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 23785
Date          Mon May 23 23:55:58 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780225.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2pth_A Peptidyl-tRNA hydrolase 100.0       0       0  471.9  18.4  188    1-189     2-192 (193)
  2 2z2i_A PTH, peptidyl-tRNA hydr 100.0       0       0  468.8  17.5  185    2-187     5-191 (191)
  3 1ryb_A CRS2; alpha-beta, hydro 100.0       0       0  461.1  16.9  186    2-188    18-205 (205)
  4 1cfz_A Hydrogenase 2 maturatio  49.5      14 0.00058   17.0   4.0  134    2-172     3-152 (162)
  5 2inw_A Putative structural pro  48.5      14  0.0006   16.9   3.8   31  146-176    50-80  (133)
  6 2jva_A Peptidyl-tRNA hydrolase  47.3     7.8 0.00033   18.5   1.9   27   87-113     1-29  (108)
  7 2ea9_A JW2626, hypothetical pr  45.0      14 0.00057   17.0   2.9   31  146-176    36-66  (105)
  8 2bb3_A Cobalamin biosynthesis   41.9     7.7 0.00032   18.5   1.2   16    1-18     23-38  (221)
  9 1c8b_A Spore protease; novel f  41.8     9.1 0.00038   18.0   1.6   96    2-113   115-225 (371)
 10 1am7_A Lysozyme; glycosidase,   41.6      18 0.00077   16.2   4.3   40  147-186    83-122 (158)
 11 2jy9_A Putative tRNA hydrolase  35.8      11 0.00044   17.7   1.2   27   88-114     2-30  (148)
 12 3hzu_A Thiosulfate sulfurtrans  27.3      31  0.0013   14.8   3.0   52   45-97     67-123 (318)
 13 1uz5_A MOEA protein, 402AA lon  23.3      37  0.0016   14.4   2.2   78   60-138   200-288 (402)
 14 1uar_A Rhodanese; sulfurtransf  22.9      38  0.0016   14.3   2.7   49   46-95     36-89  (285)
 15 2e85_A Hydrogenase 3 maturatio  22.8      23 0.00097   15.6   1.0  131    2-173     6-146 (159)
 16 2fkc_A R.HINP1I restriction en  21.4      26  0.0011   15.3   1.0   61  115-175    99-167 (247)

No 1  
>2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli K12} SCOP: c.56.3.1
Probab=100.00  E-value=0  Score=471.93  Aligned_cols=188  Identities=36%  Similarity=0.592  Sum_probs=181.2

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 mkLivGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~l~kP~tyMN~SG~~v~~~~~~~   81 (193)
T 2pth_A            2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFF   81 (193)
T ss_dssp             CCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHHH
T ss_pred             EEEEEECCCCCHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEECCCEEEEEECCCEECCCCHHHHHHHHHH
T ss_conf             79999768995122718507899999999998499823355542588888888926999956865658526599999984


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 ~i~-~~~ilVihDDldlp~G~irlk~~Gs~gGHNGlkSI~~~LG~~~~f~RlRIGIGrp~~~~~v~~yVL~~fs~~E~~~  160 (193)
T 2pth_A           82 RIN-PDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKL  160 (193)
T ss_dssp             TCC-GGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHTTSCCCSEEEEEECCCCSSHHHHHHHHTSCCCHHHHHH
T ss_pred             CCC-HHHEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             999-7899999655657888712047997777898689999858975624388750899887863020379989999999


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~~~i~~g~~~amn~~Ns~k~  192 (193)
T 2pth_A          161 IDEAIDEAARCTEMWFTDGLTKATNRLHAFKA  192 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCC
T ss_conf             99999999999999997699999999847377


No 2  
>2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A {Mycobacterium tuberculosis H37RV} PDB: 2z2j_A 2z2k_A 2jrc_A 3kjz_A
Probab=100.00  E-value=0  Score=468.79  Aligned_cols=185  Identities=39%  Similarity=0.669  Sum_probs=178.3

