Query gi|255764517|ref|YP_003084345.1| hypothetical protein CLIBASIA_05538 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 135
No_of_seqs 2 out of 4
Neff 1.3
Searched_HMMs 39220
Date Mon May 30 06:00:22 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 255764517.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2706 3-carboxymuconate cycl 47.4 20 0.0005 17.9 2.9 37 52-88 289-325 (346)
2 COG0743 Dxr 1-deoxy-D-xylulose 41.4 4.2 0.00011 21.9 -1.3 54 7-62 211-265 (385)
3 pfam11311 DUF3114 Protein of u 35.1 21 0.00055 17.7 1.5 56 29-89 130-192 (252)
4 pfam02114 Phosducin Phosducin. 34.4 14 0.00035 18.8 0.4 65 49-113 184-250 (265)
5 COG4064 MtrG Tetrahydromethano 33.9 32 0.00083 16.6 2.3 35 93-127 2-36 (75)
6 TIGR00243 Dxr 1-deoxy-D-xylulo 33.8 8 0.0002 20.2 -0.8 47 19-65 237-284 (406)
7 pfam00798 Arena_glycoprot Aren 29.4 10 0.00026 19.7 -0.9 93 29-135 250-346 (473)
8 COG1908 FrhD Coenzyme F420-red 28.5 39 0.001 16.1 2.0 77 48-135 39-124 (132)
9 PRK12442 translation initiatio 28.1 36 0.00091 16.4 1.7 43 46-88 9-55 (87)
10 TIGR01149 mtrG tetrahydrometha 27.3 41 0.0011 16.0 1.9 30 97-126 5-34 (72)
11 TIGR00008 infA translation ini 26.1 53 0.0014 15.3 2.3 42 46-87 7-52 (69)
12 PRK00276 infA translation init 23.0 53 0.0013 15.4 1.8 42 46-87 9-54 (72)
13 PRK11470 hypothetical protein; 22.8 14 0.00037 18.7 -1.1 41 75-115 127-169 (200)
14 pfam04126 DUF369 Domain of unk 22.7 55 0.0014 15.2 1.8 17 16-32 63-79 (119)
15 CHL00010 infA translation init 22.7 55 0.0014 15.2 1.8 43 46-88 9-55 (78)
16 cd04451 S1_IF1 S1_IF1: Transla 20.3 65 0.0016 14.8 1.8 41 47-87 4-48 (64)
17 PRK10030 putative peptidoglyca 20.2 21 0.00054 17.7 -0.7 30 75-105 139-168 (199)
No 1
>COG2706 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]
Probab=47.41 E-value=20 Score=17.92 Aligned_cols=37 Identities=30% Similarity=0.472 Sum_probs=30.1
Q ss_pred EECCCCCCCCCCCCEEEEEECCCCCEEEEEECCHHHH
Q ss_conf 0050023322121027998527787888963572345
Q gi|255764517|r 52 ELAISQDFDVDGLNALLTVNNREGDFIRIFEGEKQTF 88 (135)
Q Consensus 52 ELa~~~DF~VD~~~a~L~~~~r~~~~iRIFEGEKQTF 88 (135)
|.-.-|||..+-.+..|++.+...|-+.+|+-+++|=
T Consensus 289 eg~~PR~F~i~~~g~~Liaa~q~sd~i~vf~~d~~TG 325 (346)
T COG2706 289 EGQFPRDFNINPSGRFLIAANQKSDNITVFERDKETG 325 (346)
T ss_pred CCCCCCCCEECCCCCEEEEECCCCCCEEEEEECCCCC
T ss_conf 7858753144799989999725798489999858876
No 2
>COG0743 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]
Probab=41.36 E-value=4.2 Score=21.88 Aligned_cols=54 Identities=28% Similarity=0.297 Sum_probs=35.0
Q ss_pred HHHCCCCCCCCEEEEEEE-CEEEEEEECCCHHHEEEECCCCCCCEEEECCCCCCCCC
Q ss_conf 232051002434688860-36788763189113112315788831000500233221
Q gi|255764517|r 7 MEKLNFEQTKSVTYWAVG-SKFVIPWDIKDPSRIHAEVGYSDGRVQELAISQDFDVD 62 (135)
Q Consensus 7 M~~~NFEQtK~VtY~~~G-S~FVIPW~iKDPSRIHAEV~Y~DG~~~ELa~~~DF~VD 62 (135)
||--.||--. .+|+|| ++--|---|.--|-||+-|.|.||.+---.-.-|...-
T Consensus 211 mmNKGLEvIE--A~~LF~~~~~~IeVvIHPQSiIHsmV~~~DGSviAqlg~pDMr~P 265 (385)
T COG0743 211 MMNKGLEVIE--AHWLFGLPYEQIEVVIHPQSIIHSMVEYVDGSVIAQLGPPDMRTP 265 (385)
T ss_pred HHHHHHHHHH--HHHHHCCCHHHEEEEECCCCHHEEEEEECCCCEEEECCCCCHHHH
T ss_conf 7644189999--999818988990689743210102379626978986189632528
No 3
>pfam11311 DUF3114 Protein of unknown function (DUF3114). Some members in this family of proteins with unknown function are annotated as cytosolic proteins. This cannot be confirmed.
