Query         gi|254780171|ref|YP_003064584.1| ABC transporter membrane spanning protein (amino acid) [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 398
No_of_seqs    235 out of 3177
Neff          6.6 
Searched_HMMs 13730
Date          Mon May 23 01:59:56 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780171.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d3dhwa1 f.58.1.1 (A:6-208) D-m  99.9 3.8E-24 2.7E-28  163.1  15.7  190   87-381     2-198 (203)
  2 d2onkc1 f.58.1.1 (C:1-252) Mol  99.7 4.6E-16 3.3E-20  113.8  18.3  165   89-349    47-211 (252)
  3 d3d31c1 f.58.1.1 (C:13-260) Su  99.7 1.1E-14 7.8E-19  105.5  19.5  169   88-350    44-212 (248)
  4 d2r6gf2 f.58.1.1 (F:261-504) M  99.5 7.8E-13 5.6E-17   94.2  17.9  180   81-345     9-188 (244)
  5 d2r6gg1 f.58.1.1 (G:7-296) Mal  99.4 3.5E-11 2.6E-15   84.0  16.9   78  269-346   155-232 (290)
  6 d1etxa_ a.4.1.12 (A:) FIS prot  78.8     1.3 9.7E-05   19.6   4.3   37  278-314    47-83  (89)
  7 d1umqa_ a.4.1.12 (A:) Photosyn  75.6     1.8 0.00013   18.8   4.2   35  280-314    20-54  (60)
  8 d1ntca_ a.4.1.12 (A:) DNA-bind  73.3     1.7 0.00013   18.9   3.7   37  278-314    49-85  (91)
  9 d1g2ha_ a.4.1.12 (A:) Transcri  58.9     4.1  0.0003   16.6   4.3   36  278-314    19-54  (61)
 10 d1i3ja_ d.285.1.1 (A:) DNA-bin  50.7     5.3 0.00038   15.9   2.7   22  294-315    65-86  (96)
 11 d2jn6a1 a.4.1.19 (A:1-89) Unch  20.1      19  0.0013   12.6   3.3   39  276-314     6-44  (89)

No 1  
>d3dhwa1 f.58.1.1 (A:6-208) D-methionine transport system permease protein MetI {Escherichia coli [TaxId: 562]}
Probab=99.92  E-value=3.8e-24  Score=163.11  Aligned_cols=190  Identities=25%  Similarity=0.357  Sum_probs=155.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             9999999999999999999999999999999-------626424678779999999950146999999999987301210
Q gi|254780171|r   87 TAILVGFVNTFWLAFSGMIPATIIGTLVGAG-------RLSANKLVAWICRVYVEVFRNIPPLVVIFFLYKSVLSVLPIP  159 (398)
Q Consensus        87 ~a~~vGl~NTl~va~~givlatiLG~~iGi~-------RlS~N~ll~~la~~YVE~~RN~PLLlql~fwy~~v~~~lP~~  159 (398)
                      +.++.|+.||+.+++.+.++|+++|+.+|+.       +...++.+.+....+++++|.+|..+++++.+.... ..   
T Consensus         2 ~lll~~~~~tl~is~~~~~i~~ilg~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~v~~~~~~~~~~-~~---   77 (203)
T d3dhwa1           2 WLLVRGVWETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTVSAIVNIFRSIPFIILLVWMIPFTR-VI---   77 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTGGGGGGGGGGTTCSSSCCSSHHHHHHHHHHHHHHSCHHHHHHHHHHHHH-HT---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH---
T ss_conf             88999999999999999999999999999999998744432008999999999999999999999999998635-54---


Q ss_pred             HHHHHCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHH
Q ss_conf             34441037203520100035453556700468877889999999999999986431122332045542101035589997
Q gi|254780171|r  160 DHSIVLPFGMFLNNRGLSFPTLTMDTNAKIFVFSFVLGIVLSLFATRLSRHFHEKTGKALPLLYISTFLIFGLPTLVLIA  239 (398)
Q Consensus       160 ~~~~~~~~~~flsnRGL~iP~p~~~~g~~~~l~~lilaiila~~l~~~a~~~~~~tg~~~~~~~~~~~~~~~~p~l~~~~  239 (398)
                                                                                                      
