Query gi|254780275|ref|YP_003064688.1| SsrA-binding protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 159
No_of_seqs 124 out of 1655
Neff 4.4
Searched_HMMs 33803
Date Tue May 24 11:40:11 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780275.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 >1p6v_A SSRA-binding protein; 100.0 0 0 433.9 8.9 152 7-159 2-154 (156)
2 >1j1h_A Small protein B; SMPB, 100.0 0 0 425.7 0.3 143 12-154 2-144 (144)
3 >1wjx_A Small protein B, SSRA- 100.0 0 0 360.4 7.7 121 13-133 2-122 (122)
4 >2egv_A UPF0088 protein AQ_165 64.6 10 0.0003 18.7 4.2 46 24-69 4-49 (67)
5 >2waq_A DNA-directed RNA polym 33.7 20 0.0006 16.9 1.6 14 51-64 28-41 (46)
6 >1hdh_A Arylsulfatase; hydrola 13.9 57 0.0017 14.3 0.6 50 41-90 21-70 (92)
7 >1vpl_A ABC transporter, ATP-b 12.8 97 0.0029 12.9 1.6 99 46-144 52-170 (191)
8 >1mky_A Probable GTP-binding p 12.7 94 0.0028 13.0 1.4 51 64-120 27-79 (80)
9 >1twf_A B220, DNA-directed RNA 12.4 85 0.0025 13.3 1.1 19 46-64 32-50 (74)
10 >1now_A Beta-hexosaminidase be 11.8 1E+02 0.0031 12.8 2.9 22 91-112 67-88 (319)
No 1
>>1p6v_A SSRA-binding protein; SMPB, tmRNA, trans-translation, protein-RNA complex, RNA binding protein/RNA complex; 3.20A {Aquifex aeolicus} (A:)
Probab=100.00 E-value=0 Score=433.90 Aligned_cols=152 Identities=43% Similarity=0.701 Sum_probs=148.0
Q ss_pred CCCCCEEEEEECCEEEEEEEEEEEECCEEEEEHHHHHHHH-CCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHH
Q ss_conf 7898428984123331025766562241775043666762-982001115886566077740303720002332110001
Q gi|254780275|r 7 GNPPKKVVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRV-SKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRR 85 (159)
Q Consensus 7 ~~~~~~ii~~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR~-g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R 85 (159)
++++.++|++||||+|||+|+|+|||||||+||||||||+ |+|||.||||.+++||+||+||||+||.+++.++|||+|
T Consensus 2 k~~~~~~i~~NkkA~~~Y~i~e~~EAGIvL~G~EVKSiR~~gk~~l~dsy~~~~~~E~~L~n~~I~~y~~~~~~nh~p~R 81 (156)
T 1p6v_A 2 KSDKIIPIAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAPYKHATIENHDPLR 81 (156)
T ss_dssp -CCCEEEEEECSTTTTTSCEEEEEECCBCCCHHHHHHHHSCCCEECTTCCEECCSSCCEECCCEECCCSCC---CCCTTC
T ss_pred CCCCCCEEEECCCCCCCEEEEEEEEEEEEEECHHHHHHHHCCCCCCCCCEEEEECCEEEEEECEECCCCCCCCCCCCCCC
T ss_conf 98773263246634443358377998789912625978861863300028999999999980630464446555689872
Q ss_pred HHHHHCCHHHHHHHHHHHHCCCCEEEEEEEEEECCCEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 34553038999999986303893399996378079819999987224321100798987278888998876449
Q gi|254780275|r 86 NRKLLLSKREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQGKKNYDKRETEKKRDWDRQKHRILREHN 159 (159)
Q Consensus 86 ~RKLLL~k~EI~kl~~~~~~kG~TiVPlkly~~~~g~~Kv~IalaKGKK~~DKR~~iK~rd~~re~~R~~K~~n 159 (159)