Probab=35.11 E-value=21 Score=17.68 Aligned_cols=56 Identities=16% Similarity=0.322 Sum_probs=36.1
Q ss_pred EEEECCCHHHEEEECC-------CCCCCEEEECCCCCCCCCCCCEEEEEECCCCCEEEEEECCHHHHH
Q ss_conf 8763189113112315-------788831000500233221210279985277878889635723455
Q gi|255764517|r 29 IPWDIKDPSRIHAEVG-------YSDGRVQELAISQDFDVDGLNALLTVNNREGDFIRIFEGEKQTFK 89 (135)
Q Consensus 29 IPW~iKDPSRIHAEV~-------Y~DG~~~ELa~~~DF~VD~~~a~L~~~~r~~~~iRIFEGEKQTFK 89 (135)
-+|+..+++|.|-.+. ||||..+ -.+|+--+--+--+-+..|+|+-+...|..|-+
T Consensus 130 ~~y~l~ESARLHNK~~~~~~~~~ypd~~~~-----~N~Kil~~FHtEFILD~~G~FlneiD~e~~t~n 192 (252)
T pfam11311 130 DDYTLYESARLHNKIAIRDGQVIYPDGEPS-----ANIKILIDFHTEFILDSQGNFLNEIDAENATQN 192 (252)
T ss_pred CCCHHHHHHHHHHHHHCCCCCEECCCCCCC-----CCEEEEECCCCEEEECCCCCEEHHCCCCCCCCC
T ss_conf 660033567664022046875357899865-----352564034210268687763011065444425
No 4
>pfam02114 Phosducin Phosducin.
Probab=34.36 E-value=14 Score=18.84 Aligned_cols=65 Identities=23% Similarity=0.364 Sum_probs=42.4
Q ss_pred CEEEECCCCCCCCCCCCEEEEEECCC--CCEEEEEECCHHHHHHHCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 31000500233221210279985277--878889635723455413444111111101100011464
Q gi|255764517|r 49 RVQELAISQDFDVDGLNALLTVNNRE--GDFIRIFEGEKQTFKEYNSDSPRAPHNLVKEADLYPLHN 113 (135)
Q Consensus 49 ~~~ELa~~~DF~VD~~~a~L~~~~r~--~~~iRIFEGEKQTFK~~N~~~~raphnlvK~~~~~~L~~ 113 (135)
+--....|..|.-+|+-++|.--+-+ |||+||-+--.--|-.-..|+----|.+.-+-.++.|.+
T Consensus 184 ~aS~~G~s~~F~~~~lPaLLVYK~GeLIgNFvrvtd~lgedFfa~DvE~FL~E~GlLpdk~~~~~~~ 250 (265)
T pfam02114 184 KASNIGAGDRFSRDALPALLIYKAGELIGNFIRVTDQLAEDFFAGDLEAFLNEFGLLPEKEMHVLEQ 250 (265)
T ss_pred EECCCCHHHHCCCCCCCEEEEEECCEEEEEEEEECHHHCCCCCHHHHHHHHHHCCCCCCCCHHHHHC
T ss_conf 4044585663662588757886088257631451254436455878999999829987410555201
No 5
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=33.94 E-value=32 Score=16.60 Aligned_cols=35 Identities=31% Similarity=0.524 Sum_probs=28.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 44411111110110001146442137789975676
Q gi|255764517|r 93 SDSPRAPHNLVKEADLYPLHNRLDGVETIVSDLNN 127 (135)
Q Consensus 93 ~~~~raphnlvK~~~~~~L~~r~~~v~~IV~DLnn 127 (135)
|+-.++|.-++..++.+-+|.|||-+|--|.-.|.
