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 23785
Date Mon May 30 06:46:19 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780275.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1p6v_A SSRA-binding protein; S 100.0 0 0 420.7 8.9 148 10-158 5-153 (156)
2 1j1h_A Small protein B; SMPB, 100.0 0 0 418.4 0.4 143 12-154 2-144 (144)
3 1wjx_A Small protein B, SSRA-b 100.0 0 0 353.5 7.7 121 13-133 2-122 (122)
4 1zvf_A 3-hydroxyanthranilate 3 17.1 52 0.0022 13.6 2.2 55 17-71 42-97 (176)
5 2qnk_A 3-hydroxyanthranilate 3 14.4 60 0.0025 13.2 1.6 51 17-71 39-90 (286)
6 1yfu_A 3-hydroxyanthranilate-3 12.8 68 0.0029 12.9 1.8 52 16-71 42-94 (174)
7 2elv_A Zinc finger protein 406 10.6 69 0.0029 12.9 0.9 28 63-94 7-34 (36)
8 3nnf_A CURA; non-HAEM Fe(II)/a 10.2 66 0.0028 13.0 0.7 20 122-141 265-284 (344)
9 3jsb_A Protein L, RNA-directed 9.9 85 0.0036 12.4 1.5 53 51-114 94-148 (204)
10 1qmy_A Protease, leader protea 8.0 1E+02 0.0043 11.9 1.1 11 30-40 109-119 (167)
No 1
>1p6v_A SSRA-binding protein; SMPB, tmRNA, trans-translation, protein-RNA complex, RNA binding protein/RNA complex; 3.20A {Aquifex aeolicus} SCOP: b.111.1.1 PDB: 2ob7_B 1k8h_A 1zc8_K
Probab=100.00 E-value=0 Score=420.66 Aligned_cols=148 Identities=44% Similarity=0.728 Sum_probs=143.9
Q ss_pred CCEEEEEECCEEEEEEEEEEEECCEEEEEHHHHHHHH-CCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHHHHH
Q ss_conf 8428984123331025766562241775043666762-982001115886566077740303720002332110001345
Q gi|254780275|r 10 PKKVVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRV-SKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRRNRK 88 (159)
Q Consensus 10 ~~~ii~~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR~-g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RK 88 (159)
+..+|++||||+|||+|+|+|||||||+||||||||+ |+|||+||||.+++||+||+||||+||.+++.++|||+|+||
T Consensus 5 ~~~~I~~NkKA~~~Y~i~e~~eAGivL~G~EVKSiR~~gkv~l~dsy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RK 84 (156)
T 1p6v_A 5 KIIPIAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAPYKHATIENHDPLRKRK 84 (156)
T ss_dssp CEEEEEECSTTTTTSCEEEEEECCBCCCHHHHHHHHSCCCEECTTCCEECCSSCCEECCCEECCCSCC---CCCTTCCEE
T ss_pred CCCCCEECCCCCCCEEEEEEEEEEEEEECHHHHHHHHCCCCCCCCCEEEEECCEEEEECCCCCCCCCCCCCCCCCCCHHH
T ss_conf 64265246633443358377998789812625978861862300028999999999980610354446556689762567
Q ss_pred HHCCHHHHHHHHHHHHCCCCEEEEEEEEEECCCEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf 5303899999998630389339999637807981999998722432110079898727888899887644
Q gi|254780275|r 89 LLLSKREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQGKKNYDKRETEKKRDWDRQKHRILREH 158 (159)
Q Consensus 89 LLL~k~EI~kl~~~~~~kG~TiVPlkly~~~~g~~Kv~IalaKGKK~~DKR~~iK~rd~~re~~R~~K~~ 158 (159)
