Query         gi|254780923|ref|YP_003065336.1| hypothetical protein CLIBASIA_04110 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 365
No_of_seqs    111 out of 158
Neff          5.0 
Searched_HMMs 23785
Date          Tue May 31 22:45:18 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780923.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1qg8_A Protein (spore coat pol  95.2    0.16 6.5E-06   28.1  10.0  115  116-253     1-125 (255)
  2 2z86_A Chondroitin synthase; G  93.4    0.39 1.6E-05   25.7  19.5  116  113-255   372-493 (625)
  3 2ffu_A Ppgalnact-2, polypeptid  86.3     1.6 6.9E-05   21.9  12.8  202  116-355    66-285 (501)
  4 1omz_A Alpha-1,4-N-acetylhexos  47.2      14 0.00057   16.4  12.1  117  113-255    25-145 (293)
  5 1vkr_A Mannitol-specific PTS s  46.7      14 0.00058   16.3   4.3   32  140-175    56-87  (125)
  6 3bcv_A Putative glycosyltransf  32.2      24 0.00099   14.9  10.3  204  114-356     3-221 (240)
  7 2rbg_A Putative uncharacterize  24.5      32  0.0014   14.1   5.4   23  183-205    49-71  (126)
  8 1qwj_A Cytidine monophospho-N-  20.1      40  0.0017   13.6   6.8   96  129-251    30-130 (229)
  9 2bw2_A Bypass of forespore C;   19.9      37  0.0015   13.8   1.6   46   45-90     38-90  (140)
 10 2rps_A Chemokine; peptide, imm  17.4      31  0.0013   14.2   0.7   12   61-72     10-21  (32)

No 1  
>1qg8_A Protein (spore coat polysaccharide biosynthesis protein SPSA); glycosyltransferase; 1.50A {Bacillus subtilis} SCOP: c.68.1.1 PDB: 1h7q_A* 1h7l_A 1qgq_A* 1qgs_A*
Probab=95.21  E-value=0.16  Score=28.07  Aligned_cols=115  Identities=16%  Similarity=0.267  Sum_probs=68.4

Q ss_pred             CCEEEEEEEC-CHHHHHHHHHHHHHCCC-CCCEEEEECCCHHHHHHHHHHHCC--CCEEEEECCCC-----CHHHHHHHH
Q ss_conf             7559999943-67779999999981899-831899808631799999985258--83799945667-----317899975
Q gi|254780923|r  116 AKIAIVVHLY-YIDLWIEIANLLSNLSI-SFDLHVTLVTESASIKSEILKIFP--AARIHIMENHG-----RDVLPFLIL  186 (365)
Q Consensus       116 ~KIAV~lHly-Y~DLl~Ei~~~L~~ip~-~~DL~ITt~~~~~~~~~~i~~~~~--~~~I~vv~NRG-----RDI~PfLv~  186 (365)
                      |||.|++=.| -++.+.++++-+.+-.. .++++|.-..........+.+..+  ++++...+|.|     +..+.- ..
T Consensus         1 P~vSIiip~yN~~~~l~~~l~Si~~qt~~~~eiiivdd~S~d~t~~~~~~~~~~~~i~~~~~~~~~~~~~~~n~g~~-~a   79 (255)
T 1qg8_A            1 PKVSVIMTSYNKSDYVAKSISSILSQTFSDFELFIMDDNSNEETLNVIRPFLNDNRVRFYQSDISGVKERTEKTRYA-AL   79 (255)
T ss_dssp             CCEEEEEEESSCTTTHHHHHHHHHTCSCCCEEEEEEECSCCHHHHHHHGGGGGSTTEEEEECCCCSHHHHHSSCHHH-HH
T ss_pred             CEEEEEEECCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCHHHCCCCCCCCCCCCCCHH-HH
T ss_conf             97999995389889999999999828899859999989797318999999732011110002344320011335599-99