+|||||||+||.+|.+.++++|+|||||++||+ +|||||+||||+|||.|||||+||+|||+||++|+||+++
T Consensus 82 ~RKLLLhk~EI~kL~~~~~~kG~TiVPl~~y~k-~g~iKveIalakGKk~~DKR~~iK~rd~~Re~~r~lk~~~ 154 (156)
T 1p6v_A 82 KRKLLLHKREIMRLYGKVQEKGYTIIPLKLYWK-NNKVKVLIALAKGKKLYDRRRELKEKAMKRELEREFKGKI 154 (156)
T ss_dssp CEEBCCCHHHHHHHHHHHHHHCCEEEEEEEEEE-SSCEEEEEEEECCCCC------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEE-CCEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 466665399999999887448961677788892-8878999999608812305678888899999999987522
No 2
>>1j1h_A Small protein B; SMPB, SSRA associated protein, OB fold, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Thermus thermophilus} (A:)
Probab=100.00 E-value=0 Score=425.73 Aligned_cols=143 Identities=50% Similarity=0.805 Sum_probs=140.6
Q ss_pred EEEEEECCEEEEEEEEEEEECCEEEEEHHHHHHHHCCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHHHHHHHC
Q ss_conf 28984123331025766562241775043666762982001115886566077740303720002332110001345530
Q gi|254780275|r 12 KVVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRVSKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRRNRKLLL 91 (159)
Q Consensus 12 ~ii~~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR~g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RKLLL 91 (159)
++|++||||+|||+|+|+|||||||+||||||||+|++||.||||.+++||+||+||||+||.++++++|||+|+|||||
T Consensus 2 k~i~~NkkA~~dY~I~e~~EAGIvL~G~EVKSiR~gk~~l~dsy~~i~~~E~~L~n~~I~~y~~~~~~~h~p~R~RKLLL 81 (144)
T 1j1h_A 2 APVLENRRARHDYEILETYEAGIALKGTEVKSLRAGKVDFTGSFARFEDGELYLENLYIAPYEKGSYANVDPRRKRKLLL 81 (144)
T ss_dssp CCSSCCHHHHHTCCBSSCCEEECCCCTTHHHHHHTCEECCSSCCEEECSSCEEECSCCEESSCSSCCSCCCCSCCSCCCB
T ss_pred CCHHHCCCCCCCEEEEEEEEEEEEEEEHEHHHHHCCCCCCCCCEEEEECCEEEEEECEECCHHCCCCCCCCCCCHHHHHH
T ss_conf 31431764344234747799878993025175874997723017999899799995654260106656679763354667
Q ss_pred CHHHHHHHHHHHHCCCCEEEEEEEEEECCCEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 389999999863038933999963780798199999872243211007989872788889988
Q gi|254780275|r 92 SKREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQGKKNYDKRETEKKRDWDRQKHRI 154 (159)
Q Consensus 92 ~k~EI~kl~~~~~~kG~TiVPlkly~~~~g~~Kv~IalaKGKK~~DKR~~iK~rd~~re~~R~ 154 (159)
||+||.+|.+.++++|+|+|||++||+++|||||+||||||||+|||||+||+|||+||++|+
T Consensus 82 hk~EI~kl~~~~~~~G~TiVPl~ly~~k~g~iKveIalakGKk~~DKR~~iK~rd~~re~~Ri 144 (144)
T 1j1h_A 82 HKHELRRLLGKVEQKGLTLVPLKIYFNERGYAKVLLGLARGKKAYEKRREDKKEAVRRALEEL 144 (144)
T ss_dssp CHHHHHHHHHHHTTTTEECCCCEEECCTTTCCEEECCCEECC---------------------
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHEEEECCCEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 299999999998649940560410470798899999986088313056788899998888529
