Query 048058
Match_columns 157
No_of_seqs 121 out of 1045
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 09:53:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048058.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/048058hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3j21_D 50S ribosomal protein L 100.0 8.4E-53 2.9E-57 352.7 13.4 143 7-157 1-143 (255)
2 2zkr_c 60S ribosomal protein L 100.0 2.9E-52 9.8E-57 368.1 13.5 151 2-157 1-153 (421)
3 3iz5_D 60S ribosomal protein L 100.0 4.5E-52 1.6E-56 366.0 13.5 152 1-157 1-157 (405)
4 4a17_C RPL4, ribosomal protein 100.0 6.4E-51 2.2E-55 358.6 13.8 151 3-157 1-158 (410)
5 1vq8_C 50S ribosomal protein L 100.0 1.7E-50 5.7E-55 337.3 12.1 139 7-157 1-139 (246)
6 2wwb_H 60S ribosomal protein L 100.0 7E-46 2.4E-50 323.0 13.9 148 5-157 2-151 (362)
7 3bbo_G Ribosomal protein L4; l 100.0 2.2E-44 7.4E-49 306.7 6.7 119 3-136 49-169 (293)
8 3v2d_F 50S ribosomal protein L 100.0 1.9E-43 6.5E-48 288.8 9.8 124 5-151 5-129 (210)
9 1dmg_A Ribosomal protein L4; a 100.0 2.1E-44 7.3E-49 297.0 2.4 117 7-138 1-119 (225)
10 2zjr_C 50S ribosomal protein L 100.0 1.2E-42 4.3E-47 282.9 9.7 112 8-139 3-115 (205)
11 3r8s_E 50S ribosomal protein L 100.0 8E-42 2.7E-46 277.7 7.6 113 24-151 10-124 (201)
12 2ftc_D Mitochondrial ribosomal 100.0 1.3E-34 4.5E-39 230.8 7.0 88 42-139 1-89 (175)
13 2wwb_H 60S ribosomal protein L 92.3 0.06 2.1E-06 46.9 2.4 51 45-107 34-84 (362)
14 3aia_A UPF0217 protein MJ1640; 21.3 91 0.0031 24.8 3.9 44 3-50 4-47 (211)
No 1
>3j21_D 50S ribosomal protein L4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=8.4e-53 Score=352.74 Aligned_cols=143 Identities=34% Similarity=0.494 Sum_probs=135.3
Q ss_pred CccEEeccCCCccccCCccccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCC
Q 048058 7 PLITVQSLEGDMATDASSTVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGG 86 (157)
Q Consensus 7 ~~v~V~n~~G~~~~~~gg~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~ 86 (157)
|+++|||++|+++ ++||||+||+.|+|+||||++|+++++|+||||+.++.|++|+++||||+|+|.+|+|||||+
T Consensus 1 m~v~V~~~~G~~~----g~v~Lp~vF~~~~r~dli~~~v~~~~an~Rq~~Gt~~~ag~ktraev~G~Gr~~ar~~RqKGt 76 (255)
T 3j21_D 1 MKVKVFDLNGQPV----GEIELPKVFFTPFRPDLIRRAVIASWTHRIQPQGRDPMAGKRRVTENIGKGHSMARVERLKTP 76 (255)
T ss_dssp CEEEEECTTSCEE----EEEECCGGGGSCCCHHHHHHHHHHHHHHTCCCCCCCSSTTSSSCCBCCCSSSSSCCCCBCSSS
T ss_pred CeeEEEcCCCCEe----eEEEhHHhhCCCCcHHHHHHHHHHHHHhccccccCCcccCcccceeecCCCCCcCcCCccCCC
Confidence 4899999999999 999999999999999999999999999999988888899999999999999999999997766
Q ss_pred CcccCCCCCCCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCCCC
Q 048058 87 GTHRAGQGAFGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMPLV 157 (157)
Q Consensus 87 GtgRar~g~rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~Piv 157 (157)
| |||+ ++|+|||||++|||+|||+|+++||||+|++||+||||+++.++||++|||+|+++++||||
T Consensus 77 g-GrAr---rsP~~rGGg~~~gPkp~R~~~~klNkK~rrlAl~sALsa~~~~~lv~~rgh~~~~~~~~~lv 143 (255)
T 3j21_D 77 P-RYAA---FVPFARGGRRTHPPKVEKIIWEDINKKEKRLALMSAIAATANYDLVRARGHIIDNVPQLPLI 143 (255)
T ss_dssp C-CCCS---SCSSSTTCCCSSCCCTTSCCCCCCCHHHHHHHHHHHHHHTTCHHHHHHHTCCCSCTTCSSEE
T ss_pred C-Cccc---cCccccCCeeecCCCCCcccceecCHHHHHHHHHHHHHHHhhcccchhcccccccccceeEE