Q ss_pred             HCH-HHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECC
Q ss_conf             064-4526868899965686767777733447899999987559999999999998628964898156
Q gi|254780923|r  187 LET-EQLSNYDYVCKIHGKKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIGSR  253 (365)
Q Consensus       187 ~~~-~~l~~YD~v~kiHTKKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~P~  253 (365)
                      .+. ....+.|+|+.+++=                     .++ +++.++.+++.|+++|++++|++.
T Consensus        80 ~N~gi~~a~g~~i~~lD~D---------------------d~~-~p~~l~~~~~~~~~~~~~~~v~~~  125 (255)
T 1qg8_A           80 INQAIEMAEGEYITYATDD---------------------NIY-MPDRLLKMVRELDTHPEKAVIYSA  125 (255)
T ss_dssp             HHHHHHHCCCSEEEEEETT---------------------EEE-CTTHHHHHHHHHHHCTTCCEEEEE
T ss_pred             HHHHHHCCCCCEEEEECCC---------------------CCC-CCCHHHHHHHHHHHCCCEEEEEEE
T ss_conf             9855431587546773266---------------------431-123799999999868981699933


No 2  
>2z86_A Chondroitin synthase; GT-A, glycosyltransferase A, fold; HET: UGA UDP; 2.40A {Escherichia coli} PDB: 2z87_A*
Probab=93.41  E-value=0.39  Score=25.67  Aligned_cols=116  Identities=14%  Similarity=0.155  Sum_probs=71.1

Q ss_pred             CCCCCEEEEEEEC-CHHHHHHHHHHHHHCC-CCCCEEEEEC--C-CHHHHHHHHHHHCCCCEEEEECCCCCHHHHH-HHH
Q ss_conf             2247559999943-6777999999998189-9831899808--6-3179999998525883799945667317899-975
Q gi|254780923|r  113 AIKAKIAIVVHLY-YIDLWIEIANLLSNLS-ISFDLHVTLV--T-ESASIKSEILKIFPAARIHIMENHGRDVLPF-LIL  186 (365)
Q Consensus       113 ~~k~KIAV~lHly-Y~DLl~Ei~~~L~~ip-~~~DL~ITt~--~-~~~~~~~~i~~~~~~~~I~vv~NRGRDI~Pf-Lv~  186 (365)
                      ...++|.|++-.| -++.+.++++.+.+-. ..+.++|.-+  + +..++..+.....+.+.+...+|.|.  +.- =.+
T Consensus       372 ~~~p~vsvii~~~n~~~~l~~~l~Si~~q~~~~~eiiivdd~s~~~t~~~l~~~~~~~~~i~~~~~~n~g~--~~a~N~~  449 (625)
T 2z86_A          372 KRVPLVSIYIPAYNCSKYIVRCVESALNQTITDLEVCICDDGSTDDTLRILQEHYANHPRVRFISQKNKGI--GSASNTA  449 (625)
T ss_dssp             CSSCSEEEEEEESSCTTTHHHHHHHHHSSSCCSEEEEEEEESCSSSHHHHHHHHHTTCTTEEEEEECCCCH--HHHHHHH
T ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCHHHHHHHHHHCCCEEEEEECCCCCH--HHHHHHH
T ss_conf             67864777403445177788876521011223278999747998427999999863288189995689888--9999999


Q ss_pred             HCHHHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCC
Q ss_conf             064452686889996568676777773344789999998755999999999999862896489815665
Q gi|254780923|r  187 LETEQLSNYDYVCKIHGKKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIGSRAY  255 (365)
Q Consensus       187 ~~~~~l~~YD~v~kiHTKKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~P~~~  255 (365)
                      +   ...+-|||+.+++-=                     ++ .++.++.++..|+++|.+++|++...
T Consensus       450 i---~~a~g~~i~~ld~Dd---------------------~~-~p~~l~~~~~~~~~~~~~~~v~~~~~  493 (625)
T 2z86_A          450 V---RLCRGFYIGQLDSDD---------------------FL-EPDAVELCLDEFRKDLSLACVYTTNR  493 (625)
T ss_dssp             H---HHCCSSEEEECCTTC---------------------EE-CTTHHHHHHHHHHHCTTCSEEEEEEE
T ss_pred             H---HHCCCCEEEEECCCC---------------------CC-CHHHHHHHHHHHHHCCCCCEEECCEE
T ss_conf             9---858988899976897---------------------60-82799999999984988536841348


No 3  
>2ffu_A Ppgalnact-2, polypeptide N-acetylgalactosaminyltransferase 2, protein-UDP; ppgalnact, mucin, glycosyltransferase; HET: UDP; 1.64A {Homo sapiens} PDB: 2ffv_A*
Probab=86.26  E-value=1.6  Score=21.90  Aligned_cols=202  Identities=9%  Similarity=0.039  Sum_probs=99.7

