Query         gi|254780739|ref|YP_003065152.1| hypothetical protein CLIBASIA_03130 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 64
No_of_seqs    110 out of 655
Neff          4.7 
Searched_HMMs 13730
Date          Wed Jun  1 08:20:07 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780739.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 d2jnya1 b.171.1.1 (A:1-59) Unc  99.9 3.2E-24 2.3E-28  147.3   2.8   59    6-64      1-59  (59)
  2 d2hf1a1 b.171.1.1 (A:2-60) Hyp  99.9 2.5E-23 1.8E-27  142.6   1.3   55    9-63      1-55  (59)
  3 d2pk7a1 b.171.1.1 (A:3-61) Unc  99.9 5.6E-23 4.1E-27  140.7   2.5   53   11-63      2-54  (59)
  4 d1p91a_ c.66.1.33 (A:) rRNA me  95.4  0.0053 3.8E-07   35.0   3.1   40   16-57      2-41  (268)
  5 d1dl6a_ g.41.3.1 (A:) Transcri  91.9   0.034 2.4E-06   30.7   2.0   31   12-42      8-39  (58)
  6 d1pfta_ g.41.3.1 (A:) Transcri  90.4   0.084 6.1E-06   28.6   2.8   27   16-42      6-33  (50)
  7 d2akla2 g.41.3.5 (A:3-40) Hypo  86.4    0.15 1.1E-05   27.3   1.9   31   16-47      4-34  (38)
  8 d2jnea1 g.41.18.1 (A:1-71) Hyp  73.4     1.1 8.2E-05   22.7   2.8   29   16-46      3-31  (71)
  9 d2ct7a1 g.44.1.4 (A:8-80) Ring  71.5    0.92 6.7E-05   23.1   1.9   32   15-46     18-49  (73)
 10 d1g8kb_ b.33.1.1 (B:) Arsenite  48.7     9.2 0.00067   17.8   3.7   37   17-53     59-96  (133)
 11 d1dgsa1 a.60.2.2 (A:401-581) N  45.2     4.8 0.00035   19.3   1.9   20   17-38      5-24  (181)
 12 d2f9yb1 c.14.1.4 (B:23-285) Ac  44.7     1.1 7.9E-05   22.7  -1.5   28   17-44      4-32  (263)
 13 d2k4xa1 g.41.8.8 (A:1-55) Ribo  43.6     4.2 0.00031   19.6   1.3   31   17-47     20-50  (55)
 14 d1l1oc_ b.40.4.3 (C:) Replicat  41.0     7.4 0.00054   18.3   2.3   29   15-44     40-70  (178)
 15 d1rfsa_ b.33.1.1 (A:) ISP subu  38.6      12 0.00084   17.3   3.0   38   16-54     53-90  (127)
 16 d2dkta1 g.89.1.1 (A:8-81) RING  32.0     1.2 8.5E-05   22.6  -3.0   34   15-48     29-66  (74)
 17 d1fqta_ b.33.1.1 (A:) Rieske-t  31.0     7.3 0.00053   18.3   0.9   37   16-52     41-79  (109)
 18 d2e74d1 b.33.1.1 (D:46-179) IS  30.2      10 0.00073   17.6   1.5   35   17-52     62-96  (134)
 19 d1neea2 g.59.1.1 (A:99-135) Zi  30.1      17  0.0012   16.4   2.7   32   16-47      2-36  (37)
 20 d1jova_ b.30.5.7 (A:) Hypothet  29.2     5.6 0.00041   18.9   0.1   16   40-55     64-79  (269)
 21 d1vm9a_ b.33.1.1 (A:) Toluene-  29.1     8.1 0.00059   18.1   0.9   36   16-51     42-78  (109)
 22 d3c0da1 b.33.1.3 (A:4-111) NAD  28.5      14   0.001   16.9   2.0   36   17-52     43-84  (108)
 23 d2jzaa1 b.33.1.3 (A:1-122) NAD  28.3      14 0.00099   16.9   1.9   36   17-52     45-86  (122)
 24 d1weoa_ g.44.1.1 (A:) Cellulos  28.1     1.7 0.00012   21.7  -2.8   45   19-63     44-88  (93)
 25 d1weva_ g.50.1.2 (A:) PHD fing  27.3      11 0.00078   17.5   1.2   32   15-47     16-47  (88)
 26 d2jo6a1 b.33.1.3 (A:1-108) NAD  26.9      17  0.0012   16.4   2.2   37   17-53     45-87  (108)
 27 d1k81a_ g.59.1.1 (A:) Zinc-bin  26.4      17  0.0012   16.4   2.1   31   17-47      2-35  (36)
 28 d1rmda2 g.44.1.1 (A:1-86) V(D)  25.1      20  0.0015   16.0   2.3   20    7-26     15-34  (86)
 29 d2fiya1 e.59.1.1 (A:19-308) Fd  23.2      21  0.0016   15.9   2.2   29   17-45    166-202 (290)
 30 d1lv3a_ g.39.1.9 (A:) Hypothet  22.2      15  0.0011   16.6   1.3   25   16-40      7-33  (65)
 31 d1odha_ d.239.1.1 (A:) Mgcm1 {  21.6      23  0.0017   15.7   2.0   13   17-29     99-111 (158)
 32 d1jm7b_ g.44.1.1 (B:) bard1 RI  21.0      18  0.0013   16.3   1.4   17   10-26     17-33  (97)