T Consensus 2 seeek~P~v~v~~~dfne~~kRLdeieekvef~~~ 36 (75)
T COG4064 2 SEEEKVPKVVVDPDDFNEIHKRLDEIEEKVEFVNG 36 (75)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 84346774026889999999999999999986699
No 6
>TIGR00243 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR003821 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesizes 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms . In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis.; GO: 0003824 catalytic activity, 0008299 isoprenoid biosynthetic process.
Probab=33.85 E-value=8 Score=20.25 Aligned_cols=47 Identities=28% Similarity=0.337 Sum_probs=34.8
Q ss_pred EEEEEECEEE-EEEECCCHHHEEEECCCCCCCEEEECCCCCCCCCCCC
Q ss_conf 6888603678-8763189113112315788831000500233221210
Q gi|255764517|r 19 TYWAVGSKFV-IPWDIKDPSRIHAEVGYSDGRVQELAISQDFDVDGLN 65 (135)
Q Consensus 19 tY~~~GS~FV-IPW~iKDPSRIHAEV~Y~DG~~~ELa~~~DF~VD~~~ 65 (135)
+|||||--+- |---|.--|=||+=|.|.|+-|=----+-|..+-...
T Consensus 237 A~WLF~~s~~~idv~ih~~SIiHSlVe~~D~SViAqLG~PDMr~Pi~y 284 (406)
T TIGR00243 237 AHWLFGASYEQIDVVIHPQSIIHSLVEFQDGSVIAQLGSPDMRLPIAY 284 (406)
T ss_pred HHHHHCCCHHHCEEEECCCCEEEEEEEEECCCCEECCCCCCCCCHHHH
T ss_conf 988607886474164667662676678857600011288622003897
No 7
>pfam00798 Arena_glycoprot Arenavirus glycoprotein.
Probab=29.40 E-value=10 Score=19.65 Aligned_cols=93 Identities=25% Similarity=0.408 Sum_probs=64.2
Q ss_pred EEEECCCHHHEEEECCCCCCCEEEECCCCCCCCCCCCEEEEEECC----CCCEEEEEECCHHHHHHHCCCCCCCCCCCCH
Q ss_conf 876318911311231578883100050023322121027998527----7878889635723455413444111111101
Q gi|255764517|r 29 IPWDIKDPSRIHAEVGYSDGRVQELAISQDFDVDGLNALLTVNNR----EGDFIRIFEGEKQTFKEYNSDSPRAPHNLVK 104 (135)
Q Consensus 29 IPW~iKDPSRIHAEV~Y~DG~~~ELa~~~DF~VD~~~a~L~~~~r----~~~~iRIFEGEKQTFK~~N~~~~raphnlvK 104 (135)
..|++-|+|--+.--||-=-+ =.-++-|.|-=|-.|.---|-. =-|.+|.|+=-|+..|.++.++..
