Query         gi|254780935|ref|YP_003065348.1| rare lipoprotein A [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 276
No_of_seqs    213 out of 949
Neff          3.6 
Searched_HMMs 23785
Date          Tue May 31 23:17:46 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780935.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3d30_A YOAJ, expansin like pro  99.1 6.5E-10 2.7E-14   78.9   9.2   97   85-183     4-109 (208)
  2 1bw3_A Barwin, basic barley SE  97.9 1.4E-05 5.8E-10   52.4   4.9   67  112-181    45-122 (125)
  3 2hcz_X Beta-expansin 1A; domai  97.4  0.0019   8E-08   39.3  10.4   97   88-184    20-142 (245)
  4 1wc2_A Endoglucanase; hydrolas  97.4 0.00045 1.9E-08   43.1   6.8   95   87-183    14-158 (181)
  5 1n10_A PHL P I, pollen allerge  96.2   0.041 1.7E-06   31.1   9.1   96   88-183    20-141 (241)
  6 3omb_A Extracellular solute-bi  54.8     2.4  0.0001   20.2   0.3   29    1-29      2-30  (535)
  7 2pn0_A Prokaryotic transcripti  35.8      18 0.00078   14.8   6.6   78  104-184    41-131 (141)
  8 3frn_A Flagellar protein FLGA;  29.4      24 0.00099   14.2   3.3   34  123-159   238-271 (278)
  9 2k5h_A Conserved protein; stru  27.1      26  0.0011   13.9   4.8   44   99-146    55-98  (101)
 10 3gqj_A Cell inhibiting factor   27.0     9.2 0.00039   16.7  -0.4   30  129-159   113-142 (261)
 11 3efy_A CIF (cell cycle inhibit  26.9      25   0.001   14.0   1.8   29  129-158    45-73  (195)
 12 3bmb_A Regulator of nucleoside  23.4      30  0.0013   13.5   7.7   77  106-184    40-128 (136)
 13 2djm_A Glucoamylase A; beta sa  21.1      34  0.0014   13.2   2.0   18  127-144    24-41  (106)
 14 2jvv_A Transcription antitermi  20.2      35  0.0015   13.1   2.9   40  133-184   128-169 (181)

No 1  
>3d30_A YOAJ, expansin like protein; peptidoglycan associated protein, unknown function, MLTA, bacteria autolysis, peptidoglycan-binding protein; 1.90A {Bacillus subtilis} PDB: 2bh0_A
Probab=99.07  E-value=6.5e-10  Score=78.87  Aligned_cols=97  Identities=21%  Similarity=0.175  Sum_probs=77.7

Q ss_pred             CCEEEEEEEEECCCCCCCCCCCCCEECCCCCEEECCCCC---------CCCEEEEEECCCCCEEEEEECCCCCCCCCEEE
Q ss_conf             824679988856841687065887224610102036689---------98489999889985799996688888696187
Q gi|254780935|r   85 AYAAVGMASWYGKAFHGRLTANGEVYGTEYITAAHPTLP---------LPSYVRVTNMENGISLVVRVNDRGPYHSNRLI  155 (276)
Q Consensus        85 ~y~~~G~ASwYg~~f~G~~TAnGE~~~~~~lTAAH~tLP---------l~s~VrVTNl~nGrsvvVrVNDRGPf~~gRiI  155 (276)
                      +....|.|+|||..+.|.-...+.+-......|.+..+-         .|..++||+  ++++|+|+|+||+|.-....|
T Consensus         4 ~~~~~G~aT~yg~~~~gGac~~~~~p~~~~~~Al~~~~~~~~~~~~~~CG~c~~v~~--~~~sv~v~V~D~Cp~c~~~~~   81 (208)
T 3d30_A            4 DDLHEGYATYTGSGYSGGAFLLDPIPSDMEITAINPADLNYGGVKAALAGSYLEVEG--PKGKTTVYVTDLYPEGARGAL   81 (208)
T ss_dssp             TCCEEEEEEECSTTSSSCTTCCCCCCTTCCEEEECHHHHTGGGCTTTTTTCEEEEEE--TTEEEEEEEEEECTTCCTTCE
T ss_pred             CCEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECHHHHCCCCCCCCCCCCEEEEEC--CCCCEEEEEEECCCCCCCCEE
T ss_conf             750788888878999886466898876766899688995878755355887899996--998699999872899989938


