Query         gi|254780225|ref|YP_003064638.1| peptidyl-tRNA hydrolase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 189
No_of_seqs    138 out of 2149
Neff          6.3 
Searched_HMMs 33803
Date          Mon May 23 19:50:40 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780225.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2pth_A Peptidyl-tRNA hydrolas 100.0       0       0  471.8  18.4  188    1-189     2-192 (193)
  2 >1ryb_A CRS2; alpha-beta, hydr 100.0       0       0  472.9  17.1  187    1-188    17-205 (205)
  3 >2z2i_A PTH, peptidyl-tRNA hyd 100.0       0       0  470.6  17.6  186    1-187     4-191 (191)
  4 >1cfz_A Hydrogenase 2 maturati  52.0      18 0.00053   17.2   4.0  102    2-133     3-119 (162)
  5 >2e85_A Hydrogenase 3 maturati  51.1      15 0.00044   17.7   3.1  101    2-133     6-116 (159)
  6 >2inw_A Putative structural pr  47.7      21 0.00062   16.8   3.8   31  146-176    50-80  (133)
  7 >2jy9_A Putative tRNA hydrolas  43.6     9.6 0.00028   18.8   1.2   39   90-135     4-45  (148)
  8 >2ea9_A JW2626, hypothetical p  42.5      22 0.00066   16.6   2.9   31  146-176    36-66  (105)
  9 >1c8b_A Spore protease; novel   39.6      15 0.00043   17.7   1.6   78    2-96     80-163 (336)
 10 >2b0c_A Putative phosphatase;   29.7      15 0.00044   17.7   0.3   82    1-94      8-98  (129)
 11 >2fkc_A R.HINP1I restriction e  28.4      23 0.00069   16.5   1.1   31  144-174   135-166 (247)
 12 >1j26_A Immature colon carcino  23.4      45  0.0013   14.8   1.8   25   90-114    11-37  (112)
 13 >2fph_X YLMH; division protein  21.5      58  0.0017   14.1   2.8   27  146-172     2-28  (79)
 14 >1w6s_A Methanol dehydrogenase  21.4      45  0.0013   14.8   1.5   18    2-19     35-52  (84)
 15 >3eeq_A Putative cobalamin bio  21.0      59  0.0018   14.1   4.1   57   64-124    60-117 (126)
 16 >2b3t_B RF-1, peptide chain re  21.0      56  0.0016   14.2   1.9   19   95-113     2-22  (80)
 17 >2b68_A Defensin; antibacteria  20.6      18 0.00053   17.2  -0.7   15    6-20      1-15  (43)

No 1  
>>2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli K12} (A:)
Probab=100.00  E-value=0  Score=471.77  Aligned_cols=188  Identities=36%  Similarity=0.592  Sum_probs=182.4

Q ss_pred             CEEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCC-CCCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCC
Q ss_conf             98999858787366067410489999999998279854-44321278851479748999823340200337999999405
Q gi|254780225|r    1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAW-KKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFY   79 (189)
Q Consensus         1 m~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~-~~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~   79 (189)
                      |||||||||||++|++|||||||+++|.||+.+++++. .+++.+.++++.+.+.+++|+||+||||+||+||++++++|
T Consensus         2 m~li~GLGNPG~~Y~~TRHNiGf~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kp~TyMN~SG~~V~~~~~~~   81 (193)
T 2pth_A            2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFF   81 (193)
T ss_dssp             CCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHHH
T ss_pred             EEEEEECCCCCHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCCEEEEEECCEECCCCCHHHHHHHHHH
T ss_conf             79999768994111728507899999999998599843334664021124306735999965500213643069999983