Q ss_pred             CCEEEEEEECCH--H-HHHHHHHHHHHCCCCC--CEEEEECCCHHHHHHHHHHHCCCCEEEEEC-CCCCHHHHHHHHHCH
Q ss_conf             755999994367--7-7999999998189983--189980863179999998525883799945-667317899975064
Q gi|254780923|r  116 AKIAIVVHLYYI--D-LWIEIANLLSNLSISF--DLHVTLVTESASIKSEILKIFPAARIHIME-NHGRDVLPFLILLET  189 (365)
Q Consensus       116 ~KIAV~lHlyY~--D-Ll~Ei~~~L~~ip~~~--DL~ITt~~~~~~~~~~i~~~~~~~~I~vv~-NRGRDI~PfLv~~~~  189 (365)
                      |+|-|++-.|=.  . |+..+-..++.-|..+  .|+|--+-........+.+..+++.|...+ |.|. +++...+++ 
T Consensus        66 P~vSVII~~~Ne~~~~L~rti~Svl~~tp~~ll~EIIvVDDgStd~t~~~l~~~~~~ikii~~~~n~G~-~~ArN~G~~-  143 (501)
T 2ffu_A           66 PATSVVITFHNEARSALLRTVVSVLKKSPPHLIKEIILVDDYSNDPEDGALLGKIEKVRVLRNDRREGL-MRSRVRGAD-  143 (501)
T ss_dssp             CCEEEEEEESSCCHHHHHHHHHHHHHHSCGGGEEEEEEEECSCSCTHHHHGGGGBTTEEEEECSSCCHH-HHHHHHHHH-
T ss_pred             CCEEEEEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHCCCCEEEEECCCCCCH-HHHHHHHHH-
T ss_conf             985899984008479999999999855951039889999899993289999861998799989998588-999999999-


Q ss_pred             HHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCC------CCCCCCC-
Q ss_conf             452686889996568676777773344789999998755999999999999862896489815665------4433332-
Q gi|254780923|r  190 EQLSNYDYVCKIHGKKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIGSRAY------RYPNKYC-  262 (365)
Q Consensus       190 ~~l~~YD~v~kiHTKKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~P~~~------~~~~~~~-  262 (365)
                        ...-|+|+++.+==                     .+ +++.++.++..+++++..+.+..-..      .+..... 
T Consensus       144 --~A~Gd~I~fLD~D~---------------------~~-~~~wLe~Ll~~i~~~~~~~v~p~i~~~~~~~~~~~~~~~~  199 (501)
T 2ffu_A          144 --AAQAKVLTFLDSHC---------------------EC-NEHWLEPLLERVAEDRTRVVSPIIDVINMDNFQYVGASAD  199 (501)
T ss_dssp             --HCCSSEEEECCSSE---------------------EE-CTTCHHHHHHHHHHCTTEEEEEEEEEECTTTCCEECBCSS
T ss_pred             --HCCCCEEEEECCCC---------------------CC-CHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCEECCCCCC
T ss_conf             --72799899988998---------------------77-9769999999998199717730475117886022155544


Q ss_pred             -----CCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEEHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             -----344541022899999999848998733266377014773298888787189971218655588887399999999
Q gi|254780923|r  263 -----DYTCSLGKNREMICTLAGRMGITFQDQKLDFFAGTMFWVRTEALDPIKNLRLSRYFEPKVHKALDGEIEHAVERC  337 (365)
Q Consensus       263 -----~~~~~wg~N~~~~~~L~~rlgi~~~~~~~~FpaGSMFW~Rp~AL~pL~dl~l~~~dFpeE~g~~DGTLaHAIERl  337 (365)
                           .+................+......+....+.+|..|-+|.+++..+=-.+-....+--|            +--
T Consensus       200 ~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~irR~~f~~iGgfDe~~~~~g~E------------D~d  267 (501)
T 2ffu_A          200 LKGGFDWNLVFKWDYMTPEQRRSRQGNPVAPIKTPMIAGGLFVMDKFYFEELGKYDMMMDVWGGE------------NLE  267 (501)
T ss_dssp             EEEEECTTCCEEEEECCHHHHHHTSSCTTSCEECSSCCSSSEEEEHHHHHHTTCCCTTCCSSSSH------------HHH
T ss_pred             CCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCEEEEEEHHHHHHHCCCCCCCCCCCCH------------HHH
T ss_conf             35532113333434355466541013545543344201123456899999718999864566620------------799