Q ss_pred             ECCHHHHHHHCCCCCCEEEEEEEEEECC
Q ss_conf             7588999870973258189999998528
Q gi|254780935|r  156 DLSNAAAKILRVEERGVSKVHVEYLGMA  183 (276)
Q Consensus       156 DLS~~AA~~Lg~~~~Gva~V~ve~lg~a  183 (276)
                      |||..|+.+|+-...|+.+|..+.+.-.
T Consensus        82 DLS~~aF~~ia~~~~G~~~v~~~~V~C~  109 (208)
T 3d30_A           82 DLSPNAFRKIGNMKDGKINIKWRVVKAP  109 (208)
T ss_dssp             EECHHHHHHHSCGGGSSEEEEEEEECCC
T ss_pred             ECCHHHHHHHCCCCCCEEEEEEEEEECC
T ss_conf             7799999853556887799999997289


No 2  
>1bw3_A Barwin, basic barley SEED protein; lectin; NMR {Hordeum vulgare} SCOP: b.52.1.2 PDB: 1bw4_A
Probab=97.87  E-value=1.4e-05  Score=52.35  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=52.5

Q ss_pred             CCCCEEEC-CCCC-----CCCEEEEEECCCCCEEEEEECCCCCCCCCEEEECC-HHHHHHHCCC----CCCEEEEEEEEE
Q ss_conf             61010203-6689-----98489999889985799996688888696187758-8999870973----258189999998
Q gi|254780935|r  112 TEYITAAH-PTLP-----LPSYVRVTNMENGISLVVRVNDRGPYHSNRLIDLS-NAAAKILRVE----ERGVSKVHVEYL  180 (276)
Q Consensus       112 ~~~lTAAH-~tLP-----l~s~VrVTNl~nGrsvvVrVNDRGPf~~gRiIDLS-~~AA~~Lg~~----~~Gva~V~ve~l  180 (276)
                      .+.+||+- +.||     .|..++|||..||++|+|+|.|+.|--   -+||| ..|+.+|+..    ..|+..|..+.+
T Consensus        45 ~yg~tA~~gp~~~~gg~~CG~C~~Vt~~~~g~svtV~itD~Cp~~---hlDLS~~~AF~~ia~~g~g~~~G~i~V~y~~V  121 (125)
T 1bw3_A           45 KYGWTAFCGPAGPRGQAACGKCLRVTNPATGAQITARIVDQCANG---GLDLDWDTVFTKIDTNGIGYQQGHLNVNYQFV  121 (125)
T ss_dssp             HSCCEESCSTTCCCSGGGTTCEEEEEETTTTEEEEEEEEECCSSS---SCCSCSSSSHHHHCSSCHHHHHSEEEEEEEEE
T ss_pred             CCCEEECCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEEECCCCC---CCCCCCHHHHHHHCCCCCCCCCCEEEEEEEEE
T ss_conf             676245037655667756223599884699987999997569998---74557587998753257654387788789995


Q ss_pred             E
Q ss_conf             5
Q gi|254780935|r  181 G  181 (276)
Q Consensus       181 g  181 (276)
                      .
T Consensus       122 ~  122 (125)
T 1bw3_A          122 D  122 (125)
T ss_dssp             C
T ss_pred             C
T ss_conf             6


No 3  
>2hcz_X Beta-expansin 1A; domain 1 is A beta barrel and domain 2 is A immunoglobulin like beta-sandwich, allergen; HET: NAG MAN FCA; 2.75A {Zea mays}
Probab=97.41  E-value=0.0019  Score=39.26  Aligned_cols=97  Identities=24%  Similarity=0.201  Sum_probs=68.3