Q ss_pred             EEEEECCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCC-CCCCEEEEEECCCCEEEEEEECCCHHHHCCHHHHHHHHCCC
Q ss_conf             89998587873660674104899999999982798544-43212788514797489998233402003379999994057
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWK-KKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYK   80 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRHNvG~~~ld~l~~~~~~~~~~-~k~~~~~~~~~~~~~~v~l~kP~tyMN~SG~sv~~~~~~~~   80 (189)
                      ||||||||||++|++||||||||++|.||+.+++++.. +++.+.++++.+.+.+|+|+||+||||+||.+|++++++|+
T Consensus         5 ~livGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~~   84 (191)
T 2z2i_A            5 LLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFYS   84 (191)
T ss_dssp             EEEEECCCCSHHHHTBGGGHHHHHHHHHHHHTTCCCEECTTTSSEEEEEEETTEEEEEEECSSCGGGTHHHHHHHHHHTT
T ss_pred             EEEEEECCCCHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCEEEEEECCCHHHHCCCHHHHHHHHHCC
T ss_conf             69998289951127093048999999999984889760134772788788899799994481887716753599988348


Q ss_pred             CCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHHHCCC-CCEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             5663334898404432338236611158887310333331068-731366750689877670242437898889999999
Q gi|254780225|r   81 LPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISEKCG-KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLL  159 (189)
Q Consensus        81 i~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~~~lg-~~f~RlRIGIG~P~~~~~v~~yVL~~f~~~E~~~i~  159 (189)
                      ++ +++++|||||+|||+|++|+|.+||+|||||||||+++|| ++|+|||||||||+.++++++|||++|+++|++.++
T Consensus        85 i~-~~~ilVihDDldlp~G~vrlk~~Gs~gGHNGlkSIi~~Lgt~~f~RlRIGIGrp~~~~~~~~yVL~~f~~~E~~~l~  163 (191)
T 2z2i_A           85 VA-PANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVP  163 (191)
T ss_dssp             CC-GGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHHTCSCSEEEEEECCCCCTTSCHHHHHTSBCCHHHHTTHH
T ss_pred             CC-HHHEEEEECCCCCCCCEEEEECCCCCCCCCCHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHCCCCCHHHHHHHH
T ss_conf             99-89979995136786763998459988898862448988299877617876489976576213416899989999999


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHCC
Q ss_conf             9999999999999809989999986335
Q gi|254780225|r  160 PIIDNIARSLPLLAKREDVSFLNHIVSV  187 (189)
Q Consensus       160 ~~i~~~~~~i~~~~~~~~~~~mn~~n~~  187 (189)
                      ++++.++++++.+++++++.|||++|++
T Consensus       164 ~~~~~~~~~~~~~~~~g~~~amn~~Ns~  191 (191)
T 2z2i_A          164 TICEQAADATELLIEQGMEPAQNRVHAW  191 (191)
T ss_dssp             HHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHCCC
T ss_conf             9999999999999977999999987299


No 3  
>1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP: c.56.3.1 PDB: 1rym_A 1ryn_A
Probab=100.00  E-value=0  Score=461.11  Aligned_cols=186  Identities=32%  Similarity=0.573  Sum_probs=180.2

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        18 ~LIvGLGNPG~~Y~~TRHNiG~~~ld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kp~tyMN~SG~~v~~~~~~~~i   97 (205)
T 1ryb_A           18 WLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLAAYYQV   97 (205)
T ss_dssp             EEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHHTTC
T ss_pred             EEEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHCCCEEEEEEECCCEEEECCCCCHHHCCCHHHHHHHHHCCC
T ss_conf             69998489970115080069999999999981989670000627899986596699915993654255168899988089