No 1  
>d2jnya1 b.171.1.1 (A:1-59) Uncharacterized protein Cgl1405/cg1592 {Corynebacterium glutamicum [TaxId: 1718]}
Probab=99.88  E-value=3.2e-24  Score=147.32  Aligned_cols=59  Identities=37%  Similarity=0.747  Sum_probs=56.9

Q ss_pred             HHCCHHHHHHHCCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCHHHHEECCCCC
Q ss_conf             00286889651167898736895678857752108124011763405877713044589
Q gi|254780739|r    6 FNIDPQLLEILVCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLVSEARQVDDQG   64 (64)
Q Consensus         6 ~~~~~~LL~iL~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deAr~l~~~~   64 (64)
                      |+||++||+||+||.||++|+|++++++|+|++|+++|||+|||||||+||||+++.+.
T Consensus         1 M~~~~~LL~iL~CP~ck~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deA~~l~~~~   59 (59)
T d2jnya1           1 MSLDPQLLEVLACPKDKGPLRYLESEQLLVNERLNLAYRIDDGIPVLLIDEATEWTPNN   59 (59)
T ss_dssp             CCSCGGGTCCCBCTTTCCBCEEETTTTEEEETTTTEEEEEETTEECCCSSCCEECCCCC
T ss_pred             CCCCHHHHHHHCCCCCCCEEEEECCCCEEECCCCCCCCCCCCCCCCCCHHHHCCCCCCC
T ss_conf             99797999871587999870796889989748648545252995021899930177899


No 2  
>d2hf1a1 b.171.1.1 (A:2-60) Hypothetical protein CV3345 {Chromobacterium violaceum [TaxId: 536]}
Probab=99.85  E-value=2.5e-23  Score=142.57  Aligned_cols=55  Identities=49%  Similarity=0.861  Sum_probs=52.9