Q ss_pred             CCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHHHCCCC--CEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             756633348984044323382366111588873103333310687--313667506898776702424378988899999
Q gi|254780225|r   80 KLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISEKCGK--NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYF  157 (189)
Q Consensus        80 ~i~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~~~lg~--~f~RlRIGIG~P~~~~~v~~yVL~~f~~~E~~~  157 (189)
                      +|+ +++++|||||+|+|+|++|+|.+||++||||||||+++||+  ||+|||||||||+.++++++|||++|+++|++.
T Consensus        82 ki~-~~~ilVihDdldlp~G~irlk~gGs~~GHNGlkSI~~~lgt~~~f~RlrIGIGrP~~~~~v~~yVL~~F~~~E~~~  160 (193)
T 2pth_A           82 RIN-PDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKL  160 (193)
T ss_dssp             TCC-GGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHTTSCCCSEEEEEECCCCSSHHHHHHHHTSCCCHHHHHH
T ss_pred             CCC-HHHEEEEECCHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCHHHHHHHHHCCCCCCCCCCCCEECCCCCHHHHHH
T ss_conf             899-8995766501013699723435998555343899999973122232211110488667981576269979999999


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCC
Q ss_conf             99999999999999980998999998633589
Q gi|254780225|r  158 LLPIIDNIARSLPLLAKREDVSFLNHIVSVRK  189 (189)
Q Consensus       158 i~~~i~~~~~~i~~~~~~~~~~~mn~~n~~~k  189 (189)
                      |+++++.++++++.++.++++.+||++|+.+|
T Consensus       161 l~~~i~~~~~~l~~~~~~~~~~~mn~~n~~~~  192 (193)
T 2pth_A          161 IDEAIDEAARCTEMWFTDGLTKATNRLHAFKA  192 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCC
T ss_conf             99999999999999997799999999858488


No 2  
>>1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} (A:)
Probab=100.00  E-value=0  Score=472.88  Aligned_cols=187  Identities=32%  Similarity=0.566  Sum_probs=182.8

Q ss_pred             CEEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCCC
Q ss_conf             98999858787366067410489999999998279854443212788514797489998233402003379999994057
Q gi|254780225|r    1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYK   80 (189)
Q Consensus         1 m~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~~   80 (189)
                      |||||||||||++|++|||||||+++|.||+.+++++++.++.+.++.+.+.+.+|+|+||+||||+||+||++++++|+
T Consensus        17 ~~LivGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMN~SG~aV~~~~~~~~   96 (205)
T 1ryb_A           17 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLAAYYQ   96 (205)
T ss_dssp             CEEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCHHHHHHHHHHC
T ss_conf             24999828998120569326899999999998499945112474789985168528998368400136456777776602


Q ss_pred             CCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHHHCC-CC-CEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             566333489840443233823661115888731033333106-87-3136675068987767024243789888999999
Q gi|254780225|r   81 LPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISEKC-GK-NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFL  158 (189)
Q Consensus        81 i~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~~~l-g~-~f~RlRIGIG~P~~~~~v~~yVL~~f~~~E~~~i  158 (189)
                      |+ +++|+|||||||||+|++|+|.+||++||||||||+++| |+ +|+|||||||||++++++++|||++|+++|++.+
T Consensus        97 i~-~~~ilVihDdldl~~Gkirlk~~Gs~~GHNGlkSI~~~L~gt~~f~RlrIGIGrP~~~~~v~~yVLs~F~~~E~~~l  175 (205)
T 1ryb_A           97 VP-LRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQI  175 (205)
T ss_dssp             CC-GGGEEEEEEETTSCTTCEEEESSCCCTTCHHHHHHHHHTTTCCCSCEEEEECCCCSTTCCHHHHHTSBCCHHHHHHH
T ss_pred             CC-CCCEEEEECCCCCCCCCEEECCCCCCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHH
T ss_conf             47-60168886220110687745457877654135549987189610478852368886768713204899999999999


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHCCC
Q ss_conf             999999999999998099899999863358
Q gi|254780225|r  159 LPIIDNIARSLPLLAKREDVSFLNHIVSVR  188 (189)
Q Consensus       159 ~~~i~~~~~~i~~~~~~~~~~~mn~~n~~~  188 (189)
                      +++++.++++++.++.++++.+||++|+.+
T Consensus       176 ~~~~~~~~~~i~~~i~~~~~~~mn~~N~~k  205 (205)
T 1ryb_A          176 DTALEQGVDAVRTLVLKGFSGSTERFNLVQ  205 (205)
T ss_dssp             HHHHHHHHHHHHHHHHHC-----CCCCCCC
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHCCC
T ss_conf             999999999999999869999999872799