Q ss_pred             CCCCCEEEEEECCCCCCCCEEEECCCCCCCCCHHHHHHHCC-CC-CEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             66333489840443233823661115888731033333106-87-31366750689877670242437898889999999
Q gi|254780225|r   82 PNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISEKC-GK-NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLL  159 (189)
Q Consensus        82 ~~~~~ilVihDdldL~~G~irlk~~Gg~gGHNGlksI~~~l-g~-~f~RlRIGIG~P~~~~~v~~yVL~~f~~~E~~~i~  159 (189)
                      + +++++|||||+|||+|++|+|.+||+|||||||||+++| |+ +|+|||||||||+++.++++|||++|+++|++.|+
T Consensus        98 ~-~~~ilVihDDldl~~G~vrik~gGs~gGHNGlkSIi~~L~gt~~f~RlrIGIGrP~~~~~v~~yVLskF~~~E~~~l~  176 (205)
T 1ryb_A           98 P-LRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQID  176 (205)
T ss_dssp             C-GGGEEEEEEETTSCTTCEEEESSCCCTTCHHHHHHHHHTTTCCCSCEEEEECCCCSTTCCHHHHHTSBCCHHHHHHHH
T ss_pred             C-CHHEEEEECCCCCCCCCEEECCCCCCCCCCCHHHHHHHCCCCCCCCCCCEECCCCCCCCCHHHHCCCCCCHHHHHHHH
T ss_conf             8-204589950123447977541588888788777799870697653504721399987787500048998999999999


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHCCC
Q ss_conf             99999999999998099899999863358
Q gi|254780225|r  160 PIIDNIARSLPLLAKREDVSFLNHIVSVR  188 (189)
Q Consensus       160 ~~i~~~~~~i~~~~~~~~~~~mn~~n~~~  188 (189)
                      ++++.++++++.++.++++.|||++|+++
T Consensus       177 ~~i~~~~~~i~~ii~~g~~~amn~~N~~~  205 (205)
T 1ryb_A          177 TALEQGVDAVRTLVLKGFSGSTERFNLVQ  205 (205)
T ss_dssp             HHHHHHHHHHHHHHHHC-----CCCCCCC
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHCCC
T ss_conf             99999999999999869999999873889


No 4  
>1cfz_A Hydrogenase 2 maturation protease; metzincins, nickel; 2.20A {Escherichia coli} SCOP: c.56.1.1 PDB: 2kml_A
Probab=49.54  E-value=14  Score=16.99  Aligned_cols=134  Identities=20%  Similarity=0.302  Sum_probs=68.3

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 ilVlGiGN~l----~gDDgvG~~v~~~L~~~~~~~~---------------~--v~v~d~gt----~~~~ll~~l-----   52 (162)
T 1cfz_A            3 ILVLGVGNIL----LTDEAIGVRIVEALEQRYILPD---------------Y--VEILDGGT----AGMELLGDM-----   52 (162)
T ss_dssp             EEEEEESCTT----BGGGGHHHHHHHHHHHHEECCT---------------T--EEEEEEET----CCGGGHHHH-----
T ss_pred             EEEEEECCCC----CCCCCHHHHHHHHHHHHCCCCC---------------C--EEEEECCC----CHHHHHHHH-----
T ss_conf             9999989854----2617089999999986078999---------------8--59999998----889999997-----


Q ss_pred             CCCCCEEEEEECC---CCCCCCEEEEC--------CCCCCCCC-HHHHHHHC---CCCCEEEEEE-CCCCCCCCCCCCCC
Q ss_conf             6633348984044---32338236611--------15888731-03333310---6873136675-06898776702424
Q gi|254780225|r   82 PNLENYLVIHDDL---DLDFGTLRLKT--------GGGDAGHN-GLKSISEK---CGKNYKRLRI-GIGRPPDTAHIIRH  145 (189)
Q Consensus        82 ~~~~~ilVihDdl---dL~~G~irlk~--------~Gg~gGHN-GlksI~~~---lg~~f~RlRI-GIG~P~~~~~v~~y  145 (189)
                      ...+.+ ++-|..   ..|.|.++...        ..+...|. |+.++...   ++..-.++.+ ||- |.+-    +|
T Consensus        53 ~~~~~v-iiVDA~~~~~~~pg~v~~~~~~~~~~~~~~~~S~H~~~l~~~L~~~~~~g~~p~~v~lvgie-~~~~----~~  126 (162)
T 1cfz_A           53 ANRDHL-IIADAIVSKKNAPGTMMILRDEEVPALFTNKISPHQLGLADVLSALRFTGEFPKKLTLVGVI-PESL----EP  126 (162)
T ss_dssp             SSCSEE-EEEEECCSSCSCTTCEEEEETTHHHHHHCCSSCHHHHHHHHHHHHHHHTTCCCSEEEEEEEC-CSCC----CS
T ss_pred             CCCCEE-EEEEEEECCCCCCEEEEEECCHHCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEEE-EEEC----CC
T ss_conf             199869-99997633799985999964201331026675877599999999999808999839999999-7573----68