No 3
>>1wjx_A Small protein B, SSRA-binding protein; RNA binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; 1.70A {Thermus thermophilus} (A:)
Probab=100.00 E-value=0 Score=360.37 Aligned_cols=121 Identities=53% Similarity=0.859 Sum_probs=119.3
Q ss_pred EEEEECCEEEEEEEEEEEECCEEEEEHHHHHHHHCCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHHHHHHHCC
Q ss_conf 89841233310257665622417750436667629820011158865660777403037200023321100013455303
Q gi|254780275|r 13 VVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRVSKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRRNRKLLLS 92 (159)
Q Consensus 13 ii~~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR~g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RKLLL~ 92 (159)
+|++||||+|||+|+|+|||||||+||||||||+|++||.||||.+++||+||+||||+||.+++.++|||+|+||||||
T Consensus 2 ~I~~NkkA~~~Y~I~e~~EaGIvL~G~EVKSiR~g~~~l~dsy~~i~~~E~~L~n~~I~~y~~~~~~~~dp~R~RKLLLh 81 (122)
T 1wjx_A 2 PVLENRRARHDYEILETYEAGIALKGTEVKSLRAGKVDFTGSFARFEDGELYLENLYIAPYEKGSYANVDPRRKRKLLLH 81 (122)
T ss_dssp -CEECHHHHHHEEEEEEEEEEECCCTTHHHHHHTTCEECTTCEEEEETTEEEEESCEECC--------CCTTCCEEEECC
T ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECHHHHHHHCCCCCCCCEEEEEECCEEEEEEEEECCHHCCCCCCCCCCCCHHHHCC
T ss_conf 63326645430468488998689921624768839987375079987580899942335521066545675432310144
Q ss_pred HHHHHHHHHHHHCCCCEEEEEEEEEECCCEEEEEEEEECCC
Q ss_conf 89999999863038933999963780798199999872243
Q gi|254780275|r 93 KREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQGK 133 (159)
Q Consensus 93 k~EI~kl~~~~~~kG~TiVPlkly~~~~g~~Kv~IalaKGK 133 (159)
|+||.+|.++++++|+|||||++||+++|||||+|||||||
T Consensus 82 k~EI~kl~~~~~~~G~TiVPl~ly~~~~g~vKveIalakGK 122 (122)
T 1wjx_A 82 KHELRRLLGKVEQKGLTLVPLKIYFNERGYAKVLLGLARGK 122 (122)
T ss_dssp HHHHHHHTTTSSCTTEEEEEEEEEECTTCCEEEEEEEEEEC
T ss_pred HHHHHHHHHHHHCCCEEEEEEEEEECCCCEEEEEEEEECCC
T ss_conf 99999999887459879998032583799899999986389
No 4
>>2egv_A UPF0088 protein AQ_165; RSME, methyltransferase, rRNA modification, PUA domain, M3U, SAM, structural genomics, NPPSFA; HET: SAM; 1.45A {Aquifex aeolicus} PDB: 2egw_A* (A:1-67)
Probab=64.64 E-value=10 Score=18.72 Aligned_cols=46 Identities=15% Similarity=0.313 Sum_probs=37.3
Q ss_pred EEEEEEEECCEEEEEHHHHHHHHCCCEEEEEEEEEECCEEEEEECC
Q ss_conf 2576656224177504366676298200111588656607774030
Q gi|254780275|r 24 YHIVRSFEAGIVLTGTEVKSLRVSKVNISDSYATFENDEIWLTNSY 69 (159)
Q Consensus 24 Y~i~e~~eAGIvL~G~EVKSiR~g~v~l~~sy~~~~~~E~~L~n~~ 69 (159)
|+-+++=-.-..+.|-|+|-++...+.+.+-+-.|-.|-+||+-+-
T Consensus 4 f~~e~rrG~lf~i~geElKH~~vRR~~~gekvgviwEgklylCkv~ 49 (67)
T 2egv_A 4 FYSEERRGNLLILREGEVKHFRVRRIEKDEEFGVIHEGKIYVCKVR 49 (67)
T ss_dssp EECSCEETTEEEEETHHHHHHHHTTCCTTCCEEEEETTEEEEEEEE
T ss_pred EECCCCCCCEEEECCCCEEEEEEEECCCCCEEEEEECCEEEEEEEE