Confidence 3 5554 89999999999999999999999999999999999999999999999999999999999986
No 2
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00 E-value=2.9e-52 Score=368.10 Aligned_cols=151 Identities=68% Similarity=1.141 Sum_probs=140.1
Q ss_pred cccCCCccEEeccCCCccccCCc-cccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccc
Q 048058 2 AAAARPLITVQSLEGDMATDASS-TVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRI 80 (157)
Q Consensus 2 ~~~~~~~v~V~n~~G~~~~~~gg-~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~ 80 (157)
||++||+++|||++|+.+ + +|+||+||+.|+|+||||++|+++++|+||||++++.||+++|+||||+|+|++|+
T Consensus 1 ~~~~rm~v~V~~~~G~~~----g~~ieLp~VF~~piR~dlIh~vV~~~~an~RQgta~t~~AG~KTraEv~G~GRKp~Ri 76 (421)
T 2zkr_c 1 MACARPLISVYSEKGESS----GKNVTLPAVFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGHQTSAESWGTGRAVARI 76 (421)
T ss_dssp ------CCEEECTTSSEE----EECSSCCGGGGSCCCHHHHHHHHHHHHHTTCCCCCCCSCTTTCSCCCCCCSSSSSCCS
T ss_pred CCCcCceeEEEcCCCCcc----ccEEehhHhhCCCccHHHHHHHHHHHHHhccCCCCcCcccCCcceeEecCCCCCcCCc
Confidence 678899999999999997 5 89999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCcccCCCCCCCccccccccccCCc-cCcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCCCC
Q 048058 81 PRVPGGGTHRAGQGAFGNMCRGGRMFAPTK-IWRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMPLV 157 (157)
Q Consensus 81 prqkg~GtgRar~g~rsP~~rGGg~afgPk-p~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~Piv 157 (157)
||.+|+||||||+|++.++|| ||++|||+ |||+|+++||+|+|++||+||||+++.++||++|||+|+++.++|||
T Consensus 77 PRv~QKGTGRARqGs~rs~~R-GGr~fgP~kp~R~~~~KlNkK~rrlAlrSALSaka~~~LV~aRGH~i~~~~e~~LV 153 (421)
T 2zkr_c 77 PRVRGGGTHRSGQGAFGNMCR-GGRMFAPTKTWRRWHRRVNTTQKRYAICSALACLSLPALVMSKGHRIEEVPELPLV 153 (421)
T ss_dssp CCBTTTTBCCCSTTCCTTSTT-CCCCSSCCCSSSCCCCCCCHHHHHHHHHHHHHHHTCHHHHHHTTCCCCSCSCCSEE
T ss_pred ccccCCCCCccCccccccccc-cceeeCCCCCCcchhhhcCHHHHHHHHHHHHHhcccchhhhhccccccccccCCEE
Confidence 999999999999998555999 88888888 89999999999999999999999999999999999999999999985
No 3
>3iz5_D 60S ribosomal protein L4 (L4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_D
Probab=100.00 E-value=4.5e-52 Score=365.96 Aligned_cols=152 Identities=65% Similarity=1.098 Sum_probs=147.1
Q ss_pred CcccCCCccEEeccCCCccccCCc----cccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccc
Q 048058 1 MAAAARPLITVQSLEGDMATDASS----TVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRA 76 (157)
Q Consensus 1 ~~~~~~~~v~V~n~~G~~~~~~gg----~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k 76 (157)
||+++||+++|||++|+.+ | +|+||+||+.|+|+||||++|+++++|+||||+++++||+++|+||||+|+|
T Consensus 1 ~~~~~rp~v~V~~~~G~~~----g~~~~~v~Lp~VF~~~~r~dlIh~vV~~~~an~RQgt~~tk~AG~~traEv~GtGRk 76 (405)
T 3iz5_D 1 MATQTRPLVSVKALEGDMA----TDNSSSLALAEVFRAPLRPDVVRFVHRLLSCNKRQPYAVSRRAGHQTSAESWGTGRA 76 (405)
T ss_dssp CTTCCCCEECCBCCSCCCC----SSCCCCEECCGGGGSCCCHHHHHHHHHHHHHTCSCCCCSCTTTTTCSCCCCCCSSSS
T ss_pred CCcccCceEEEEeCCCCcc----cccceeeccHHHhCCCCCHHHHHHHHHHHHHhhhcCcCCCccccCCccceecCCCCC
Confidence 7889999999999999998 6 7999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCCcccCCCCCCCccccccccccCCcc-CcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCC
Q 048058 77 VSRIPRVPGGGTHRAGQGAFGNMCRGGRMFAPTKI-WRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMP 155 (157)
Q Consensus 77 ~~r~prqkg~GtgRar~g~rsP~~rGGg~afgPkp-~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~P 155 (157)
++|+|||||+||||||+|+. |+|+|||++|||+| ||+|+++||||+|++||+||||+++.++||++|||+|++++++|
T Consensus 77 ~~RipRQKG~GTgRAr~gs~-~~~~gGGr~fgP~p~~R~y~~klNKK~rrlAlrSALSaka~~~lV~aRghri~~v~e~~ 155 (405)
T 3iz5_D 77 VSRIPRVPGGGTHRAGQGAF-GNMCRGGRMFAPTKTWRKWHRRVNVHLRRVAVASALAATSVPSLVLARGHRIETVPELP 155 (405)
T ss_dssp SCSSCCCCCCSSSCCCSCCS-SSSSTTCCCSSSCCSCCCCCCCCCHHHHHHHHHHHHHHTTCHHHHHHHTCCCCCCSSSS
T ss_pred ccccccccCCCCCccCCCCC-CCccCCeEEcCCCCCCccceeecCHHHHHHHHHHHHHHhcchhhhhhccccccccccCC
Confidence 99999999999999999866 89999999999998 79999999999999999999999999999999999999999999
Q ss_pred CC
Q 048058 156 LV 157 (157)
Q Consensus 156 iv 157 (157)
||
T Consensus 156 LV 157 (405)
T 3iz5_D 156 LV 157 (405)
T ss_dssp EE
T ss_pred EE
Confidence 76
No 4
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C
Probab=100.00 E-value=6.4e-51 Score=358.57 Aligned_cols=151 Identities=52% Similarity=0.794 Sum_probs=143.0
Q ss_pred ccCCCccEEe-ccCCCccccCCcc-ccccccccccCChhhHHHHHHHHHHhcCCCCCcCcc----Ccccceeeeeccccc
Q 048058 3 AAARPLITVQ-SLEGDMATDASST-VPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRK----AGHQTSAESWGTGRA 76 (157)
Q Consensus 3 ~~~~~~v~V~-n~~G~~~~~~gg~-ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~----a~~k~raev~G~g~k 76 (157)
|++||+++|| |++|+.+ +++ |+||+||+.|+|+||||++|+++++|+||||+.++. +++++|+||||+|+|
T Consensus 1 m~~~p~v~V~~~~~G~~~---~g~~veLp~VF~~~ir~dlIh~vV~~~~anrRQ~~~~~~~~rGTa~tktraEv~GtGRk 77 (410)
T 4a17_C 1 MTSRPQIHVHDAKEANKQ---TATKLTLPAVFTAPIRTDIVHKVFTDLNKNRKQASGVKISTRGTAGMGHSAESWGTGRA 77 (410)
T ss_dssp -CCCCEEEEEESSSTTEE---EEEEEECCGGGGSCCCHHHHHHHHHHHHHTTCCCCCCCBCSSCBTTCCSCEEECCGGGS
T ss_pred CCCCCeeEEEECCCCCcc---CCceEehhHhhCCCCcHHHHHHHHHHHHHhCcCcccCCCcccccccCCccceeCCCCCC
Confidence 6789999999 8999984 267 999999999999999999999999999999999988 999999999999999
Q ss_pred cccccccCCCCcccCCCCCCCccccccccccCCcc-CcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCC
Q 048058 77 VSRIPRVPGGGTHRAGQGAFGNMCRGGRMFAPTKI-WRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMP 155 (157)
Q Consensus 77 ~~r~prqkg~GtgRar~g~rsP~~rGGg~afgPkp-~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~P 155 (157)
++|+|||+|+||||||+|++.|+|| ||++|||+| ||+|+++||+|+|++||+||||+++.++||++|||+|+++.++|
T Consensus 78 ~~RiPR~~QKGTGRARqGs~rP~~r-GGr~fgP~p~~R~y~~KlNKK~rrlAlrSALSaka~~~lV~aRgh~i~~v~e~~ 156 (410)
T 4a17_C 78 VARIPRVGGSGTHRSGQAAFGNQCR-KGRMFAPLKTYRRVHRRVNVNQKRHAVAAALAASALVPLVFARGHRISNVQELP 156 (410)
T ss_dssp SCSSEEECCSSSTTTTCBCSSTTSS-SCCCSSCCCSCCCCCCCCCHHHHHHHHHHHHHHHTCHHHHHHTTCCCTTCCSSS
T ss_pred ccccccccCCCCCcccccccCCccC-CeEEcCCCCCccchhhhhCHHHHHHHHHHHHHHhcchhhhhhccccccccCcCC
Confidence 9999999999999999999559998 889999997 79999999999999999999999999999999999999999999
Q ss_pred CC
Q 048058 156 LV 157 (157)
Q Consensus 156 iv 157 (157)
||
T Consensus 157 LV 158 (410)
T 4a17_C 157 YV 158 (410)
T ss_dssp EE
T ss_pred EE
Confidence 86
No 5
>1vq8_C 50S ribosomal protein L4E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...