Q ss_pred             HHHHHHHCCCEEEEEHHH
Q ss_conf             999988739878872664
Q gi|254780923|r  338 FSLSVKKANFRISDVDCI  355 (365)
Q Consensus       338 ~~~iv~~aGyri~~v~~~  355 (365)
                      +.+-+..+|++|.-+-|.
T Consensus       268 ls~R~~~~Gg~i~~~P~s  285 (501)
T 2ffu_A          268 ISFRVWQCGGSLEIIPCS  285 (501)
T ss_dssp             HHHHHHHTTCEEEEEEEE
T ss_pred             HHHHHHHCCCCEEEECCE
T ss_conf             999987547849994873


No 4  
>1omz_A Alpha-1,4-N-acetylhexosaminyltransferase EXTL2; rossmann fold, DXD motif; HET: UD2; 2.10A {Mus musculus} SCOP: c.68.1.15 PDB: 1omx_A* 1on6_A* 1on8_A*
Probab=47.23  E-value=14  Score=16.37  Aligned_cols=117  Identities=10%  Similarity=0.037  Sum_probs=74.0

Q ss_pred             CCCCCEEEEEEECC-HHHHHHHHHHHHHCCCCCCEEEEECCC---HHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHC
Q ss_conf             22475599999436-777999999998189983189980863---17999999852588379994566731789997506
Q gi|254780923|r  113 AIKAKIAIVVHLYY-IDLWIEIANLLSNLSISFDLHVTLVTE---SASIKSEILKIFPAARIHIMENHGRDVLPFLILLE  188 (365)
Q Consensus       113 ~~k~KIAV~lHlyY-~DLl~Ei~~~L~~ip~~~DL~ITt~~~---~~~~~~~i~~~~~~~~I~vv~NRGRDI~PfLv~~~  188 (365)
                      ...++++|++=-|= +|++.++++.+.+.+....++|-....   ..+...+.....+...+..-+|.|---+ .-.+++
T Consensus        25 ~~~~~~tviI~tynr~~~L~~~l~sl~~~~~~~~iiVV~n~~s~~~~~~~~~~~~~~~~~~~~~~~~~g~~~a-~n~g~~  103 (293)
T 1omz_A           25 SALDSFTLIMQTYNRTDLLLRLLNHYQAVPSLHKVIVVWNNVGEKGPEELWNSLGPHPIPVIFKPQTANKMRN-RLQVFP  103 (293)
T ss_dssp             -CTTCEEEEEEESSCHHHHHHHHHHHTTSTTEEEEEEEECCTTCCCTHHHHHHTCCCSSCEEEEECSSCCGGG-GGSCCT
T ss_pred             CCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHHHCCCCCCEEEEECCCCCHHHH-HHHHHH
T ss_conf             8899779999468998999999999980899983999989999976899986407899789996289880878-766687


Q ss_pred             HHHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCC
Q ss_conf             4452686889996568676777773344789999998755999999999999862896489815665
Q gi|254780923|r  189 TEQLSNYDYVCKIHGKKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIGSRAY  255 (365)
Q Consensus       189 ~~~l~~YD~v~kiHTKKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~P~~~  255 (365)
                         ..+.|+|..+-+=                     .++ .++.+++++..|+++|..++.++...
T Consensus       104 ---~a~~d~i~~lDdD---------------------~~~-~p~~L~~~~~~~~~~~~~~v~~~~~~  145 (293)
T 1omz_A          104 ---EVETNAVLMVDDD---------------------TLI-SAQDLVFAFSIWQQFPDQIIGFVPRK  145 (293)
T ss_dssp             ---TCCSSEEEEECTT---------------------EEE-CHHHHHHHHHHHTTSTTSEEESCEEE
T ss_pred             ---HCCCCEEEEECCC---------------------CCC-HHHHHHHHHHHHHHCCCCEEEEEEEE
T ss_conf             ---6695779998751---------------------120-06899999999986985379743221


No 5  
>1vkr_A Mannitol-specific PTS system enzyme iiabc components; phosphotransferase, transferase, kinase, sugar transport; NMR {Escherichia coli O157} SCOP: c.44.2.1 PDB: 1vrv_A* 2few_B*
Probab=46.65  E-value=14  Score=16.32  Aligned_cols=32  Identities=22%  Similarity=0.321  Sum_probs=15.1