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       127 -g~~LS~~v~~av~~~~~~i~~~l~~~  152 (162)
T 1cfz_A          127 -HIGLTPTVEAMIEPALEQVLAALRES  152 (162)
T ss_dssp             -BSSCCHHHHTTHHHHHHHHHHHHHTT
T ss_pred             -CCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             -99979999999999999999999984


No 5  
>2inw_A Putative structural protein; Q83JN9 X-RAY NESG SFR137, structural genomics, PSI-2, protei structure initiative; 1.50A {Shigella flexneri} SCOP: d.110.8.1 PDB: 2h28_A
Probab=48.46  E-value=14  Score=16.88  Aligned_cols=31  Identities=23%  Similarity=0.369  Sum_probs=27.3

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~~~~~~Ld~aFP~~ikqLE~ml~sG   80 (133)
T 2inw_A           50 IRGRFSDVDAYHLDQAFPLLMKQLELMLTGG   80 (133)
T ss_dssp             EESCCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CEEECCHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             0574599999889989999999999986337


No 6  
>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural genomics, PSI-2, protein structure initiative; NMR {Pseudomonas syringae PV}
Probab=47.27  E-value=7.8  Score=18.47  Aligned_cols=27  Identities=30%  Similarity=0.527  Sum_probs=20.8

Q ss_pred             EEEEEECCCCCCCCEEEEC--CCCCCCCC
Q ss_conf             4898404432338236611--15888731
Q gi|254780225|r   87 YLVIHDDLDLDFGTLRLKT--GGGDAGHN  113 (189)
Q Consensus        87 ilVihDdldL~~G~irlk~--~Gg~gGHN  113 (189)
                      +|.|-+++.+|.-.+++++  ++|.||+|
T Consensus         1 ml~i~~~i~Ip~~el~~~f~RSSGPGGQ~   29 (108)
T 2jva_A            1 MLVISNNVHLPDAEIELTAIRAQGAGGQN   29 (108)
T ss_dssp             CEECSSSCEECGGGEEEEECCCTTCSSSS
T ss_pred             CCCCCCCCEECHHHEEEEEEECCCCCCCC
T ss_conf             93417875098799389999878998765


No 7  
>2ea9_A JW2626, hypothetical protein YFJZ; structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.10A {Escherichia coli} SCOP: d.110.8.1 PDB: 2jn7_A
Probab=45.01  E-value=14  Score=17.01  Aligned_cols=31  Identities=16%  Similarity=0.196  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        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             3451699999889989999999999986459


No 8  
>2bb3_A Cobalamin biosynthesis precorrin-6Y methylase (CBIE); beta, alpha-beta-alpha sandwich, structural genomics, PSI; HET: SAH; 2.27A {Archaeoglobus fulgidus dsm 4304} SCOP: c.90.1.1
Probab=41.89  E-value=7.7  Score=18.50  Aligned_cols=16  Identities=19%  Similarity=0.310  Sum_probs=12.7

Q ss_pred             CEEEEECCCCCHHHHCCC
Q ss_conf             989998587873660674
Q gi|254780225|r    1 MFIVAGLGNPGHEYCENR   18 (189)
Q Consensus         1 m~livGLGNPG~~y~~TR   18 (189)
                      |+-+||+| ||+.| -|.
T Consensus        23 ~lyiVG~G-pG~~~-LT~   38 (221)
T 2bb3_A           23 MIWIVGSG-TCRGQ-TTE   38 (221)
T ss_dssp             EEEEEECB-SSTTC-CCH
T ss_pred             EEEEEECC-CCCHH-HHH
T ss_conf             89999778-99778-999


