Query 033375
Match_columns 120
No_of_seqs 109 out of 411
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 21:59:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033375.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/033375hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5e_d L34, YL28, 60S ribosoma 100.0 1.5E-59 5E-64 339.5 12.3 112 6-119 1-112 (113)
2 4a17_W RPL31, 60S ribosomal pr 100.0 1.1E-58 3.8E-63 334.1 12.0 108 10-119 4-111 (111)
3 3iz5_g 60S ribosomal protein L 100.0 1.1E-58 3.9E-63 339.0 2.4 112 7-120 10-123 (123)
4 2zkr_x 60S ribosomal protein L 100.0 1.1E-57 3.6E-62 334.6 7.0 113 5-119 13-125 (125)
5 3j21_a 50S ribosomal protein L 100.0 3.3E-43 1.1E-47 247.5 10.5 83 9-91 3-85 (95)
6 1vq8_X 50S ribosomal protein L 100.0 3.3E-40 1.1E-44 231.1 8.7 77 9-86 3-81 (92)
7 3izc_n 60S ribosomal protein R 50.4 3.4 0.00012 27.6 0.0 46 35-82 2-49 (78)
8 4gnt_B Carbohydrate-responsive 35.1 13 0.00045 19.8 0.9 8 59-66 5-12 (26)
9 2ret_A Pseudopilin EPSI; gener 19.0 1.7E+02 0.0059 19.2 4.4 31 74-109 64-94 (103)
10 3ci0_I Pseudopilin GSPI; gener 18.3 1.3E+02 0.0043 19.0 3.4 25 74-102 64-88 (89)
No 1
>3u5e_d L34, YL28, 60S ribosomal protein L31-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_M 2ww9_M 3izc_g 3izs_g 2wwb_M 3o5h_a 3o58_a 3u5i_d 4b6a_d 1s1i_W 3jyw_W
Probab=100.00 E-value=1.5e-59 Score=339.51 Aligned_cols=112 Identities=53% Similarity=0.894 Sum_probs=107.8
Q ss_pred ccccccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCCCeEeCchhhHHHHhCCCCCCCceeEEEEEeeeC
Q 033375 6 KGRKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVPKRVRVRIARRRN 85 (120)
Q Consensus 6 ~~~~~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~~ 85 (120)
++++++++||||||||||++||++|+||||+|+++||+||+|||||+||+||++||++||++||+|||++|||++||++|
T Consensus 1 ~sa~~evvtreyTInlhK~ihgv~fkKrAprAlkeIrkFa~K~Mgt~dV~ID~~LNk~vWakGirnvP~rIrVrlsRk~n 80 (113)
T 3u5e_d 1 MAGLKDVVTREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAPELNQAIWKRGVKGVEYRLRLRISRKRN 80 (113)
T ss_dssp ---CCCCEEEEEEEEHHHHHTTCCTTTHHHHHHHHHHHHHHHHHCCSCEEECHHHHHHHHTTCTTCCCSEEEEEEEEEEC
T ss_pred CCcccCceeeEEEEeCcceeccCCCcccCHHHHHHHHHHHHHHcCCCceEECcHHHHHHHhccccCCCceEEEEEEEecC
Confidence 37899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccceEEEEEEecCCCCccCceeEEcccC
Q 033375 86 DDEDAKEELYSLVTVAEIPPEGLRGLGTKVIEDE 119 (120)
Q Consensus 86 eded~~~k~y~~v~~v~v~~~~fk~l~t~~~~~~ 119 (120)
||||+++||||||+||||+ +||||||.+|+++
T Consensus 81 ededs~~klytlvt~v~v~--tfk~L~t~~v~~~ 112 (113)
T 3u5e_d 81 EEEDAKNPLFSYVEPVLVA--SAKGLQTVVVEED 112 (113)
T ss_dssp CSSCCSSSEEEEEEECCCS--CCSSCCCEEECCC
T ss_pred CCCCCccccEEEEEEEEcC--CccCceEEEeccC
Confidence 9999999999999999999 9999999999976
No 2