Q ss_pred             CCCCCCEEEEECCCHHHHHHHHHHHCCCCEEEEECC
Q ss_conf             899831899808631799999985258837999456
Q gi|254780923|r  140 LSISFDLHVTLVTESASIKSEILKIFPAARIHIMEN  175 (365)
Q Consensus       140 ip~~~DL~ITt~~~~~~~~~~i~~~~~~~~I~vv~N  175 (365)
                      ++..+||+||+    ..+...+....+++.|..|.|
T Consensus        56 ~~~~~DlIvst----~~l~~~~~~~~~~~~vi~V~n   87 (125)
T 1vkr_A           56 LPPDVDLVITH----RDLTERAMRQVPQAQHISLTN   87 (125)
T ss_dssp             CCTTCSEEEEE----HHHHHHHHHHCTTSEEEEESC
T ss_pred             CCCCCCEEEEC----HHHHHHHHHHCCCCEEEEEEC
T ss_conf             79899899987----899899983199983999832


No 6  
>3bcv_A Putative glycosyltransferase protein; protein structure initiative II, PSI- II, NYSGXRC, structural genomics; 2.35A {Bacteroides fragilis nctc 9343}
Probab=32.16  E-value=24  Score=14.93  Aligned_cols=204  Identities=11%  Similarity=0.089  Sum_probs=106.4

Q ss_pred             CCCCEEEEEEECCH-HHHHHHHHHHHHCC-CCCCEEEEEC---CCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHC
Q ss_conf             24755999994367-77999999998189-9831899808---6317999999852588379994566731789997506
Q gi|254780923|r  114 IKAKIAIVVHLYYI-DLWIEIANLLSNLS-ISFDLHVTLV---TESASIKSEILKIFPAARIHIMENHGRDVLPFLILLE  188 (365)
Q Consensus       114 ~k~KIAV~lHlyY~-DLl~Ei~~~L~~ip-~~~DL~ITt~---~~~~~~~~~i~~~~~~~~I~vv~NRGRDI~PfLv~~~  188 (365)
                      +-++|.|++=.|=. +.++++++.+.+.. .++.++|.-+   ++..++.++..+..+...+..-+|+|.- ..+-.+++
T Consensus         3 ~~p~isIiIptyN~~~~l~~~l~Si~~q~~~~~eiIIvDd~S~d~t~~~~~~~~~~~~~~~~~~~~n~G~~-~a~n~gi~   81 (240)
T 3bcv_A            3 LIPKVSVIVPIYNVEKYLDQCVQALLAQTLSDIEIILIDDESPDNCPKICDDYAAQYPNIKVIHKKNAGLG-MACNSGLD   81 (240)
T ss_dssp             CCCSEEEEEEESSCTTTHHHHHHHHHTCSSSSEEEEEEECCCSSSHHHHHHHHHHHCSSEEEEECCCCCHH-HHHHHHHH
T ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCHHHHHHCCCCCCCEEECCCCCCHH-HHHHHHHH
T ss_conf             89906999973788899999999998087988599999897986643000120233221013123689989-99999999


Q ss_pred             HHHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCC-CC------CC
Q ss_conf             445268688999656867677777334478999999875599999999999986289648981566544-33------33
Q gi|254780923|r  189 TEQLSNYDYVCKIHGKKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIGSRAYRY-PN------KY  261 (365)
Q Consensus       189 ~~~l~~YD~v~kiHTKKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~P~~~~~-~~------~~  261 (365)
                         ..++|+|+.+++==-.                      +++.+.+++.++.+++. ++|....... ..      ..
T Consensus        82 ---~a~~~~i~~ld~Dd~~----------------------~~~~l~~~~~~~~~~~~-~~v~~~~~~~~~~~~~~~~~~  135 (240)
T 3bcv_A           82 ---VATGEYVAFCDSDDYV----------------------DSDMYMTMYNVAQKYTC-DAVFTGLKRITMAGIPTGTVT  135 (240)
T ss_dssp             ---HCCSSEEEECCTTCCC----------------------CTTHHHHHHHHHHHHTC-SEEEC----------------
T ss_pred             ---HCCCCEEEEECCCCCC----------------------CCHHHHHHHHHHHHCCC-CEEEECCEEECCCCCCCCCCC
T ss_conf             ---7787989998688776----------------------92699999999982899-899957189857896234312


Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCC---CCCCCCCCEEEEEEEHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             23445410228999999998489987---332663770147732988887871899712186555888873999999999
Q gi|254780923|r  262 CDYTCSLGKNREMICTLAGRMGITFQ---DQKLDFFAGTMFWVRTEALDPIKNLRLSRYFEPKVHKALDGEIEHAVERCF  338 (365)
Q Consensus       262 ~~~~~~wg~N~~~~~~L~~rlgi~~~---~~~~~FpaGSMFW~Rp~AL~pL~dl~l~~~dFpeE~g~~DGTLaHAIERl~  338 (365)
                      .........+......+...+-....   ........|..+.+|.++|+..   ++   .|+.|.+. -     +=...+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~kr~~l~~~---~~---~~~~~~~~-~-----~eD~~f  203 (240)
T 3bcv_A          136 HQKEFKLYKNKNEIHTLLKDLIASDPYAREERAIQVSAKVVLYRRNLIEKK---HL---RFVSERIL-P-----SEDLIF  203 (240)
T ss_dssp             ----CEEECSHHHHHHHHGGGTSSCHHHHHHHHHHHTCSCEEEEHHHHHHT---TC---CCCCTTTC-T-----THHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCEECCHHHHHHHHHHHH---CC---CCCCCCCC-C-----HHHHHH
T ss_conf             332111124515788887654204520001344300112146359999981---89---88876667-3-----339999


Q ss_pred             HHHHHHCCCEEEEEHHHH
Q ss_conf             999887398788726642
Q gi|254780923|r  339 SLSVKKANFRISDVDCIL  356 (365)
Q Consensus       339 ~~iv~~aGyri~~v~~~~  356 (365)
                      .+-+..+|.+|.-+...+
T Consensus       204 ~~r~~~~g~~i~~~~~~l  221 (240)
T 3bcv_A          204 NVDVLANSNIVCVLPQTF  221 (240)
T ss_dssp             HHHHHTTCSCEEECC---
T ss_pred             HHHHHHHCCEEEEECCCE
T ss_conf             999998099899989988


No 7  
>2rbg_A Putative uncharacterized protein ST0493; hypothetical protein, structural genomics, unknown function, NPPSFA; 1.75A {Sulfolobus tokodaii}
Probab=24.52  E-value=32  Score=14.11  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=12.8

Q ss_pred             HHHHHCHHHHCCCCEEEEECCCC
Q ss_conf             99750644526868899965686
Q gi|254780923|r  183 FLILLETEQLSNYDYVCKIHGKK  205 (365)
Q Consensus       183 fLv~~~~~~l~~YD~v~kiHTKK  205 (365)
                      |+...++.+++|-|+=.-+|+=|
T Consensus        49 ~v~~aREAlLdNIDlG~ely~WK   71 (126)
T 2rbg_A           49 LVTLIREALLENIDIGYELFLWK   71 (126)
T ss_dssp             HHHHTHHHHHHTTTSEEEEEEEC
T ss_pred             HHHHHHHHHHHCCCCCEEEEEEC
T ss_conf             99999999884345452899867


No 8  
>1qwj_A Cytidine monophospho-N-acetylneuraminic acid synthetase; CMP-5-N-acetylneuraminic acid synthetase, CMP-NEU5AC, sialic acid, glycosylation; HET: NCC; 2.80A {Mus musculus} SCOP: c.68.1.13
Probab=20.08  E-value=40  Score=13.57  Aligned_cols=96  Identities=15%  Similarity=0.129  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHCCCCEEEEE-CCCCCH----HHHHHHHHCHHHHCCCCEEEEECC
Q ss_conf             799999999818998318998086317999999852588379994-566731----789997506445268688999656
Q gi|254780923|r  129 LWIEIANLLSNLSISFDLHVTLVTESASIKSEILKIFPAARIHIM-ENHGRD----VLPFLILLETEQLSNYDYVCKIHG  203 (365)
Q Consensus       129 Ll~Ei~~~L~~ip~~~DL~ITt~~~~~~~~~~i~~~~~~~~I~vv-~NRGRD----I~PfLv~~~~~~l~~YD~v~kiHT  203 (365)
                      |++-.++.+.....--+++|+|+++..  .. ...... +.+..- +.-.-|    ...+...+.  .....|+++-++.
T Consensus        30 Li~~~i~~~~~~~~~~~Iivstd~~~i--~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~~~iv~~~~  103 (229)
T 1qwj_A           30 LIGWVLRAALDAGVFQSVWVSTDHDEI--EN-VAKQFG-AQVHRRSSETSKDSSTSLDAIVEFLN--YHNEVDIVGNIQA  103 (229)
T ss_dssp             HHHHHHHHHHHHTCCSEEEEEESCHHH--HH-HHHHTT-CEEEECCGGGSSTTCCHHHHHHHHHT--TCTTCSEEEEECT
T ss_pred             HHHHHHHHHHHCCCCCEEEEECCHHHH--CC-CHHCCC-CCCCCCCCCCCCCCCHHHHHHCCCCC--CCCCCCEEEECCC
T ss_conf             799999999966998879995440211--02-010258-51024435324663012222100002--3555788997236


