Query         gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD family protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 188
No_of_seqs    115 out of 1553
Neff          7.7 
Searched_HMMs 33803
Date          Wed Jun  1 12:44:53 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780417.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2eyq_A TRCF, transcription-re  99.5   3E-14 8.9E-19  111.5   6.1   66   10-76     17-82  (85)
  2 >1dq3_A Endonuclease; PI-PFUI,  63.5     7.3 0.00022   19.0   3.2   48   11-59    115-162 (172)
  3 >2vv5_A MSCS, small-conductanc  63.5      10 0.00031   18.0   4.7   41   11-61     17-57  (71)
  4 >1vbv_A Hypothetical protein B  60.4      12 0.00035   17.6   5.7   78   11-88      3-97  (105)
  5 >2wvr_C DNA replication factor  49.3     4.1 0.00012   20.6   0.0   57   66-122   483-539 (546)
  6 >2rnz_A Histone acetyltransfer  48.2      18 0.00054   16.4   3.5   58    7-64     19-77  (94)
  7 >1we3_O CPN10(groes); chaperon  40.1      22 0.00064   15.9   2.5   20   12-31     62-81  (100)
  8 >1vq8_Q 50S ribosomal protein   38.8      21 0.00062   16.0   2.3   12   10-21     30-41  (96)
  9 >2cp6_A Restin; microtubule bi  37.1      27  0.0008   15.3   3.5   58    8-68     33-109 (172)
 10 >1vl2_A Argininosuccinate synt  32.6      17  0.0005   16.6   1.0   24   24-47     87-110 (202)
 11 >1xne_A Hypothetical protein P  32.1      33 0.00097   14.8   3.4   29    7-35     28-56  (113)
 12 >1kor_A Argininosuccinate synt  29.0      19 0.00056   16.3   0.7   25   23-47     82-106 (199)
 13 >1k92_A Argininosuccinate synt  28.3      11 0.00032   17.9  -0.6   14   25-38     87-100 (203)
 14 >1qor_A Quinone oxidoreductase  26.3      29 0.00086   15.1   1.3   15   20-34     59-73  (195)
 15 >2ro0_A Histone acetyltransfer  24.2      45  0.0013   13.9   3.4   54   10-64     20-75  (92)
 16 >1khc_A DNA cytosine-5 methylt  23.7      43  0.0013   14.0   1.8   55    9-63      7-65  (147)
 17 >1zsy_A Mitochondrial 2-enoyl   23.5      36  0.0011   14.5   1.3   64   15-78     81-145 (202)
 18 >1t9h_A YLOQ, probable GTPase   23.2      46  0.0014   13.8   1.8   19   15-33     52-72  (75)
 19 >2wjn_H Reaction center protei  23.1      47  0.0014   13.8   6.4   77   17-95     41-119 (146)
 20 >1pcq_O Groes protein; chapero  22.4      47  0.0014   13.8   1.8   21   13-33     58-78  (97)
 21 >2dig_A Lamin-B receptor; tudo  21.4      51  0.0015   13.5   3.9   52    9-62      8-59  (68)
 22 >2dq4_A L-threonine 3-dehydrog  20.8      42  0.0012   14.1   1.2   68   11-81     76-157 (172)
 23 >3c2q_A Uncharacterized conser  20.2      54  0.0016   13.4   2.1   19   12-30     69-87  (100)

No 1  
>>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} (A:460-544)
Probab=99.50  E-value=3e-14  Score=111.49  Aligned_cols=66  Identities=21%  Similarity=0.321  Sum_probs=58.9

Q ss_pred             HHHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCCCCCEEEEECCCHHHCCCCCCCCCH
Q ss_conf             4531389986974878509997678986487302530220248885699805201210454334410
Q gi|254780417|r   10 MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH   76 (188)
Q Consensus        10 ~~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv~~~~~~~~R~~~~~~   76 (188)
                      ...+|++||+|||++||||+|.||++++++|..++||+|+|. +++++|||+++.+.+..+...+..
T Consensus        17 d~~~l~~GD~VVh~~hGig~~~gi~~~~~~g~~~ey~~l~y~-~~~~l~VPv~~~~~i~ry~~~~~~   82 (85)
T 2eyq_A           17 NLAELHIGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYA-NDAKLYVPVSSLHLISRYAGGAEE   82 (85)
T ss_dssp             TCTTCCTTCEEEETTTEEEEEEEEEEEESSSCEEEEEEEECG-GGCEEEEEGGGGGGEEECCCSCSS
T ss_pred             CHHHCCCCCEEEEECCCHHHHCCEEEEECCCCCCCCEEEEEC-CCCEEEECHHHHHHHHHHHCCCCC
T ss_conf             043246774686601230101030553026776763035642-796498348999888875024667