Probab=100.00 E-value=1.7e-50 Score=337.35 Aligned_cols=139 Identities=32% Similarity=0.502 Sum_probs=132.6
Q ss_pred CccEEeccCCCccccCCccccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCC
Q 048058 7 PLITVQSLEGDMATDASSTVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGG 86 (157)
Q Consensus 7 ~~v~V~n~~G~~~~~~gg~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~ 86 (157)
|+++|||++|+++ ++|+||+||+.|+|+||||++|++|++|+||||++++.||+|+++|+||+|++++|+||||
T Consensus 1 m~v~v~~~~g~~~----g~v~Lp~vF~~~~r~dli~~~v~~~~an~Rqgt~~~~~aG~kt~ae~~GtGR~~ari~rqK-- 74 (246)
T 1vq8_C 1 MQATIYDLDGNTD----GEVDLPDVFETPVRSDLIGKAVRAAQANRKQDYGSDEYAGLRTPAESFGSGRGQAHVPKLD-- 74 (246)
T ss_dssp CEEEEECTTSCEE----EEEECCGGGGSCCCHHHHHHHHHHHHHHTCCCCCCCTTTTTCCCCBCCCSSSSCCCCCEET--
T ss_pred CeeEEEcCCCCCc----cEEEhhHhhCCCccHHHHHHHHHHHHHhcccCcccccccCcccceeeccCCCCcccccccc--
Confidence 3689999999999 9999999999999999999999999999999999999999999999999999999999988
Q ss_pred CcccCCCCCCCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCCCC
Q 048058 87 GTHRAGQGAFGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMPLV 157 (157)
Q Consensus 87 GtgRar~g~rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~Piv 157 (157)
|.| .+||+|||||++|||+|||+|++|||||+|++||+||||+++.++||++|||+|+++ +.|||
T Consensus 75 G~a-----rrsP~~rGGg~~~gPkp~R~~~~klnkK~rrlAl~sALsa~~~~~lv~~rGh~~~~~-e~~lv 139 (246)
T 1vq8_C 75 GRA-----RRVPQAVKGRSAHPPKTEKDRSLDLNDKERQLAVRSALAATADADLVADRGHEFDRD-EVPVV 139 (246)
T ss_dssp TEE-----CSSTTSTTCCCSSCCCTTCCCCCCCCHHHHHHHHHHHHHHTTCHHHHHHHTCCCCCS-SCSEE
T ss_pred Ccc-----ccCCccCCCeeecCCCCCccchhhcCHHHHHHHHHHHHHHhhhhhhhhhcccccccc-cccEE
Confidence 443 379999999999999999999999999999999999999999999999999999998 88875
No 6
>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C 1s1i_D 3jyw_D
Probab=100.00 E-value=7e-46 Score=323.04 Aligned_cols=148 Identities=62% Similarity=1.016 Sum_probs=140.8
Q ss_pred CCCccEEeccCCCccccCCcc-ccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeecccccccccccc
Q 048058 5 ARPLITVQSLEGDMATDASST-VPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRV 83 (157)
Q Consensus 5 ~~~~v~V~n~~G~~~~~~gg~-ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prq 83 (157)
+|++++|||++|+.+ ++ |+||+||+.|+|+||||++|+++++|+||||+++++++..+.+++||||+..+|+||.