T ss_conf 9378887997997632127899984389999999939969999999
No 5
>>2waq_A DNA-directed RNA polymerase RPO1N subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_A 2pmz_A 3hkz_A (A:554-599)
Probab=33.70 E-value=20 Score=16.95 Aligned_cols=14 Identities=29% Similarity=0.418 Sum_probs=11.8
Q ss_pred EEEEEEEEECCEEE
Q ss_conf 01115886566077
Q gi|254780275|r 51 ISDSYATFENDEIW 64 (159)
Q Consensus 51 l~~sy~~~~~~E~~ 64 (159)
-.||||.|++|++-
T Consensus 28 ~~DayVvI~nG~Ll 41 (46)
T 2waq_A 28 PHDSYVVIKNGILL 41 (46)
T ss_dssp SSSCEEEEETTEEE
T ss_pred CCCCEEEEECCEEE
T ss_conf 45436999587675
No 6
>>1hdh_A Arylsulfatase; hydrolase, formylglycine hydrate; 1.3A {Pseudomonas aeruginosa} (A:445-536)
Probab=13.91 E-value=57 Score=14.30 Aligned_cols=50 Identities=10% Similarity=-0.029 Sum_probs=34.0
Q ss_pred HHHHHHCCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHHHHHHH
Q ss_conf 66676298200111588656607774030372000233211000134553
Q gi|254780275|r 41 VKSLRVSKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRRNRKLL 90 (159)
Q Consensus 41 VKSiR~g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RKLL 90 (159)
..+||.|.=-+..-+-....++.+|+|+.-+|.+..|...-.|...++|.
T Consensus 21 ~~aiR~g~wKli~~~~~~~~~~~eLydl~~Dp~E~~nLa~~~pe~~~el~ 70 (92)
T 1hdh_A 21 MRAIRQGDWKAVYLPAPVGPATWQLYDLARDPGEIHDLADSQPGKLAELI 70 (92)
T ss_dssp EEEEEETTEEEEECCTTTSCSSEEEEETTTCTTCCSCCTTTCHHHHHHHH
T ss_pred EEEEEECCEEEEEECCCCCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 58999699889983267899973683088584266675555699999999
No 7
>>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural genomics, joint center for structural genomics, JCSG; 2.10A {Thermotoga maritima MSB8} (A:1-98,A:164-256)
Probab=12.78 E-value=97 Score=12.93 Aligned_cols=99 Identities=12% Similarity=0.090 Sum_probs=56.6
Q ss_pred HCCCEEEEEEE---EEECCEEEEEECCCCCHHC-----CCCCCCCCHHHHHHHC----------CHHHHHHHHHHHHCCC
Q ss_conf 29820011158---8656607774030372000-----2332110001345530----------3899999998630389
Q gi|254780275|r 46 VSKVNISDSYA---TFENDEIWLTNSYIPEYLQ-----ANRFNHYPRRNRKLLL----------SKREIHRLYAAVRRDG 107 (159)
Q Consensus 46 ~g~v~l~~sy~---~~~~~E~~L~n~~I~~y~~-----~~~~~~~p~R~RKLLL----------~k~EI~kl~~~~~~kG 107 (159)
+||-.|-..-+ ....|++++.|..+..... ...+.-+|.+++=||| .+.++..+...+.+.|
T Consensus 52 aGKSTll~~i~gl~~~~~G~i~~~g~~i~~~~~~~r~~i~~v~q~~l~P~illlDEPtsgLD~~~~~~i~~~i~~l~~~g 131 (191)
T 1vpl_A 52 AGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGNPRLAILDEPTSGLDVLNAREVRKILKQASQEG 131 (191)
T ss_dssp SSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTT
T ss_pred CCHHHHHHHHHCCCCCCCCEEEECCEECCCCHHHHHHHEEEECCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCC
T ss_conf 85999999996698888657999898535485988733656323344999999747988979899999999999999708