No 3  
>>2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A {Mycobacterium tuberculosis H37RV} PDB: 2z2j_A 2z2k_A 2jrc_A (A:)
Probab=100.00  E-value=0  Score=470.60  Aligned_cols=186  Identities=39%  Similarity=0.655  Sum_probs=179.8

Q ss_pred             CEEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCC-CCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCC
Q ss_conf             989998587873660674104899999999982798544-4321278851479748999823340200337999999405
Q gi|254780225|r    1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWK-KKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFY   79 (189)
Q Consensus         1 m~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~~-~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~   79 (189)
                      +||||||||||++|++|||||||+++|.||+.+++++++ +++.+.++++.+.+.+|+|+||+||||+||+||++++++|
T Consensus         4 ~~livGLGNPG~~Y~~TRHNvGf~~id~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~   83 (191)
T 2z2i_A            4 PLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFY   83 (191)
T ss_dssp             CEEEEECCCCSHHHHTBGGGHHHHHHHHHHHHTTCCCEECTTTSSEEEEEEETTEEEEEEECSSCGGGTHHHHHHHHHHT
T ss_pred             CEEEEECCCCCHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCEEEEEECHHHHHHHHHHHHHHHHHC
T ss_conf             56999828995000769606899999999998388976234576378654305623788750267766358899999815


Q ss_pred             CCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHHHCCCC-CEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             756633348984044323382366111588873103333310687-3136675068987767024243789888999999
Q gi|254780225|r   80 KLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISEKCGK-NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFL  158 (189)
Q Consensus        80 ~i~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~~~lg~-~f~RlRIGIG~P~~~~~v~~yVL~~f~~~E~~~i  158 (189)
                      +|+ +++++|||||+|||+|++|+|.+||+|||||||||+++||+ +|+|||||||||++++++++|||++|+++|++.+
T Consensus        84 ki~-~~~ilVihDdldlp~Gkirlk~~Gs~gGHNGlkSI~~~Lgt~~f~RlrIGIGrP~~~~~v~~yVL~~F~~~E~~~l  162 (191)
T 2z2i_A           84 SVA-PANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEV  162 (191)
T ss_dssp             TCC-GGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHHTCSCSEEEEEECCCCCTTSCHHHHHTSBCCHHHHTTH
T ss_pred             CCC-HHHEEEEECCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHH
T ss_conf             898-7897998445778775189836997765168999998628975106664278997657610112789998999999


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHCC
Q ss_conf             99999999999999809989999986335
Q gi|254780225|r  159 LPIIDNIARSLPLLAKREDVSFLNHIVSV  187 (189)
Q Consensus       159 ~~~i~~~~~~i~~~~~~~~~~~mn~~n~~  187 (189)
                      +++++.++++++.++.++++.+||++|++
T Consensus       163 ~~~~~~~~~~i~~~i~~~~~~~~n~~Ns~  191 (191)
T 2z2i_A          163 PTICEQAADATELLIEQGMEPAQNRVHAW  191 (191)
T ss_dssp             HHHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHCC
T ss_conf             99999999999999978999999987287


No 4  
>>1cfz_A Hydrogenase 2 maturation protease; metzincins, nickel; 2.20A {Escherichia coli} (A:)
Probab=52.04  E-value=18  Score=17.22  Aligned_cols=102  Identities=16%  Similarity=0.282  Sum_probs=53.8

Q ss_pred             EEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCCCC
Q ss_conf             89998587873660674104899999999982798544432127885147974899982334020033799999940575
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYKL   81 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~~i   81 (189)
                      .+|+|+|||=    ..=--+|..+++.|.+.+..+..                 |.++.--|    .|..   ++.+.  
T Consensus         3 ilIlGiGN~l----~gDDgvG~~v~~~L~~~~~~~~~-----------------v~~~d~g~----~~~~---l~~~l--   52 (162)
T 1cfz_A            3 ILVLGVGNIL----LTDEAIGVRIVEALEQRYILPDY-----------------VEILDGGT----AGME---LLGDM--   52 (162)
T ss_dssp             EEEEEESCTT----BGGGGHHHHHHHHHHHHEECCTT-----------------EEEEEEET----CCGG---GHHHH--
T ss_pred             EEEEEECCCC----CCCCCHHHHHHHHHHHHCCCCCC-----------------EEEEECCC----CHHH---HHHHH--
T ss_conf             9999989866----26170999999999873689998-----------------49999998----8799---99986--