T Consensus 2 ~r~~v~V~~~~G~~~----g~~i~Lp~VF~~p~r~dlih~vv~~~~an~RQgt~~tk~rgevtg~K~wGTGRAraripRv 77 (362)
T 2wwb_H 2 SRPQVTVHSLTGEAT----ANALPLPAVFSAPIRPDIVHTVFTSVNKNKRQAYAVSEKAGHQTSAESWGTGRAVARIPRV 77 (362)
T ss_dssp CSSCCCCCCSSCSCC----SCCCCCCGGGCSCCCHHHHHHHHHHHHHHHCCCCCCCSSSSCSSCCSSCCCCSSSCSCSCC
T ss_pred CCCeeEEEcCCCcCc----CceEehhHhhCCCccHHHHHHHHHHHHHhccCCCCCCCcccccccceecCCCCCeeecccc
Confidence 589999999999998 88 9999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCCCCCCccccccccccCCcc-CcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCCCCCCCC
Q 048058 84 PGGGTHRAGQGAFGNMCRGGRMFAPTKI-WRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETVPEMPLV 157 (157)
Q Consensus 84 kg~GtgRar~g~rsP~~rGGg~afgPkp-~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~~~~Piv 157 (157)
+|+|+.|+++|++.| |+|||++|||+| ||+|+++||||+|++||+||||+++.++||++|||+|+++.++|||
T Consensus 78 ~g~Gs~RSp~ga~~~-~~gGG~~fgP~p~~R~~~~klNkK~rrlAl~SALsaka~~~lv~arGH~i~~~~e~~Lv 151 (362)
T 2wwb_H 78 GGGGTGRSGQGAFGN-MCRGGRMFAPTKTWRKWNVKVNHNEKRYATASAIAATAVASLVLARGHRVEKIPEIPLV 151 (362)
T ss_dssp CSCSSSSCSSTTTSS-SCSSSCCSSSSCSSCCCCCCCCHHHHHHHHHHHHHGGGCSTHHHHHTCCCCSCSSCSBC
T ss_pred cCCCCCCCcccccCC-ccCCeEECCCCCCCcchhhhcCHHHHHHHHHHHHHhccchhhhhhccccccccccCcEE
Confidence 999998888877766 788999999986 6999999999999999999999999999999999999999999986
No 7
>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00 E-value=2.2e-44 Score=306.71 Aligned_cols=119 Identities=25% Similarity=0.308 Sum_probs=108.8
Q ss_pred ccCCCccEEeccCCCccccCCcccccc-ccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeecccccccccc
Q 048058 3 AAARPLITVQSLEGDMATDASSTVPLP-DVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIP 81 (157)
Q Consensus 3 ~~~~~~v~V~n~~G~~~~~~gg~ieLp-~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~p 81 (157)
|+.|++++|||++|+.+ |+|+|| +||+.|+|+||||++|++|++|+|||| +++|+|+||||+||| |
T Consensus 49 ~~~M~~v~V~~~~G~~~----g~veLp~~VF~~~~r~dlih~vV~~q~an~RQGT-----a~tKtRaEV~GgGRK----p 115 (293)
T 3bbo_G 49 KSELIPLPILNFSGEKV----GETFLNLKTAPPEKARAVVHRGLITHLQNKRRGT-----ASTLTRAEVRGGGRK----P 115 (293)
T ss_dssp --CCEEEECCCSSSCCC----SEEEECSSSSSSCCCTTTTTTHHHHHHHHHCCCC-----CCCCSSTTCSSSCCC----C
T ss_pred hhcCceeEEEcCCCCEe----eeEEcCHHHhCCCccHHHHHHHHHHHHHhccccc-----ccCceeeeeccCCCc----e
Confidence 34456899999999999 899999 799999999999999999999999996 578999999999997 4
Q ss_pred ccCCCCcccCCCCC-CCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhcc
Q 048058 82 RVPGGGTHRAGQGA-FGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASA 136 (157)
Q Consensus 82 rqkg~GtgRar~g~-rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka 136 (157)
| +||||||||+|+ ++|+|||||++|||+| |+|++|||||+|++||+||||+++
T Consensus 116 ~-RQKGTGRAR~Gs~rsP~~rGGGvafGPkP-Rdy~~klNKK~rrlAlrsALSak~ 169 (293)
T 3bbo_G 116 Y-PQKKTGRARRGSQGSPLRPGGGVIFGPKP-RDWTIKMNKKERRLALSTAIASAV 169 (293)
T ss_dssp C-CCSSSCSCSCCSSSCSSSSSSCCSSCCCS-CCCCCCCCSHHHHHHHHHHHHHHH
T ss_pred e-ccCCCCccccCcccCCceecCceecCCcC-cchhhhcCHHHHHHHHHHHHHHHc
Confidence 4 677778888886 9999999999999997 999999999999999999999999
No 8
>3v2d_F 50S ribosomal protein L4; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ...
Probab=100.00 E-value=1.9e-43 Score=288.78 Aligned_cols=124 Identities=23% Similarity=0.205 Sum_probs=110.4
Q ss_pred CCCccEEeccCCCccccCCccccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccC
Q 048058 5 ARPLITVQSLEGDMATDASSTVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVP 84 (157)
Q Consensus 5 ~~~~v~V~n~~G~~~~~~gg~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqk 84 (157)
.||+++|||++|+++ |+||||+ |+|+||||++|++|++|+||||+ .+|+|+||||+|+| || +
T Consensus 5 ~m~~v~V~~~~G~~~----g~i~L~~----~~r~dlih~~v~~~~a~~Rqgt~-----~tktraEv~G~grK----p~-r 66 (210)
T 3v2d_F 5 AVYQIPVLSPSGRRE----LAADLPA----EINPHLLWEVVRWQLAKRRRGTA-----STKTRGEVAYSGRK----IW-P 66 (210)
T ss_dssp -CCCCCEECSSSCCC----CCCCCCS----CCCHHHHHHHHHHHHHHTCCCCC-----CCCCTTTSSCCCCC----SS-C
T ss_pred ccceeEEEcCCCCEe----eeEecCC----cccHHHHHHHHHHHHHhccCCcc-----CCCccccccCCCCC----CC-C
Confidence 467999999999999 9999998 99999999999999999999986 46899999999997 43 5
Q ss_pred CCCcccCCCCC-CCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCC
Q 048058 85 GGGTHRAGQGA-FGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETV 151 (157)
Q Consensus 85 g~GtgRar~g~-rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~ 151 (157)
||||||||+|+ +||+|||||++|||+| |+|+++||||+|++|++||||+++.++ +-|.+|+.