T Consensus 250 FtWsLSDs~G~d~PGGYCLe~--WmLi~s~lKCFgNTAvAKCN~nHdsEFCDMLRLFDfNKnAI~tL~~~t~~------- 320 (473)
T pfam00798 250 FTWSLSDSSGNDMPGGYCLER--WMLVAAELKCFGNTAVAKCNLNHDSEFCDMLRLFDFNKNAIKTLNDETKN------- 320 (473)
T ss_pred EEEEECCCCCCCCCCCCHHHH--HHHHHCCCCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-------
T ss_conf 768822677896997007999--99998078633867876532566588878999877409999998888899-------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 1000114644213778997567678776319
Q gi|255764517|r 105 EADLYPLHNRLDGVETIVSDLNNMKNRIQDL 135 (135)
Q Consensus 105 ~~~~~~L~~r~~~v~~IV~DLnnmknriqdl 135 (135)
+++.+.. +|..+.||---|||++.+|
T Consensus 321 --~lnll~~---~iNsLISDnLlMkN~lreL 346 (473)
T pfam00798 321 --ALNLLTK---TINSLISDNLLMKNKLREL 346 (473)
T ss_pred --HHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_conf --9999999---8887731337878899998
No 8
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=28.49 E-value=39 Score=16.12 Aligned_cols=77 Identities=22% Similarity=0.316 Sum_probs=46.5
Q ss_pred CCEEEECCCCCCCCCCCCEEEEEECCCCCEE---------EEEECCHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 8310005002332212102799852778788---------8963572345541344411111110110001146442137
Q gi|255764517|r 48 GRVQELAISQDFDVDGLNALLTVNNREGDFI---------RIFEGEKQTFKEYNSDSPRAPHNLVKEADLYPLHNRLDGV 118 (135)
Q Consensus 48 G~~~ELa~~~DF~VD~~~a~L~~~~r~~~~i---------RIFEGEKQTFK~~N~~~~raphnlvK~~~~~~L~~r~~~v 118 (135)
||+.---+-+-|. .|-...|.+.-+-|+-- |-+|--|++.+|+-++..|--+--+ --.--
T Consensus 39 Grvn~~fvl~Al~-~GaDGV~v~GC~~geCHy~~GN~ka~rR~~~lke~l~elgie~eRv~~~wi----------Sa~E~ 107 (132)
T COG1908 39 GRVNPEFVLKALR-KGADGVLVAGCKIGECHYISGNYKAKRRMELLKELLKELGIEPERVRVLWI----------SAAEG 107 (132)
T ss_pred CCCCHHHHHHHHH-CCCCEEEEECCCCCCEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEE----------EHHHH
T ss_conf 7418999999997-389868993441561233016647999999999999994888442789997----------23368
Q ss_pred HHHHHHHHHHHHHHHCC
Q ss_conf 78997567678776319
Q gi|255764517|r 119 ETIVSDLNNMKNRIQDL 135 (135)
Q Consensus 119 ~~IV~DLnnmknriqdl 135 (135)
|.+++..|+|-+||.+|
T Consensus 108 ekf~e~~~efv~~i~~l 124 (132)
T COG1908 108 EKFAETINEFVERIKEL 124 (132)
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 88999999999999972
No 9
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=28.09 E-value=36 Score=16.37 Aligned_cols=43 Identities=26% Similarity=0.296 Sum_probs=33.6
Q ss_pred CCCCEEEECCCCCCCCCCCCEEEEEECC----CCCEEEEEECCHHHH
Q ss_conf 8883100050023322121027998527----787888963572345
Q gi|255764517|r 46 SDGRVQELAISQDFDVDGLNALLTVNNR----EGDFIRIFEGEKQTF 88 (135)
Q Consensus 46 ~DG~~~ELa~~~DF~VD~~~a~L~~~~r----~~~~iRIFEGEKQTF 88 (135)
-+|-+.|+-|..-|.|..+|...++..- +-+.|||..|.+-+.
T Consensus 9 ~eG~V~e~lpn~~FrV~LeNg~~Vla~~sGKmR~~~IrIl~GD~V~V 55 (87)
T PRK12442 9 LDGIVDEVLPDSRYRVTLENGVEVGAYASGRMRKHRIRILAGDRVTL 55 (87)
T ss_pred EEEEEEEECCCCEEEEEECCCCEEEEEEECCEEEEEEEECCCCEEEE
T ss_conf 87899998799879999779989999985501330277768998999
No 10
>TIGR01149 mtrG tetrahydromethanopterin S-methyltransferase, subunit G; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane.
Probab=27.30 E-value=41 Score=15.97 Aligned_cols=30 Identities=30% Similarity=0.462 Sum_probs=25.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 111111011000114644213778997567
Q gi|255764517|r 97 RAPHNLVKEADLYPLHNRLDGVETIVSDLN 126 (135)
Q Consensus 97 raphnlvK~~~~~~L~~r~~~v~~IV~DLn 126 (135)
.+|.-++..++.+-++.|||-+|--|.-.|
T Consensus 5 t~P~~~~~~~ef~~~~~rLDeie~kveFv~ 34 (72)
T TIGR01149 5 TVPKVLVEPDEFNEVKKRLDEIEEKVEFVN 34 (72)
T ss_pred CCCHHCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 232110597669999987417867887899
No 11
>TIGR00008 infA translation initiation factor IF-1; InterPro: IPR004368 This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (IPR003029 from INTERPRO).; GO: 0003743 translation initiation factor activity, 0006413 translational initiation.