Q ss_pred             CCCCCEEEEEE--CCCCCCCCEEEEC--------CCCCCCCC-HHHHHHHCCC--CCEE--EEEECC
Q ss_conf             66333489840--4432338236611--------15888731-0333331068--7313--667506
Q gi|254780225|r   82 PNLENYLVIHD--DLDLDFGTLRLKT--------GGGDAGHN-GLKSISEKCG--KNYK--RLRIGI  133 (189)
Q Consensus        82 ~~~~~ilVihD--dldL~~G~irlk~--------~Gg~gGHN-GlksI~~~lg--~~f~--RlRIGI  133 (189)
                      ...+.++||-.  +.+.|+|.++.-.        ..+-..|+ ++.++...+.  .+++  -.=+||
T Consensus        53 ~~~d~vIivDa~~~~~~~pG~v~~~~~~~l~~~~~~~~s~H~~~l~~~L~~~~~~~~~p~~v~iigi  119 (162)
T 1cfz_A           53 ANRDHLIIADAIVSKKNAPGTMMILRDEEVPALFTNKISPHQLGLADVLSALRFTGEFPKKLTLVGV  119 (162)
T ss_dssp             SSCSEEEEEEECCSSCSCTTCEEEEETTHHHHHHCCSSCHHHHHHHHHHHHHHHTTCCCSEEEEEEE
T ss_pred             CCCCEEEEEEEEECCCCCCEEEEEECHHHCCHHCCCCCCCCCCCHHHHHHHHHHCCCCCCEEEEEEE
T ss_conf             3898499999850379998589997246633001657586658999999999972899984999999


No 5  
>>2e85_A Hydrogenase 3 maturation protease; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.70A {Escherichia coli} PDB: 2i8l_A (A:)
Probab=51.06  E-value=15  Score=17.66  Aligned_cols=101  Identities=15%  Similarity=0.106  Sum_probs=56.9

Q ss_pred             EEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCCCC
Q ss_conf             89998587873660674104899999999982798544432127885147974899982334020033799999940575
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYKL   81 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~~i   81 (189)
                      .+|+|+|||-    ..=--+|.++++.|.+...-.                 ..++..  .    ..|.-+...+..++ 
T Consensus         6 ilIiGiGN~l----~gDDg~G~~v~~~L~~~~~~~-----------------v~~~~~--g----~~~~~l~~~l~~~~-   57 (159)
T 2e85_A            6 DVLLCVGNSM----MGDDGAGPLLAEKCAAAPKGN-----------------WVVIDG--G----SAPENDIVAIRELR-   57 (159)
T ss_dssp             EEEEEECCGG----GGGGGHHHHHHHHHHHSCCTT-----------------CEEEEC--T----TCSGGGHHHHHHHC-
T ss_pred             EEEEEECCCC----CCCCCHHHHHHHHHHHHCCCC-----------------EEEEEC--C----CCHHHHHHHHHHCC-
T ss_conf             8999989853----150728999999998558998-----------------799989--9----87799999998579-


Q ss_pred             CCCCCEEEEEEC--CCCCCCCEEEEC------CCCCCCCC-HHHHHHHCCCCCEEE-EEECC
Q ss_conf             663334898404--432338236611------15888731-033333106873136-67506
Q gi|254780225|r   82 PNLENYLVIHDD--LDLDFGTLRLKT------GGGDAGHN-GLKSISEKCGKNYKR-LRIGI  133 (189)
Q Consensus        82 ~~~~~ilVihDd--ldL~~G~irlk~------~Gg~gGHN-GlksI~~~lg~~f~R-lRIGI  133 (189)
                        + +.+|+-|=  .+.++|+++.-.      ..+...|+ ++.++.+.++..-++ +=+||
T Consensus        58 --~-d~vIivDav~~g~~pG~i~~~~~~~~~~~~~~s~H~~~l~~ll~~l~~~~~~v~iigi  116 (159)
T 2e85_A           58 --P-TRLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKEDIGEVIFLGI  116 (159)
T ss_dssp             --C-SEEEEEEECCCSSCTTCEEECCHHHHHHTTCBCTTCCBHHHHHHHHHHHHSEEEEEEE
T ss_pred             --C-CEEEEEEEECCCCCCCEEEEECHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEE
T ss_conf             --8-7899997310789997799971045002037887876699999998488983999999