T Consensus        78 --------------------------------------------------------------------------------   77 (203)
T d3dhwa1          78 --------------------------------------------------------------------------------   77 (203)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             65444332210013111268214878999999999997787999999999834636789998968998998889876899
Q gi|254780171|r  240 LKYQLHFDKPVLGQFNFIGGSTVSPEFMSLYIALSCYTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLVLLPQA  319 (398)
Q Consensus       240 ~~~~~~~~~p~l~~f~~~gG~~l~p~f~a~~iaL~l~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~VIlPQA  319 (398)
                                        .|..  ..+.+.++++++++.+|+++++|+|++++|++|.|||+++|.|++|++|+|++||+
T Consensus        78 ------------------~~~~--~~~~~~i~~~~~~~~p~~~~~~~~~l~~i~~~~~Eaa~~lGas~~q~~~~vilP~~  137 (203)
T d3dhwa1          78 ------------------VGTS--IGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEASRAMGATPMQIVRKVLLPEA  137 (203)
T ss_dssp             ------------------TCCS--SSHHHHHHHHHHHHHHHHHHHHHHHHHHSCTTTTTHHHHHTCCTHHHHHHTTHHHH
T ss_pred             ------------------HCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             ------------------0454--11999999999986489999999888843620689998869944424188409976


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             99974104789999997549999999999999999998313775899999999999999999
Q gi|254780171|r  320 MRSIIPPLTSQYLNLLKNSSLAVAVGFADLVSVGGTIINQTGQAIEIILIWMFIYLSLSIMI  381 (398)
Q Consensus       320 lR~~iP~l~nq~i~l~K~SSLa~~Ig~~dl~~~~~~~~~~t~~~~e~~~i~~~~Yl~isl~i  381 (398)
                      .+.+++...+++...+|+++++..+|.+|+.....+..++.++..+....+.. .+++...+
T Consensus       138 ~p~i~~~~~~~~~~~i~~~~~~~~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~i~v~li  198 (203)
T d3dhwa1         138 LPGLVNAATITLITLVGYSAMGGAVGAGGLGQIGYQYGYIGYNATVMNTVLVL-LVILVYLI  198 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCSTTCCHHHHHHHHHHHSSCCTTHHHHHHHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH-HHHHHHHH
T ss_conf             99999999999999999999999997759999999999874028999999999-99999999


No 2  
>d2onkc1 f.58.1.1 (C:1-252) Molybdate/tungstate transport system permease protein WtpB (ModB) {Archaeoglobus fulgidus [TaxId: 2234]}
Probab=99.73  E-value=4.6e-16  Score=113.84  Aligned_cols=165  Identities=15%  Similarity=0.101  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCC
Q ss_conf             99999999999999999999999999999626424678779999999950146999999999987301210344410372
Q gi|254780171|r   89 ILVGFVNTFWLAFSGMIPATIIGTLVGAGRLSANKLVAWICRVYVEVFRNIPPLVVIFFLYKSVLSVLPIPDHSIVLPFG  168 (398)
Q Consensus        89 ~~vGl~NTl~va~~givlatiLG~~iGi~RlS~N~ll~~la~~YVE~~RN~PLLlql~fwy~~v~~~lP~~~~~~~~~~~  168 (398)
                      +...+.||+.+++.+.++++++|+.+|..--..++..++.......+-.-+|..+-.+.|.... ...+           
T Consensus        47 ~~~~~~nSl~~~~~~~~i~~i~g~~la~~l~~~~~~~~~~~~~~~~~p~~ip~~v~~~~~~~~~-~~~~-----------  114 (252)
T d2onkc1          47 VWKVVLTTYYAALISTLIAVIFGTPLAYILARKSFPGKSVVEGIVDLPVVIPHTVAGIALLVVF-GSSG-----------  114 (252)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCSSHHHHHHHHHHHHHSCHHHHHHHHHHHH-STTS-----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHC-CCCC-----------
T ss_conf             9999999999999999999999999999998731321689999987521687177777776412-3321-----------


Q ss_pred             EEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHHHHHHHHH
Q ss_conf             03520100035453556700468877889999999999999986431122332045542101035589997654443322
Q gi|254780171|r  169 MFLNNRGLSFPTLTMDTNAKIFVFSFVLGIVLSLFATRLSRHFHEKTGKALPLLYISTFLIFGLPTLVLIALKYQLHFDK  248 (398)
Q Consensus       169 ~flsnRGL~iP~p~~~~g~~~~l~~lilaiila~~l~~~a~~~~~~tg~~~~~~~~~~~~~~~~p~l~~~~~~~~~~~~~  248 (398)
                             ....+.                                                                   
T Consensus       115 -------~~~~~~-------------------------------------------------------------------  120 (252)
T d2onkc1         115 -------LIGSFS-------------------------------------------------------------------  120 (252)
T ss_dssp             -------TTTTTC-------------------------------------------------------------------
T ss_pred             -------CCCCCC-------------------------------------------------------------------
T ss_conf             -------000124-------------------------------------------------------------------