|||||+||.+|.+.++++|+|||||++||+ +|+|||+||||+|||+|||||+||+|||+||++|+||++
T Consensus 85 LLL~K~EI~kl~~~~~~kG~TiVPl~ly~k-~g~iKveIalakGKK~~DKR~~iK~rd~~re~~R~~K~~ 153 (156)
T 1p6v_A 85 LLLHKREIMRLYGKVQEKGYTIIPLKLYWK-NNKVKVLIALAKGKKLYDRRRELKEKAMKRELEREFKGK 153 (156)
T ss_dssp BCCCHHHHHHHHHHHHHHCCEEEEEEEEEE-SSCEEEEEEEECCCCC-----------------------
T ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEEEEE-CCEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 777599999999898548974256899990-987999999861881230567898889999999998750
No 2
>1j1h_A Small protein B; SMPB, SSRA associated protein, OB fold, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Thermus thermophilus} SCOP: b.111.1.1
Probab=100.00 E-value=0 Score=418.38 Aligned_cols=143 Identities=50% Similarity=0.805 Sum_probs=140.2
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 ~~i~~NrKA~~dY~i~e~~eAGivL~G~EVKSiR~g~~~l~~syv~~~~~E~~L~n~~I~~y~~~~~~n~~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 ~k~EI~kl~~~~~~kG~TiVPl~ly~~~~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} SCOP: b.111.1.1 PDB: 2czj_A*
Probab=100.00 E-value=0 Score=353.54 Aligned_cols=121 Identities=53% Similarity=0.859 Sum_probs=119.1
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 pI~~NkkA~~dY~i~e~~eAGivL~G~EVKSiR~g~~~i~~syv~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RKLLL~ 81 (122)
T 1wjx_A 2 PVLENRRARHDYEILETYEAGIALKGTEVKSLRAGKVDFTGSFARFEDGELYLENLYIAPYEKGSYANVDPRRKRKLLLH 81 (122)
T ss_dssp -CEECHHHHHHEEEEEEEEEEECCCTTHHHHHHTTCEECTTCEEEEETTEEEEESCEECC--------CCTTCCEEEECC
T ss_pred CCCCCCCCCCCEEEEEEEEEEEEEEEEEEHHHHCCCCCCCCCEEEEECCEEEEEEEEECCHHCCCCCCCCCCCHHHHHHH
T ss_conf 63326646431468478998789931061526749977240189998997999966752600264132365412554540
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~~~~~~kG~TiVPl~ly~~~~g~iKveIalakGK 122 (122)
T 1wjx_A 82 KHELRRLLGKVEQKGLTLVPLKIYFNERGYAKVLLGLARGK 122 (122)
T ss_dssp HHHHHHHTTTSSCTTEEEEEEEEEECTTCCEEEEEEEEEEC
T ss_pred HHHHHHHHHHHHCCCEEEEEEEEEECCCCEEEEEEEEECCC
T ss_conf 99999999897469858998472791799899999986389
No 4
>1zvf_A 3-hydroxyanthranilate 3,4-dioxygenase; jellyroll beta-barrel, oxidoreductase; 2.41A {Saccharomyces cerevisiae} SCOP: b.82.1.20
Probab=17.08 E-value=52 Score=13.63 Aligned_cols=55 Identities=16% Similarity=0.168 Sum_probs=35.3
Q ss_pred ECCEEEEEEEEEEEECCEEEEEHHH-HHHHHCCCEEEEEEEEEECCEEEEEECCCC
Q ss_conf 1233310257665622417750436-667629820011158865660777403037
Q gi|254780275|r 17 NRKARYNYHIVRSFEAGIVLTGTEV-KSLRVSKVNISDSYATFENDEIWLTNSYIP 71 (159)
Q Consensus 17 NkkA~~~Y~i~e~~eAGIvL~G~EV-KSiR~g~v~l~~sy~~~~~~E~~L~n~~I~ 71 (159)
-.-+|-||++.++-|-=-.|.|.=+ |-+..+...=.-.-+.|+-||+||.-.+++
T Consensus 42 GPN~R~DyH~n~~eE~FYQ~kGdm~Lkv~~~~~~~~k~~di~I~EGe~flLP~~vP 97 (176)