No 6  
>>2inw_A Putative structural protein; Q83JN9 X-RAY NESG SFR137, structural genomics, PSI-2, protein structure initiative; 1.50A {Shigella flexneri} (A:)
Probab=47.70  E-value=21  Score=16.81  Aligned_cols=31  Identities=23%  Similarity=0.346  Sum_probs=27.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             3789888999999999999999999998099
Q gi|254780225|r  146 VLGNFSSPERYFLLPIIDNIARSLPLLAKRE  176 (189)
Q Consensus       146 VL~~f~~~E~~~i~~~i~~~~~~i~~~~~~~  176 (189)
                      +-+.|+++|...+++++..+++.+|..+..+
T Consensus        50 i~G~Fs~~~~~~LdqaFP~~ikqlE~ml~sG   80 (133)
T 2inw_A           50 IRGRFSDVDAYHLDQAFPLLXKQLELXLTGG   80 (133)
T ss_dssp             EESCCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CEEECCHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             2462699999999999999999999986337


No 7  
>>2jy9_A Putative tRNA hydrolase domain; GFT protein structure, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2} (A:)
Probab=43.55  E-value=9.6  Score=18.83  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=25.0

Q ss_pred             EEECCCCCCCCEEEEC--CCCCCCCCHHHHHHHCCCCC-EEEEEECCCC
Q ss_conf             8404432338236611--15888731033333106873-1366750689
Q gi|254780225|r   90 IHDDLDLDFGTLRLKT--GGGDAGHNGLKSISEKCGKN-YKRLRIGIGR  135 (189)
Q Consensus        90 ihDdldL~~G~irlk~--~Gg~gGHNGlksI~~~lg~~-f~RlRIGIG~  135 (189)
                      +-+++++|...+++++  ++|.||+|==|       ++ =.+|++=+..
T Consensus         4 ~~~~i~I~~~~l~~~f~RSsGpGGQ~VNK-------t~skV~l~~~~~~   45 (148)
T 2jy9_A            4 ISRTVSIADNELEITAIRAQGAGGQHVNK-------TSSAIHLRFDIRA   45 (148)
T ss_dssp             CSSSCCBCSTTCEEEEECCSCCCSSCSCS-------CSCEEEEEECSTT
T ss_pred             CCCCCCCCHHHEEEEEEECCCCCCCCCCH-------HCCEEEEEEECCC
T ss_conf             47878257699078988767998764012-------2201478973144


No 8  
>>2ea9_A JW2626, hypothetical protein YFJZ; structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.10A {Escherichia coli} (A:)
Probab=42.51  E-value=22  Score=16.63  Aligned_cols=31  Identities=16%  Similarity=0.196  Sum_probs=26.9

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             3789888999999999999999999998099
Q gi|254780225|r  146 VLGNFSSPERYFLLPIIDNIARSLPLLAKRE  176 (189)
Q Consensus       146 VL~~f~~~E~~~i~~~i~~~~~~i~~~~~~~  176 (189)
                      +-+.|+++|...+++++....+.+|..+..+
T Consensus        36 i~G~Fs~~~~~~Ld~aFP~~ikqlE~ml~sG   66 (105)
T 2ea9_A           36 ITGKFSDAECPKLDVVFPHFISQIESMLTTG   66 (105)
T ss_dssp             EESCCCTTHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CEEECCHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             3462699999899999999999999986458


No 9  
>>1c8b_A Spore protease; novel fold; 3.00A {Bacillus megaterium} (A:36-371)
Probab=39.61  E-value=15  Score=17.72  Aligned_cols=78  Identities=22%  Similarity=0.311  Sum_probs=43.7

