Query 025547
Match_columns 251
No_of_seqs 205 out of 886
Neff 5.7
Searched_HMMs 29240
Date Mon Mar 25 12:32:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025547.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025547hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4a17_V RPL7, 60S ribosomal pro 100.0 3.9E-88 1.3E-92 601.0 20.6 236 12-251 4-239 (239)
2 3iz5_e 60S ribosomal protein L 100.0 1.8E-88 6.3E-93 605.0 17.5 244 1-251 1-244 (244)
3 3izc_e 60S ribosomal protein R 100.0 2.6E-87 8.9E-92 597.6 17.7 237 11-251 6-244 (244)
4 2zkr_w 60S ribosomal protein L 100.0 9.6E-87 3.3E-91 600.4 5.3 242 6-251 29-270 (270)
5 1vq8_W 50S ribosomal protein L 100.0 3.7E-63 1.3E-67 415.6 16.5 153 92-251 1-154 (154)
6 3j21_Y 50S ribosomal protein L 100.0 1.2E-61 4.1E-66 406.9 15.3 151 93-251 4-155 (155)
7 3jyw_F 60S ribosomal protein L 100.0 2.1E-62 7.2E-67 430.3 6.8 168 84-251 44-213 (213)
8 1bxy_A Protein (ribosomal prot 99.7 4.3E-17 1.5E-21 116.3 7.7 57 93-149 4-60 (60)
9 3r8s_Z 50S ribosomal protein L 99.6 4.6E-16 1.6E-20 110.2 7.2 57 91-147 2-58 (58)
10 2zjr_W 50S ribosomal protein L 99.6 1.9E-16 6.4E-21 111.1 4.9 55 93-147 1-55 (55)
11 2ahq_A Sigma-54, RNA polymeras 31.6 33 0.0011 24.7 2.8 46 146-194 14-59 (76)
12 2doa_A RNA polymerase II elong 25.1 20 0.00067 27.6 0.6 16 187-202 45-60 (104)
No 1
>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V
Probab=100.00 E-value=3.9e-88 Score=601.02 Aligned_cols=236 Identities=40% Similarity=0.763 Sum_probs=230.8
Q ss_pred cchhHHHHhhhhHHHHHHHHHHHHHhcccCccccccccchhhhcCcHHHHHHHHHHHHHHHHHHHhhhcCCCccCCCCCc
Q 025547 12 FVAETVLKKRKSTEALALTRKAQLELGKYGHGQKNKKSKVEDIKRPEQFIKQYRDQELDLIRMKQRGKRSKKVIGKPKSK 91 (251)
Q Consensus 12 ~vpE~llkkrk~~~~~~~~~~~~~~~~k~~~~~~~k~~rk~~~~rae~~v~~yr~~erd~~r~kr~a~~~~~~~~~~e~k 91 (251)
+|||++|||||+++++++++++++.+.+ +.++++++.+|+|||+|+++|+++++|++|++|+|+++|+||+|+||+
T Consensus 4 ~vpe~~lKkrk~~~~~~~~~~~~~~~~k----~~~~~~r~~~~~rae~y~~ey~~~~r~~ir~~r~a~~~~~~~~~~e~k 79 (239)
T 4a17_V 4 FVPENVQKKLARDEKLRKAKAEQRKASS----AQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKARKTGAFYVPAEAK 79 (239)
T ss_dssp --CHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEECCCCC
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCce
Confidence 5999999999999999999999999888 777888999999999999999999999999999999999999999999
Q ss_pred eEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhcccccCCceec
Q 025547 92 LLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYATVDRQRIP 171 (251)
Q Consensus 92 l~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~k~~~~~i~ 171 (251)
|+|||||||++|+||++++||++|||+++|++||+++||+++|||++|+|||+|||||++||++||||||+++++++++|
T Consensus 80 l~fVirIRg~ig~~~~~rktL~~LgL~ki~~~Vfvk~npa~~gMLr~V~pyV~~G~pnlksv~eLi~KRG~~k~~~~~i~ 159 (239)
