Query gi|254780320|ref|YP_003064733.1| translation initiation factor IF-3 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 136
No_of_seqs 113 out of 1373
Neff 5.6
Searched_HMMs 23785
Date Mon May 30 09:15:15 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780320.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ife_A Protein (translation in 100.0 2.9E-32 1.2E-36 212.1 7.3 95 41-135 3-98 (100)
2 1tig_A IF3-C, translation init 100.0 1.1E-31 4.5E-36 208.7 8.4 91 45-135 1-91 (94)
3 1i96_V Translation initiation 100.0 1E-30 4.2E-35 202.9 9.6 87 50-136 1-87 (89)
4 2crq_A Mitochondrial translati 100.0 2.4E-30 1E-34 200.6 8.1 96 40-135 4-101 (112)
5 1tif_A IF3-N, translation init 99.7 1.3E-17 5.4E-22 124.8 4.6 44 1-44 35-78 (78)
6 1p3r_A Disabled homolog 2; PTB 23.2 40 0.0017 14.6 4.3 60 73-134 10-69 (160)
7 1u83_A Phosphosulfolactate syn 22.8 40 0.0017 14.5 5.3 94 1-109 116-219 (276)
8 2bky_X DNA/RNA-binding protein 19.4 47 0.002 14.1 3.4 72 53-130 7-81 (89)
9 1ntv_A Disabled homolog 1; bet 14.3 64 0.0027 13.3 3.8 57 78-134 14-70 (152)
10 3cqj_A L-ribulose-5-phosphate 13.2 65 0.0027 13.3 1.4 17 1-17 36-52 (295)
No 1
>2ife_A Protein (translation initiation factor IF3); gene regulation; NMR {Escherichia coli} SCOP: d.68.1.1
Probab=99.97 E-value=2.9e-32 Score=212.09 Aligned_cols=95 Identities=46% Similarity=0.748 Sum_probs=91.3
Q ss_pred HHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 21100222220026897400867999999999999603791999999709743573568999999999842243203677
Q gi|254780320|r 41 EARKKQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEP 120 (136)
Q Consensus 41 ~~Kkkq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~p 120 (136)
..|++|+.+++|||||+|+||+|||++|+++|++||++||+|+|+|+|||||++|+|.|.++|++|+++|+|+|++|+.|
T Consensus 3 ~qKkkqk~~~vKEIrl~~~I~~hDl~~K~k~a~kFL~~G~kVKv~v~frGRE~~~~e~g~~~l~~i~~~l~d~~~ve~~p 82 (100)
T 2ife_A 3 FQKKKQKVIQVKEIKFRPGTDEGDYQVKLRSLIRFLEEGDKAKITLRFRGREMAHQQIGMEVLNRVKDDLQELAVVESFP 82 (100)
T ss_dssp -------CCEEEEEEECTTCCHHHHTHHHHHHHHHHHTTEEEEEEECCSSCTTCCSSHHHHHHHHHHHHHTTTEEESCCC
T ss_pred HHHCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEECCC
T ss_conf 23316884267889960787712599999999999977997999999737431498999999999999831512884467
Q ss_pred -CCCCCEEEEEEEECC
Q ss_conf -324876999992046
Q gi|254780320|r 121 -KFEGRQMIMILSSKC 135 (136)
Q Consensus 121 -k~~Gr~~~~~l~Pkk 135 (136)
+++||+|+|+|+|++
T Consensus 83 ~k~eGr~~~~~l~P~k 98 (100)
T 2ife_A 83 TKIEGRQMIMVLAPKK 98 (100)
T ss_dssp CCCCSSCCEEEEEECC
T ss_pred CCCCCCEEEEEEECCC
T ss_conf 6554874999995189