No 2  
>>1dq3_A Endonuclease; PI-PFUI, intein-encoded, hydrolase; 2.10A {Pyrococcus furiosus} (A:1-132,A:415-454)
Probab=63.53  E-value=7.3  Score=18.97  Aligned_cols=48  Identities=4%  Similarity=0.106  Sum_probs=22.9

Q ss_pred             HHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCCCCCEEEE
Q ss_conf             5313899869748785099976789864873025302202488856998
Q gi|254780417|r   11 RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKV   59 (188)
Q Consensus        11 ~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~v   59 (188)
                      ....++||+|+-+..+--.+.+|........+..+|.|.. .++.+.++
T Consensus       115 A~eL~~GD~I~v~~~~~v~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  162 (172)
T 1dq3_A          115 ADELKEGDILIGGMPDGEGLEVVRHITTTNEPRTFYDLTV-ENYQNYLA  162 (172)
T ss_dssp             TTTCCTTCEECBCCCCCCHCEEEEEEEEECSCEEEEEEEE-TTTCEEEE
T ss_pred             HHHCCCCCEEEECCCCCCEEEEEEEEEEECCCCCEEEEEE-CCCCCEEE
T ss_conf             8995877588642788757999999999768994698585-69876896


No 3  
>>2vv5_A MSCS, small-conductance mechanosensitive channel; ION transport, transmembrane, inner membrane, membrane structure, membrane protein, membrane; 3.45A {Escherichia coli} (A:111-181)
Probab=63.50  E-value=10  Score=18.00  Aligned_cols=41  Identities=20%  Similarity=0.232  Sum_probs=29.4

Q ss_pred             HHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCCCCCEEEEEC
Q ss_conf             531389986974878509997678986487302530220248885699805
Q gi|254780417|r   11 RQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPV   61 (188)
Q Consensus        11 ~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv   61 (188)
                      .+.|++||+|.-+++ .|+|++|.-        -+-.|+- .++..+.+|-
T Consensus        17 ~~~~~vGD~I~i~~~-~G~V~~i~l--------~~t~l~~-~dg~~v~iPN   57 (71)
T 2vv5_A           17 FRPFRAGEYVDLGGV-AGTVLSVQI--------FSTTMRT-ADGKIIVIPN   57 (71)
T ss_dssp             TCSSCTTCEEESSSC-EEEEEEECS--------SEEEEEC-TTSCEEEEEH
T ss_pred             HCCCCCCCEEEEECC-EEEEEEEEE--------EEEEEEC-CCCCEEEEEE
T ss_conf             056456658997044-278999102--------3676335-8993999980


No 4  
>>1vbv_A Hypothetical protein B0966; protein degradation, structural genomics, unknown function; 2.70A {Escherichia coli} (A:)
Probab=60.41  E-value=12  Score=17.65  Aligned_cols=78  Identities=10%  Similarity=0.147  Sum_probs=47.5

Q ss_pred             HHHCCCCCEEECCCCC-CEEEEEEEEEEE-------------CCCCHHHEEEECCCCCCE---EEEECCCHHHCCCCCCC
Q ss_conf             5313899869748785-099976789864-------------873025302202488856---99805201210454334
Q gi|254780417|r   11 RQGFRTGEHIVYPAHG-VGTITEIKEQEV-------------AGMKLEFFVIAFDKDKMC---LKVPVGKAIDIGMRKLS   73 (188)
Q Consensus        11 ~~~FkvGD~VVy~~~G-Vg~i~~I~~~~i-------------~g~~~eyy~L~~~~~~~~---l~vPv~~~~~~~~R~~~   73 (188)
                      .-.|.+|+.|-|-.+| .|.|.|+....-             .+..+-||.+-....+..   .||+-.+.....-...+
T Consensus         3 ~~kf~iGqvvrHr~~gYrGVI~gwDp~~~~~eew~~~~~~~~~~k~qPfY~vLv~~~~~~~~~~YVaeenL~~~~~~~~i   82 (105)
T 1vbv_A            3 ASKFGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVNDELRAAPWYHVVMEDDNGLPVHTYLAEAQLSSELQDEHP   82 (105)
T ss_dssp             CCSSCTTCEEEETTTCCEEEEEEEECC------------------CCCEEEEEEECSSCCEEEEEEEGGGEEECCCSCCT
T ss_pred             CCEECCCCEEEEEECCCCEEEEEEEEEEECCHHHHHHCCCCCCCCCCCEEEEEEECCCCCEEEEEECHHHCCCCCCCCCC
T ss_conf             32513776899845186889972578982881898855235777789705899984898656888565557656679988