Q ss_pred             EEEEEEEECCCC-CCCC---CCCC--CEECC--CCCEEECC------CCCCCCEEEEEECC----CCCEEEEEECCCCCC
Q ss_conf             679988856841-6870---6588--72246--10102036------68998489999889----985799996688888
Q gi|254780935|r   88 AVGMASWYGKAF-HGRL---TANG--EVYGT--EYITAAHP------TLPLPSYVRVTNME----NGISLVVRVNDRGPY  149 (276)
Q Consensus        88 ~~G~ASwYg~~f-~G~~---TAnG--E~~~~--~~lTAAH~------tLPl~s~VrVTNl~----nGrsvvVrVNDRGPf  149 (276)
                      ..|.|+|||..- .|-.   -|.|  +.+..  ..++||..      ..-.|...+|++.+    .+++++|+|.|..|.
T Consensus        20 ~~~~aT~Yg~~~g~gt~~~~GaCgyg~l~~~~~~~~~aAls~~~f~~g~~CG~Cyev~c~~~~~c~~~~v~V~Vtd~c~~   99 (245)
T 2hcz_X           20 LTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVRCKEKPECSGNPVTVYITDMNYE   99 (245)
T ss_dssp             EEEEEEECSCTTSCSSTTSCCTTCCCCTTSTTTTTCEEEECHHHHGGGTSTTCEEEEECCSSSSBCSSCEEEEEEEECCC
T ss_pred             EEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECHHHCCCCCCCCCCEEEECCCCCCCCCCCEEEEEEECCCC
T ss_conf             41488896898888678877027888766578875788809889078887766879886899743699879999866789


Q ss_pred             CCC-EEEECCHHHHHHHCC-------CCCCEEEEEEEEEECCC
Q ss_conf             696-187758899987097-------32581899999985286
Q gi|254780935|r  150 HSN-RLIDLSNAAAKILRV-------EERGVSKVHVEYLGMAL  184 (276)
Q Consensus       150 ~~g-RiIDLS~~AA~~Lg~-------~~~Gva~V~ve~lg~a~  184 (276)
                      -.+ ..+|||..|+.+|.-       ...|+..|+.+.+.-..
T Consensus       100 ~~~~~hfDLs~~AF~~ia~~~~~~~~~~~G~v~i~yrrV~C~~  142 (245)
T 2hcz_X          100 PIAPYHFDLSGKAFGSLAKPGLNDKIRHCGIMDVEFRRVRCKY  142 (245)
T ss_dssp             TTSSSEEEECHHHHHHTBCTTCHHHHTTTCCEEEEEEEECCCC
T ss_pred             CCCCCCEECCHHHHHHHCCCCCCCHHHCCCEEEEEEEEEECCC
T ss_conf             9987444258779865215553211112865767778972344


No 4  
>1wc2_A Endoglucanase; hydrolase, cellulase, cellulose, double-PSI fold, glycoside hydrolase; 1.2A {Mytilus edulis} SCOP: b.52.1.1
Probab=97.37  E-value=0.00045  Score=43.08  Aligned_cols=95  Identities=15%  Similarity=0.186  Sum_probs=65.2