No 2
>1tig_A IF3-C, translation initiation factor 3; IF3 C-terminal domain, ribosome binding factor; 2.00A {Geobacillus stearothermophilus} SCOP: d.68.1.1
Probab=99.97 E-value=1.1e-31 Score=208.68 Aligned_cols=91 Identities=37% Similarity=0.750 Sum_probs=89.2
Q ss_pred CCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 02222200268974008679999999999996037919999997097435735689999999998422432036773248
Q gi|254780320|r 45 KQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEG 124 (136)
Q Consensus 45 kq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~G 124 (136)
||+.+++|||+|+|+||+|||++|+++|++||++||+|+|+|+|||||++|+|.|.++|++|+++|+++|++|++|+++|
T Consensus 1 KQk~v~vKEir~~~~I~~hDl~~K~k~a~~FL~~G~kVKv~v~frGRe~~~~e~g~~~l~~i~~~l~~~~~ve~~pk~eG 80 (94)
T 1tig_A 1 KQKVINVKEVRLSPTIEEHDFNTKLRNARKFLEKGDKVKATIRFKGRAITHKEIGQRVLDRLSEACADIAVVETAPKMDG 80 (94)
T ss_dssp ----CCEEEEEECTTCCHHHHHHHHHHHHHHHHTTCEEEEEEECCSCCTTHHHHHHHHHHHHHHHTTTTEEEEEEEEEET
T ss_pred CCCEEEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCC
T ss_conf 98536889999706877016999999999999779949999998076445889999999999996211258713776538
Q ss_pred CEEEEEEEECC
Q ss_conf 76999992046
Q gi|254780320|r 125 RQMIMILSSKC 135 (136)
Q Consensus 125 r~~~~~l~Pkk 135 (136)
++|+|+|+|++
T Consensus 81 r~~~~~l~Pkk 91 (94)
T 1tig_A 81 RNMFLVLAPKN 91 (94)
T ss_dssp TEEEEEEEESC
T ss_pred CEEEEEEEECC
T ss_conf 78999997479
No 3
>1i96_V Translation initiation factor IF3; 30S ribosome; HET: WO2; 4.20A {Thermus thermophilus} SCOP: d.68.1.1
Probab=99.97 E-value=1e-30 Score=202.90 Aligned_cols=87 Identities=39% Similarity=0.718 Sum_probs=85.3
Q ss_pred CCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEE
Q ss_conf 20026897400867999999999999603791999999709743573568999999999842243203677324876999
Q gi|254780320|r 50 GIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEGRQMIM 129 (136)
Q Consensus 50 ~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~Gr~~~~ 129 (136)
++|||||+|+||+|||++|+++|++||++||+|+|+|+|||||++|+|.|.++|++|+++|+++|++|++|+++||+|+|
T Consensus 1 evKEIrl~~~I~~hDl~~K~k~a~kFL~~G~kVKv~v~frGRE~~~~e~g~~~l~~i~~~l~~~~~ve~~pk~eGr~~~~ 80 (89)
T 1i96_V 1 EVKSIKFRVKIDEHDYQTKLGHIKRFLQEGHKVKVTIMFRGREVAHPELGERILNRVTEDLKDLAVVEMKPEMLGRDMNM 80 (89)
T ss_pred CCCEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHEEEECCCCCCCCEEEE
T ss_conf 96138962787701699999999999967994999999837656588899999999999710044981477652877999
Q ss_pred EEEECCC
Q ss_conf 9920469
Q gi|254780320|r 130 ILSSKCV 136 (136)
Q Consensus 130 ~l~Pkkv 136 (136)
+|+|+|.