Q ss_pred             CCHHHHHHHHHCCCC
Q ss_conf             410246789850786
Q gi|254780417|r   74 EAHFVERALKLVRGK   88 (188)
Q Consensus        74 ~~~e~~~l~~~l~~~   88 (188)
                      ....+.+++....+.
T Consensus        83 ~hp~~~~~F~~f~~~   97 (105)
T 1vbv_A           83 EQPSMDELAQTIRKQ   97 (105)
T ss_dssp             TCHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHCC
T ss_conf             998989997665377


No 5  
>>2wvr_C DNA replication factor CDT1; DNA replication license, DNA replication inhibitor, phosphoprotein, UBL conjugation, DNA-binding, polymorphism; HET: DNA; 3.30A {Homo sapiens} PDB: 2klo_A* (C:)
Probab=49.26  E-value=4.1  Score=20.58  Aligned_cols=57  Identities=14%  Similarity=0.033  Sum_probs=41.8

Q ss_pred             HCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             104543344102467898507866446655038999999985168999999999999
Q gi|254780417|r   66 DIGMRKLSEAHFVERALKLVRGKARVKRTMWSRRAQEYDAKINSGDLIAIAEVVRDL  122 (188)
Q Consensus        66 ~~~~R~~~~~~e~~~l~~~l~~~~~~~~~~~~~R~~~~~~~lksgd~~~~a~vik~L  122 (188)
                      ....|..++.+|+++.+++|.++..+|...-..+..++..+-+..|+..+.+.|..+
T Consensus       483 ~~s~~~~~~~~e~~~~l~~l~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  539 (546)
T 2wvr_C          483 VGSCCTIMSPGEMEKHLLLLSELLPDWLSLHRIRTDTYVKLDKAADLAHITARLAHQ  539 (546)
T ss_dssp             ---------------------------------------------------------
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCEEEEEECCCCHHHHHHHHHHH
T ss_conf             985457699999999999999868720699862794589960217999999999999


No 6  
>>2rnz_A Histone acetyltransferase ESA1; HAT, chromodomain, tudor domain, RNA binding, activator, chromatin regulator, transcription; NMR {Saccharomyces cerevisiae} (A:)
Probab=48.19  E-value=18  Score=16.39  Aligned_cols=58  Identities=7%  Similarity=0.032  Sum_probs=41.6

Q ss_pred             CHHHHHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECC-CCCCEEEEECCCH
Q ss_conf             533453138998697487850999767898648730253022024-8885699805201
Q gi|254780417|r    7 RDAMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFD-KDKMCLKVPVGKA   64 (188)
Q Consensus         7 ~~~~~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~-~~~~~l~vPv~~~   64 (188)
                      .+.....|.+|+.|.--.+|--.-..|......+...+||+=..- ....-=.||.+.+
T Consensus        19 ~~~~~~~~~vG~~v~~~~~~~~y~A~Il~~~~~~~~~~yyVHY~g~n~R~DeWV~~~ri   77 (94)
T 2rnz_A           19 SHMSVDDIIIKCQCWVQKNDEERLAEILSINTRKAPPKFYVHYVNYNKRLDEWITTDRI   77 (94)
T ss_dssp             CSSCGGGCCTTEEEEEECSSCEEEEEEEEEECSSSSCEEEEECTTSCSTTCEEEETTTB
T ss_pred             CEEECCCEEEEEEEEEECCCCEEEEEEEEEEECCCCCEEEEEECCCCCCCCCCCCHHHC
T ss_conf             60642344863499997199782668999997599868999807867554301176571


No 7  
>>1we3_O CPN10(groes); chaperonin, chaperone, groel, HSP60, HSP10, folding, ADP, ATP; HET: ADP; 2.80A {Thermus thermophilus} (O:)
Probab=40.14  E-value=22  Score=15.95  Aligned_cols=20  Identities=20%  Similarity=0.380  Sum_probs=16.2