Q ss_pred             EEEEECCCCCHHHHCCCCCHHHHHHHHHHH-HHCCCCCCCCCCEEEEEECCCC-EEEEEEEC----CCHHHHCCHHHHHH
Q ss_conf             899985878736606741048999999999-8279854443212788514797-48999823----34020033799999
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRHNIGFMCIDRIHS-FHFFPAWKKKFHAEISEGQLDG-LRTILIKP----QTFMNLSGQSLLEV   75 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRHNvG~~~ld~l~~-~~~~~~~~~k~~~~~~~~~~~~-~~v~l~kP----~tyMN~SG~sv~~~   75 (189)
                      .|+|||||.-    -|--..|-.+++.+.- ++-.......        ..++ ..|--+-|    +|-| +++.-|+.+
T Consensus        80 vLVVGLGN~~----vTPDALGP~vv~~l~VTRHL~~~~p~~--------~~~g~r~VsaiaPGVmg~TGi-ET~EIi~gi  146 (336)
T 1c8b_A           80 CLVVGLGNLS----VTPDALGPKAVDNLLITRHLFELQPES--------VQDGFRPVSAIVPGVMGMTGI-ETSDIIFGV  146 (336)
T ss_dssp             EEEEECSCSS----SGGGCHHHHHHTTCCCCHHHHHHSCCS--------SCSSCCCEEEECSGGGCCCSS-CHHHHHHHH
T ss_pred             EEEEECCCCC----CCCCCCCHHEECCEEEEHHHHHHCCHH--------HCCCCCEEEEECCCCCCCCCC-CHHHHHHHH
T ss_conf             7999688877----786563701112353243045547254--------507871256875875503442-499999999


Q ss_pred             HHCCCCCCCCCEEEEEECCCC
Q ss_conf             940575663334898404432
Q gi|254780225|r   76 MNFYKLPNLENYLVIHDDLDL   96 (189)
Q Consensus        76 ~~~~~i~~~~~ilVihDdldL   96 (189)
                      +...|   | +++|.-|-|.-
T Consensus       147 v~k~k---P-d~VIaIDALAa  163 (336)
T 1c8b_A          147 VKKVN---P-DFIIAIDALAA  163 (336)
T ss_dssp             HHHHC---C-SEEEEEEEECC
T ss_pred             HHHCC---C-CEEEEECHHHC
T ss_conf             87518---9-89999601014


No 10 
>>2b0c_A Putative phosphatase; alpha-D-glucose-1-phosphate, structural genomics, PSI, protein structure initiative; HET: G1P; 2.00A {Escherichia coli K12} (A:1-16,A:94-206)
Probab=29.67  E-value=15  Score=17.68  Aligned_cols=82  Identities=12%  Similarity=0.095  Sum_probs=40.9

Q ss_pred             CEEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCC--CCCC----CEEEEEE-CCCC-EEEEEEECCCHHH-HCCHH
Q ss_conf             98999858787366067410489999999998279854--4432----1278851-4797-4899982334020-03379
Q gi|254780225|r    1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAW--KKKF----HAEISEG-QLDG-LRTILIKPQTFMN-LSGQS   71 (189)
Q Consensus         1 m~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~--~~k~----~~~~~~~-~~~~-~~v~l~kP~tyMN-~SG~s   71 (189)
                      |+.|+-|||||-.          .+++.|.+. +.+..  ....    ...+-+. .+.. -..++....+.+. -....
T Consensus         8 ~~~~~~~~~Pgv~----------e~L~~L~~~-g~~i~i~Tn~~~~~~~~~~~~~~gl~~~fd~v~~~~~~~~~KP~~~~   76 (129)
T 2b0c_A            8 MLYIFDLGNPEVI----------AIMHKLREQ-GHRVVVLSNTNRLHTTFWPEEYPEIRDAADHIYLSQDLGMRKPEARI   76 (129)
T ss_dssp             CEEEECCBTHHHH----------HHHHHHHHT-TCEEEEEECCCCCTTSCCGGGCHHHHHHCSEEEEHHHHTCCTTCHHH
T ss_pred             EEEEECCCCCHHH----------HHHHHHHHC-CCCEEEECCCCHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCHHHHH
T ss_conf             2999919992067----------899999865-98267631620899999875222535454389872135542026789