>4a17_W RPL31, 60S ribosomal protein L31; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_W 4a1c_W 4a1e_W
Probab=100.00 E-value=1.1e-58 Score=334.08 Aligned_cols=108 Identities=48% Similarity=0.806 Sum_probs=106.3
Q ss_pred ccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCCCeEeCchhhHHHHhCCCCCCCceeEEEEEeeeCCCCC
Q 033375 10 EEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVPKRVRVRIARRRNDDED 89 (120)
Q Consensus 10 ~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~~eded 89 (120)
.+++||||||||||++||++|+||||+|+++||+||+|||||+||+|||+||++||++||+|||+||||+++|++|||||
T Consensus 4 ~~vvtreyTInlhK~ihgv~fkKrAprAlkeIrkFa~K~Mgt~dV~ID~~LNk~vWakGirnvP~rIrVrlsRk~neded 83 (111)
T 4a17_W 4 QEEKSIDTTVNLHKQCHKISFKKKAPRAIREIVAIAKKTMGTDDVRIDTELNKFIWSNGIRNIPRRVRVRLCKRKNEEEG 83 (111)
T ss_dssp CCCCEEEEEEEHHHHTTTCCGGGHHHHHHHHHHHHHHHHHCCSCEEECHHHHHHHHTTCSSSCCSEEEEEEEEEECCCSS
T ss_pred CcceEEEEEEECeeeeecCCccccCHHHHHHHHHHHHHHcCCCceEECcHHHHHHHhccccCCCcEEEEEEEEecCCCCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccceEEEEEEecCCCCccCceeEEcccC
Q 033375 90 AKEELYSLVTVAEIPPEGLRGLGTKVIEDE 119 (120)
Q Consensus 90 ~~~k~y~~v~~v~v~~~~fk~l~t~~~~~~ 119 (120)
+++|||+||+||||+ +||||||.++++|
T Consensus 84 s~~klytlvt~v~v~--tfk~L~t~~v~~~ 111 (111)
T 4a17_W 84 AQSQFYTLVQHLQVD--SYHGLLTEKTKAE 111 (111)
T ss_dssp CSSSEEEEEEEECCS--CGGGCCCEECCCC
T ss_pred CCCCcEEEEEEEEcC--CcccceEEEeccC
Confidence 999999999999999 9999999999875
No 3
>3iz5_g 60S ribosomal protein L31 (L31E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_g 2go5_6 2j37_6
Probab=100.00 E-value=1.1e-58 Score=338.95 Aligned_cols=112 Identities=83% Similarity=1.280 Sum_probs=107.4
Q ss_pred cccccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCCCeEeCchhhHHHHhCCCCCCCceeEEEEEeeeCC
Q 033375 7 GRKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVPKRVRVRIARRRND 86 (120)
Q Consensus 7 ~~~~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~~e 86 (120)
+++.+++||||||||||++||++|+||||+|+++||+||+|||||+||+||++||++||++||+|||+||||+++|++||
T Consensus 10 ~~~~evvtreyTInlhK~ihgv~fkKRAprAlKeIrkFa~K~Mgt~dVrID~~LNkaVWakGirnvP~rIRVrlsRk~ne 89 (123)
T 3iz5_g 10 TRKDEVVTREYTINLHKRLHGCTFKKKAPNAIKEIRKFAQKAMGTTDIRIDVKLNKAIWTNGIRSVPRRVRVRISRKRND 89 (123)
T ss_dssp SCCCSCCEEEEEEECHHHHHHSCTTTCHHHHHHHHHHHHHHHHTCSCBCCCHHHHHHHHTTCSSCCCSEEEEEEEEETTT
T ss_pred ccccCceeeEEEEeCchhcccCCCcccCHHHHHHHHHHHHHHcCCCceEECcHHHHHHHHccccCCCceEEEEEEEecCC
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceEEEEEEec--CCCCccCceeEEcccCC
Q 033375 87 DEDAKEELYSLVTVAEI--PPEGLRGLGTKVIEDED 120 (120)
Q Consensus 87 ded~~~k~y~~v~~v~v--~~~~fk~l~t~~~~~~~ 120 (120)
|||+++||||||+|||| + +||||||.+|+++|
T Consensus 90 deds~~klytlvt~v~v~~~--tfk~L~t~~v~~~~ 123 (123)