T Consensus 67 QKGTGrAR~Gs~rsP~~~gGG~~fgP~p-R~~~~klnkK~rrlAl~sALs~k~~~~----~l~Vvd~~ 129 (210)
T 3v2d_F 67 QKHTGRARHGDIGAPIFVGGGVVFGPKP-RDYSYTLPKKVRKKGLAMAVADRAREG----KLLLVEAF 129 (210)
T ss_dssp SSSSSSCCCCCTTSTTSTTCCCSSCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHTT----CEEEESCC
T ss_pred CCCCCccCCCcccCCcccCCeeeCCCCC-ccceeeCCHHHHHHHHHHHHHHHHhcC----CEEEeccc
Confidence 77778888887 9999999999999999 999999999999999999999999764 33666654
No 9
>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP: c.22.1.1
Probab=100.00 E-value=2.1e-44 Score=297.00 Aligned_cols=117 Identities=23% Similarity=0.257 Sum_probs=62.6
Q ss_pred CccEEeccCCCccccCCcccccc-ccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCC
Q 048058 7 PLITVQSLEGDMATDASSTVPLP-DVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPG 85 (157)
Q Consensus 7 ~~v~V~n~~G~~~~~~gg~ieLp-~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg 85 (157)
|+++|||++|+++ ++|||| +||+.|+|+||||++|++|++|+||||++ +|+|+||||+|+|+ || |
T Consensus 1 ~~~~v~~~~g~~~----g~v~L~~~vF~~~~r~dlih~~v~~~~a~~Rqgt~~-----tktRaEv~G~GrKp---~r--Q 66 (225)
T 1dmg_A 1 AQVDLLNVKGEKV----GTLEISDFVFNIDPNYDVMWRYVDMQLSNRRAGTAS-----TKTRGEVSGGGRKP---WP--Q 66 (225)
T ss_dssp CEEEEECTTSCEE----EEEECCHHHHSSCCCHHHHHHHHHHHHC-----------------------------------
T ss_pred CeeEEEcCCCCEe----eEEEcCHHHhCCCccHHHHHHHHHHHHHhccCCccc-----cceeeEeecCCCCC---CC--C
Confidence 3789999999999 999999 79999999999999999999999999864 79999999999973 44 6
Q ss_pred CCcccCCCCC-CCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhccCh
Q 048058 86 GGTHRAGQGA-FGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVP 138 (157)
Q Consensus 86 ~GtgRar~g~-rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~ 138 (157)
|||||||+|+ +||+|||||++|||+| |+|+++||||+|++||+||||+++.+
T Consensus 67 KGTGrAR~Gs~rsP~~rGGG~~fgPkp-R~~~~klnkK~rrlAl~sALs~k~~~ 119 (225)
T 1dmg_A 67 KHTGRARHGSIRSPIWRHGGVVHGPKP-RDWSKKLNKKMKKLALRSALSVKYRE 119 (225)
T ss_dssp -----------------------------CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCccccccccCCceecCceecCCcC-ccccccCCHHHHHHHHHHHHHHHHhC
Confidence 6677777776 9999999999999999 99999999999999999999999986
No 10
>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K* 1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C* 3dll_C* 3pio_C* 3pip_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C 1pny_C 1vor_F 1vou_F ...