No 9  
>1c8b_A Spore protease; novel fold, hydrolase; 3.00A {Bacillus megaterium} SCOP: c.56.1.2
Probab=41.76  E-value=9.1  Score=18.04  Aligned_cols=96  Identities=19%  Similarity=0.288  Sum_probs=50.9

Q ss_pred             EEEEECCCCCHHHHCCCCCHHHHHHHHHHH-HHCCCCCCCCCCEEEEEECCCCEEEEEEEC----CCHHHHCCHHHHHHH
Q ss_conf             899985878736606741048999999999-827985444321278851479748999823----340200337999999
Q gi|254780225|r    2 FIVAGLGNPGHEYCENRHNIGFMCIDRIHS-FHFFPAWKKKFHAEISEGQLDGLRTILIKP----QTFMNLSGQSLLEVM   76 (189)
Q Consensus         2 ~livGLGNPG~~y~~TRHNvG~~~ld~l~~-~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP----~tyMN~SG~sv~~~~   76 (189)
                      .|+|||||.    .-|--..|-.+++.+.- ++-.........    .   .-.+|--+-|    +|-| +++.-|+.++
T Consensus       115 vLVVGLGN~----~vTPDALGP~vv~~l~VTRHL~~~~pe~~~----~---g~r~VsaiaPGVmg~TGi-ET~EIIkgiv  182 (371)
T 1c8b_A          115 CLVVGLGNL----SVTPDALGPKAVDNLLITRHLFELQPESVQ----D---GFRPVSAIVPGVMGMTGI-ETSDIIFGVV  182 (371)
T ss_dssp             EEEEECSCS----SSGGGCHHHHHHTTCCCCHHHHHHSCCSSC----S---SCCCEEEECSGGGCCCSS-CHHHHHHHHH
T ss_pred             EEEEECCCC----CCCCCCCCHHEECCEEEEHHHHHHCCHHHC----C---CCCEEEEECCCCCCCCCC-CHHHHHHHHH
T ss_conf             799967887----778656471010346324304654745450----7---861357885775502311-4999999998


Q ss_pred             HCCCCCCCCCEEEEEECCCCCC-----CCEEEE-----CCCCCCCCC
Q ss_conf             4057566333489840443233-----823661-----115888731
Q gi|254780225|r   77 NFYKLPNLENYLVIHDDLDLDF-----GTLRLK-----TGGGDAGHN  113 (189)
Q Consensus        77 ~~~~i~~~~~ilVihDdldL~~-----G~irlk-----~~Gg~gGHN  113 (189)
                      ...|   | +++|+-|-|.-.-     -+|.+.     +|.|-|-|+
T Consensus       183 ~~~k---P-DlVIaIDALAaRs~~Rln~TIQIsDTGI~PGSGVGN~R  225 (371)
T 1c8b_A          183 KKVN---P-DFIIAIDALAARSIERVNATIQISDSGIHPGSGVGNKR  225 (371)
T ss_dssp             HHHC---C-SEEEEEEEECCSSGGGSSSEEEEETTCBCSCSSSSCCC
T ss_pred             HHHC---C-CEEEEECHHHCCCHHHCCCEEEECCCCCCCCCCCCCCC
T ss_conf             7528---9-99999422125860114674787687868887867654


No 10 
>1am7_A Lysozyme; glycosidase, transglycosylase, evolution; HET: TRN; 2.30A {Enterobacteria phage lambda} SCOP: d.2.1.4 PDB: 1d9u_A* 3d3d_A*
Probab=41.60  E-value=18  Score=16.24  Aligned_cols=40  Identities=13%  Similarity=0.142  Sum_probs=30.7

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHC
Q ss_conf             7898889999999999999999999980998999998633
Q gi|254780225|r  147 LGNFSSPERYFLLPIIDNIARSLPLLAKREDVSFLNHIVS  186 (189)
Q Consensus       147 L~~f~~~E~~~i~~~i~~~~~~i~~~~~~~~~~~mn~~n~  186 (189)
                      |.+|+|+.++.+-..+-.-..++..+..+.+..+|+++..
T Consensus        83 l~~F~P~~QD~~a~~Ll~~r~a~~~~~~G~~~~a~~~la~  122 (158)
T 1am7_A           83 LKDFSPKSQDAVALQQIKERGALPMIDRGDIRQAIDRCSN  122 (158)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTTCHHHHHHTCHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHH
T ss_conf             9999858899999999997264587877689999998603