T 3iz5_g 90 EEDAKEELYSLVTVAEIPAE--GLKGLGTKVVEDEE 123 (123)
T ss_dssp TEEEEEECCCSSCCCCCHHH--HHHHHHHHSCC---
T ss_pred CCCCccccEEEEEEEEecCC--CccCceEEEeccCC
Confidence 99999999999999999 7 99999999999875
No 4
>2zkr_x 60S ribosomal protein L31; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00 E-value=1.1e-57 Score=334.65 Aligned_cols=113 Identities=54% Similarity=0.952 Sum_probs=79.8
Q ss_pred cccccccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCCCeEeCchhhHHHHhCCCCCCCceeEEEEEeee
Q 033375 5 TKGRKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVPKRVRVRIARRR 84 (120)
Q Consensus 5 ~~~~~~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~ 84 (120)
+.+++++++||||||||||++||++|++|||+||++||+||+|||||+||+|||+||++||++||+|||++|||+++|++
T Consensus 13 ~~s~~~evvtreyTInL~K~ihgv~fkKRAprAik~IrkFa~K~Mgt~dVrID~~LNk~IWskGirnvP~rIRVrlsRk~ 92 (125)
T 2zkr_x 13 GRSAINEVVTREYTINIHKRIHGVGFKKRAPRALKEIRKFAMKEMGTPDVRIDTRLNKAVWAKGIRNVPYRIRVRLSRKR 92 (125)
T ss_dssp ---------CEEEEEECHHHHSSBSSSBHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHTTCSSCCCSEEEEEEEEET
T ss_pred CCcccccceeeEEEeccccccccCCCCccCHHHHHHHHHHHHHhcCCCcEEECHHHHHHHHhccCCCCCceEEEEEEEec
Confidence 56889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccceEEEEEEecCCCCccCceeEEcccC
Q 033375 85 NDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIEDE 119 (120)
Q Consensus 85 ~eded~~~k~y~~v~~v~v~~~~fk~l~t~~~~~~ 119 (120)
|||||+++||||||+||||+ +||||||++|+++
T Consensus 93 nededs~~klytlv~~v~v~--~fk~L~t~~v~~~ 125 (125)
T 2zkr_x 93 NEDEDSPNKLYTLVTYVPVT--TFKNLQTVNVDEN 125 (125)
T ss_dssp TTTEEEEEC--------------------------
T ss_pred cCCCCCccccEEEEEEEEcC--cccCceEEEeecC
Confidence 99999999999999999999 9999999999874
No 5
>3j21_a 50S ribosomal protein L31E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=3.3e-43 Score=247.53 Aligned_cols=83 Identities=28% Similarity=0.476 Sum_probs=80.0
Q ss_pred cccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCCCeEeCchhhHHHHhCCCCCCCceeEEEEEeeeCCCC
Q 033375 9 KEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVPKRVRVRIARRRNDDE 88 (120)
Q Consensus 9 ~~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~~ede 88 (120)
+++++||||||||||++||++|+||||+|+++||+||+|||||+||+|||+||++||++||+|||++|||+++|++||||
T Consensus 3 ~~e~vtreyTInlhK~~hgv~fkKrAprAlkeIrkFa~K~mgt~dV~ID~~LNk~vWakGirnvP~rIrVrlsRk~ne~e 82 (95)
T 3j21_a 3 IKAGEEVIFTVPIKKIKKIVPRWKRAPRAVKFVREFVARHAKAQEVIIDPKVNEKIWERGIEKPPSKLRVKVKVEEEKRE 82 (95)
T ss_dssp -CCSSCEEEEEECTTHHHHBCSGGGHHHHHHHHHHHHHHHHTCSSCEECHHHHHHHHTTCSSCCCSEEEEEEEEECCCSS
T ss_pred CCCCceEEEEEEChheecCCCccccCHHHHHHHHHHHHHhcCCCcEEEChHHHHHHHhccccCCCCeEEEEEEEeccCCC
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCc
Q 033375 89 DAK 91 (120)
Q Consensus 89 d~~ 91 (120)
++.