T Consensus 81 ~l~P~k~ 87 (89)
T 1i96_V 81 LLAPVKV 87 (89)
T ss_pred EEECCCC
T ss_conf 9913776
No 4
>2crq_A Mitochondrial translational initiation factor 3; ribosome, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=99.96 E-value=2.4e-30 Score=200.63 Aligned_cols=96 Identities=21% Similarity=0.310 Sum_probs=92.0
Q ss_pred HHHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 32110022222002689740086799999999999960379199999970974357356899999999984224320367
Q gi|254780320|r 40 VEARKKQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCE 119 (136)
Q Consensus 40 k~~Kkkq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~ 119 (136)
+.++.|++.+++|||+|+|+||+|||++|++++++||++||+|+|+|+|||||++|+|.|.++|++|+++|+|+|.+|++
T Consensus 4 ~s~~~K~~~~~~KEir~~~~I~~hDl~~K~k~a~~FL~~G~kVKv~v~frGRe~~~~e~g~~~l~rv~~~l~dv~~ve~~ 83 (112)
T 2crq_A 4 GSSGPKTGPTMTKELVFSSNIGQHDLDTKSKQIQQWIEKKYHVQVTIKRRKDAEQSEEETEEIFNQILQTMPDIATFSSR 83 (112)
T ss_dssp CCCCCCCCCSCEEEEEEETTCCHHHHHHHHHHHHHHHHTTCEEEEEEECCTTCSCCHHHHHHHHHHHHTTSTTTCEEEEE
T ss_pred CCCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHEEECC
T ss_conf 77888788747788997258674179999999999997799799999978865647899999999999974245445247
Q ss_pred CCC--CCCEEEEEEEECC
Q ss_conf 732--4876999992046
Q gi|254780320|r 120 PKF--EGRQMIMILSSKC 135 (136)
Q Consensus 120 pk~--~Gr~~~~~l~Pkk 135 (136)
|++ +|++|+|+|+|.+
T Consensus 84 Pkl~~eGr~~~~vl~P~~ 101 (112)
T 2crq_A 84 PKAIRGGTASMCVFRHLS 101 (112)
T ss_dssp EEEEGGGTEEEEEEECCS
T ss_pred CCCCCCCCEEEEEECCCC
T ss_conf 755788875999980288
No 5
>1tif_A IF3-N, translation initiation factor 3; IF3 N-terminal domain, ribosome binding factor; 1.80A {Geobacillus stearothermophilus} SCOP: d.15.8.1
Probab=99.69 E-value=1.3e-17 Score=124.76 Aligned_cols=44 Identities=43% Similarity=0.745 Sum_probs=41.8
Q ss_pred CHHHHHCCCCEEEECCCCCCCEEEEEEHHHHHHHHHHHHHHHHH
Q ss_conf 93378579949999887558779998457888888765432110
Q gi|254780320|r 1 MQMAQEANLDLVEIDSSVTPSVCKILDLRKLRYTIQKNAVEARK 44 (136)
Q Consensus 1 l~~A~~~~lDLV~vs~~~~PPVcKi~dygK~~ye~~Kk~k~~Kk 44 (136)
|++|++.|||||+|||+++||||||||||||+|+++|++++++|
T Consensus 35 l~~A~~~~lDLV~vs~~~~PPVcKi~dygK~~ye~~kk~ke~kK 78 (78)
T 1tif_A 35 LEIAARRNLDLVLVAPNAKPPVCRIMDYGKFRFEQQKKEKEARK 78 (78)
T ss_dssp HHHHHHTTCEEEEEETTSSSCEEEEECHHHHHHHHHHHHHHTTC
T ss_pred HHHHHHCCCCEEEECCCCCCCEEEEECCHHHHHHHHHHHHHHCC
T ss_conf 99999869978998899999889997515589999998987359
No 6
>1p3r_A Disabled homolog 2; PTB, signaling protein; 2.10A {Mus musculus} SCOP: b.55.1.2 PDB: 1m7e_A
Probab=23.15 E-value=40 Score=14.57 Aligned_cols=60 Identities=13% Similarity=0.162 Sum_probs=33.2
Q ss_pred HHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEEEC
Q ss_conf 99960379199999970974357356899999999984224320367732487699999204
Q gi|254780320|r 73 DGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEGRQMIMILSSK 134 (136)
Q Consensus 73 ~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~Gr~~~~~l~Pk 134 (136)
.+| +|+.|.+.+++-|........|..++..-+..+............-...+.+.++++