T 4a17_V 80 VAFAIRIRGVNQLHPDVKRVLRLFRLRQLHNGAFFRVNKASLNMIKRVLPFITFGYPTRNTISKLIYKRGFAKVNGQRIP 159 (239)
T ss_dssp EEEEEECSCSSSCCHHHHHHHHHTTCCBTTEEEEEECCHHHHHTTGGGGGGEEEECCCHHHHHHHHHHSCEEEETTEEEE
T ss_pred EEEEEEecccCCCCHHHHHHHHHcCCCccCCeEEEeCCHHHHHHHHHhhhceeeecCCHHHHHHHHHhhCccccCCceec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcCCcccccccCCCCCCChHHHHHHHHhhC
Q 025547 172 LTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLLGKKQPFKDGGEAGNREEEINELISKMN 251 (251)
Q Consensus 172 ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~~~k~~~~~gG~~G~r~~~In~Li~rM~ 251 (251)
||||++||++||++||+|+||||||||++|++|+++++|||||+||||+|||++++.+|.+||++||||+.||+||++|+
T Consensus 160 Ltdn~~ie~~lGk~giiciEDLiheI~t~g~~fk~~~~fl~pFkL~~PrgG~k~~~~~f~egG~~G~r~~~IN~Li~rM~ 239 (239)
T 4a17_V 160 LTDNTIVEKSLGKFGITCVEDLIHEITTVGPHFKEANNFLWPFKLDTPRGGFRNKRHAYHQGGDWGNREVYINDLVKAML 239 (239)
T ss_dssp CCCSHHHHHHHGGGTCCSHHHHHHHHHHTCSCCHHHHHHBCCEECCCCSSCCSCTTSBGGGTCCBEECTTTHHHHHHHHC
T ss_pred CChhHHHHHhCCcCCcccHHHHHHHHHhCCcCHHHhhccCCCeECCCCccccccCCcccccCCCccccHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999888999999999999999999999997
No 2
>3iz5_e 60S ribosomal protein L7 (L30P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_e
Probab=100.00 E-value=1.8e-88 Score=604.99 Aligned_cols=244 Identities=49% Similarity=0.831 Sum_probs=236.4
Q ss_pred CcchhccCCcccchhHHHHhhhhHHHHHHHHHHHHHhcccCccccccccchhhhcCcHHHHHHHHHHHHHHHHHHHhhhc
Q 025547 1 MAEEAAQQPLAFVAETVLKKRKSTEALALTRKAQLELGKYGHGQKNKKSKVEDIKRPEQFIKQYRDQELDLIRMKQRGKR 80 (251)
Q Consensus 1 ~~~~~~~~~~~~vpE~llkkrk~~~~~~~~~~~~~~~~k~~~~~~~k~~rk~~~~rae~~v~~yr~~erd~~r~kr~a~~ 80 (251)
||+... .+.|||++|||||+++++++++++++.+++ +.++++++.+|+|||+|+++|+++++|.+|++|++++
T Consensus 1 m~~~~~---~~~vpE~llkkrk~~~~~~~~~~~~~~~~k----~~~k~~r~~~~~rae~~~~ey~~~~r~~ir~~r~a~~ 73 (244)
T 3iz5_e 1 MASEAA---KVAVPEKVILKRRREEVWAAEKKQKVAAEK----IKAAENTKVIYARAEQYAGEYEAQDKELVQLKREARM 73 (244)
T ss_dssp CHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----CHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHSCS
T ss_pred CCCccc---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 666443 357999999999999999999999999888 7778889999999999999999999999999999999
Q ss_pred CCCccCCCCCceEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHh
Q 025547 81 SKKVIGKPKSKLLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKK 160 (251)
Q Consensus 81 ~~~~~~~~e~kl~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KR 160 (251)
+|+||+|+||+|+|||||||++|+||++++||++|||+++|++||+++||+++|||++|+|||+|||||++||++|||||
T Consensus 74 ~~~~~~p~e~kl~fVirIRg~ig~~~~~rktL~~LgL~ki~~~Vfv~~npa~~gML~~V~pyV~~G~pnlksv~eLi~KR 153 (244)
T 3iz5_e 74 KGGFYVSPEAKPLFVVRIRGINAMHPKTKKILQLLRLRQIFNGVFLKVNKATINMLRRVEPYVTYGYPNLKSVRELIYKR 153 (244)