Q ss_pred             HHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             10013111268214878999999999997787999999999834636789998968998998889876899999741047
Q gi|254780171|r  249 PVLGQFNFIGGSTVSPEFMSLYIALSCYTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLVLLPQAMRSIIPPLT  328 (398)
Q Consensus       249 p~l~~f~~~gG~~l~p~f~a~~iaL~l~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~VIlPQAlR~~iP~l~  328 (398)
                                +......+...+++.+.+.-.|...+.++|++++||++.|||+++|.|++|++|+|++|++.+.+++...
T Consensus       121 ----------~~~~~~~~~~iii~~~~~~~p~~~~~~~~~~~~i~~~~~eaA~~lGas~~~~~~~i~lP~~~p~i~~~~~  190 (252)
T d2onkc1         121 ----------PLKFVDALPGIVVAMLFVSVPIYINQAKEGFASVDVRLEHVARTLGSSPLRVFFTVSLPLSVRHIVAGAI  190 (252)
T ss_dssp             ----------SSCCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCCHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             ----------CCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEHHHHHHHHHHHHH
T ss_conf             ----------5442001332110100112110368999999750388887887669983325469870876889999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899999975499999999999
Q gi|254780171|r  329 SQYLNLLKNSSLAVAVGFADL  349 (398)
Q Consensus       329 nq~i~l~K~SSLa~~Ig~~dl  349 (398)
                      -+++..+||-+....+|..+-
T Consensus       191 l~~~~~~~~~~~~~~~~~~~~  211 (252)
T d2onkc1         191 MSWARGISEFGAVVVIAYYPM  211 (252)
T ss_dssp             HHHHHHHHCCHHHHTTCCSSC
T ss_pred             HHHHHHHHHHHHHHHHCCCCC
T ss_conf             999889999888751148985


No 3  
>d3d31c1 f.58.1.1 (C:13-260) Sulfate/molybdate ABC transporter, permease protein {Methanosarcina acetivorans [TaxId: 2214]}
Probab=99.67  E-value=1.1e-14  Score=105.47  Aligned_cols=169  Identities=16%  Similarity=0.149  Sum_probs=128.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCC
Q ss_conf             99999999999999999999999999999962642467877999999995014699999999998730121034441037
Q gi|254780171|r   88 AILVGFVNTFWLAFSGMIPATIIGTLVGAGRLSANKLVAWICRVYVEVFRNIPPLVVIFFLYKSVLSVLPIPDHSIVLPF  167 (398)
Q Consensus        88 a~~vGl~NTl~va~~givlatiLG~~iGi~RlS~N~ll~~la~~YVE~~RN~PLLlql~fwy~~v~~~lP~~~~~~~~~~  167 (398)
                      .+...+.||+.+++.+.+++.++|..++..--..++-.|+.......+-.-+|..+--+.|+...-...           
T Consensus        44 ~~~~~l~~Sl~~a~~s~~i~~~lg~~~a~~~~~~~~~~~~~~~~l~~~p~~ip~vv~~~~~~~~~~~~~-----------  112 (248)
T d3d31c1          44 SVISSIFLSLYAGFLATLLALLLGAPTGYILARFDFPGKRLVESIIDVPVVVPHTVAGIALLTVFGSRG-----------  112 (248)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHGGGTSCHHHHHHHHHHHHSTTS-----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCCC-----------
T ss_conf             999999999999999999999999999999986465125689999999999997200024452034321-----------


Q ss_pred             CEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHHHHHHHH
Q ss_conf             20352010003545355670046887788999999999999998643112233204554210103558999765444332
Q gi|254780171|r  168 GMFLNNRGLSFPTLTMDTNAKIFVFSFVLGIVLSLFATRLSRHFHEKTGKALPLLYISTFLIFGLPTLVLIALKYQLHFD  247 (398)
Q Consensus       168 ~~flsnRGL~iP~p~~~~g~~~~l~~lilaiila~~l~~~a~~~~~~tg~~~~~~~~~~~~~~~~p~l~~~~~~~~~~~~  247 (398)
                              ....+                                                                   
T Consensus       113 --------~~~~~-------------------------------------------------------------------  117 (248)
T d3d31c1         113 --------LIGEP-------------------------------------------------------------------  117 (248)
T ss_dssp             --------TTTGG-------------------------------------------------------------------
T ss_pred             --------CCCCC-------------------------------------------------------------------
T ss_conf             --------11112-------------------------------------------------------------------