Q ss_pred             EEEEEEEEECCCCCCCCCCCCC-----EEC--CCCCEEECCC------------CCCCCEEEEE-----------ECCCC
Q ss_conf             4679988856841687065887-----224--6101020366------------8998489999-----------88998
Q gi|254780935|r   87 AAVGMASWYGKAFHGRLTANGE-----VYG--TEYITAAHPT------------LPLPSYVRVT-----------NMENG  136 (276)
Q Consensus        87 ~~~G~ASwYg~~f~G~~TAnGE-----~~~--~~~lTAAH~t------------LPl~s~VrVT-----------Nl~nG  136 (276)
                      .....|+||++...|. ---|.     .|.  ...+|||-.+            .-.|.-.+|+           ....|
T Consensus        14 ~~~A~~T~Yg~~~~GA-CGyg~~~~~~~~~~g~G~~tAA~S~~lf~~~~~~~~G~~CG~Cyev~C~~~~~~~~~~~~~~g   92 (181)
T 1wc2_A           14 KSCASTTNYHDSHKGA-CGCGPASGDAQFGWNAGSFVAAASQMYFDSGNKGWCGQHCGQCIKLTTTGGYVPGQGGPVREG   92 (181)
T ss_dssp             EEEEEEEEECCCBCTT-TTCSCSSSSBCCSSGGGSCEEEEEHHHHCTTCCSSSCTTTTCEEEEEEEEEECTTSCCCCCTT
T ss_pred             CCCCEEEEECCCCCCC-CCCCCCCCCCCCCCCCCCEEEECCHHHHCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCC
T ss_conf             4554056606999976-777647787654436642677538777556875434655666499997899877778877789


Q ss_pred             CEEEEEECCCCCCCC--------C------------EEEECCHHHHHHHCCCCCCEEEEEEEEEECC
Q ss_conf             579999668888869--------6------------1877588999870973258189999998528
Q gi|254780935|r  137 ISLVVRVNDRGPYHS--------N------------RLIDLSNAAAKILRVEERGVSKVHVEYLGMA  183 (276)
Q Consensus       137 rsvvVrVNDRGPf~~--------g------------RiIDLS~~AA~~Lg~~~~Gva~V~ve~lg~a  183 (276)
                      +||+|+|+|..|-..        .            ..+|||. |+.+|.-.+.|+..|..+.+.-.
T Consensus        93 ~sV~VtiTd~CP~~~~n~~WCn~p~~~~~~n~~G~~~HFDLs~-af~~Ia~~~~G~v~V~yrrV~C~  158 (181)
T 1wc2_A           93 LSKTFMITNLCPNIYPNQDWCNQGSQYGGHNKYGYELHLDLEN-GRSQVTGMGWNNPETTWEVVNCD  158 (181)
T ss_dssp             CEEEEEEEEEECSSTTSTTTSCCSSSSSCCCTTSCSEEEEEEC-TTSTTGGGTCSSEEEEEEEECHH
T ss_pred             CCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCH-HHHHHHHCCCCCEEEEEEEECCC
T ss_conf             8389999745888789887448975455555778731252408-99987410389236689995589


No 5  
>1n10_A PHL P I, pollen allergen PHL P 1; plant allergen, expansin, immunoglobulin-like fold, double-PSI beta barrel, structural genomics; HET: NAG; 2.90A {Phleum pratense} SCOP: b.7.3.1 b.52.1.3
Probab=96.16  E-value=0.041  Score=31.06  Aligned_cols=96  Identities=20%  Similarity=0.223  Sum_probs=64.5

Q ss_pred             EEEEEEEECCCCC-CCCC---CCC--CEECC--CCCEEECC------CCCCCCEEEEEECCC----CCEEEEEECCCCCC
Q ss_conf             6799888568416-8706---588--72246--10102036------689984899998899----85799996688888
Q gi|254780935|r   88 AVGMASWYGKAFH-GRLT---ANG--EVYGT--EYITAAHP------TLPLPSYVRVTNMEN----GISLVVRVNDRGPY  149 (276)
Q Consensus        88 ~~G~ASwYg~~f~-G~~T---AnG--E~~~~--~~lTAAH~------tLPl~s~VrVTNl~n----GrsvvVrVNDRGPf  149 (276)
                      ..|.|+|||..-. |-.+   |.|  +.+..  ..++||-.      ..-.|.-.+|+..+.    +.+++|+|.|..|.
T Consensus        20 ~~a~aT~Yg~~~g~gt~~~gGaCgyg~l~~~p~g~~~aAls~~~f~~g~~CG~Cyev~c~~~~~c~~~~vtV~vtd~c~~   99 (241)
T 1n10_A           20 LDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFKSGRGCGSCFEIKCTKPEACSGEPVVVHITDDNEE   99 (241)
T ss_dssp             EEEEEEEEC----------CCTTCCCCTTSTTTTTCEEEECHHHHGGGTTSSCEEEEEECSSTTBCSCCEEEEEEEECSS
T ss_pred             EEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCHHHHCCCCCCCCCEEEECCCCCCCCCCCEEEEEEECCCC
T ss_conf             56788797998888777886037878656578875788729889376521568648677999864699749999867898


