 E-value=4.5 Score=31.89 Aligned_cols=54 Identities=30% Similarity=0.365 Sum_probs=43.2
Q ss_pred eeceEEEec-cCCChhhhcccccceEEeccc----ccceeecccCCCCceeEEEeccccc
Q psy5891 80 YKKTAFIKD-MFNSTLEVAKFEGAKIRTVSG----IRGQIKKALNKPQGAFRATFEDKIM 134 (259)
Q Consensus 80 ~K~TAfIk~-MF~S~lEV~kFkga~LrTvsG----IRG~IKkalgtp~G~FRatFEdkIl 134 (259)
+-|||.||= --++.+|.++|.|-.+-=++. |-|.|..+-|. .|.+||.|...+-
T Consensus 18 ~~~~aLlkIegV~~k~~a~fYlGKrvayvyka~rviwGKVtR~HGn-sGvVrAkF~~nLP 76 (95)
T 1sqr_A 18 HNNVMIIKPLDVNSREEASKLIGRLVLWKSPSGKILKGKIVRVHGT-KGAVRARFEKGLP 76 (95)
T ss_dssp SCCEEEEEESCCCCHHHHHHHTTCEEEECCSTTCCEEEEEEEESSS-SSCEEEECSSCCS
T ss_pred CCceEEEEEcCCCCHHHHHhhcCCeEEEEECCCCEEEEEEEeeeCC-CCEEEEEeCCCCC
Confidence 346777773 478999999998877765543 89999999988 9999999997663
No 4
>3j21_c 50S ribosomal protein L35AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} PDB: 1sqr_A 2lp6_A
Probab=71.54 E-value=3.5 Score=32.02 Aligned_cols=54 Identities=31% Similarity=0.476 Sum_probs=40.3
Q ss_pred eeceEEEec-cCCChhhhcccccceE--Eeccc--ccceeecccCCCCceeEEEeccccc
Q psy5891 80 YKKTAFIKD-MFNSTLEVAKFEGAKI--RTVSG--IRGQIKKALNKPQGAFRATFEDKIM 134 (259)
Q Consensus 80 ~K~TAfIk~-MF~S~lEV~kFkga~L--rTvsG--IRG~IKkalgtp~G~FRatFEdkIl 134 (259)
+-|||.||= -=++.+|..+|.|-.+ .+..| |.|.|..+-|. .|.+||.|...+-
T Consensus 18 ~~~taLlkieGV~~~~~a~fylGKrvayv~~~g~~iwGKVtr~HGn-sGvVrAkF~~nLP 76 (87)
T 3j21_c 18 HNNVMIIKPLDVNSREEASKLIGRLVLWKSPSGKILKGKIVRVHGT-KGAVRARFEKGLP 76 (87)
T ss_dssp CTTCEEEEESSCCSHHHHGGGTTCEEEECCSSSCCEEEEEEEECCS-SSCEEEEESSCCC
T ss_pred CCCeEEEEEcCcCCHHHHHhhcCceEEEEeCCCCEEEEEEEeeeCC-CCeEEEEeCCCCC
Confidence 345666663 2578899999977543 34444 88999999988 8999999987663
No 5
>3iz5_j 60S ribosomal protein L35A (L35AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_j
Probab=68.30 E-value=3.7 Score=33.18 Aligned_cols=65 Identities=25% Similarity=0.408 Sum_probs=44.1
Q ss_pred eeceEEEecc-CCChhhhcccccceEEe---------cccc---cceeecccCCCCceeEEEeccccc---cCCEEEecc
Q psy5891 80 YKKTAFIKDM-FNSTLEVAKFEGAKIRT---------VSGI---RGQIKKALNKPQGAFRATFEDKIM---LSDIVFCRT 143 (259)
Q Consensus 80 ~K~TAfIk~M-F~S~lEV~kFkga~LrT---------vsGI---RG~IKkalgtp~G~FRatFEdkIl---~sDiVfLR~ 143 (259)
+-|||.||=- =++.+|+.+|.|-.+-= .+.+ -|.|..+-|. .|.+||.|...+- +++.|.+ +
T Consensus 28 ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~~g~k~R~iwGKVtR~HGn-sGvVrAkF~~nLP~kA~G~~VrV-m 105 (111)
T 3iz5_j 28 YENTSLLQIEGVNTKEEVGWYAGKRIAYVYKAKTKSNDSTIRCIWGKVTRPHGN-SGVVRAKFRSNLPPTSMGKKVRV-F 105 (111)
T ss_dssp CCCEEEEEESSCSTTHHHHTTSCCCCEECCCCCSSSCCCCSCCEECEEEEESSS-SSCEEEECSSCCSTTCCSSCBCC--