T Consensus 83 ~~~ 85 (95)
T 3j21_a 83 GEE 85 (95)
T ss_dssp SCS
T ss_pred CCc
Confidence 765
No 6
>1vq8_X 50S ribosomal protein L31E; 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: d.29.1.1 PDB: 1vq4_X* 1vq5_X* 1vq6_X* 1vq7_X* 1s72_X* 1vq9_X* 1vqk_X* 1vql_X* 1vqm_X* 1vqn_X* 1vqo_X* 1vqp_X* 1yhq_X* 1yi2_X* 1yij_X* 1yit_X* 1yj9_X* 1yjn_X* 1yjw_X* 2otj_X* ...
Probab=100.00 E-value=3.3e-40 Score=231.08 Aligned_cols=77 Identities=31% Similarity=0.478 Sum_probs=69.9
Q ss_pred cccceeeEEEEecCccccCCCCCcchHHHHHHHHHHHHHHcCCC--CeEeCchhhHHHHhCCCCCCCceeEEEEEeeeCC
Q 033375 9 KEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTK--DVRVDVKLNKQIWSRGIRSVPKRVRVRIARRRND 86 (120)
Q Consensus 9 ~~~~vtreyTInL~K~~~~~~~kkRAp~Aik~Irkfa~K~m~t~--dV~ID~~LNk~IWsrGi~~~P~rIRVr~sRk~~e 86 (120)
+.+++|||||||||| +||++|+||||+|+++||+||+|||||+ ||+|||+||++||++||+|||++|||+++|+++|
T Consensus 3 ~~~~vtreyTInl~k-i~~~~~kkRAprAik~Irkfa~k~m~t~~~dVriD~~LNk~iW~rGir~vP~rIRVr~sR~~ed 81 (92)
T 1vq8_X 3 ASDFEERVVTIPLRD-ARAEPNHKRADKAMILIREHLAKHFSVDEDAVRLDPSINEAAWARGRANTPSKIRVRAARFEEE 81 (92)
T ss_dssp -----CEEEEEECGG-GGGSCGGGHHHHHHHHHHHHHHHHTTCCGGGEEECHHHHHHHTTTCSSCCCSEEEEEEEEETTT
T ss_pred cccceeEEEEEEhHH-hcCCCccccCHHHHHHHHHHHHHHhCCCcccEEECcHHHHHHHhcccCCCCceEEEEEEEEccC
Confidence 468999999999999 8999999999999999999999999999 9999999999999999999999999999998543
No 7
>3izc_n 60S ribosomal protein RPL38 (L38E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_n 3u5e_k 3u5i_k 4b6a_k
Probab=50.38 E-value=3.4 Score=27.62 Aligned_cols=46 Identities=24% Similarity=0.360 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHcCC--CCeEeCchhhHHHHhCCCCCCCceeEEEEEe
Q 033375 35 PKAIKEIRKFAEKAMGT--KDVRVDVKLNKQIWSRGIRSVPKRVRVRIAR 82 (120)
Q Consensus 35 p~Aik~Irkfa~K~m~t--~dV~ID~~LNk~IWsrGi~~~P~rIRVr~sR 82 (120)
|+-|.+|++|+.-...- ..|+|- -|+..-++|....-.+..||.||
T Consensus 2 Pkei~dIK~Fl~~arrkDAksv~IK--knk~~~~~g~~~~~tKFKvRcsr 49 (78)
T 3izc_n 2 AREITDIKQFLELTRRADVKTATVK--INKKLNKAGKPFRQTKFKVRGSS 49 (78)
T ss_dssp CTHHHHHHHHHHHHCCSCEEEEEEE--CCCCCCTTTSSCCCCEEEEEESS