Q ss_pred             HHCCCCCEEECCCCCCEEEE
Q ss_conf             31389986974878509997
Q gi|254780417|r   12 QGFRTGEHIVYPAHGVGTIT   31 (188)
Q Consensus        12 ~~FkvGD~VVy~~~GVg~i~   31 (188)
                      -..++||.|+|+.++-..|.
T Consensus        62 ~~vk~GD~Vlf~~~~g~ev~   81 (100)
T 1we3_O           62 LEVKEGDIVVFAKYGGTEIE   81 (100)
T ss_dssp             CSCCTTCEEEECTTCSEEEE
T ss_pred             CEEEECCEEEECCCCCCEEE
T ss_conf             78874889998467872999


No 8  
>>1vq8_Q 50S ribosomal protein L21E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} (Q:)
Probab=38.76  E-value=21  Score=16.00  Aligned_cols=12  Identities=25%  Similarity=0.468  Sum_probs=9.5

Q ss_pred             HHHHCCCCCEEE
Q ss_conf             453138998697
Q gi|254780417|r   10 MRQGFRTGEHIV   21 (188)
Q Consensus        10 ~~~~FkvGD~VV   21 (188)
                      -.+.|++||+|.
T Consensus        30 ~l~~fk~GD~Vd   41 (96)
T 1vq8_Q           30 AVEEFDDGEKVH   41 (96)
T ss_dssp             HHCCCCTTCEEE
T ss_pred             HEEECCCCCEEE
T ss_conf             226603898999


No 9  
>>2cp6_A Restin; microtubule binding, cytoskeleton associated protein, structural genomics, NPPSFA; NMR {Homo sapiens} (A:)
Probab=37.10  E-value=27  Score=15.30  Aligned_cols=58  Identities=22%  Similarity=0.393  Sum_probs=34.1

Q ss_pred             HHHHHHCCCCCEEECCCCCCEEEEEEEEEEEC-------------CCC------HHHEEEECCCCCCEEEEECCCHHHCC
Q ss_conf             33453138998697487850999767898648-------------730------25302202488856998052012104
Q gi|254780417|r    8 DAMRQGFRTGEHIVYPAHGVGTITEIKEQEVA-------------GMK------LEFFVIAFDKDKMCLKVPVGKAIDIG   68 (188)
Q Consensus         8 ~~~~~~FkvGD~VVy~~~GVg~i~~I~~~~i~-------------g~~------~eyy~L~~~~~~~~l~vPv~~~~~~~   68 (188)
                      +.....|++||.|.-.....|.|.=|....+.             |+.      ..|+...   .+..+++|+.+...+.
T Consensus        33 ~~~~~~l~vGdrV~v~~~~~G~vrfiG~~~~~~G~w~GVELd~p~GKndGsv~G~~YF~c~---~~~GiFv~~~~~~~~~  109 (172)
T 2cp6_A           33 KKGERELKIGDRVLVGGTKAGVVRFLGETDFAKGEWCGVELDEPLGKNDGAVAGTRYFQCQ---PKYGLFAPVHKVTKIG  109 (172)
T ss_dssp             CCCSSCCCSSCEEEETTTEEEEEEEEEECSSSSSEEEEEEESSSCCSBSSEETTEECCCCC---TTTEEEEEGGGCEECC
T ss_pred             HCCCCCCEECCEEEECCCCEEEEEEEECCCCCCCCEEEEEECCCCCCCCCEECCEEEEECC---CCCEEEECHHHCEECC
T ss_conf             0268786158989989997499998503699888789889478887779878999876549---9935884578867767


No 10 
>>1vl2_A Argininosuccinate synthase; TM1780, structural genomics, JCSG, protein structure initiative, PSI, joint center for structural genomics; 1.65A {Thermotoga maritima} (A:184-385)
Probab=32.59  E-value=17  Score=16.62  Aligned_cols=24  Identities=13%  Similarity=0.264  Sum_probs=14.1

Q ss_pred             CCCCEEEEEEEEEEECCCCHHHEE
Q ss_conf             785099976789864873025302
Q gi|254780417|r   24 AHGVGTITEIKEQEVAGMKLEFFV   47 (188)
Q Consensus        24 ~~GVg~i~~I~~~~i~g~~~eyy~   47 (188)
                      .||||++.-++++-++=+.++.|.
T Consensus        87 ~~GiGr~d~vEnr~vG~KsR~vYE  110 (202)
T 1vl2_A           87 KNGVGRLDMVENRFIGIKSRGVYE  110 (202)
T ss_dssp             HTTCCEEEEEEECSSSSEEEEEEE
T ss_pred             HHCCCCCCEECCCCCCCCCCCEEC
T ss_conf             855775210155530122444122