T ss_dssp CCCSCCCCCCCCEEEECCSCSTTSCHHHHHHHHHTCCCSTTEEEEECSCHHHHHHHTTTGGGCEEECCCHHHHHHHHHHH
T ss_pred cCCCCCCCCCceEEEEEecCcCCCCHHHHHHHHHcCCCccCCEEEEeCCHHHHHHHHHhhcceeeecCCHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCceecCCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcCCcccccccCCCCCCCh
Q 025547 161 GYATVDRQRIPLTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLLGKKQPFKDGGEAGNRE 240 (251)
Q Consensus 161 G~~k~~~~~i~ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~~~k~~~~~gG~~G~r~ 240 (251)
|+++++++++|||||++||++||++||+|+||||||||++|++|+++++|||||+||||+|||++++.+|.+||++||||
T Consensus 154 G~~k~~~~~i~ltdn~~iee~lgk~giiciEDLiheI~~~g~~fk~~~~fl~PFkL~~Pr~G~k~~~~~~~egG~~G~r~ 233 (244)
T 3iz5_e 154 GYGKLNKQRIPLANNKVIEEGLGKHNIICIEDLVHEILTVGPHFKEANNFLWPFKLKAPLGGLKKKRNHYVEGGDAGNRE 233 (244)
T ss_dssp CCCCTTSCCCCSSTHHHHTCSCCSSSCCCHHHHHHHHHHTCTTCSSSCCCSSCEECCCCTTCCSCTTSBTTTTCSBEECH
T ss_pred CeeccCCceecCChHHHHHHhccccCcccHHHHHHHHHhCccCHHHhhcccCCeeCCCCccccccCccccccCCCccccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhC
Q 025547 241 EEINELISKMN 251 (251)
Q Consensus 241 ~~In~Li~rM~ 251 (251)
+.||+||++||
T Consensus 234 ~~IN~Li~rM~ 244 (244)
T 3iz5_e 234 NYINQLVRRMN 244 (244)
T ss_dssp HHHHHHHTTCC
T ss_pred HHHHHHHHHhC
Confidence 99999999997
No 3
>3izc_e 60S ribosomal protein RPL7 (L30P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_e 3o58_G 3o5h_G 3u5e_F 3u5i_F 4b6a_F
Probab=100.00 E-value=2.6e-87 Score=597.59 Aligned_cols=237 Identities=42% Similarity=0.743 Sum_probs=231.6
Q ss_pred ccchhHHHHhhhhHHHHHHHHHHHHHhcccCccccccccchhhhcCcHHHHHHHHHHHHHHHHHHHhhhcCCCccCCCCC
Q 025547 11 AFVAETVLKKRKSTEALALTRKAQLELGKYGHGQKNKKSKVEDIKRPEQFIKQYRDQELDLIRMKQRGKRSKKVIGKPKS 90 (251)
Q Consensus 11 ~~vpE~llkkrk~~~~~~~~~~~~~~~~k~~~~~~~k~~rk~~~~rae~~v~~yr~~erd~~r~kr~a~~~~~~~~~~e~ 90 (251)
..|||++|||||+++++++++++++.+++ ..++++++.+|+|||+|+++|+++++|.+|++|+++++|+||+|+||
T Consensus 6 ~~vpE~llkkrk~~~~~~~~~~~~~~~~k----~~~k~~r~~~~~rae~~~~ey~~~~r~~ir~~r~a~~~~~~~~p~e~ 81 (244)
T 3izc_e 6 ILTPESQLKKSKAQQKTAEQVAAERAARK----AANKEKRAIILERNAAYQKEYETAERNIIQAKRDAKAAGSYYVEAQH 81 (244)
T ss_dssp CHHHHTTSTTHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHSSCCCCSCCCCCC
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCC
Confidence 36999999999999999999999999888 67778889999999999999999999999999999999999999999
Q ss_pred ceEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhcccccCCcee
Q 025547 91 KLLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYATVDRQRI 170 (251)
Q Consensus 91 kl~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~k~~~~~i 170 (251)
+|+|||||||++|+||++++||++|||+++|++||+++||+++|||++|+|||+|||||++||++||||||+++++++++
T Consensus 82 kl~fVirIRs~ig~~~~~rktL~~LgL~ki~~~Vfv~~npa~~gMLr~V~pyVt~G~pnlksv~eLi~KRG~~k~~~~~i 161 (244)