Q ss_pred             CHHHHHHHCCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCHHHHEECCCC
Q ss_conf             8688965116789873689567885775210812401176340587771304458
Q gi|254780739|r    9 DPQLLEILVCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLVSEARQVDDQ   63 (64)
Q Consensus         9 ~~~LL~iL~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deAr~l~~~   63 (64)
                      |++||+|||||+|||+|+|++++++|+|++|+++|||+|||||||+++||+++++
T Consensus         1 D~~LL~iL~CP~ck~~L~~~~~~~~Lvc~~~~l~YPI~dGIPvlL~~eAr~l~~~   55 (59)
T d2hf1a1           1 DAKFLEILVCPLCKGPLVFDKSKDELICKGDRLAFPIKDGIPMMLESEARELAPE   55 (59)
T ss_dssp             CCCCEEECBCTTTCCBCEEETTTTEEEETTTTEEEEEETTEECCCGGGCEECCHH
T ss_pred             CHHHHHHHCCCCCCCEEEEECCCCEEECCCCCCCCCCCCCCCCCCHHHHCCCCHH
T ss_conf             9667664358798986369588998963876844544189231289994318654


No 3  
>d2pk7a1 b.171.1.1 (A:3-61) Uncharacterized protein PFL1779 {Pseudomonas fluorescens [TaxId: 294]}
Probab=99.85  E-value=5.6e-23  Score=140.74  Aligned_cols=53  Identities=57%  Similarity=0.967  Sum_probs=51.3

Q ss_pred             HHHHHHCCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCHHHHEECCCC
Q ss_conf             88965116789873689567885775210812401176340587771304458
Q gi|254780739|r   11 QLLEILVCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLVSEARQVDDQ   63 (64)
Q Consensus        11 ~LL~iL~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deAr~l~~~   63 (64)
                      +||+|||||+|||+|+|++++++|+|++|+++|||+|||||||++|||+++++
T Consensus         2 kLL~iL~CP~ck~~L~~~~~~~~Lvc~~~~laYPI~dGIPvlL~~eAr~l~~~   54 (59)
T d2pk7a1           2 KLLDILACPICKGPLKLSADKTELISKGAGLAYPIRDGIPVMLESEARTLTTE   54 (59)
T ss_dssp             CGGGTCCCTTTCCCCEECTTSSEEEETTTTEEEEEETTEECCCGGGCEECCHH
T ss_pred             CHHHHEECCCCCCCCEEECCCCEEECCCCCCCCCCCCCCCCCCHHHHCCCCHH
T ss_conf             34761478798986569488998964875855424089010589995207745


No 4  
>d1p91a_ c.66.1.33 (A:) rRNA methyltransferase RlmA {Escherichia coli [TaxId: 562]}
Probab=95.36  E-value=0.0053  Score=34.98  Aligned_cols=40  Identities=15%  Similarity=0.214  Sum_probs=29.7

Q ss_pred             HCCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCHHHH
Q ss_conf             116789873689567885775210812401176340587771
Q gi|254780739|r   16 LVCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLVSEA   57 (64)
Q Consensus        16 L~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deA   57 (64)
                      ++||+|+++|....  +.|+|..|+.....++|+-.+++...
T Consensus         2 f~CP~C~~~L~~~~--~~l~C~~~h~fd~~~~Gy~~ll~~~~   41 (268)
T d1p91a_           2 FSCPLCHQPLSREK--NSYICPQRHQFDMAKEGYVNLLPVQH   41 (268)
T ss_dssp             BBCTTTCCBCEEET--TEEECTTCCEEEBCTTSCEECSCSSS
T ss_pred             CCCCCCCHHHHCCC--CEEECCCCCCCCCCCCCEEECCCCCC
T ss_conf             64989981220579--86988999850656684576365654


No 5  
>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=91.92  E-value=0.034  Score=30.73  Aligned_cols=31  Identities=16%  Similarity=0.281  Sum_probs=26.2