Q ss_pred             C-CCEEEECCHHHHHHHCC-------CCCCEEEEEEEEEECC
Q ss_conf             6-96187758899987097-------3258189999998528
Q gi|254780935|r  150 H-SNRLIDLSNAAAKILRV-------EERGVSKVHVEYLGMA  183 (276)
Q Consensus       150 ~-~gRiIDLS~~AA~~Lg~-------~~~Gva~V~ve~lg~a  183 (276)
                      - ...-+|||..|+.++.-       .+.|+..|+.+.+.-.
T Consensus       100 ~~~~~~~dls~~aF~~~a~~~~~~~~~~~Giv~V~yrrV~C~  141 (241)
T 1n10_A          100 PIAPYHFDLSGHAFGAMAKKGDEQKLRSAGELELQFRRVKCK  141 (241)
T ss_dssp             CSSSSEEEEEHHHHHTTBSTTCHHHHHTTCSEEEEEEECCCC
T ss_pred             CCCCCCCCCCHHHHHHHCCCHHHHHHCCCCEEEEEEEEEECC
T ss_conf             767755567677887532110111101486575578997447


No 6  
>3omb_A Extracellular solute-binding protein, family 1; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG; 2.10A {Bifidobacterium longum subsp}
Probab=54.81  E-value=2.4  Score=20.22  Aligned_cols=29  Identities=17%  Similarity=0.061  Sum_probs=19.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             94312666899999999999853135877
Q gi|254780935|r    1 MKRFSCDCLLKGSVVCVVVLGMSSCFFSS   29 (276)
Q Consensus         1 ~~~~~~~~llk~si~~i~~l~lssCs~~~   29 (276)
                      |||..+..+.-+.++++++.+|++|+.+.
T Consensus         2 Mkrr~~~~~~a~~~~~~~~~~LaaCg~~~   30 (535)
T 3omb_A            2 MRRQTMVKAGAVACAVALLGSLSACGGSK   30 (535)
T ss_dssp             -----------------------------
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             77779999999999999999997008999


No 7  
>2pn0_A Prokaryotic transcription elongation factor GREA/GREB; structural genomics, APC6349, PSI-2, protein structure initiative; HET: MSE; 1.70A {Nitrosomonas europaea}
Probab=35.83  E-value=18  Score=14.81  Aligned_cols=78  Identities=18%  Similarity=0.224  Sum_probs=51.9

Q ss_pred             CCCCCEECCCCCEEECCCCCCCCEEEEEECCCCCEEEEEE---CCCCCCCCCEEEECCHHHHHHHCCCCC---------C
Q ss_conf             6588722461010203668998489999889985799996---688888696187758899987097325---------8
Q gi|254780935|r  104 TANGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRV---NDRGPYHSNRLIDLSNAAAKILRVEER---------G  171 (276)
Q Consensus       104 TAnGE~~~~~~lTAAH~tLPl~s~VrVTNl~nGrsvvVrV---NDRGPf~~gRiIDLS~~AA~~Lg~~~~---------G  171 (276)
                      -++-++.+...+.  .-..-|||.|.+.++++|+...+++   .+.. ...++|=-+|+-++-.||...-         |
T Consensus        41 L~~A~Iv~~~~~~--~~~V~~Gs~V~~~~~~~~~~~~~~iV~~~ead-~~~~~IS~~SPlG~ALlG~~~Gd~v~v~~P~G  117 (141)
T 2pn0_A           41 LARAEVVDPEEIP--PTVVTMNSTVRFRVESSAEEFCLTLVYPKDVD-TSGEKISILAPVGSALLGLAQGDEIEWPKPGG  117 (141)
T ss_dssp             HHTCEEECGGGSC--TTBCCTTCEEEEEETTTCCEEEEEEECGGGCC-SSSCEEETTSTTHHHHTTCBTTCEEEEECTTS
T ss_pred             HCCCEEECCCCCC--CCEEEECCEEEEEECCCCCEEEEEEECHHHCC-CCCCEEECCCHHHHHHHCCCCCCEEEEECCCC
T ss_conf             7587998975589--99898587999997688338999996925706-76885632799999972899999999987999