No 11 
>>1xne_A Hypothetical protein PF0469; GFT structural genomics, protein structure initiative, PSI, NESG, PFR14, alpha and beta protein; NMR {Pyrococcus furiosus dsm 3638} (A:)
Probab=32.12  E-value=33  Score=14.79  Aligned_cols=29  Identities=14%  Similarity=0.302  Sum_probs=23.8

Q ss_pred             CHHHHHHCCCCCEEECCCCCCEEEEEEEE
Q ss_conf             53345313899869748785099976789
Q gi|254780417|r    7 RDAMRQGFRTGEHIVYPAHGVGTITEIKE   35 (188)
Q Consensus         7 ~~~~~~~FkvGD~VVy~~~GVg~i~~I~~   35 (188)
                      .....+.+++||.|+.-+.=.++|.+|..
T Consensus        28 ~d~kr~~ik~GD~I~F~~~l~v~V~~i~~   56 (113)
T 1xne_A           28 AYPQLKDIKRGDKIIFNDLIPAEVVEVKK   56 (113)
T ss_dssp             CTTTTTTCCTTCEEEETTTEEEEEEEEEE
T ss_pred             CCHHHHHCCCCCEEEEECCEEEEEEEEEE
T ss_conf             52678618999999993018999989998


No 12 
>>1kor_A Argininosuccinate synthetase; ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: ANP ARG; 1.95A {Thermus thermophilus} (A:166-364)
Probab=29.01  E-value=19  Score=16.33  Aligned_cols=25  Identities=20%  Similarity=0.305  Sum_probs=16.3

Q ss_pred             CCCCCEEEEEEEEEEECCCCHHHEE
Q ss_conf             8785099976789864873025302
Q gi|254780417|r   23 PAHGVGTITEIKEQEVAGMKLEFFV   47 (188)
Q Consensus        23 ~~~GVg~i~~I~~~~i~g~~~eyy~   47 (188)
                      +.||||++..++++-++=+.++.|.
T Consensus        82 g~~GiGr~d~vEnr~iG~KsR~vYE  106 (199)
T 1kor_A           82 GRHGVGRVDIVENRFVGMKSRGVYE  106 (199)
T ss_dssp             HHTTCCEEEEEEECTTSCEEEEEEE
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCEEC
T ss_conf             3402254330054322401064313


No 13 
>>1k92_A Argininosuccinate synthase, argininosuccinate; N-type ATP pyrophosphatase, ligase; 1.60A {Escherichia coli} (A:184-386)
Probab=28.31  E-value=11  Score=17.86  Aligned_cols=14  Identities=29%  Similarity=0.674  Sum_probs=5.0

Q ss_pred             CCCEEEEEEEEEEE
Q ss_conf             85099976789864
Q gi|254780417|r   25 HGVGTITEIKEQEV   38 (188)
Q Consensus        25 ~GVg~i~~I~~~~i   38 (188)
                      ||||++.-++++-+
T Consensus        87 ~GvGr~d~vEnr~v  100 (203)
T 1k92_A           87 HGLGMSDQIENRII  100 (203)
T ss_dssp             TTTTCEEEEEECTT
T ss_pred             CCCCCCCEECCCCC
T ss_conf             04362010166011


No 14 
>>1qor_A Quinone oxidoreductase; HET: NAP; 2.20A {Escherichia coli} (A:1-136,A:269-327)
Probab=26.31  E-value=29  Score=15.11  Aligned_cols=15  Identities=7%  Similarity=0.195  Sum_probs=8.8

Q ss_pred             EECCCCCCEEEEEEE
Q ss_conf             974878509997678
Q gi|254780417|r   20 IVYPAHGVGTITEIK   34 (188)
Q Consensus        20 VVy~~~GVg~i~~I~   34 (188)
                      .|-+.-++|+|+.+.
T Consensus        59 ~v~G~E~aG~V~~vG   73 (195)
T 1qor_A           59 SGLGTEAAGIVSKVG   73 (195)
T ss_dssp             BCCCSCEEEEEEEEC
T ss_pred             CCCCEEEEEEEEECC
T ss_conf             658568898872048


No 15 
>>2ro0_A Histone acetyltransferase ESA1; HAT, chromodomain, tudor domain, RNA binding, activator, chromatin regulator, transcription; NMR {Saccharomyces cerevisiae} (A:)
Probab=24.20  E-value=45  Score=13.90  Aligned_cols=54  Identities=7%  Similarity=0.059  Sum_probs=36.2