T 1zvf_A 42 GPNERTDYHINPTPEWFYQKKGSMLLKVVDETDAEPKFIDIIINEGDSYLLPGNVP 97 (176)
T ss_dssp SSBCCSCEEECSSCEEEEEEESCEEEEEEECSSSSCEEEEEEECTTEEEEECTTCC
T ss_pred CCCCCCCCCCCCCHHHHEEECCCEEEEEEECCCCCCCEEEEEECCCCEEEECCCCC
T ss_conf 88767624458645643111386899998056778825666745887898179998
No 5
>2qnk_A 3-hydroxyanthranilate 3,4-dioxygenase; bicupin fold, cupin barrel, extradiol dioxygenase, metalloenzyme, trytophan catabolism, NAD+ synthesis; HET: MSE; 1.60A {Homo sapiens} PDB: 3fe5_A
Probab=14.41 E-value=60 Score=13.25 Aligned_cols=51 Identities=25% Similarity=0.352 Sum_probs=36.2
Q ss_pred ECCEEEEEEEEEEEECCEEEEEH-HHHHHHHCCCEEEEEEEEEECCEEEEEECCCC
Q ss_conf 12333102576656224177504-36667629820011158865660777403037
Q gi|254780275|r 17 NRKARYNYHIVRSFEAGIVLTGT-EVKSLRVSKVNISDSYATFENDEIWLTNSYIP 71 (159)
Q Consensus 17 NkkA~~~Y~i~e~~eAGIvL~G~-EVKSiR~g~v~l~~sy~~~~~~E~~L~n~~I~ 71 (159)
-..++-||++.++=|-..+|.|. -++-...|+. -.+.+..|++|++=..++
T Consensus 39 gp~~r~~~H~h~~~E~fyvl~G~~~l~v~~~G~~----~~~~l~~GDi~~~P~~v~ 90 (286)
T 2qnk_A 39 GPNTRKDYHIEEGEEVFYQLEGDMVLRVLEQGKH----RDVVIRQGEIFLLPARVP 90 (286)
T ss_dssp SCBCCCCEEECSSCEEEEEEESCEEEEEEETTEE----EEEEECTTEEEEECTTCC
T ss_pred CCCCCCCCCCCCCCEEEEEEECEEEEEEECCCCE----EEEEECCCCEEEECCCCC
T ss_conf 9997774634884319999926799999659957----898708998899589997
No 6
>1yfu_A 3-hydroxyanthranilate-3,4-dioxygenase; cupin, oxidoreductase; 1.90A {Cupriavidus metallidurans} SCOP: b.82.1.20 PDB: 1yfw_A* 1yfx_A* 1yfy_A*
Probab=12.77 E-value=68 Score=12.93 Aligned_cols=52 Identities=19% Similarity=0.174 Sum_probs=38.4
Q ss_pred EECCEEEEEEEEEEEECCEEEEEHHHHHHH-HCCCEEEEEEEEEECCEEEEEECCCC
Q ss_conf 412333102576656224177504366676-29820011158865660777403037
Q gi|254780275|r 16 DNRKARYNYHIVRSFEAGIVLTGTEVKSLR-VSKVNISDSYATFENDEIWLTNSYIP 71 (159)
Q Consensus 16 ~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR-~g~v~l~~sy~~~~~~E~~L~n~~I~ 71 (159)
--.-|+-||++.++-|=..+|.|.=.=.+- .|+. .+ +.++-|++||.-.+++
T Consensus 42 gGPN~R~D~H~~~~eEwfYqlkG~~~l~v~~~g~~--~~--i~I~eGdv~llP~~vp 94 (174)
T 1yfu_A 42 GGPNHRTDYHDDPLEEFFYQLRGNAYLNLWVDGRR--ER--ADLKEGDIFLLPPHVR 94 (174)
T ss_dssp CSCBCCCCEEECSSCEEEEEEESCEEEEEEETTEE--EE--EEECTTCEEEECTTCC
T ss_pred CCCCCCCCCCCCCCHHEEEEECCEEEEEEEECCCE--EE--EEECCCCEEECCCCCC
T ss_conf 28886663302873022368624599999938956--88--6727986897179987
No 7
>2elv_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=10.57 E-value=69 Score=12.88 Aligned_cols=28 Identities=21% Similarity=0.118 Sum_probs=20.3
Q ss_pred EEEEECCCCCHHCCCCCCCCCHHHHHHHCCHH
Q ss_conf 77740303720002332110001345530389
Q gi|254780275|r 63 IWLTNSYIPEYLQANRFNHYPRRNRKLLLSKR 94 (159)
Q Consensus 63 ~~L~n~~I~~y~~~~~~~~~p~R~RKLLL~k~ 94 (159)
-.|++|||-+-.+- .+-.|.|-.|.|-.