Q ss_pred             HHHHHHCCCCCCCCCEEEEEECC
Q ss_conf             99999405756633348984044
Q gi|254780225|r   72 LLEVMNFYKLPNLENYLVIHDDL   94 (189)
Q Consensus        72 v~~~~~~~~i~~~~~ilVihDdl   94 (189)
                      ...+++.++++ +++.++|=|..
T Consensus        77 ~~~~~~~~g~~-p~~~i~IgD~~   98 (129)
T 2b0c_A           77 YQHVLQAEGFS-PSDTVFFDDNA   98 (129)
T ss_dssp             HHHHHHHHTCC-GGGEEEEESCH
T ss_pred             HHHHHHHCCCC-CCEEEEECCCH
T ss_conf             99999973989-21089990898


No 11 
>>2fkc_A R.HINP1I restriction endonuclease; protein dimerizaton, DNA superhelix, protein-DNA-metal ION complex, hydrolase/DNA complex; 2.39A {Haemophilus influenzae} PDB: 1ynm_A 2fkh_B 2fl3_A 2flc_A (A:)
Probab=28.38  E-value=23  Score=16.52  Aligned_cols=31  Identities=23%  Similarity=0.301  Sum_probs=16.1

Q ss_pred             CCCCCCCCHHHHHHHHH-HHHHHHHHHHHHHC
Q ss_conf             24378988899999999-99999999999980
Q gi|254780225|r  144 RHVLGNFSSPERYFLLP-IIDNIARSLPLLAK  174 (189)
Q Consensus       144 ~yVL~~f~~~E~~~i~~-~i~~~~~~i~~~~~  174 (189)
                      .-.+..||.+|++.+-. .-++-...+..++.
T Consensus       135 rmFi~Efs~keq~~iln~f~~Nkilvl~DI~r  166 (247)
T 2fkc_A          135 RMFMTEFSQEEQNIVLNWLEKNRVLVLTDILR  166 (247)
T ss_dssp             CCCGGGSCHHHHHHHHHHHHHTHHHHHHHHHT
T ss_pred             CEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             10003330777999999999727999999982


No 12 
>>1j26_A Immature colon carcinoma transcript 1; peptide chain release factors, RF-1, the GGQ motif, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} (A:)
Probab=23.36  E-value=45  Score=14.77  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=18.2

Q ss_pred             EEECCCCCCCCEEEE--CCCCCCCCCH
Q ss_conf             840443233823661--1158887310
Q gi|254780225|r   90 IHDDLDLDFGTLRLK--TGGGDAGHNG  114 (189)
Q Consensus        90 ihDdldL~~G~irlk--~~Gg~gGHNG  114 (189)
                      .-+|+.+|+-.++++  ..+|.||+|=
T Consensus        11 ~~~~~~Ip~~~l~~~~~RssGpGGQ~V   37 (112)
T 1j26_A           11 KQASSYIPLDRLSISYCRSSGPGGQNV   37 (112)
T ss_dssp             CSSCCCCCTTTSEEEEECCCCSSSSCC
T ss_pred             HHHCCCCCHHHEEEEEEECCCCCCCCC
T ss_conf             340470487893799887679999844


No 13 
>>2fph_X YLMH; division protein, bacteria, GRAM+, DNA binding protein; 1.70A {Streptococcus pneumoniae R6} (X:1-79)
Probab=21.55  E-value=58  Score=14.15  Aligned_cols=27  Identities=22%  Similarity=0.220  Sum_probs=19.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             378988899999999999999999999
Q gi|254780225|r  146 VLGNFSSPERYFLLPIIDNIARSLPLL  172 (189)
Q Consensus       146 VL~~f~~~E~~~i~~~i~~~~~~i~~~  172 (189)
                      +|+.|+++|+..+..+++.+..+....
T Consensus         2 i~~hf~~ee~~~~~ri~d~~~~a~~~~   28 (79)
T 2fph_X            2 IYQHFSIEDRPFLDKGMEWIKKVEDSY   28 (79)
T ss_dssp             CCCCCCGGGHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             310078757999999999999999659