Q ss_pred             -EEEEEEEEEECCC
Q ss_conf             -1899999985286
Q gi|254780935|r  172 -VSKVHVEYLGMAL  184 (276)
Q Consensus       172 -va~V~ve~lg~a~  184 (276)
                       ..+++|.-+-..|
T Consensus       118 ~~~~~~I~~I~yqP  131 (141)
T 2pn0_A          118 GVLRVRIVEVTYQP  131 (141)
T ss_dssp             SEEEEEEEEEEC--
T ss_pred             CEEEEEEEEEEECC
T ss_conf             88999999998688


No 8  
>3frn_A Flagellar protein FLGA; structural genomics, periplasmic, PSI-2, protein structure initiative; 2.05A {Thermotoga maritima}
Probab=29.37  E-value=24  Score=14.15  Aligned_cols=34  Identities=24%  Similarity=0.244  Sum_probs=18.5

Q ss_pred             CCCCEEEEEECCCCCEEEEEECCCCCCCCCEEEECCH
Q ss_conf             9984899998899857999966888886961877588
Q gi|254780935|r  123 PLPSYVRVTNMENGISLVVRVNDRGPYHSNRLIDLSN  159 (276)
Q Consensus       123 Pl~s~VrVTNl~nGrsvvVrVNDRGPf~~gRiIDLS~  159 (276)
                      -+|-.|+|.|++.||.+..+|.+-|-   -|||++..
T Consensus       238 ~~Gd~I~V~N~~S~k~i~g~V~~~g~---V~Vi~~~~  271 (278)
T 3frn_A          238 YLGETVRAMNVESRKYVFGRVERGPV---LRILEVVE  271 (278)
T ss_dssp             CTTCEEEEEC--CCCEEEEEEETTTE---EEECC---
T ss_pred             CCCCEEEEEECCCCCEEEEEEECCCE---EEEEEECC
T ss_conf             98988999988999989999956996---99999446


No 9  
>2k5h_A Conserved protein; structure, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Methanothermobacterthermautotrophicus str}
Probab=27.15  E-value=26  Score=13.91  Aligned_cols=44  Identities=18%  Similarity=0.268  Sum_probs=32.1

Q ss_pred             CCCCCCCCCCEECCCCCEEECCCCCCCCEEEEEECCCCCEEEEEECCC
Q ss_conf             168706588722461010203668998489999889985799996688
Q gi|254780935|r   99 FHGRLTANGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRVNDR  146 (276)
Q Consensus        99 f~G~~TAnGE~~~~~~lTAAH~tLPl~s~VrVTNl~nGrsvvVrVNDR  146 (276)
                      ..|+.--+||.++...    -..++-|+.|+|+..+...-+|-++.+.
T Consensus        55 ~~G~V~v~Ge~W~A~s----~~~I~~G~~V~V~~ieG~~L~V~pi~e~   98 (101)
T 2k5h_A           55 NSGLVKVDGETWRATS----GTVLDVGEEVSVKAIEGVKLVVEKLEEQ   98 (101)
T ss_dssp             SCEEEEETTEEEEEEC----SSCBCTTCEEEEEEECSSSEEEEECCCC
T ss_pred             CEEEEEECCEEEEEEE----CCCCCCCCEEEEEEEECCEEEEEECCCC
T ss_conf             8699999998999996----9966999999999989999999998746