Probab=26.07 E-value=53 Score=15.32 Aligned_cols=42 Identities=26% Similarity=0.404 Sum_probs=34.0
Q ss_pred CCCCEEEECCCCCCCCCCCCEEEEEEC---C-CCCEEEEEECCHHH
Q ss_conf 888310005002332212102799852---7-78788896357234
Q gi|255764517|r 46 SDGRVQELAISQDFDVDGLNALLTVNN---R-EGDFIRIFEGEKQT 87 (135)
Q Consensus 46 ~DG~~~ELa~~~DF~VD~~~a~L~~~~---r-~~~~iRIFEGEKQT 87 (135)
-+|.+-|.-|...|+|.-+|...+... | +.+.|||..|.+-+
T Consensus 7 ~~G~v~e~l~n~~f~V~LeN~~~v~a~iSGk~r~~~iriLpGD~V~ 52 (69)
T TIGR00008 7 VEGKVVESLPNAMFRVELENGHEVLAHISGKIRKNYIRILPGDKVK 52 (69)
T ss_pred ECCEEEECCCCCEEEEEECCCCEEEEEECCEEECCEEEECCCCEEE
T ss_conf 4238985436982699947997898997103413517554798789
No 12
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=23.03 E-value=53 Score=15.35 Aligned_cols=42 Identities=29% Similarity=0.362 Sum_probs=32.5
Q ss_pred CCCCEEEECCCCCCCCCCCCEEEEEECC----CCCEEEEEECCHHH
Q ss_conf 8883100050023322121027998527----78788896357234
Q gi|255764517|r 46 SDGRVQELAISQDFDVDGLNALLTVNNR----EGDFIRIFEGEKQT 87 (135)
Q Consensus 46 ~DG~~~ELa~~~DF~VD~~~a~L~~~~r----~~~~iRIFEGEKQT 87 (135)
-+|.+.|.-|..-|.|.-+|...++..- +-+.|||..|.+-+
T Consensus 9 ~~G~V~e~lpn~~F~V~Leng~~v~a~~sGKmR~~~Iril~GD~V~ 54 (72)
T PRK00276 9 MEGTVLETLPNAMFRVELENGHEVLAHISGKMRKNYIRILPGDKVT 54 (72)
T ss_pred EEEEEEEECCCCEEEEEECCCCEEEEEECHHEEEEEEEECCCCEEE
T ss_conf 9999999859988999978999999997413110169975899899
No 13
>PRK11470 hypothetical protein; Provisional
Probab=22.78 E-value=14 Score=18.71 Aligned_cols=41 Identities=24% Similarity=0.252 Sum_probs=30.9
Q ss_pred CCEEEEEECCHHHHHHHCCCCCCCCCCCCHH--HHHHHHHHHH
Q ss_conf 8788896357234554134441111111011--0001146442
Q gi|255764517|r 75 GDFIRIFEGEKQTFKEYNSDSPRAPHNLVKE--ADLYPLHNRL 115 (135)
Q Consensus 75 ~~~iRIFEGEKQTFK~~N~~~~raphnlvK~--~~~~~L~~r~ 115 (135)
.+++.|=-|+-|||||++...|.++-++-|. ..--|++.++
T Consensus 127 ~~A~gielG~le~l~~ll~~~P~~~l~~~k~~ygg~IP~~~~~ 169 (200)
T PRK11470 127 KEALCIPVGEIETFGELLNSNPDAKLTFWKFWFLGSIPWERKT 169 (200)
T ss_pred HHHHCCCCCCEEEHHHHHHCCCCCHHHHHHHHHCCCCCCCCCE
T ss_conf 8875875352023555654384105889999856888977750
No 14
>pfam04126 DUF369 Domain of unknown function (DUF369).