Q ss_pred             HHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             21001311126821487899999999999778799999999983463678999896899899888987689999974104
Q gi|254780171|r  248 KPVLGQFNFIGGSTVSPEFMSLYIALSCYTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLVLLPQAMRSIIPPL  327 (398)
Q Consensus       248 ~p~l~~f~~~gG~~l~p~f~a~~iaL~l~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~VIlPQAlR~~iP~l  327 (398)
                              ........+.+.+.+++.+.....|....++++++++|+.+.|||+++|.|++|++|+|++||+.+.++...
T Consensus       118 --------~~~~~~~~~~~~~iii~~~~~~~p~~~~~~~~~l~~i~~~~~eAA~~lGas~~~~~~~I~lP~~~p~i~~~~  189 (248)
T d3d31c1         118 --------LESYIQFRDALPGIVVAMLFVSMPYLANSAREGFKSVDPRLENAARSLGAPLWKAFFFVTLPLSARYLLIGS  189 (248)
T ss_dssp             --------GTTTCCCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCCHHHHHHHTHHHHHHHHHHHHH
T ss_pred             --------CCCCCCCCCCCCEEEHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             --------222112456420010011011003688888999971033689998763104234778988999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78999999754999999999999
Q gi|254780171|r  328 TSQYLNLLKNSSLAVAVGFADLV  350 (398)
Q Consensus       328 ~nq~i~l~K~SSLa~~Ig~~dl~  350 (398)
                      .-.+...+++......+|..+.+
T Consensus       190 ~l~f~~~~~~~~~~~~l~~~~~~  212 (248)
T d3d31c1         190 VMTWARAISEFGAVVILAYYPMV  212 (248)
T ss_dssp             HHHHHHHHTCCHHHHHHHCTTCC
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCH
T ss_conf             99999999999988733189840


No 4  
>d2r6gf2 f.58.1.1 (F:261-504) Maltose transport system permease protein MalF {Escherichia coli [TaxId: 562]}
Probab=99.54  E-value=7.8e-13  Score=94.15  Aligned_cols=180  Identities=14%  Similarity=0.133  Sum_probs=134.7

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
Q ss_conf             86526999999999999999999999999999999996264246787799999999501469999999999873012103
Q gi|254780171|r   81 SDSSYATAILVGFVNTFWLAFSGMIPATIIGTLVGAGRLSANKLVAWICRVYVEVFRNIPPLVVIFFLYKSVLSVLPIPD  160 (398)
Q Consensus        81 ~~~sy~~a~~vGl~NTl~va~~givlatiLG~~iGi~RlS~N~ll~~la~~YVE~~RN~PLLlql~fwy~~v~~~lP~~~  160 (398)
                      .++.+++++..-+.||+..++++.++++.+|+.++..-..++.-.|++-+.-+-+-.-+|..+--+.|++..........
T Consensus         9 ~d~~~~~~~~~~l~~t~~~~~~~~~~~~~~~~~lA~~l~~~~~~~~~~~~~~~~~p~~ip~~v~~~~~~~~~~~~~g~~~   88 (244)
T d2r6gf2           9 TDEGIQKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKAVYRVLLILPYAVPSFISILIFKGLFNQSFGEIN   88 (244)
T ss_dssp             TCTTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSSTTHHHHHHHTTHHHHSCHHHHHHHHHHHTCSSSSHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             29527999999999999999999999999999999999847420478999999999984088999999998752355146


Q ss_pred             HHHHCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHH
Q ss_conf             44410372035201000354535567004688778899999999999999864311223320455421010355899976
Q gi|254780171|r  161 HSIVLPFGMFLNNRGLSFPTLTMDTNAKIFVFSFVLGIVLSLFATRLSRHFHEKTGKALPLLYISTFLIFGLPTLVLIAL  240 (398)
Q Consensus       161 ~~~~~~~~~flsnRGL~iP~p~~~~g~~~~l~~lilaiila~~l~~~a~~~~~~tg~~~~~~~~~~~~~~~~p~l~~~~~  240 (398)
                      ......+                                                +                        
T Consensus        89 ~~l~~~~------------------------------------------------~------------------------   96 (244)
T d2r6gf2          89 MMLSALF------------------------------------------------G------------------------   96 (244)
T ss_dssp             HHHHHTS------------------------------------------------S------------------------
T ss_pred             HHHHHHC------------------------------------------------C------------------------
T ss_conf             6665530------------------------------------------------2------------------------