No 14 
>>1w6s_A Methanol dehydrogenase subunit 1; anisotropic, electron transfer, oxidoreductase, calcium- binding, methanol utilization, PQQ; HET: PQQ; 1.2A {Methylobacterium extorquens} (A:220-303)
Probab=21.38  E-value=45  Score=14.81  Aligned_cols=18  Identities=33%  Similarity=0.333  Sum_probs=10.7

Q ss_pred             EEEEECCCCCHHHHCCCC
Q ss_conf             899985878736606741
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRH   19 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRH   19 (189)
                      ++.+|.|||.+-|...|.
T Consensus        35 lvy~~tGnp~p~~~~~r~   52 (84)
T 1w6s_A           35 LIYFGTGNPAPWNETMRP   52 (84)
T ss_dssp             EEEEECCCCSCSCGGGSC
T ss_pred             EEEECCCCCCCCCCCEEC
T ss_conf             456413345775310004


No 15 
>>3eeq_A Putative cobalamin biosynthesis protein G homolog; structural genomics, unknown function, PSI-2, protein structure initiative; 2.30A {Sulfolobus solfataricus} (A:1-126)
Probab=20.98  E-value=59  Score=14.08  Aligned_cols=57  Identities=18%  Similarity=0.071  Sum_probs=39.2

Q ss_pred             HHHHCCHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHH-HCCCC
Q ss_conf             02003379999994057566333489840443233823661115888731033333-10687
Q gi|254780225|r   64 FMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS-EKCGK  124 (189)
Q Consensus        64 yMN~SG~sv~~~~~~~~i~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~-~~lg~  124 (189)
                      |.--+|.+|+.++.+.+-+..+-=+|+-||    -|+.-+-.-|||+|-|-+---+ +.||.
T Consensus        60 fi~A~Gi~vR~iapll~~K~~DPaVivvDe----~g~~vIpLLsGHgGAN~la~~iA~~lga  117 (126)
T 3eeq_A           60 FVMALEGATRIVCKYAKSKTEDPAIVCIDD----KINYVIPLLGGHWGANDIARELSVILNS  117 (126)
T ss_dssp             EESCHHHHHHHHHHHCCCTTTCCEEEEECT----TCCEEEEEECTTTTHHHHHHHHHHHTTC
T ss_pred             EEECHHHHHHHHHHHHCCCCCCCCEEEECC----CCCEEEECCCCCHHHHHHHHHHHHHHCC
T ss_conf             994238999985566157677997899928----9999997047762099999999986198


No 16 
>>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} (B:215-294)
Probab=20.96  E-value=56  Score=14.24  Aligned_cols=19  Identities=26%  Similarity=0.594  Sum_probs=12.8

Q ss_pred             CCCCCCEEEE--CCCCCCCCC
Q ss_conf             3233823661--115888731
Q gi|254780225|r   95 DLDFGTLRLK--TGGGDAGHN  113 (189)
Q Consensus        95 dL~~G~irlk--~~Gg~gGHN  113 (189)
                      |++...+++.  .++|+||+|
T Consensus         2 ei~~~dl~~~~~rssGpGGQ~   22 (80)
T 2b3t_B            2 DVNPADLRIDTFRSSGAGGQH   22 (80)
T ss_dssp             CCCSSSEEEEECCSSCCCTTT
T ss_pred             CCCCCCCEEEEECCCCCCCCC
T ss_conf             407102479872288755542


No 17 
>>2b68_A Defensin; antibacterial peptide, cysteine-rich peptide, antimicrobial protein; NMR {Crassostrea gigas} (A:)
Probab=20.62  E-value=18  Score=17.18  Aligned_cols=15  Identities=40%  Similarity=0.733  Sum_probs=12.7

Q ss_pred             ECCCCCHHHHCCCCC
Q ss_conf             858787366067410
Q gi|254780225|r    6 GLGNPGHEYCENRHN   20 (189)
Q Consensus         6 GLGNPG~~y~~TRHN   20 (189)
                      |.|-||++|+-+||-
T Consensus         1 gfgcp~~q~~cn~hc   15 (43)
T 2b68_A            1 GFGCPGNQLKCNNHC   15 (43)
T ss_dssp             CCSCSSCSHHHHHHH
T ss_pred             CCCCCCCHHHHHHHC
T ss_conf             988872143554105


Done!