T 3izc_e 82 KLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYSTIRQLVYKRGFGKINKQRV 161 (244)
T ss_dssp CCEEEECCSCSSSCCHHHHHHHHHHTCCSTTEEEEECSCHHHHHHHHHHTTSCEEECCCHHHHHHHHHHHCCCCSSSCCC
T ss_pred ceEEEEEecCcCCCCHHHHHHHHHcCCCccCCeEEEeCCHHHHHHHHHHhhHhhcccCCHHHHHHHHHhhCccccCCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcC--CcccccccCCCCCCChHHHHHHHH
Q 025547 171 PLTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLL--GKKQPFKDGGEAGNREEEINELIS 248 (251)
Q Consensus 171 ~ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~--~~k~~~~~gG~~G~r~~~In~Li~ 248 (251)
|||||++||++||++||+|+||||||||++|++|+++++|||||+||||+|||+ +++.||.+||++||||+.||+||+
T Consensus 162 ~ltdn~~iee~lgk~giiciEDLiheI~~~g~~fk~~~~fl~pFkL~~PrgG~~~~~~~~~~~egG~~G~r~~~IN~Li~ 241 (244)
T 3izc_e 162 PLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFLWPFKLSNPSGGWGVPRKFKHFIQGGSFGNREEFINKLVK 241 (244)
T ss_dssp CSCHHHHHTCCCCSSSCCSHHHHHHHHHHTCTTSTTTSSCSSCEECCCCGGGSSCSCTTCBTTTTSSBEECHHHHHHHHH
T ss_pred cCCchHHHHHhccccCceeHHHHHHHHHhCCcCHHHhhccCCCeECCCCccccccCCcccccccCCCccccHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999998 688999999999999999999999
Q ss_pred hhC
Q 025547 249 KMN 251 (251)
Q Consensus 249 rM~ 251 (251)
+||
T Consensus 242 rM~ 244 (244)
T 3izc_e 242 SMN 244 (244)
T ss_dssp HCC
T ss_pred HhC
Confidence 997
No 4
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00 E-value=9.6e-87 Score=600.39 Aligned_cols=242 Identities=42% Similarity=0.746 Sum_probs=156.8
Q ss_pred ccCCcccchhHHHHhhhhHHHHHHHHHHHHHhcccCccccccccchhhhcCcHHHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 025547 6 AQQPLAFVAETVLKKRKSTEALALTRKAQLELGKYGHGQKNKKSKVEDIKRPEQFIKQYRDQELDLIRMKQRGKRSKKVI 85 (251)
Q Consensus 6 ~~~~~~~vpE~llkkrk~~~~~~~~~~~~~~~~k~~~~~~~k~~rk~~~~rae~~v~~yr~~erd~~r~kr~a~~~~~~~ 85 (251)
+++++|.|||++|||||+++++++++++++.+.+ ++++++++.+|+|||+|+++|+++++|.+|++|+|+++|+||
T Consensus 29 ~~~~~~~vpE~llKkrk~~~~~~~~~~~~~~~~k----~~~~~~r~~~~~rae~y~~eyr~~~r~~ir~~r~akk~g~~y 104 (270)
T 2zkr_w 29 LKKKVPAVPETLKKKRRNFAELKVKRLRKKFALK----TLRKARRKLIYEKAKHYHKEYRQMYRTEIRMARMARKAGNFY 104 (270)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 4456889999999999999999999999888877 777888999999999999999999999999999999999999
Q ss_pred CCCCCceEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhccccc
Q 025547 86 GKPKSKLLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYATV 165 (251)
Q Consensus 86 ~~~e~kl~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~k~ 165 (251)
+|+|++++||+||||++|++|++++||++|||+++|++||+++||+++|||++|+|||+|||||++||++||||||++++
T Consensus 105 vp~e~kl~~V~rirs~ig~~~~~rktL~~LgLrki~~~V~v~dtpa~rgML~kV~~~V~vgepnlksv~eLi~KRG~~ki 184 (270)
T 2zkr_w 105 VPAEPKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAWGYPNLKSVNELIYKRGYGKI 184 (270)