T Consensus 10 ~~~--~~dgv~f~vkYLGs~~V~~~~g~~~~~~av~~l~~~~~~~k~~~~~~~~V~L~Vs~~ 69 (160)
T 1p3r_A 10 ARF--KGDGVKYKAKLIGIDDVPDARGDKMSQDSMMKLKGMAAAGRSQGQHKQRIWVNISLS 69 (160)
T ss_dssp HHH--STTCEEEEEEEEEEEEESSSCCHHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEEETT
T ss_pred HHH--CCCCCEEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECC
T ss_conf 862--589838999997779925878818999999999998642322267785799999835
No 7
>1u83_A Phosphosulfolactate synthase; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG, lyase; 2.20A {Bacillus subtilis} SCOP: c.1.27.1
Probab=22.84 E-value=40 Score=14.53 Aligned_cols=94 Identities=15% Similarity=0.152 Sum_probs=47.2
Q ss_pred CHHHHHCCCCEEEECCCCCCCEEEEEEHH-HHHHHHHHHHHHHHHCCCCCCCEEEEEEEE--CCHHHHHHHHHHHHHHHC
Q ss_conf 93378579949999887558779998457-888888765432110022222002689740--086799999999999960
Q gi|254780320|r 1 MQMAQEANLDLVEIDSSVTPSVCKILDLR-KLRYTIQKNAVEARKKQKSTGIKEVKMRPV--IDLHDLQVKLKAIDGFLR 77 (136)
Q Consensus 1 l~~A~~~~lDLV~vs~~~~PPVcKi~dyg-K~~ye~~Kk~k~~Kkkq~~~~~KEir~~~~--I~~hDl~~K~k~~~~FL~ 77 (136)
++.+++.|+|-||||..+-+ ++-. +.++- ++.+ ..-..+-|+--+-. ...-+.+-.+++++.||+
T Consensus 116 l~~~k~lGf~~IEISdGsi~-----i~~~~~~~~I--~~~~-----~~~~V~sEvG~K~~~~~~~~~~~~~i~~~~~~Le 183 (276)
T 1u83_A 116 HRYCTYFGCEYIEISNGTLP-----MTNKEKAAYI--ADFS-----DEFLVLSEVGSKDAELASRQSSEEWLEYIVEDME 183 (276)
T ss_dssp HHHHHHTTCSEEEECCSSSC-----CCHHHHHHHH--HHHT-----TTSEEEEECSCCC------CCSTHHHHHHHHHHH
T ss_pred HHHHHHCCCCEEEECCCCCC-----CCHHHHHHHH--HHHH-----HCCEECCCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 99999859988997898012-----8989999999--9998-----5493454357767643577899999999999997
Q ss_pred CCCCEEEEEEECCCCCC----CHH---HHHHHHHHHHHH
Q ss_conf 37919999997097435----735---689999999998
Q gi|254780320|r 78 DGCKVKISVKFRGREIM----HQD---LGRELLSNIKER 109 (136)
Q Consensus 78 ~G~kVki~i~frGRe~~----~~e---~g~~~l~~i~~~ 109 (136)
.|--- |..-+||.. +.+ .-..++++|++.
T Consensus 184 AGA~~---VIiEarEsg~~Gi~~~~g~~r~~~i~~ii~~ 219 (276)
T 1u83_A 184 AGAEK---VITEARESGTGGICSSSGDVRFQIVDDIISS 219 (276)
T ss_dssp HTEEE---EEEC------------------CCHHHHHTT
T ss_pred CCCCE---EEEECCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 79848---9996102477777588877058999999982
No 8
>2bky_X DNA/RNA-binding protein ALBA 2; archaeal DNA binding protein, acetylation, DNA condensation, DNA-binding, DNA binding protein; 1.7A {Sulfolobus solfataricus} SCOP: d.68.6.1 PDB: 2a2y_A 1udv_A
Probab=19.38 E-value=47 Score=14.09 Aligned_cols=72 Identities=18% Similarity=0.283 Sum_probs=42.7
Q ss_pred EEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCC-HHHHHHHHHHHHHHHHHHHH--CCCCCCCCCCEEEE
Q ss_conf 2689740086799999999999960379199999970974357-35689999999998422432--03677324876999
Q gi|254780320|r 53 EVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMH-QDLGRELLSNIKERFGEISR--IDCEPKFEGRQMIM 129 (136)
Q Consensus 53 Eir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~-~e~g~~~l~~i~~~l~~~~~--~e~~pk~~Gr~~~~ 129 (136)
||+|. +..-..--+..+..-|.+|.+ +|++.-+||.+.. -+.+.-+-+||.+.+. +.. ..++ ...||+.+.