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             54443322100131112682148789999999999977879999999998346367899989689989988898768999
Q gi|254780171|r  241 KYQLHFDKPVLGQFNFIGGSTVSPEFMSLYIALSCYTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLVLLPQAM  320 (398)
Q Consensus       241 ~~~~~~~~p~l~~f~~~gG~~l~p~f~a~~iaL~l~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~VIlPQAl  320 (398)
                           .+.+..        ......+.+.+++.+.....|..-+++++++++||.+.|||+..|-+++|++|+|++|+..
T Consensus        97 -----~~~~~~--------~~~~~~~~~i~i~~v~~~~p~~~l~~~~~l~~I~~~l~EAA~idGAs~~~~f~~I~lPl~~  163 (244)
T d2r6gf2          97 -----VKPAWF--------SDPTTARTMLIIVNTWLGYPYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLI  163 (244)
T ss_dssp             -----CCCCTT--------TSHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGSCTHHHHHHHHTCCCSHHHHHHTTGGGTH
T ss_pred             -----CCCCCC--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCEEEEECCCCH
T ss_conf             -----677410--------1277999999999999710277999999997599999899997499765774999854468


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9974104789999997549999999
Q gi|254780171|r  321 RSIIPPLTSQYLNLLKNSSLAVAVG  345 (398)
Q Consensus       321 R~~iP~l~nq~i~l~K~SSLa~~Ig  345 (398)
                      ..++....-+++...|+=.....++
T Consensus       164 p~i~~~~il~fi~~~~~f~~~~~l~  188 (244)
T d2r6gf2         164 KPLTPLMIASFAFNFNNFVLIQLLT  188 (244)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHC
T ss_conf             9999999999999720056764425


No 5  
>d2r6gg1 f.58.1.1 (G:7-296) Maltose transport system permease protein MalG {Escherichia coli [TaxId: 562]}
Probab=99.38  E-value=3.5e-11  Score=84.03  Aligned_cols=78  Identities=19%  Similarity=0.102  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999997787999999999834636789998968998998889876899999741047899999975499999999
Q gi|254780171|r  269 LYIALSCYTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLVLLPQAMRSIIPPLTSQYLNLLKNSSLAVAVGF  346 (398)
Q Consensus       269 ~~iaL~l~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~VIlPQAlR~~iP~l~nq~i~l~K~SSLa~~Ig~  346 (398)
                      +++.....+-+|..=+++++++++|+.+.|||+.+|-+++|++|+|++|.....++-...=.++...+|=......+-
T Consensus       155 ~ii~~~~~~~pf~~~~~~~~l~~i~~~l~EAA~~~GAs~~~~f~~I~lPl~~p~i~~~~il~fi~~~~~f~~~~~~~~  232 (290)
T d2r6gg1         155 GVIFAYLGGIALHVWTIKGYFETIDSSLEEAAALDGATPWQAFRLVLLPLSVPILAVVFILSFIAAITEVPVASLLLR  232 (290)
T ss_dssp             HHHHHHTTTTHHHHHHHHHHHTTSCTHHHHHHHHTTCCHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTCCHHHHHHCC
T ss_pred             HHHHHCCCCEEEEEECCCHHHHCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEECCC
T ss_conf             442223550364200132054111166665686539977888899888863125666787876644110114411137


No 6  
>d1etxa_ a.4.1.12 (A:) FIS protein {Escherichia coli [TaxId: 562]}
Probab=78.85  E-value=1.3  Score=19.57  Aligned_cols=37  Identities=11%  Similarity=0.144  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             7879999999998346367899989689989988898
Q gi|254780171|r  278 AAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLV  314 (398)
Q Consensus       278 aAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~V  314 (398)
                      ..+-.+.++.+++.-.--|.+||+.||++|...++++
T Consensus        47 ~e~E~~~i~~aL~~~~gn~~~aA~~LGisR~tL~~kl   83 (89)
T d1etxa_          47 AEVEQPLLDMVMQYTRGNATRAALMMGINRGTLRKKL   83 (89)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             9999999999999929969999999897899999999