No 11 
>2jy9_A Putative tRNA hydrolase domain; GFT protein structure, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}
Probab=35.77  E-value=11  Score=17.66  Aligned_cols=27  Identities=15%  Similarity=0.334  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCCCEEEEC--CCCCCCCCH
Q ss_conf             898404432338236611--158887310
Q gi|254780225|r   88 LVIHDDLDLDFGTLRLKT--GGGDAGHNG  114 (189)
Q Consensus        88 lVihDdldL~~G~irlk~--~Gg~gGHNG  114 (189)
                      |.|-+.+.+|.-.+++++  ++|.||+|=
T Consensus         2 ~~i~~~i~Ip~~ei~~~f~RSsGPGGQnV   30 (148)
T 2jy9_A            2 IAISRTVSIADNELEITAIRAQGAGGQHV   30 (148)
T ss_dssp             BCCSSSCCBCSTTCEEEEECCSCCCSSCS
T ss_pred             CCCCCCCCCCHHHEEEEEEECCCCCCCCH
T ss_conf             33578771787990788887689987631


No 12 
>3hzu_A Thiosulfate sulfurtransferase SSEA; niaid, ssgcid, infectious disease, structural genomics; 2.10A {Mycobacterium tuberculosis}
Probab=27.31  E-value=31  Score=14.82  Aligned_cols=52  Identities=21%  Similarity=0.259  Sum_probs=35.7

Q ss_pred             EEEEECCCCEEEE-----EEECCCHHHHCCHHHHHHHHCCCCCCCCCEEEEEECCCCC
Q ss_conf             7885147974899-----9823340200337999999405756633348984044323
Q gi|254780225|r   45 EISEGQLDGLRTI-----LIKPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLD   97 (189)
Q Consensus        45 ~~~~~~~~~~~v~-----l~kP~tyMN~SG~sv~~~~~~~~i~~~~~ilVihDdldL~   97 (189)
                      .|.++.|.+.-.+     +-.|...|=.+...+.++++..+|. .++-+|||||-+..
T Consensus        67 ~Y~~gHIPGAi~id~~~~~~~~~~~~l~~~e~~~~~l~~lGI~-~~~~VVvY~~~~~~  123 (318)
T 3hzu_A           67 LYDVGHIPGAVKIDWHTDLNDPRVRDYINGEQFAELMDRKGIA-RDDTVVIYGDKSNW  123 (318)
T ss_dssp             SGGGCBCTTEEECCHHHHHBCSSSSSBCCHHHHHHHHHHTTCC-TTCEEEEECSGGGH
T ss_pred             HHHHCCCCCCEEECHHHHCCCCCCCCCCCHHHHHHHHHHCCCC-CCCEEEEEECCCCC
T ss_conf             9972859998581845544599887899999999998862887-89669999077774


No 13 
>1uz5_A MOEA protein, 402AA long hypothetical molybdopterin biosynthesis MOEA protein; MOEA molybdopterin, MOCF biosynthesis; 2.05A {Pyrococcus horikoshii} SCOP: b.85.6.1 b.103.1.1 c.57.1.2
Probab=23.28  E-value=37  Score=14.36  Aligned_cols=78  Identities=22%  Similarity=0.288  Sum_probs=55.7