Q ss_pred             HHHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCC--CCCEEEEECCCH
Q ss_conf             4531389986974878509997678986487302530220248--885699805201
Q gi|254780417|r   10 MRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDK--DKMCLKVPVGKA   64 (188)
Q Consensus        10 ~~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~--~~~~l~vPv~~~   64 (188)
                      ....|.+|+.|..-..|.-.-..|..........+||+ +|.+  ...--.||.++.
T Consensus        20 ~~~~~~vG~~v~~~~~~~~y~A~I~~~~~~~~~~~y~V-HY~g~n~r~DEWV~~~ri   75 (92)
T 2ro0_A           20 SVDDIIIKCQCWVQKNDEERLAEILSINTRKAPPKFYV-HYVNYNKRLDEWITTDRI   75 (92)
T ss_dssp             CTTSCCTTCEEEEEETTEEEEEEEEEEECSSSSCEEEE-EETTSCTTSCEEEEGGGE
T ss_pred             CHHHEEECCEEEEEECCCEEEEEEEEEEECCCCCEEEE-EECCCCCCCCEEECHHHC
T ss_conf             77786654799996199786668999898589868999-836867555415551031


No 16 
>>1khc_A DNA cytosine-5 methyltransferase 3B2; five beta-sheets barrel followed by five-helix bundle; HET: DNA; 1.80A {Mus musculus} (A:)
Probab=23.67  E-value=43  Score=13.99  Aligned_cols=55  Identities=9%  Similarity=-0.009  Sum_probs=37.0

Q ss_pred             HHHHHCCCCCEEECCCCCCEEEEEEEEEE----ECCCCHHHEEEECCCCCCEEEEECCC
Q ss_conf             34531389986974878509997678986----48730253022024888569980520
Q gi|254780417|r    9 AMRQGFRTGEHIVYPAHGVGTITEIKEQE----VAGMKLEFFVIAFDKDKMCLKVPVGK   63 (188)
Q Consensus         9 ~~~~~FkvGD~VVy~~~GVg~i~~I~~~~----i~g~~~eyy~L~~~~~~~~l~vPv~~   63 (188)
                      .....|.+||+|-=-..|=.=.=++....    -.......|.+.|++++....|+..+
T Consensus         7 ~~~~~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~~awv~~~~   65 (147)
T 1khc_A            7 QDDKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMPGMRWVQWFGDGKFSEISADK   65 (147)
T ss_dssp             CSSSSCCTTCEEEEEETTTEEEEEEEECGGGTTSCCCCTTEEEEEETTTCCEEEEEGGG
T ss_pred             CCCCCCCCCCEEEEECCCCCCCCEEECCHHHHHCCCCCCCEEEEEECCCCCEEEECHHH
T ss_conf             56876766878998578979899686365453111578983899981699778870888


No 17 
>>1zsy_A Mitochondrial 2-enoyl thioester reductase; medium-chain dehydrogenase/reductase, oxidoreductase, fatty acid synthesis (type 2), structural genomics; 1.75A {Homo sapiens} PDB: 2vcy_A (A:1-149,A:305-357)
Probab=23.53  E-value=36  Score=14.52  Aligned_cols=64  Identities=8%  Similarity=-0.067  Sum_probs=28.9

Q ss_pred             CCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEE-CCCCCCEEEEECCCHHHCCCCCCCCCHHH
Q ss_conf             89986974878509997678986487302530220-24888569980520121045433441024
Q gi|254780417|r   15 RTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIA-FDKDKMCLKVPVGKAIDIGMRKLSEAHFV   78 (188)
Q Consensus        15 kvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~-~~~~~~~l~vPv~~~~~~~~R~~~~~~e~   78 (188)
                      .+..-.|-++-|+|+|..+...--.=...+..... ...+...-|+.++....+.+-.-++-.++
T Consensus        81 ~~~~P~v~G~E~vG~Vv~vG~~V~~lk~GD~V~~~~~~~G~~aey~vv~~~~l~~iP~~ls~~~A  145 (202)
T 1zsy_A           81 LPELPAVGGNEGVAQVVAVGSNVTGLKPGDWVIPANAGLGTWRTEAVFSEEALIQVPSDIPLQSA  145 (202)
T ss_dssp             CCCSSEECCSCCEEEEEEECTTCCSCCTTCEEEESSSCSCCSBSEEEEEGGGEEEECSSSCHHHH
T ss_pred             CCCCCEECCEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             89998766343178996520222211112233432111234322222222222224631233300


No 18 
>>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} (A:1-75)
Probab=23.18  E-value=46  Score=13.84  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=7.5