No 10 
>3gqj_A Cell inhibiting factor (CIF); protease-like, unknown function; 1.85A {Photorhabdus luminescens subsp}
Probab=26.98  E-value=9.2  Score=16.67  Aligned_cols=30  Identities=30%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             EEEECCCCCEEEEEECCCCCCCCCEEEECCH
Q ss_conf             9998899857999966888886961877588
Q gi|254780935|r  129 RVTNMENGISLVVRVNDRGPYHSNRLIDLSN  159 (276)
Q Consensus       129 rVTNl~nGrsvvVrVNDRGPf~~gRiIDLS~  159 (276)
                      +|-+|..-+.-|+||||++- -+--+||+-.
T Consensus       113 ~l~~L~s~KnyV~~VNDgrL-GH~fliDiP~  142 (261)
T 3gqj_A          113 SVDQLSSAKNYVALVNDRRL-GHMFLIDIPS  142 (261)
T ss_dssp             HHTTCCTTSEEEEEEEETTT-TEEEEEEECC
T ss_pred             HHHCCCCCCCEEEEECCCCC-CEEEEEECCC
T ss_conf             98434001267999737875-3138986578


No 11 
>3efy_A CIF (cell cycle inhibiting factor); bacteria, virulence factor, type III secretion, E. coli, plasmid; 1.70A {Escherichia coli}
Probab=26.89  E-value=25  Score=14.03  Aligned_cols=29  Identities=31%  Similarity=0.462  Sum_probs=20.9

Q ss_pred             EEEECCCCCEEEEEECCCCCCCCCEEEECC
Q ss_conf             999889985799996688888696187758
Q gi|254780935|r  129 RVTNMENGISLVVRVNDRGPYHSNRLIDLS  158 (276)
Q Consensus       129 rVTNl~nGrsvvVrVNDRGPf~~gRiIDLS  158 (276)
                      +|-+|..-+.-|+||||++- -.--+||+-
T Consensus        45 ~l~~L~s~knyV~~VNDgrL-GH~flIDiP   73 (195)
T 3efy_A           45 RLSCMPECKSFVLRVNDGAL-GHAYIVDIP   73 (195)
T ss_dssp             HHHTCCTTSEEEEEEEETTT-TEEEEEEEC
T ss_pred             HHHCCCCCCCEEEEECCCCC-CEEEEEECC
T ss_conf             98524010467999837874-314898667


No 12 
>3bmb_A Regulator of nucleoside diphosphate kinase; RNA polymerase, elongation factor, anti-GRE factor, RNA binding protein; 1.91A {Escherichia coli}
Probab=23.42  E-value=30  Score=13.48  Aligned_cols=77  Identities=18%  Similarity=0.231  Sum_probs=51.0

Q ss_pred             CCCEECCCCCEEECCCCCCCCEEEEEECCCCCEEEEEECC--CCCCCCCEEEECCHHHHHHHCCCCC---------CE-E
Q ss_conf             8872246101020366899848999988998579999668--8888696187758899987097325---------81-8
Q gi|254780935|r  106 NGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRVND--RGPYHSNRLIDLSNAAAKILRVEER---------GV-S  173 (276)
Q Consensus       106 nGE~~~~~~lTAAH~tLPl~s~VrVTNl~nGrsvvVrVND--RGPf~~gRiIDLS~~AA~~Lg~~~~---------Gv-a  173 (276)
                      +-++.+...+  ..-..-|||.|++.++++|....+++.-  ..-...++|=-+|+-++..||...-         |. .
T Consensus        40 ~A~Iv~~~~~--~~~~V~~Gs~V~~~~~~~~~~~~~~lV~~~ead~~~~~IS~~SPlG~ALlG~~~Gd~v~~~~p~G~~~  117 (136)
T 3bmb_A           40 RAQMCSPEEM--PHDVVTMNSRVKFRNLSDGEVRVRTLVYPAKMTDSNTQLSVMAPVGAALLGLRVGDSIHWELPGGVAT  117 (136)
T ss_dssp             TCEEECGGGC--CTTBCCTTCEEEEEETTTCCEEEEEEECGGGCCCTTTEEETTSHHHHHHTTCBTTCEEEEEETTTEEE
T ss_pred             CCEEECCCCC--CCCEEEECCEEEEEECCCCCEEEEEEECHHHHCCCCCEEEECCHHHHHHHCCCCCCEEEEECCCCCEE
T ss_conf             7899896448--99989848799999888997799999895781466626886199999972998899999998999889