Probab=100.00 E-value=1.2e-42 Score=282.86 Aligned_cols=112 Identities=22% Similarity=0.229 Sum_probs=103.2
Q ss_pred ccEEeccCCCccccCCccccccccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCCC
Q 048058 8 LITVQSLEGDMATDASSTVPLPDVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGGG 87 (157)
Q Consensus 8 ~v~V~n~~G~~~~~~gg~ieLp~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~G 87 (157)
+++|||++|+++ |+||||+ +|+||||++|++|++|+||||++ +|+|+||||+|+| || +|||
T Consensus 3 ~v~v~~~~g~~~----g~i~L~~-----~r~dlih~~v~~~~a~~Rqgt~~-----tktraEv~G~GrK----p~-rQKG 63 (205)
T 2zjr_C 3 QINVIGQNGGRT----IELPLPE-----VNSGVLHEVVTWQLASRRRGTAS-----TRTRAQVSKTGRK----MY-GQKG 63 (205)
T ss_dssp CCCCSSCCCCCC----CCCCTTT-----CCHHHHHHHHHHHHHHHCCCCCC-----CCCCTTTSCCCSC----CS-CSSS
T ss_pred eeEEEcCCCCEe----eeEECCC-----chHHHHHHHHHHHHHhccccccc-----cceeeeccCCCCC----CC-CcCC
Confidence 799999999999 8999998 99999999999999999999864 6899999999997 43 5777
Q ss_pred cccCCCCC-CCccccccccccCCccCcceeeccCHHHHHHHHHHHHHhccChh
Q 048058 88 THRAGQGA-FGNMCRGGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVPS 139 (157)
Q Consensus 88 tgRar~g~-rsP~~rGGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~~ 139 (157)
|||||+|+ +||+|||||++|||+| |+|+++||||+|++||+||||+++.++
T Consensus 64 TGrAR~Gs~rsP~~~gGG~~fgP~p-R~~~~klnkK~rrlAl~sALs~k~~~~ 115 (205)
T 2zjr_C 64 TGNARHGDRSVPTFVGGGVAFGPKP-RSYDYTLPRQVRQLGLAMAIASRQEGG 115 (205)
T ss_dssp SSSCCCSCSCSTTSTTSCCTTCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHTT
T ss_pred CCCcccCcccCCcccCCeeecCCCC-cchhhhcCHHHHHHHHHHHHHHHhhcC
Confidence 77778886 9999999999999999 999999999999999999999999754
No 11
>3r8s_E 50S ribosomal protein L4; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_C 1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E 2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E 2qox_E 2qoz_E* ...
Probab=100.00 E-value=8e-42 Score=277.69 Aligned_cols=113 Identities=22% Similarity=0.258 Sum_probs=101.1
Q ss_pred cccccc-ccccccCChhhHHHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCCCcccCCCCC-CCcccc
Q 048058 24 STVPLP-DVMKASIRPDIVGFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGGGTHRAGQGA-FGNMCR 101 (157)
Q Consensus 24 g~ieLp-~vF~~~~r~~li~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~GtgRar~g~-rsP~~r 101 (157)
++|||| +||+.|+|+||||++|++|++|+||||+ .+|+|+||||+|+| || +||||||||+|+ +||+||
T Consensus 10 ~~i~L~~~vF~~~~r~dlih~~v~~~~a~~Rqgt~-----~tktraEv~G~grK----p~-rQKGTGrAR~Gs~rsP~~~ 79 (201)
T 3r8s_E 10 SALTVSETTFGRDFNEALVHQVVVAYAAGARQGTR-----AQKTRAEVTGSGKK----PW-RQKGTGRARSGSIKSPIWR 79 (201)
T ss_dssp CCEECCHHHHSSCCCHHHHHHHHHHHHTTSCCCCC-----CCCBTTTSSCCCCC----SS-CSSSSSSCCCCCTTCTTST
T ss_pred ceEECCHHHhCCCCCHHHHHHHHHHHHHhCcCCCC-----CCcceeeecCCCCC----CC-ccCCCCccccCcCcCCcee
Confidence 579998 7999999999999999999999999986 46899999999997 43 577788888887 999999
Q ss_pred ccccccCCccCcceeeccCHHHHHHHHHHHHHhccChhhHhhcCcccCCC
Q 048058 102 GGRMFAPTKIWRRWHRKINVNQKRYAIVSAIAASAVPSLVMARGHKIETV 151 (157)
Q Consensus 102 GGg~afgPkp~r~~~~kiNkK~rrlAl~sALs~ka~~~~v~~rgh~~~~~ 151 (157)
|||++|||+| |+|+++||||+|++|++||||+++.++ +-|.+|+.