No 7  
>d1umqa_ a.4.1.12 (A:) Photosynthetic apparatus regulatory protein PprA (RegA), DNA-binding domain {Rhodobacter sphaeroides [TaxId: 1063]}
Probab=75.60  E-value=1.8  Score=18.80  Aligned_cols=35  Identities=20%  Similarity=0.169  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             79999999998346367899989689989988898
Q gi|254780171|r  280 FIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLV  314 (398)
Q Consensus       280 yiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~V  314 (398)
                      .--|.+..+++.-+--+.+||+.||+|+...+|++
T Consensus        20 ~Er~~I~~aL~~~~gn~~~aA~~LGIsR~TL~rkm   54 (60)
T d1umqa_          20 VRWEHIQRIYEMCDRNVSETARRLNMHRRTLQRIL   54 (60)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             99999999999966859999999898899999999


No 8  
>d1ntca_ a.4.1.12 (A:) DNA-binding domain of NTRC {Salmonella typhimurium [TaxId: 90371]}
Probab=73.35  E-value=1.7  Score=18.90  Aligned_cols=37  Identities=19%  Similarity=0.152  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             7879999999998346367899989689989988898
Q gi|254780171|r  278 AAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLV  314 (398)
Q Consensus       278 aAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~V  314 (398)
                      ..+=-+.++..++.-.--|.+||+.||++|...++++
T Consensus        49 ~~~E~~lI~~aL~~~~Gn~~~AA~~LGI~R~TL~~Kl   85 (91)
T d1ntca_          49 PELERTLLTTALRHTQGHKQEAARLLGWGAATLTAKL   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTTCTTHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             9999999999999959959999999798899999999


No 9  
>d1g2ha_ a.4.1.12 (A:) Transcriptional regulator TyrR, C-terminal domain {Haemophilus influenzae [TaxId: 727]}
Probab=58.95  E-value=4.1  Score=16.59  Aligned_cols=36  Identities=14%  Similarity=0.186  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             7879999999998346367899989689989988898
Q gi|254780171|r  278 AAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLV  314 (398)
Q Consensus       278 aAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~V  314 (398)
                      ..|=-|.++.+++.- .+..+||+.||+++...+|++
T Consensus        19 ~~~Er~~I~~aL~~~-gn~~~aA~~Lgisr~tL~rKl   54 (61)
T d1g2ha_          19 GFYEAQVLKLFYAEY-PSTRKLAQRLGVSHTAIANKL   54 (61)
T ss_dssp             SHHHHHHHHHHHHHS-CSHHHHHHHTTSCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCHHHHHHHHCCCHHHHHHHH
T ss_conf             999999999999987-899999999798899999999


No 10 
>d1i3ja_ d.285.1.1 (A:) DNA-binding domain of intron endonuclease I-TevI {Bacteriophage T4 [TaxId: 10665]}
Probab=50.65  E-value=5.3  Score=15.94  Aligned_cols=22  Identities=18%  Similarity=0.046  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             3678999896899899888987
Q gi|254780171|r  294 RGQMEAAIALGLTHRKATRLVL  315 (398)
Q Consensus       294 kGQ~EAA~aLGls~~q~~r~VI  315 (398)
                      ....|||++||.+.....+++-
T Consensus        65 ~S~~EAar~lgi~~~tI~~R~k   86 (96)
T d1i3ja_          65 DCAADAARHFKISSGLVTYRVK   86 (96)
T ss_dssp             SSHHHHHHHHTCCHHHHHHHHH
T ss_pred             CCHHHHHHHHCCCHHHHHHHHC
T ss_conf             0699999994898378999975


No 11 
>d2jn6a1 a.4.1.19 (A:1-89) Uncharacterized protein Cgl2762 {Corynebacterium glutamicum [TaxId: 1718]}
Probab=20.11  E-value=19  Score=12.62  Aligned_cols=39  Identities=15%  Similarity=0.129  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             977879999999998346367899989689989988898
Q gi|254780171|r  276 YTAAFIAEIVRSGLIAVPRGQMEAAIALGLTHRKATRLV  314 (398)
Q Consensus       276 ~taAyiaEivR~gI~sVpkGQ~EAA~aLGls~~q~~r~V  314 (398)
                      |+..|=-++|+-....=.....|.|+.+|.++.+..+.+
T Consensus         6 Ys~EfK~~aV~l~~~~~g~s~~~vA~~lGIs~~tl~~W~   44 (89)
T d2jn6a1           6 YSEEFKRDAVALYENSDGASLQQIANDLGINRVTLKNWI   44 (89)
T ss_dssp             CCHHHHHHHHHHHTTGGGSCHHHHHHHHTSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             999999999999998299859999999798988999999


Done!