Q ss_pred             CCCCEEEC--CCCCCEEEEEE
Q ss_conf             89986974--87850999767
Q gi|254780417|r   15 RTGEHIVY--PAHGVGTITEI   33 (188)
Q Consensus        15 kvGD~VVy--~~~GVg~i~~I   33 (188)
                      -+||+|.+  .+.|-|.|+.|
T Consensus        52 ~VGD~V~~~~~~~~~G~I~~I   72 (75)
T 1t9h_A           52 LVGDYVVYQAENDKEGYLMEI   72 (75)
T ss_dssp             CBTCEEEEECCTTSCEEEEEE
T ss_pred             CCCEEEEEEECCCCCEEEEEE
T ss_conf             433699999779980799998


No 19 
>>2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 3d38_H* 3prc_H* 5prc_H* 6prc_H* 7prc_H* 3g7f_H* (H:113-258)
Probab=23.09  E-value=47  Score=13.76  Aligned_cols=77  Identities=13%  Similarity=0.112  Sum_probs=42.7

Q ss_pred             CCEEECCCCC--CEEEEEEEEEEECCCCHHHEEEECCCCCCEEEEECCCHHHCCCCCCCCCHHHHHHHHHCCCCCCCCCC
Q ss_conf             9869748785--09997678986487302530220248885699805201210454334410246789850786644665
Q gi|254780417|r   17 GEHIVYPAHG--VGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAHFVERALKLVRGKARVKRT   94 (188)
Q Consensus        17 GD~VVy~~~G--Vg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv~~~~~~~~R~~~~~~e~~~l~~~l~~~~~~~~~   94 (188)
                      -.+=||...|  ||+|..+---. ..-...|+++..-..+..+.||.+......-+.++..-..+.+ ..++......+.
T Consensus        41 ~G~~V~~~~G~~iG~V~dv~~d~-~~g~v~~~Vv~~Ggf~k~v~vp~~~~~~~~~~~~~~~~t~~~i-~~aP~f~~~~~~  118 (146)
T 2wjn_H           41 RGLPVVAADGVEAGTVTDLWVDR-SEHYFRYLELSVAGSARTALIPLGFCDVKKDKIVVTSILSEQF-ANVPRLQSRDQI  118 (146)
T ss_dssp             TTCEEECTTSCEEEEEEEEEEET-TTTEEEEEEEEETTTTEEEEEEGGGCEECSSCEECCSSCGGGG-GGSCCCSSSSCC
T ss_pred             CCCEEECCCCCCCCEEEEEEEEC-CCCEEEEEEEEECCCCCEEECCHHHCEECCCEEEECCCCHHHH-HCCCCCCCCCCC
T ss_conf             56734868998604576899978-9884899999938978317716789477688089812468887-269999988966


Q ss_pred             C
Q ss_conf             5
Q gi|254780417|r   95 M   95 (188)
Q Consensus        95 ~   95 (188)
                      +
T Consensus       119 ~  119 (146)
T 2wjn_H          119 T  119 (146)
T ss_dssp             B
T ss_pred             C
T ss_conf             9


No 20 
>>1pcq_O Groes protein; chaperone; HET: ADP; 2.81A {Escherichia coli} (O:)
Probab=22.45  E-value=47  Score=13.75  Aligned_cols=21  Identities=10%  Similarity=0.185  Sum_probs=15.3

Q ss_pred             HCCCCCEEECCCCCCEEEEEE
Q ss_conf             138998697487850999767
Q gi|254780417|r   13 GFRTGEHIVYPAHGVGTITEI   33 (188)
Q Consensus        13 ~FkvGD~VVy~~~GVg~i~~I   33 (188)
                      ..++||.|+|+.++-..++..
T Consensus        58 ~Vk~GD~Vl~~~~~G~ei~~~   78 (97)
T 1pcq_O           58 DVKVGDIVIFNDGYGVKSEKI   78 (97)
T ss_dssp             SCCTTCEEEECCCSSCEEEEE
T ss_pred             CCCCCCEEEECCCCCCCEEEE
T ss_conf             169999999836558637978


No 21 
>>2dig_A Lamin-B receptor; tudor domain, integral nuclear envelope inner membrane protein, nuclear protein, structural genomics, NPPSFA; NMR {Homo sapiens} (A:)
Probab=21.42  E-value=51  Score=13.55  Aligned_cols=52  Identities=15%  Similarity=0.151  Sum_probs=39.6