Q ss_pred CEEEEEEEEEE-CCCEEEEEEEEECCCCCC-CCHHHHHH
Q ss_conf 33999963780-798199999872243211-00798987
Q gi|254780275|r 108 MTLVPMKIYFN-AKGLAKIDLALAQGKKNY-DKRETEKK 144 (159)
Q Consensus 108 ~TiVPlkly~~-~~g~~Kv~IalaKGKK~~-DKR~~iK~ 144 (159)
.|++-..=... -..++---+-+.+|+-.. +.-+.+.+
T Consensus 132 ~tvl~vtH~l~~v~~~~d~v~vl~~G~i~~~g~~~el~~ 170 (191)
T 1vpl_A 132 LTILVSSHNMLEVEFLCDRIALIHNGTIVETGTVEELKE 170 (191)
T ss_dssp CEEEEEECCHHHHTTTCSEEEEEETTEEEEEEEHHHHHH
T ss_pred CEEEEEECCHHHHHHHCCEEEEEECCEEEEECCHHHHHH
T ss_conf 869999689999999699999995999999938999986
No 8
>>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} (A:360-439)
Probab=12.68 E-value=94 Score=13.00 Aligned_cols=51 Identities=12% Similarity=-0.053 Sum_probs=34.2
Q ss_pred EEEECCCCCHHCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHC--CCCEEEEEEEEEECC
Q ss_conf 774030372000233211000134553038999999986303--893399996378079
Q gi|254780275|r 64 WLTNSYIPEYLQANRFNHYPRRNRKLLLSKREIHRLYAAVRR--DGMTLVPMKIYFNAK 120 (159)
Q Consensus 64 ~L~n~~I~~y~~~~~~~~~p~R~RKLLL~k~EI~kl~~~~~~--kG~TiVPlkly~~~~ 120 (159)
|..-..+.|..+.-..|+. =+++..-...|...+.+ -|++-||+.++|+.+
T Consensus 27 Y~tQ~~~~PPtFvlf~N~~------~~~~~sY~ryL~n~lRe~~f~~~G~Pirl~~r~k 79 (80)
T 1mky_A 27 FGVQVDIKPPTFLFFVNSI------EKVKNPQKIFLRKLIRDYVFPFEGSPIFLKFKRS 79 (80)
T ss_dssp EEEEEETTTTEEEEEESCS------TTCCHHHHHHHHHHHHHHTCCCTTCCCEEEEEEC
T ss_pred EEEECCCCCCEEEEEECCC------CCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECC
T ss_conf 9982799998899997885------5598789999999986630899762379999728
No 9
>>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} (A:508-523,A:580-637)
Probab=12.39 E-value=85 Score=13.27 Aligned_cols=19 Identities=11% Similarity=0.067 Sum_probs=15.2
Q ss_pred HCCCEEEEEEEEEECCEEE
Q ss_conf 2982001115886566077
Q gi|254780275|r 46 VSKVNISDSYATFENDEIW 64 (159)
Q Consensus 46 ~g~v~l~~sy~~~~~~E~~ 64 (159)
..-.+..|++|.|++||+-
T Consensus 32 ~~~~~~~D~~ViI~nGELl 50 (74)
T 1twf_A 32 TTLLSPKDNGMLIIDGQII 50 (74)
T ss_dssp CCTTCTTCCSEEEETTEEE
T ss_pred CCCCCCCCCEEEEECCEEE
T ss_conf 6111467754897778653
No 10
>>1now_A Beta-hexosaminidase beta chain; (beta/alpha)8-barrel, homodimer, family 20 glycosidase, hydrolase; HET: NAG IFG; 2.20A {Homo sapiens} (A:151-469)
Probab=11.81 E-value=1e+02 Score=12.75 Aligned_cols=22 Identities=14% Similarity=0.413 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHHHHCCCCEEEE
Q ss_conf 0389999999863038933999
Q gi|254780275|r 91 LSKREIHRLYAAVRRDGMTLVP 112 (159)
Q Consensus 91 L~k~EI~kl~~~~~~kG~TiVP 112 (159)
+.+.||..|....++.|.++||
T Consensus 67 yT~~ei~~l~~yA~~~gI~iIP 88 (319)
T 1now_A 67 YTPNDVRMVIEYARLRGIRVLP 88 (319)
T ss_dssp BCHHHHHHHHHHHHHTTCEEEE
T ss_pred CCHHHHHHHHHHHHHCCCEEEE
T ss_conf 6999999999999974988986
Done!