T Consensus 80 gGG~~fgP~p-R~~~~klnkK~rrlAl~sALs~k~~~~----~l~Vvd~~ 124 (201)
T 3r8s_E 80 SGGVTFAARP-QDHSQKVNKKMYRGALKSILSELVRQD----RLIVVEKF 124 (201)
T ss_dssp TCCBTTCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHT----CEEECSCC
T ss_pred CCEeecCCcc-ccceeccCHHHHHHHHHHHHHHHhhcC----CEEEeccc
Confidence 9999999999 999999999999999999999999764 34666664
No 12
>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_D
Probab=100.00 E-value=1.3e-34 Score=230.78 Aligned_cols=88 Identities=24% Similarity=0.278 Sum_probs=79.0
Q ss_pred HHHHHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCCCcccCCCCC-CCccccccccccCCccCcceeeccC
Q 048058 42 GFVHSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGGGTHRAGQGA-FGNMCRGGRMFAPTKIWRRWHRKIN 120 (157)
Q Consensus 42 ~~~v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~GtgRar~g~-rsP~~rGGg~afgPkp~r~~~~kiN 120 (157)
|++|+||++|+||||++ +|+|+||||+|+| || +||||||||+|+ +||+|||||++|||+++|||+++||
T Consensus 1 h~~v~~~~a~~Rqgt~~-----tktraEv~G~grK----p~-rQKGTGrAR~Gs~rsP~~~gGG~~fgP~~pR~~~~kln 70 (175)
T 2ftc_D 1 HQVAMWQKNFKRISYAK-----TKTRAEVRGGGRK----PW-PQKGTGRARHGSIRSPLWRGGGVAHGPRGPTSYYYMLP 70 (175)
T ss_pred CHHHHHHHHHhhcCCCC-----CcceeeecCCCCC----CC-CcCCCCccccCCCcCCcccCCEeecCCCCccchhhhcC
Confidence 78999999999999864 7999999999997 43 577777788886 9999999999999993399999999
Q ss_pred HHHHHHHHHHHHHhccChh
Q 048058 121 VNQKRYAIVSAIAASAVPS 139 (157)
Q Consensus 121 kK~rrlAl~sALs~ka~~~ 139 (157)
||+|++||+||||+++.++
T Consensus 71 kK~rrlAl~sALs~k~~~~ 89 (175)
T 2ftc_D 71 MKVRALGLKVALTVKLAQD 89 (175)
T ss_pred HHHHHHHHHHHHHHhccCC
Confidence 9999999999999999864
No 13
>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C 1s1i_D 3jyw_D
Probab=92.30 E-value=0.06 Score=46.94 Aligned_cols=51 Identities=18% Similarity=-0.014 Sum_probs=30.6
Q ss_pred HHHHHHhcCCCCCcCccCcccceeeeeccccccccccccCCCCcccCCCCCCCcccccccccc
Q 048058 45 HSNISKNSRQPYAVSRKAGHQTSAESWGTGRAVSRIPRVPGGGTHRAGQGAFGNMCRGGRMFA 107 (157)
Q Consensus 45 v~~~~an~Rqgt~~~~~a~~k~raev~G~g~k~~r~prqkg~GtgRar~g~rsP~~rGGg~af 107 (157)
++.+--..-+-..+.+++.+++++|+ +|+| || |||||++ +.|=..|||..-
T Consensus 34 lih~vv~~~~an~RQgt~~tk~rgev--tg~K----~w----GTGRAra--ripRv~g~Gs~R 84 (362)
T 2wwb_H 34 IVHTVFTSVNKNKRQAYAVSEKAGHQ--TSAE----SW----GTGRAVA--RIPRVGGGGTGR 84 (362)
T ss_dssp HHHHHHHHHHHHHCCCCCCCSSSSCS--SCCS----SC----CCCSSSC--SCSCCCSCSSSS
T ss_pred HHHHHHHHHHHhccCCCCCCCccccc--ccce----ec----CCCCCee--ecccccCCCCCC
Confidence 33333333334456789999999999 5665 77 5666665 345555554333
No 14
>3aia_A UPF0217 protein MJ1640; DUF358, rRNA methyltransferase, spout-class fold, transferas; HET: SAM; 1.40A {Methanocaldococcus jannaschii} PDB: 3ai9_X*
Probab=21.34 E-value=91 Score=24.83 Aligned_cols=44 Identities=16% Similarity=0.031 Sum_probs=27.0
Q ss_pred ccCCCccEEeccCCCccccCCccccccccccccCChhhHHHHHHHHHH
Q 048058 3 AAARPLITVQSLEGDMATDASSTVPLPDVMKASIRPDIVGFVHSNISK 50 (157)
Q Consensus 3 ~~~~~~v~V~n~~G~~~~~~gg~ieLp~vF~~~~r~~li~~~v~~~~a 50 (157)
|++|-.+-|..-+.-.. +.+.|.++=+..=|+||||+++.+.+-
T Consensus 4 ~~~mr~Fvi~~~~a~t~----~~f~l~dl~G~~GR~DIl~r~l~~Al~ 47 (211)
T 3aia_A 4 MASMREFIFKANKTITS----SDINLKDLPGSCGRLDLLCRCVSDAFF 47 (211)
T ss_dssp ---CEEEEEEESSCCCS----SCCCGGGTTTTTTSHHHHHHHHHHHHB
T ss_pred hhhheEEEEEecCCCCC----CCccHhhCCCCCCCeehHHHHHHHHHh
Confidence 55555555544332222 457777766777799999999987653
Done!