T Consensus 7 ei~v~---~~kpv~nYV~~~i~~f~~g~~-~V~ikArG~aIskAVdvaEilk~R~~~~~~-i~~i~i~se-~~~~r~VS~ 80 (89)
T 2bky_X 7 EIVVR---KTKNVEDHVLDVIVLFNQGID-EVILKGTGREISKAVDVYNSLKDRLGDGVQ-LVNVQTGSE-VRDRRRISY 80 (89)
T ss_dssp EEECC---TTSCHHHHHHHHHHHHHTTCC-EEEEEEETTHHHHHHHHHHHHHHHHGGGEE-EEEEEEEEE-EETTEEEEE
T ss_pred EEEEE---ECCCHHHHHHHHHHHHHCCCC-EEEEEEECHHHHHHHHHHHHHHHHCCCCEE-EEEEEECCE-ECCCCEEEE
T ss_conf 19999---089759999999999866997-799998142677899999999986428659-999873240-058847868
Q ss_pred E
Q ss_conf 9
Q gi|254780320|r 130 I 130 (136)
Q Consensus 130 ~ 130 (136)
+
T Consensus 81 I 81 (89)
T 2bky_X 81 I 81 (89)
T ss_dssp E
T ss_pred E
T ss_conf 9
No 9
>1ntv_A Disabled homolog 1; beta-sandwich, signaling protein; 1.50A {Mus musculus} SCOP: b.55.1.2 PDB: 1nu2_A* 1oqn_A*
Probab=14.27 E-value=64 Score=13.34 Aligned_cols=57 Identities=12% Similarity=0.134 Sum_probs=31.8
Q ss_pred CCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEEEC
Q ss_conf 379199999970974357356899999999984224320367732487699999204
Q gi|254780320|r 78 DGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEGRQMIMILSSK 134 (136)
Q Consensus 78 ~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~Gr~~~~~l~Pk 134 (136)
.|+.|.+.+++-|........|.+++.+-+..+............-...+.+.+++.
T Consensus 14 ~~~gv~f~v~YLGs~~V~~~~g~~~~~~ai~~l~~~~~~~k~~~~~~~~V~L~Vs~~ 70 (152)
T 1ntv_A 14 KGEGVRYKAKLIGIDEVSAARGDKLCQDSMMKLKGVVAGARSKGEHKQKIFLTISFG 70 (152)
T ss_dssp STTCEEEEEEEEEEEECSSSCCHHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEEETT
T ss_pred CCCCEEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEHH
T ss_conf 599749999997879906879989999999999975201432367786599999411
No 10
>3cqj_A L-ribulose-5-phosphate 3-epimerase ULAE; TIM-barrel, isomerase, phosphate-binding motif, structural genomics; 2.04A {Escherichia coli} PDB: 3cqi_A 3cqh_A 3cqk_A
Probab=13.17 E-value=65 Score=13.30 Aligned_cols=17 Identities=29% Similarity=0.579 Sum_probs=14.1
Q ss_pred CHHHHHCCCCEEEECCC
Q ss_conf 93378579949999887
Q gi|254780320|r 1 MQMAQEANLDLVEIDSS 17 (136)
Q Consensus 1 l~~A~~~~lDLV~vs~~ 17 (136)
+++|.+.|+|-||++.+
T Consensus 36 l~~a~~~Gfd~iEl~~~ 52 (295)
T 3cqj_A 36 LQLAKTLGFDFVEMSVD 52 (295)
T ss_dssp HHHHHHTTCSEEEEECC
T ss_pred HHHHHHCCCCEEEEEEC
T ss_conf 99999829998999605
Done!