Q ss_pred             ECCCHHHHCCHHHHHHHHCCCCCCCCCEEEEEECCCCCCC---------CEEEECCCCCCC-CCHHHHHHHCCCC-CEEE
Q ss_conf             2334020033799999940575663334898404432338---------236611158887-3103333310687-3136
Q gi|254780225|r   60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFG---------TLRLKTGGGDAG-HNGLKSISEKCGK-NYKR  128 (189)
Q Consensus        60 kP~tyMN~SG~sv~~~~~~~~i~~~~~ilVihDdldL~~G---------~irlk~~Gg~gG-HNGlksI~~~lg~-~f~R  128 (189)
                      +|---.|-.+..+.++++.+.+ ....+-++-||.+.-.-         .+=+-.||.+.| +-=++++.+.+|. .|+|
T Consensus       200 ~~g~i~dsN~~~l~a~l~~~G~-~~~~~~~~~D~~~~i~~~i~~~~~~~DivIttGG~S~G~~D~v~~~l~~~G~~~f~~  278 (402)
T 1uz5_A          200 KPGQIYDINGRALCDAINELGG-EGIFMGVARDDKESLKALIEKAVNVGDVVVISGGASGGTKDLTASVIEELGEVKVHG  278 (402)
T ss_dssp             CTTCEECCHHHHHHHHHHHHTS-EEEEEEEECSSHHHHHHHHHHHHHHCSEEEEECCC-----CHHHHHHHHHSEEEEEC
T ss_pred             CCCCEEECCHHHHHHHHHHCCC-EEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHCCCEEEEE
T ss_conf             9996844559999999986697-277626668568999998763222354478754755885234999999759779976


Q ss_pred             EEECCCCCCC
Q ss_conf             6750689877
Q gi|254780225|r  129 LRIGIGRPPD  138 (189)
Q Consensus       129 lRIGIG~P~~  138 (189)
                      +++-=|+|..
T Consensus       279 v~~kPGkP~~  288 (402)
T 1uz5_A          279 IAIQPGKPTI  288 (402)
T ss_dssp             BSEESCTTCE
T ss_pred             EEEECCCCEE
T ss_conf             7687067558


No 14 
>1uar_A Rhodanese; sulfurtransferase, riken structural genomics/proteomics initiative, RSGI, structural genomics; 1.70A {Thermus thermophilus} SCOP: c.46.1.2 c.46.1.2
Probab=22.86  E-value=38  Score=14.31  Aligned_cols=49  Identities=16%  Similarity=0.281  Sum_probs=34.2

Q ss_pred             EEEECCCCEEEE-----EEECCCHHHHCCHHHHHHHHCCCCCCCCCEEEEEECCC
Q ss_conf             885147974899-----98233402003379999994057566333489840443
Q gi|254780225|r   46 ISEGQLDGLRTI-----LIKPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLD   95 (189)
Q Consensus        46 ~~~~~~~~~~v~-----l~kP~tyMN~SG~sv~~~~~~~~i~~~~~ilVihDdld   95 (189)
                      |..+.|.+.-.+     +..|.+.|--+...+.++++..+|. .++.+|+||+-+
T Consensus        36 Y~~gHIPGAi~~~~~~~~~~~~~~~lp~~~~~~~~l~~~Gi~-~~~~VVvY~~~~   89 (285)
T 1uar_A           36 YDTGHIPGAQKIDWQRDFWDPVVRDFISEEEFAKLMERLGIS-NDTTVVLYGDKN   89 (285)
T ss_dssp             HHHCBCTTCEEECHHHHHBCSSSSSBCCHHHHHHHHHHTTCC-TTCEEEEECHHH
T ss_pred             HHHCCCCCCCCCCHHHHCCCCCCCCCCCHHHHHHHHHHCCCC-CCCEEEEEECCC
T ss_conf             973859998087902432589865676799999999870807-997589992456


No 15 
>2e85_A Hydrogenase 3 maturation protease; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.70A {Escherichia coli} PDB: 2i8l_A
Probab=22.79  E-value=23  Score=15.62  Aligned_cols=131  Identities=16%  Similarity=0.201  Sum_probs=65.7

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 ~LVlGiGN~lr----gDDgvG~~v~e~L~~~~-----~~------------~v~--~id~g----~~~~~l~~~l~~~~-   57 (159)
T 2e85_A            6 DVLLCVGNSMM----GDDGAGPLLAEKCAAAP-----KG------------NWV--VIDGG----SAPENDIVAIRELR-   57 (159)
T ss_dssp             EEEEEECCGGG----GGGGHHHHHHHHHHHSC-----CT------------TCE--EEECT----TCSGGGHHHHHHHC-
T ss_pred             EEEEEECCCCC----CCCCHHHHHHHHHHHHC-----CC------------CEE--EEECC----CCHHHHHHHHHHCC-
T ss_conf             89999898630----62719999999998658-----99------------889--99899----78899999998479-