Probab=22.70 E-value=55 Score=15.25 Aligned_cols=17 Identities=24% Similarity=0.702 Sum_probs=12.8
Q ss_pred CCEEEEEEECEEEEEEE
Q ss_conf 43468886036788763
Q gi|255764517|r 16 KSVTYWAVGSKFVIPWD 32 (135)
Q Consensus 16 K~VtY~~~GS~FVIPW~ 32 (135)
-++.||.-|..|+|-|-
T Consensus 63 GdIayWp~G~ai~IffG 79 (119)
T pfam04126 63 GDIAYWPPGKALCIFFG 79 (119)
T ss_pred CCEEEECCCCEEEEEEC
T ss_conf 75798079997999967
No 15
>CHL00010 infA translation initiation factor 1
Probab=22.67 E-value=55 Score=15.22 Aligned_cols=43 Identities=26% Similarity=0.285 Sum_probs=33.2
Q ss_pred CCCCEEEECCCCCCCCCCCCEEEEEEC---C-CCCEEEEEECCHHHH
Q ss_conf 888310005002332212102799852---7-787888963572345
Q gi|255764517|r 46 SDGRVQELAISQDFDVDGLNALLTVNN---R-EGDFIRIFEGEKQTF 88 (135)
Q Consensus 46 ~DG~~~ELa~~~DF~VD~~~a~L~~~~---r-~~~~iRIFEGEKQTF 88 (135)
-+|-+.|.-|..-|.|..+|...++.. | |-+.|||..|.+-+.
T Consensus 9 ~eG~V~e~Lpn~~F~V~Leng~~Vla~~sGKmR~~~Iril~GD~V~V 55 (78)
T CHL00010 9 MEGLVTESLPNGMFRVRLDNGDLVLGYISGKIRRNSIRILPGDRVKV 55 (78)
T ss_pred EEEEEEEECCCCEEEEEECCCCEEEEEECCHHEECEEEECCCCEEEE
T ss_conf 98999998699889999789999999998052003189748998999
No 16
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=20.28 E-value=65 Score=14.82 Aligned_cols=41 Identities=24% Similarity=0.339 Sum_probs=31.5
Q ss_pred CCCEEEECCCCCCCCCCCCEEEEEECC----CCCEEEEEECCHHH
Q ss_conf 883100050023322121027998527----78788896357234
Q gi|255764517|r 47 DGRVQELAISQDFDVDGLNALLTVNNR----EGDFIRIFEGEKQT 87 (135)
Q Consensus 47 DG~~~ELa~~~DF~VD~~~a~L~~~~r----~~~~iRIFEGEKQT 87 (135)
+|-+.|.-|..-|.|.-+|...++..- +-+.|||..|.+-+
T Consensus 4 ~G~V~e~lpn~~F~V~Leng~~v~a~~sGKmr~~~Iril~GD~V~ 48 (64)
T cd04451 4 EGVVTEALPNAMFRVELENGHEVLAHISGKMRMNYIRILPGDRVK 48 (64)
T ss_pred EEEEEEECCCCEEEEEECCCCEEEEEECCHHEEEEEEECCCCEEE
T ss_conf 899999879988999978998999997233041269845899899
No 17
>PRK10030 putative peptidoglycan peptidase; Provisional
Probab=20.15 E-value=21 Score=17.70 Aligned_cols=30 Identities=27% Similarity=0.432 Sum_probs=24.0
Q ss_pred CCEEEEEECCHHHHHHHCCCCCCCCCCCCHH
Q ss_conf 8788896357234554134441111111011
Q gi|255764517|r 75 GDFIRIFEGEKQTFKEYNSDSPRAPHNLVKE 105 (135)
Q Consensus 75 ~~~iRIFEGEKQTFK~~N~~~~raphnlvK~ 105 (135)
.+++.|--|+.+|||||+...|-+. ++.|+
T Consensus 139 ~~a~gievG~~~~l~dl~~~~P~~k-~~~k~ 168 (199)
T PRK10030 139 QNALGMEVGEQQKLKEFDLSNPLVQ-AKLKE 168 (199)
T ss_pred HHHHCCEECCCEEHHHHHCCCHHHH-HHHHH
T ss_conf 8754862034155766502484688-99999
Done!