T ss_pred CCCeEEEEEcCcCCHHHHHhhcCcEEEEEEeccccCCCceEEEEEEEEEeeeCC-CCEEEEEeCCCCChHHcCCEEEE-E
Confidence 3467777632 57889999998876521 1223 4999999988 8999999998774 4555766 6
Q ss_pred ccc
Q psy5891 144 WYK 146 (259)
Q Consensus 144 wYk 146 (259)
|||
T Consensus 106 Lyp 108 (111)
T 3iz5_j 106 MYP 108 (111)
T ss_dssp ---
T ss_pred Eec
Confidence 665
No 6
>3izc_j 60S ribosomal protein RPL33 (L35AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_j 3u5e_f 3u5i_f 4b6a_f
Probab=66.37 E-value=3.2 Score=33.40 Aligned_cols=65 Identities=22% Similarity=0.376 Sum_probs=43.4
Q ss_pred eeceEEEec-cCCChhhhcccccceE----Eecc---c-----ccceeecccCCCCceeEEEeccccc---cCCEEEecc
Q psy5891 80 YKKTAFIKD-MFNSTLEVAKFEGAKI----RTVS---G-----IRGQIKKALNKPQGAFRATFEDKIM---LSDIVFCRT 143 (259)
Q Consensus 80 ~K~TAfIk~-MF~S~lEV~kFkga~L----rTvs---G-----IRG~IKkalgtp~G~FRatFEdkIl---~sDiVfLR~ 143 (259)
+-|||.||= -=++.+|+.+|.|-.+ +++. | |-|.|..+-|. .|.+||.|...+- +++.|.+ +
T Consensus 24 ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~~g~k~RviwGKVtR~HGn-sGvVrAkF~~nLP~kA~G~~VrV-m 101 (107)
T 3izc_j 24 NPNVSLIKIEGVATPQDAQFYLGKRIAYVYRASKEVRGSKIRVMWGKVTRTHGN-SGVVRATFRNNLPAKTFGASVRI-F 101 (107)
T ss_dssp CCCEEEEEESSCSTTHHHHTTCCCCCCCCCCCCSSSCCCCSCCCCCCEEECSSS-SSCEEECCCSCCSTTCCSSCBCC--
T ss_pred CCCeEEEEEcCcCCHHHHHhhcCCEEEEEEecCcccCCceEEEEEEEEEeeeCC-CCeEEEEeCCCCChHHcCCeEEE-E
Confidence 346676663 2478899999987543 2222 3 45999999988 8999999998774 4555666 6
Q ss_pred ccc
Q psy5891 144 WYK 146 (259)
Q Consensus 144 wYk 146 (259)
|||
T Consensus 102 Lyp 104 (107)
T 3izc_j 102 LYP 104 (107)
T ss_dssp ---
T ss_pred Eec
Confidence 664
No 7
>2v3m_A NAF1; ribosomal protein, GAR1, snoRNP, phosphorylation, hypothetical protein; 2.74A {Saccharomyces cerevisiae}
Probab=17.83 E-value=3.9e+02 Score=21.45 Aligned_cols=72 Identities=17% Similarity=0.235 Sum_probs=51.1
Q ss_pred eEEEEeeeeEEeeceEEEeccCCChhhhcccccceEEeccc-ccceeecccCCC-CceeEEEecc---------ccccCC
Q psy5891 69 KLKLTGVPMKIYKKTAFIKDMFNSTLEVAKFEGAKIRTVSG-IRGQIKKALNKP-QGAFRATFED---------KIMLSD 137 (259)
Q Consensus 69 KlKLtG~P~KI~K~TAfIk~MF~S~lEV~kFkga~LrTvsG-IRG~IKkalgtp-~G~FRatFEd---------kIl~sD 137 (259)
+++..|+-..|+.+..+|+..= +.+.-.-..|+.|.+.++ .-|.|-+-+|.- +=+|...|++ .+..+|
T Consensus 29 ~v~~lG~i~~ive~~vVik~~~-~g~~~vl~~~s~l~ledr~~IGkV~EiFGpV~~P~ysVk~~~~~~e~i~~~~~~~G~ 107 (131)
T 2v3m_A 29 IITPIGVLKSAFENNIIIHATM-SGEKRVLKEGSIFCLEDRTLIGMLTEVFGPLQNPFYRIKLPDSKKNLFDELKVRLGE 107 (131)
T ss_dssp CEEEEEEEEEEETTEEEEEEC------CCCCTTCEEEETTCCEEEECCEEESCSSSCEEEEECCGGGHHHHHHHHTTTTS
T ss_pred EEEEeeeEEEEeCCcEEEEecC-CCCccccCCCCEEEecCCcEEEEEEEEeCCCCCcEEEEEeCCcchhhhhhcccCCCC