Q ss_pred             CCCCCEEEEEE--CCCCCCCCEEEEC------CCCCCCCC-HHHHHHHCCCCCEEEE-EECCCCCCCCCCCCCCCCCCCC
Q ss_conf             66333489840--4432338236611------15888731-0333331068731366-7506898776702424378988
Q gi|254780225|r   82 PNLENYLVIHD--DLDLDFGTLRLKT------GGGDAGHN-GLKSISEKCGKNYKRL-RIGIGRPPDTAHIIRHVLGNFS  151 (189)
Q Consensus        82 ~~~~~ilVihD--dldL~~G~irlk~------~Gg~gGHN-GlksI~~~lg~~f~Rl-RIGIG~P~~~~~v~~yVL~~f~  151 (189)
                        + +.+|+-|  +...++|+++.-.      ..+...|+ ++.++.+.++...+++ =+||- | ..-   +| =...|
T Consensus        58 --~-d~vI~VDA~~~g~~pG~i~~~~~~~~~~~~~~s~H~~~l~~ll~~l~~~~p~~~llgI~-~-~~~---~~-g~~LS  128 (159)
T 2e85_A           58 --P-TRLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKEDIGEVIFLGIQ-P-DIV---GF-YYPMT  128 (159)
T ss_dssp             --C-SEEEEEEECCCSSCTTCEEECCHHHHHHTTCBCTTCCBHHHHHHHHHHHHSEEEEEEEC-C-SCC---CT-TCCCC
T ss_pred             --C-CEEEEEEEECCCCCCCEEEEECHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEE-E-EEE---CC-CCCCC
T ss_conf             --8-88999975207899857999771451354684788242999999971899968999989-8-670---68-99979


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8999999999999999999998
Q gi|254780225|r  152 SPERYFLLPIIDNIARSLPLLA  173 (189)
Q Consensus       152 ~~E~~~i~~~i~~~~~~i~~~~  173 (189)
                      ++=+    ..++.+++.+..|+
T Consensus       129 ~~v~----~av~~~~~~l~~~~  146 (159)
T 2e85_A          129 QPIK----DAVETVYQRLEGWE  146 (159)
T ss_dssp             HHHH----HHHHHHHTTSTTCC
T ss_pred             HHHH----HHHHHHHHHHHHHH
T ss_conf             9999----99999999999997


No 16 
>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
Probab=21.42  E-value=26  Score=15.33  Aligned_cols=61  Identities=23%  Similarity=0.225  Sum_probs=31.0

Q ss_pred             HHHHHHCCC--CC-EEEEEECCCCC-CCC---CCCCCCCCCCCCHHHHHHHHHHH-HHHHHHHHHHHCC
Q ss_conf             333331068--73-13667506898-776---70242437898889999999999-9999999999809
Q gi|254780225|r  115 LKSISEKCG--KN-YKRLRIGIGRP-PDT---AHIIRHVLGNFSSPERYFLLPII-DNIARSLPLLAKR  175 (189)
Q Consensus       115 lksI~~~lg--~~-f~RlRIGIG~P-~~~---~~v~~yVL~~f~~~E~~~i~~~i-~~~~~~i~~~~~~  175 (189)
                      |++-.+.+.  .+ |-=|+=.+|.- |.+   .+-...-++.||.+|++.+-..+ ..-...++.++.+
T Consensus        99 l~~y~e~~~~p~~i~~lLk~~~ge~~~~~~~~k~~rrmfi~efS~~eQd~iln~~n~nk~~Iledil~G  167 (247)
T 2fkc_A           99 LAHYQEMWKFDDNLLRILRHFTGELPPYHSNTKDKRRMFMTEFSQEEQNIVLNWLEKNRVLVLTDILRG  167 (247)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHTSSCCSSSCSSCSSCCCGGGSCHHHHHHHHHHHHHTHHHHHHHHHTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999998855987899999998444686677865442210000048779999999988099999999825


Done!