Q ss_pred             EEEEEEEECCC
Q ss_conf             99999985286
Q gi|254780935|r  174 KVHVEYLGMAL  184 (276)
Q Consensus       174 ~V~ve~lg~a~  184 (276)
                      +++|.-+-+.|
T Consensus       118 ~~~I~~I~yqp  128 (136)
T 3bmb_A          118 HLEVLELEYQP  128 (136)
T ss_dssp             EEEEEEEEECT
T ss_pred             EEEEEEEEECC
T ss_conf             99999998689


No 13 
>2djm_A Glucoamylase A; beta sandwich, anti-parallel, strach binding, carbohydrate binding, sugar binding protein; NMR {Rhizopus oryzae} PDB: 2v8l_A* 2v8m_A* 2vq4_A
Probab=21.07  E-value=34  Score=13.19  Aligned_cols=18  Identities=17%  Similarity=0.146  Sum_probs=10.4

Q ss_pred             EEEEEECCCCCEEEEEEC
Q ss_conf             899998899857999966
Q gi|254780935|r  127 YVRVTNMENGISLVVRVN  144 (276)
Q Consensus       127 ~VrVTNl~nGrsvvVrVN  144 (276)
                      .|+|.||.=-|.|.||..
T Consensus        24 tV~V~NlafeK~V~VRyT   41 (106)
T 2djm_A           24 KIYVKNIAYSKKVTVVYA   41 (106)
T ss_dssp             EEEECCSSSCEEEEEEEE
T ss_pred             EEEEEECCCCEEEEEEEE
T ss_conf             999994787238999991


No 14 
>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G
Probab=20.19  E-value=35  Score=13.08  Aligned_cols=40  Identities=38%  Similarity=0.547  Sum_probs=25.1

Q ss_pred             CCCCCEEEEEECCCCCCCC--CEEEECCHHHHHHHCCCCCCEEEEEEEEEECCC
Q ss_conf             8998579999668888869--618775889998709732581899999985286
Q gi|254780935|r  133 MENGISLVVRVNDRGPYHS--NRLIDLSNAAAKILRVEERGVSKVHVEYLGMAL  184 (276)
Q Consensus       133 l~nGrsvvVrVNDRGPf~~--gRiIDLS~~AA~~Lg~~~~Gva~V~ve~lg~a~  184 (276)
                      +.-|..  |+|+| |||.+  |.|..+.         .+++-+.|.|+.+|+.-
T Consensus       128 ~~~Gd~--V~I~~-GPf~g~~g~v~~v~---------~~k~r~~V~l~i~Gr~~  169 (181)
T 2jvv_A          128 FEPGEM--VRVND-GPFADFNGVVEEVD---------YEKSRLKVSVSIFGRAT  169 (181)
T ss_dssp             CCTTEE--EEECS-STTTTEEEEEEEEE---------TTTTEEEEEEEETTEEE
T ss_pred             CCCCCE--EEEEC-CCCCCCEEEEEEEE---------CCCCEEEEEEEECCCCE
T ss_conf             007988--99913-68999689999980---------77899999999679956


Done!