T Consensus 7 ~lly~c~icerkfk----neldrdrhmlvhg~ 34 (36)
T 2elv_A 7 GLLYDCHICERKFK----NELDRDRHMLVHGD 34 (36)
T ss_dssp CCCEECSSSCCEES----SHHHHHHHHTTTST
T ss_pred CEEEEHHHHHHHHH----HHHHHHHHEEECCC
T ss_conf 20331156677765----25421123033267
No 8
>3nnf_A CURA; non-HAEM Fe(II)/alpha-ketoglutarate-dependent enzymes, catal cryptic chlorination, biosynthetic protein; HET: AKG; 2.20A {Lyngbya majuscula} PDB: 3nnj_A 3nnl_A* 3nnm_A
Probab=10.23 E-value=66 Score=13.01 Aligned_cols=20 Identities=10% Similarity=0.057 Sum_probs=9.0
Q ss_pred EEEEEEEEECCCCCCCCHHH
Q ss_conf 19999987224321100798
Q gi|254780275|r 122 LAKIDLALAQGKKNYDKRET 141 (159)
Q Consensus 122 ~~Kv~IalaKGKK~~DKR~~ 141 (159)
+.=+.+-..-....||+|-.
T Consensus 265 R~a~~~Rf~~~~~~~d~~~~ 284 (344)
T 3nnf_A 265 RRAFVIRLVDYDTRVDEERL 284 (344)
T ss_dssp EEEEEEEEEETTCBBCHHHH
T ss_pred EEEEEEEEECCCCCCCHHHC
T ss_conf 28999998179853334440
No 9
>3jsb_A Protein L, RNA-directed RNA polymerase; viral protein, vizier, structural genomics, marseilles struc genomics program @ AFMB; 2.13A {Lymphocytic choriomeningitis virus}
Probab=9.93 E-value=85 Score=12.36 Aligned_cols=53 Identities=23% Similarity=0.390 Sum_probs=27.2
Q ss_pred EEEEEEEEECCEEEEEECCCC--CHHCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf 011158865660777403037--2000233211000134553038999999986303893399996
Q gi|254780275|r 51 ISDSYATFENDEIWLTNSYIP--EYLQANRFNHYPRRNRKLLLSKREIHRLYAAVRRDGMTLVPMK 114 (159)
Q Consensus 51 l~~sy~~~~~~E~~L~n~~I~--~y~~~~~~~~~p~R~RKLLL~k~EI~kl~~~~~~kG~TiVPlk 114 (159)
+-|+|..+ ++-+-|..+++- |-.+-.-++.| .-||+ .|..-+..-|.|+||+-
T Consensus 94 vPDGykl~-G~~LILLE~FVR~np~~FE~Ky~~D---~~KL~-------sLk~DL~~~GItLVPvV 148 (204)
T 3jsb_A 94 IPDGYKLI-DNSLILLECFVRSTPASFEKKFIED---TNKLA-------CIREDLAVAGVTLVPIV 148 (204)
T ss_dssp CCSEEEEE-TTEEEEEEEEECSSHHHHHHHHHHH---HHHHH-------TTHHHHHHTTCEEEEEE
T ss_pred CCCCCEEE-CCEEEEEEEEEECCHHHHHHHHHHH---HHHHH-------HHHHHHHHCCCEEEEEE
T ss_conf 58736661-8788887631136889999999988---99999-------99989997594696455
No 10
>1qmy_A Protease, leader protease; hydrolase, sulfhydryl proteinase, picornaviral proteinase; 1.9A {Aphthovirus O} SCOP: d.3.1.2 PDB: 1qol_A 2jqf_R 2jqg_R
Probab=7.97 E-value=1e+02 Score=11.88 Aligned_cols=11 Identities=64% Similarity=1.053 Sum_probs=0.0
Q ss_pred EECCEEEEEHH
Q ss_conf 62241775043
Q gi|254780275|r 30 FEAGIVLTGTE 40 (159)
Q Consensus 30 ~eAGIvL~G~E 40 (159)
|-|||.|.|.|
T Consensus 109 fhAgiflkg~e 119 (167)
T 1qmy_A 109 FHAGIFLKGQE 119 (167)
T ss_dssp EEEEEEEETTT
T ss_pred HCCCEEECCCC
T ss_conf 01003752777
Done!