T ss_dssp ------CEEEECCSCSSSSCTTSSSHHHHTCCCSSSEEEEECCCHHHHHTTTSSTTSCBCCCCCTTTHHHHHHHCCCCSS
T ss_pred ccCCCceeEEEEeCCcCCCCHHHHHHHHHcCCCcCCCeEEEeCCHHHHHHHHhcccceeEecCCHHHHHHHHHhhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceecCCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcCCcccccccCCCCCCChHHHHH
Q 025547 166 DRQRIPLTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLLGKKQPFKDGGEAGNREEEINE 245 (251)
Q Consensus 166 ~~~~i~ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~~~k~~~~~gG~~G~r~~~In~ 245 (251)
|+++||||||+|||++||++||+|+||||||||++|++|+++++|||||+||||+|||++++++|++||++||||++||+
T Consensus 185 ~~k~i~LtdN~iIee~LG~~giiciEDliheI~t~g~~fk~~~~fl~pFkL~~P~~G~k~k~~~~~egG~~G~r~~~IN~ 264 (270)
T 2zkr_w 185 NKKRIALTDNSLIARSLGKFGIICMEDLIHEIYTVGKRFKEANNFLWPFKLSSPRGGMKKKTTHFVEGGDAGNREDQINR 264 (270)
T ss_dssp SSSCSCSSHHHHSSSSSCSSCCCSHHHHHHHTSSCSSCCSSSSSCCSCEECCCCSSCCSCSSCC-CCSCSCC-CCTTTTT
T ss_pred CCeeeeCCchHHHHhhccCcCcchHHHHHHHHHhccccHHHHhCcCCCeeCCCccccccccccccccCCcccccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999899999999999999999999
Q ss_pred HHHhhC
Q 025547 246 LISKMN 251 (251)
Q Consensus 246 Li~rM~ 251 (251)
||++|+
T Consensus 265 Li~rM~ 270 (270)
T 2zkr_w 265 LIRRMN 270 (270)
T ss_dssp TTTTCC
T ss_pred HHHHhC
Confidence 999997
No 5
>1vq8_W 50S ribosomal protein L30P; 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.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ...
Probab=100.00 E-value=3.7e-63 Score=415.56 Aligned_cols=153 Identities=21% Similarity=0.406 Sum_probs=150.0
Q ss_pred eEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhcccccCCceec
Q 025547 92 LLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYATVDRQRIP 171 (251)
Q Consensus 92 l~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~k~~~~~i~ 171 (251)
|+||+||||.+|++|++++||++|||+|+|++||+++||+++|||++|+|||+|||||++||++||||||++++++ +|
T Consensus 1 l~fV~rirs~ig~~~~~r~tL~~LgL~ki~~~v~~~~tp~~~gMl~kV~~~V~vge~~l~sv~~Li~KRG~~~~~~--~~ 78 (154)
T 1vq8_W 1 MHALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLETVLATRAEPLEGD--AD 78 (154)
T ss_dssp CEEEEECSCSTTSCHHHHHHHHHTTCCSTTEEEEECCCHHHHHHHHHSGGGEEEECCCHHHHHHHHHHHCCBSSSC--CC
T ss_pred CEEEEEeCCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhhCceEEEecCchhhHHHHHHhhCccccCC--cc
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999988 89
Q ss_pred CCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcCCcccccccCCCCCCCh-HHHHHHHHhh
Q 025547 172 LTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLLGKKQPFKDGGEAGNRE-EEINELISKM 250 (251)
Q Consensus 172 ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~~~k~~~~~gG~~G~r~-~~In~Li~rM 250 (251)
||||++|| ++||+|+||||||||++|++|+++ +|||||+||||++||++++++|++||++|||| ++||+||++|
T Consensus 79 ltdn~iie----~~gi~ciedlihei~~~g~~f~~~-~fl~pF~L~~P~~G~~~~~~~~~egG~~G~r~~~~In~Li~rM 153 (154)