T ss_pred ChhHHHHHHHHHHHhhCCCeeEEEE--eccccccccccccceEEEEEecc
Confidence 56789999999887663 245552 23322245554455677777777
No 8
>4gnt_B Carbohydrate-responsive element-binding protein; protein-protein complex, alpha-alpha helical, protein-protei interaction, 14-3-3; 2.41A {Mus musculus}
Probab=35.11 E-value=13 Score=19.79 Aligned_cols=8 Identities=50% Similarity=1.211 Sum_probs=6.7
Q ss_pred hhhHHHHh
Q 033375 59 KLNKQIWS 66 (120)
Q Consensus 59 ~LNk~IWs 66 (120)
+||.+||.
T Consensus 5 rlnnaiwr 12 (26)
T 4gnt_B 5 RLNNAIWR 12 (26)
T ss_dssp HHHHHHHH
T ss_pred hhhhHHHH
Confidence 68999994
No 9
>2ret_A Pseudopilin EPSI; general secretion pathway, cholera, pseudopilus, type 4 PILI biogenesis, methylation, protein transport; HET: MSE; 2.21A {Vibrio vulnificus} SCOP: d.24.1.7 PDB: 3cfi_A
Probab=19.01 E-value=1.7e+02 Score=19.17 Aligned_cols=31 Identities=10% Similarity=0.076 Sum_probs=17.9
Q ss_pred ceeEEEEEeeeCCCCCCcccceEEEEEEecCCCCcc
Q 033375 74 KRVRVRIARRRNDDEDAKEELYSLVTVAEIPPEGLR 109 (120)
Q Consensus 74 ~rIRVr~sRk~~eded~~~k~y~~v~~v~v~~~~fk 109 (120)
++|.|.++. ++....+++|.+|+.-+..-|.
T Consensus 64 rrV~V~V~~-----~~~~~~la~L~t~v~~~~~~~~ 94 (103)
T 2ret_A 64 KAFDVSVAA-----TTQASPIITVRSYVASENLYFQ 94 (103)
T ss_dssp EEEEEEEES-----SSSSCCSEEEEEEEESCC----
T ss_pred EEEEEEEec-----CCCCCceEEEEEEEeccccccc
Confidence 455555543 3345568999999987643443
No 10
>3ci0_I Pseudopilin GSPI; general secretory pathway, pseudopilus, type 4 pilin biogene methylation, protein transport; 2.20A {Escherichia coli} SCOP: d.24.1.7
Probab=18.30 E-value=1.3e+02 Score=19.00 Aligned_cols=25 Identities=16% Similarity=0.126 Sum_probs=15.9
Q ss_pred ceeEEEEEeeeCCCCCCcccceEEEEEEe
Q 033375 74 KRVRVRIARRRNDDEDAKEELYSLVTVAE 102 (120)
Q Consensus 74 ~rIRVr~sRk~~eded~~~k~y~~v~~v~ 102 (120)
++|.|.+.- +++....+++|.+|+.
T Consensus 64 rrv~v~V~~----~~~~~~~l~~l~t~v~ 88 (89)
T 3ci0_I 64 QAVDIEVSL----HEDFSSVIQSRRAWFS 88 (89)
T ss_dssp EEEEEEEES----STTCCSEEEEEEEEEC
T ss_pred EEEEEEEec----CCCCCCceEEEEEEec
Confidence 455666632 3345566899999874
Done!