Q ss_pred             HHHHHCCCCCEEECCCCCCEEEEEEEEEEECCCCHHHEEEECCCCCCEEEEECC
Q ss_conf             345313899869748785099976789864873025302202488856998052
Q gi|254780417|r    9 AMRQGFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVG   62 (188)
Q Consensus         9 ~~~~~FkvGD~VVy~~~GVg~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv~   62 (188)
                      +-.+.|..||.|.-.=-|--.|-+++...+.+..+.| .+.| .++..+=++..
T Consensus         8 MP~~kf~~Ge~VmgRWPGSsLyYev~Vls~d~~sqlY-tV~Y-KDGTeleLke~   59 (68)
T 2dig_A            8 MPSRKFADGEVVRGRWPGSSLYYEVEILSHDSTSQLY-TVKY-KDGTELELKEN   59 (68)
T ss_dssp             SCCCSSCSSCEEEEECTTTCCEEEEEEEEEETTTTEE-EEEC-TTSCEEEEETT
T ss_pred             CCCEECCCCCEEEEECCCCCEEEEEEEEEECCCCCEE-EEEE-CCCCEEECCCC
T ss_conf             9850024785877206998348999997505864069-9995-47861102302


No 22 
>>2dq4_A L-threonine 3-dehydrogenase; NAD-dependent, oxidoreductase, structural genomics, NPPSFA; HET: MES; 2.50A {Thermus thermophilus} PDB: 2ejv_A* (A:1-138,A:310-343)
Probab=20.80  E-value=42  Score=14.08  Aligned_cols=68  Identities=18%  Similarity=0.090  Sum_probs=30.5

Q ss_pred             HHHCCCCCEEECCCCCC--------------EEEEEEEEEEECCCCHHHEEEECCCCCCEEEEECCCHHHCCCCCCCCCH
Q ss_conf             53138998697487850--------------9997678986487302530220248885699805201210454334410
Q gi|254780417|r   11 RQGFRTGEHIVYPAHGV--------------GTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIGMRKLSEAH   76 (188)
Q Consensus        11 ~~~FkvGD~VVy~~~GV--------------g~i~~I~~~~i~g~~~eyy~L~~~~~~~~l~vPv~~~~~~~~R~~~~~~   76 (188)
                      -..|++||.|+-....-              |.=..+--....|.-.+|.++.-   +..+-+|-++--..+.-++....
T Consensus        76 v~~~k~GdrV~v~~~~~~g~c~~c~~g~~~~c~~~~~~g~~~~GgfAEy~~vp~---~~v~~iPe~~~~~~~~~~~~~~~  152 (172)
T 2dq4_A           76 VRRPQVGDHVSLESHIVCHACPACRTGNYHVCLNTQILGVDRDGGFAEYVVVPA---ENAWVNPKDSPLLTHRLPLSRYR  152 (172)
T ss_dssp             CCSSCTTCEEEECCEECCSCSHHHHTTCGGGCTTCEEBTTTBCCSSBSEEEEEG---GGEEEECTTGGGEEEEEEGGGHH
T ss_pred             CCEECCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCC---CCCCCCCCCCCCEEEEEEHHHHH
T ss_conf             410011333664143122232100022322111232000245675320121110---22346886545487898599999


Q ss_pred             HHHHH
Q ss_conf             24678
Q gi|254780417|r   77 FVERA   81 (188)
Q Consensus        77 e~~~l   81 (188)
                      ++-.+
T Consensus       153 ~~~~~  157 (172)
T 2dq4_A          153 EAFGL  157 (172)
T ss_dssp             HHHHH
T ss_pred             HHHHH
T ss_conf             99999


No 23 
>>3c2q_A Uncharacterized conserved protein; putative LOR/SDH, structural genomics, PSI-2, protein structure initiative; 2.00A {Methanococcus maripaludis S2} (A:1-100)
Probab=20.22  E-value=54  Score=13.39  Aligned_cols=19  Identities=11%  Similarity=0.426  Sum_probs=11.3

Q ss_pred             HHCCCCCEEECCCCCCEEE
Q ss_conf             3138998697487850999
Q gi|254780417|r   12 QGFRTGEHIVYPAHGVGTI   30 (188)
Q Consensus        12 ~~FkvGD~VVy~~~GVg~i   30 (188)
                      ...+.||.||-+..||-.+
T Consensus        69 r~lk~GD~VVvG~~GI~v~   87 (100)
T 3c2q_A           69 RKVKKGDFVLIGHNGIRVX   87 (100)
T ss_dssp             GGCCTTCEEEESSSSEEEC
T ss_pred             CCCCCCCEEEECCCEEEEC
T ss_conf             3147799799868715978


Done!