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             867677777334478999999875599999999999986289648981
Q gi|254780923|r  204 KKSKRKGYSWWEGDLWRRWLFYDLLGAPGVVFKIIRTFDTHRDIGMIG  251 (365)
Q Consensus       204 KKS~~~~~h~~~G~~WR~~Ll~~LLGs~~~V~~Il~~F~~np~lGlv~  251 (365)
                       -||                    +-+++.+.+.++.|.++..-.++.
T Consensus       104 -~~P--------------------~~~~~~I~~~i~~~~~~~~d~~~~  130 (229)
T 1qwj_A          104 -TSP--------------------CLHPTDLQKVAEMIREEGYDSVFS  130 (229)
T ss_dssp             -TCT--------------------TCCHHHHHHHHHHHHSSCCSEEEE
T ss_pred             -CCC--------------------CCCHHHHHHHHHHHHHCCCCEEEE
T ss_conf             -776--------------------578899999999998579977999


No 9  
>2bw2_A Bypass of forespore C; sporulation, signaling protein, BOFC, sigmak checkpoint; NMR {Bacillus subtilis}
Probab=19.93  E-value=37  Score=13.78  Aligned_cols=46  Identities=15%  Similarity=0.117  Sum_probs=32.8

Q ss_pred             HHHHHHCCC---CCCCHHEEEEEECCCCCHHHHHHHHHHH----CCCCCCCCH
Q ss_conf             868775186---8641101222101584012111134430----257667640
Q gi|254780923|r   45 LFYKRSKKL---CYDENYVVAYGSRSGKKFFAQSNLYMME----RELHFDGQR   90 (365)
Q Consensus        45 ~~~~~~~~~---~~~~~~~~~~~~r~~~~~~~~~~~~~~~----~~~~~~~~~   90 (365)
                      =+|++|+++   ++....++++-.-+|.||..|.|.|+.-    +=+-|.|.|
T Consensus        38 ~~~~~y~gW~l~~~~~~~vvl~r~vdd~~P~~k~~~y~gi~~dG~vaIy~G~p   90 (140)
T 2bw2_A           38 DFWAAYAGWTLVEQKKGYVLFRKQMDDISPLSKVNGYIGVSDNGVISTFHGRP   90 (140)
T ss_dssp             HHHHHSTTSEEEEEETTEEEEEEECSSCCTGGGTCCCEEEETTTEEEEBSSSC
T ss_pred             HHHHHCCCCEEEECCCCEEEEEEEECCCCHHHHCCCEEEECCCCEEEEEECCC
T ss_conf             99846899789977899899999803369556507479873699899995588


No 10 
>2rps_A Chemokine; peptide, immune system; NMR {Pseudaletia separata}
Probab=17.43  E-value=31  Score=14.21  Aligned_cols=12  Identities=25%  Similarity=-0.034  Sum_probs=9.8

Q ss_pred             EEEEECCCCCHH
Q ss_conf             222101584012
Q gi|254780923|r   61 VAYGSRSGKKFF   72 (365)
Q Consensus        61 ~~~~~r~~~~~~   72 (365)
                      -|++.|+|+|+-
T Consensus        10 gm~mlrsgqc~~   21 (32)
T 2rps_A           10 GMQMLRSGQCVA   21 (32)
T ss_dssp             TEEECSSSCEEE
T ss_pred             HHHHHHCCCCCC
T ss_conf             777865476325


Done!