Confidence 4668899999999999999642 111122356788888876 678888888732 4468899973 368888
Q ss_pred EEEe
Q psy5891 138 IVFC 141 (259)
Q Consensus 138 iVfL 141 (259)
.||+
T Consensus 108 kvY~ 111 (131)
T 2v3m_A 108 KAFI 111 (131)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8887
No 8
>2akk_A RP4479, PHNA-like protein; beta-strand protein, structural genomics, PSI, protein struc initiative; NMR {Rhodopseudomonas palustris} SCOP: b.34.11.2
Probab=16.42 E-value=57 Score=24.73 Aligned_cols=39 Identities=18% Similarity=0.139 Sum_probs=33.5
Q ss_pred CCCCCCCCCccccCCCCeeEEEeEEEEeeeeEEeeceEE
Q psy5891 47 DDNSSDEDETVEPKVFYAEVTKKLKLTGVPMKIYKKTAF 85 (259)
Q Consensus 47 ~~~~~~~~gt~~~~d~~~~IvKKlKLtG~P~KI~K~TAf 85 (259)
|..+-|..|+++.-.-+..++|-|++.|..+-+-+.|.+
T Consensus 2 ~~~vkDsnGn~L~dGDsVtlIKDLkVKGss~~~K~GTkv 40 (74)
T 2akk_A 2 SIEVRDCNGALLADGDNVSLIKDLKLKGSSTVLKRGTMI 40 (74)
T ss_dssp CCCCBCSSCCBCCTTEEEEESSCEEETTTTEEECTTCEE
T ss_pred CceEEcCCCCCccCCCEEEEEeeeeecCcccceeCccEE
Confidence 455778899999999999999999999999888777743
No 9
>3dm3_A Replication factor A; probably plays AN essential for replication of the chromosome, DNA recombination and repair; 2.40A {Methanocaldococcus jannaschii}
Probab=15.67 E-value=1.2e+02 Score=22.88 Aligned_cols=45 Identities=20% Similarity=0.419 Sum_probs=29.9
Q ss_pred EEecccccceeeccc-CCCCceeEEE-ecc----ccccCCEEEeccccccc
Q psy5891 104 IRTVSGIRGQIKKAL-NKPQGAFRAT-FED----KIMLSDIVFCRTWYKVD 148 (259)
Q Consensus 104 LrTvsGIRG~IKkal-gtp~G~FRat-FEd----kIl~sDiVfLR~wYkr~ 148 (259)
+.+..|-.|++.... +-.-|..|++ |++ .+..+|+|.++.+.+.-
T Consensus 32 ~~~~~G~~~~v~~~~l~D~TG~IrvtlW~~~a~~~l~~Gdvv~i~g~vk~~ 82 (105)
T 3dm3_A 32 FKRADGSIGKLKSFIVRDETGSIRVTLWDNLTDIDVGRGDYVRVRGYIREG 82 (105)
T ss_dssp EECTTSCEEEEEEEEEEETTEEEEEEEEGGGGGSCCCTTCEEEEEEEEEEC
T ss_pred EEcCCCCeeEEEEEEEECCCCcEEEEEECcccccccCCCCEEEEEEEEEEc
Confidence 344566667766543 2235899998 777 58899999996555543
No 10
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
Probab=12.89 E-value=84 Score=26.28 Aligned_cols=37 Identities=22% Similarity=0.103 Sum_probs=32.6
Q ss_pred CCCCCCCccccCCCCeeEEEeEEEEeeeeEEeeceEE
Q psy5891 49 NSSDEDETVEPKVFYAEVTKKLKLTGVPMKIYKKTAF 85 (259)
Q Consensus 49 ~~~~~~gt~~~~d~~~~IvKKlKLtG~P~KI~K~TAf 85 (259)
..-|..|+++.-.-+..++|-||+.|..+-+-+.|.+
T Consensus 68 vvkDanGn~L~dGDsVtvIKDLKVKGss~~lK~GTkV 104 (138)
T 2akl_A 68 VIKDSVGNVLQDGDTITVIKDLKVKGSSLVVKVGTKV 104 (138)
T ss_dssp SCBCTTSCBCCTTCEEECCSCEECSSSSCEECTTCEE
T ss_pred eEEcCCCCCccCCCeEEEEeeccccCcccceeCccEE
Confidence 4678999999999999999999999999888777743
Done!