T 1vq8_W 79 VDDEWVAE----HTDYDDISGLAFALLSEETTLREQ-GLSPTLRLHPPRGGHDGVKHPVKEGGQLGKHDTEGIDDLLEAM 153 (154)
T ss_dssp CSHHHHHH----HSSSSSHHHHHHHHHTTSCCTGGG-TBCSCEECCCCTTCCSCSSSBGGGTCSBEECCHHHHHHHHHHT
T ss_pred CCchhhcc----ccccccHHHHHHHHHhCCcchhhc-CCcCceecCCccccccccccccccCCccccccHHHHHHHHHHh
Confidence 99999999 679999999999999999999999 99999999999999999999999999999999 9999999999
Q ss_pred C
Q 025547 251 N 251 (251)
Q Consensus 251 ~ 251 (251)
+
T Consensus 154 ~ 154 (154)
T 1vq8_W 154 R 154 (154)
T ss_dssp C
T ss_pred C
Confidence 7
No 6
>3j21_Y 50S ribosomal protein L30P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=1.2e-61 Score=406.92 Aligned_cols=151 Identities=36% Similarity=0.569 Sum_probs=145.3
Q ss_pred EEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhcccccCCceecC
Q 025547 93 LFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYATVDRQRIPL 172 (251)
Q Consensus 93 ~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~k~~~~~i~l 172 (251)
++|+||||.+|+||++++||++|||+|+|++||+++||+++|||++|+|||+|||||++||++||||||+ ++++ +||
T Consensus 4 ~~V~~irs~ig~~~~~r~tL~~LgL~ki~~~v~~~~tp~~~gMl~kV~~lV~vgep~~ksv~eLi~KRG~--~~~~-~~l 80 (155)
T 3j21_Y 4 LAVIRIRGRVNVKRPVRDTLAMLRLHRVNHCVIVDDTPSYLGMLQKAKDYITWGEINAETLAKLIRKRGR--LIGN-KPV 80 (155)
T ss_dssp EEEEECSCSTTCCHHHHHHHHHTTCCSTTEEEEEECCHHHHHHHHHHTTTEEEEECCHHHHHHHHHHHCC--SSSS-CCC
T ss_pred EEEEEeCCCCCCCHHHHHHHHHcCCCcCCCEEEEcCCHHHHHHHHhhhcceEEEcCCHHHHHHHHHHhcc--ccCC-CcC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999 3343 599
Q ss_pred CChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcC-CcccccccCCCCCCChHHHHHHHHhhC
Q 025547 173 TDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLL-GKKQPFKDGGEAGNREEEINELISKMN 251 (251)
Q Consensus 173 tdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~-~~k~~~~~gG~~G~r~~~In~Li~rM~ 251 (251)
|||+|+| ++|| |+||||||||++|++|+++++|||||+||||+|||+ +++++|.+||++||||++||+||++|+
T Consensus 81 tdn~l~e----k~gi-ciEdli~eI~~~g~~fk~~~~fl~pFkL~~P~~G~k~~~~~~~~egG~~G~r~~~In~Li~rM~ 155 (155)
T 3j21_Y 81 TDEYVKE----KLGM-TIEEFAQKVVNGEMSLKDLPNLKPVFRLHPPRGGFRGSKKRSFKEGGALGYRGEKINELIERML 155 (155)
T ss_dssp CHHHHHH----HSSS-CHHHHHHHHHHTSSCTTTSCSSCSEEECCCCTTCSSSCSSSBTTTTSSBEECCTTHHHHHHHTC
T ss_pred CHHHHHH----HhCC-CHHHHHHHHHhCCcCHHHhhCcCCceecCCccchhhcccccccccCCCCcCcHHHHHHHHHHcC
Confidence 9999998 5799 999999999999999999999999999999999998 588999999999999999999999996
No 7
>3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_F
Probab=100.00 E-value=2.1e-62 Score=430.35 Aligned_cols=168 Identities=48% Similarity=0.913 Sum_probs=164.8
Q ss_pred ccCCCCCceEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCChHHHHHHHHHhccc
Q 025547 84 VIGKPKSKLLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPNLANVKELIYKKGYA 163 (251)
Q Consensus 84 ~~~~~e~kl~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~~~tv~~Li~KRG~~ 163 (251)
-.+|.+++++||+|++|+.++++.++++|++|+|+++|++||++.|+++.+||++|+|||+|||||++||++||||||++
T Consensus 44 ~Svp~e~kL~fVIRIrGin~ispk~rkvLqLLRL~rInsgvfvk~~k~t~~mL~~VepyV~~G~p~l~tv~eLi~KRg~~ 123 (213)
T 3jyw_F 44 AAAAAAAGLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYSTIRQLVYKRGFG 123 (213)
T ss_dssp HTCSCCCCCCCCCCCSCSSCCCHHHHHHHGGGCCCSSSCBCCCCCSSTTTTHHHHTTTTSCEECCCSSTTTSHHHHSCCC
T ss_pred hhCcccCccceeeeecCccCCCCchHHHHHHcccceecceEEecCCHHHHHHHhhccchheeecCCHHHHHHHHHhcCcc
Confidence 36788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceecCCChhhHhhhcccCCcccHHHHHHHHHhcCCChhhhhcccCcccCCCCCCCcC--CcccccccCCCCCCChH
Q 025547 164 TVDRQRIPLTDNNIIEQTLGKYGIICIEDIVHEIANVGPHFKEVINFLGPLTLNKPEGGLL--GKKQPFKDGGEAGNREE 241 (251)
Q Consensus 164 k~~~~~i~ltdn~iiee~lg~~gi~ciEDlv~eI~~~g~~f~~v~~fl~pF~L~~P~~G~~--~~k~~~~~gG~~G~r~~ 241 (251)
+++++++|||||++||++||++||+|+|||+|||+++|++|+++++|||||+||||+|||+ ++++||.|||++||||+
T Consensus 124 k~~~~~i~ltdn~iie~~lg~~gi~ciedli~ei~~~g~~f~~~~~fl~pF~L~~P~~G~~~~~~~~~~~egG~~G~r~~ 203 (213)
T 3jyw_F 124 KINKQRVPLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFLWPFKLSNPSGGWGVPRKFKHFIQGGSFGNREE 203 (213)
T ss_dssp SSSCCSSCSSSHHHHSSSSCCSCCCCHHHHHHHHTTTCSSCTTTTTSCSSBCCCCCTTCCSSSSSSCCTTTSCSSSEESS
T ss_pred cCCCCeecCCcchHHHHhccCCCceeHHHHHHHHHhCCcCHHHhhCCCCCEECCCCCCCccCCCeecccccCCCCCCcHH
Confidence 9999999999999999999999999999999999999999999999999999999999998 78899999999999999
Q ss_pred HHHHHHHhhC
Q 025547 242 EINELISKMN 251 (251)
Q Consensus 242 ~In~Li~rM~ 251 (251)
.||+||+|||
T Consensus 204 ~In~Li~~m~ 213 (213)
T 3jyw_F 204 FINKLVKSMN 213 (213)
T ss_dssp THHHHHTTCC
T ss_pred HHHHHHHHhC
Confidence 9999999997
No 8
>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes, ribosome; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ...
Probab=99.69 E-value=4.3e-17 Score=116.30 Aligned_cols=57 Identities=18% Similarity=0.160 Sum_probs=55.6
Q ss_pred EEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEecCC
Q 025547 93 LFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGYPN 149 (251)
Q Consensus 93 ~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~p~ 149 (251)
+.|+++||.+|.++++++||++|||+++|++|++++||+++|||++|+|||+|++++
T Consensus 4 ~kItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hlV~veev~ 60 (60)
T 1bxy_A 4 LKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEVVE 60 (60)
T ss_dssp EEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEEEC
T ss_pred EEEEEeecCCCCCHHHHHHHHHhCCCCCCCEEEecCCHHHHhHHHHhHheEEEEecC
Confidence 789999999999999999999999999999999999999999999999999999975
No 9
>3r8s_Z 50S ribosomal protein L30; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ...
Probab=99.63 E-value=4.6e-16 Score=110.23 Aligned_cols=57 Identities=25% Similarity=0.204 Sum_probs=54.8
Q ss_pred ceEEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEec
Q 025547 91 KLLFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGY 147 (251)
Q Consensus 91 kl~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~ 147 (251)
+.+.|+++||.+|.++++++||++|||+++|++|++++||+++|||++|+|||+|.+
T Consensus 2 ~~lkItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hLV~vee 58 (58)
T 3r8s_Z 2 KTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 58 (58)
T ss_dssp CEEEEEECSCSTTCCHHHHHHHHHHTCCSTTCCCEEECCHHHHHHHHHTGGGEEEEC
T ss_pred CeEEEEEeecCCCCCHHHHHHHHHcCCCCCCCEEEecCCHHHHHHHHHHHheEEEeC
Confidence 457899999999999999999999999999999999999999999999999999975
No 10
>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* 3pio_W* 3pip_W*
Probab=99.63 E-value=1.9e-16 Score=111.13 Aligned_cols=55 Identities=15% Similarity=0.093 Sum_probs=53.0
Q ss_pred EEEEeecCCCCCCHHHHHHHHHhCCCCcCcEEEEeCChhhHHHHHhccCeEEEec
Q 025547 93 LFIIRIQGTSDMHPKTKKILYNLRLRRIFSGVFVRANDGMLEVLQKVEPYVTYGY 147 (251)
Q Consensus 93 ~~ViRirg~~~~~~~~~k~L~~LrL~ki~~~Vfv~~n~~~~~mL~~V~pyV~~G~ 147 (251)
+.|+++||.+|.++++++||++|||+++|++|++++||+++|||++|+|||+|++
T Consensus 1 ~kIt~vrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hlV~vee 55 (55)
T 2zjr_W 1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE 55 (55)
T ss_dssp CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC
T ss_pred CEEEEEecCCCCCHHHHHHHHHhCCCCCCCEEEecCCHHHHHHHHHhHhhEEEeC
Confidence 3589999999999999999999999999999999999999999999999999986
No 11
>2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A
Probab=31.56 E-value=33 Score=24.72 Aligned_cols=46 Identities=20% Similarity=0.237 Sum_probs=30.6
Q ss_pred ecCChHHHHHHHHHhcccccCCceecCCChhhHhhhcccCCcccHHHHH
Q 025547 146 GYPNLANVKELIYKKGYATVDRQRIPLTDNNIIEQTLGKYGIICIEDIV 194 (251)
Q Consensus 146 G~p~~~tv~~Li~KRG~~k~~~~~i~ltdn~iiee~lg~~gi~ciEDlv 194 (251)
|..+..+|+.+|..- +.-.+...||||..|. +.|.+.||.+-.-=|
T Consensus 14 ~~~S~~~Ik~~Ik~l--I~~Ed~~kPlSD~~I~-~~L~~~Gi~IaRRTV 59 (76)
T 2ahq_A 14 EGLTQGELMKLIKEI--VENEDKRKPYSDQEIA-NILKEKGFKVARRTV 59 (76)
T ss_dssp CSCCHHHHHHHHHHH--GGGCCSSSCCCHHHHH-HHHTTTSSCCCHHHH
T ss_pred ccccHHHHHHHHHHH--HHhcCCCCCCCHHHHH-HHHHHcCCCccHHHH
Confidence 456778888877542 2234456799999995 567777887654433
No 12
>2doa_A RNA polymerase II elongation factor ELL; C19ORF17, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.81
Probab=25.05 E-value=20 Score=27.58 Aligned_cols=16 Identities=13% Similarity=0.403 Sum_probs=11.7
Q ss_pred cccHHHHHHHHHhcCC
Q 025547 187 IICIEDIVHEIANVGP 202 (251)
Q Consensus 187 i~ciEDlv~eI~~~g~ 202 (251)
..|+..+++++.+..+
T Consensus 45 ~~~l~~iL~eVA~~~~ 60 (104)
T 2doa_A 45 KDALDGLLQQVANMSA 60 (104)
T ss_dssp HHHHHHHHHHSSEECS
T ss_pred HHHHHHHHHHHHhcCC
Confidence 4478888888887653
Done!