Q ss_pred             HHHHHCCCCCCCE-EEEECCCCEEECHHCCCC
Q ss_conf             8965116789873-689567885775210812
Q gi|254780739|r   12 LLEILVCPLTKGN-LTLISEGTELLSKKASLA   42 (64)
Q Consensus        12 LL~iL~CP~~k~~-L~~~~~~~~Lvc~~~~~~   42 (64)
                      +++-+.||.|++. +.+|...++++|..|++.
T Consensus         8 ~~~~~~Cp~Cgs~~ii~D~~~Ge~vC~~CG~V   39 (58)
T d1dl6a_           8 ALPRVTCPNHPDAILVEDYRAGDMICPECGLV   39 (58)
T ss_dssp             CCSCCSBTTBSSSCCEECSSSCCEECTTTCCE
T ss_pred             CCCCCCCCCCCCCCEEEECCCCCEECCCCCCE
T ss_conf             55666897997987778878882850359989


No 6  
>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Probab=90.42  E-value=0.084  Score=28.62  Aligned_cols=27  Identities=26%  Similarity=0.431  Sum_probs=23.6

Q ss_pred             HCCCCCCC-EEEEECCCCEEECHHCCCC
Q ss_conf             11678987-3689567885775210812
Q gi|254780739|r   16 LVCPLTKG-NLTLISEGTELLSKKASLA   42 (64)
Q Consensus        16 L~CP~~k~-~L~~~~~~~~Lvc~~~~~~   42 (64)
                      ..||.|++ .+..|.+.++++|..|++.
T Consensus         6 ~~Cp~Cgs~~iv~D~~~Ge~vC~~CG~V   33 (50)
T d1pfta_           6 KVCPACESAELIYDPERGEIVCAKCGYV   33 (50)
T ss_dssp             CSCTTTSCCCEEEETTTTEEEESSSCCB
T ss_pred             CCCCCCCCCCEEEECCCCEEECCCCCCE
T ss_conf             3484887983788878790850049869


No 7  
>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}
Probab=86.40  E-value=0.15  Score=27.26  Aligned_cols=31  Identities=13%  Similarity=0.227  Sum_probs=24.8

Q ss_pred             HCCCCCCCEEEEECCCCEEECHHCCCCCCCCC
Q ss_conf             11678987368956788577521081240117
Q gi|254780739|r   16 LVCPLTKGNLTLISEGTELLSKKASLAYPIRS   47 (64)
Q Consensus        16 L~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~d   47 (64)
                      =.||.|.+...|... .-|||+.|+..++-.+
T Consensus         4 P~CP~C~seytYedg-~l~vCPeC~hEW~~~~   34 (38)
T d2akla2           4 PPCPQCNSEYTYEDG-ALLVCPECAHEWSPNE   34 (38)
T ss_dssp             CCCTTTCCCCCEECS-SSEEETTTTEEECTTT
T ss_pred             CCCCCCCCCCEECCC-CEEECCCCCCCCCCCC
T ss_conf             868878980357379-9978975557478543


No 8  
>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}
Probab=73.44  E-value=1.1  Score=22.65  Aligned_cols=29  Identities=14%  Similarity=0.174  Sum_probs=20.2

Q ss_pred             HCCCCCCCEEEEECCCCEEECHHCCCCCCCC
Q ss_conf             1167898736895678857752108124011
Q gi|254780739|r   16 LVCPLTKGNLTLISEGTELLSKKASLAYPIR   46 (64)
Q Consensus        16 L~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~   46 (64)
                      +-||.|+++|++..  +.-.|..|...|-+.
T Consensus         3 ~~CP~C~~eL~~~~--~~~~C~~C~~~~~~~   31 (71)
T d2jnea1           3 LHCPQCQHVLDQDN--GHARCRSCGEFIEMK   31 (71)
T ss_dssp             CBCSSSCSBEEEET--TEEEETTTCCEEEEE
T ss_pred             CCCCCCCCCCCCCC--CCEEHHHHHHHHEEE
T ss_conf             86887557310258--977614640102367


No 9  
>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}
Probab=71.54  E-value=0.92  Score=23.12  Aligned_cols=32  Identities=16%  Similarity=0.193  Sum_probs=26.6

Q ss_pred             HHCCCCCCCEEEEECCCCEEECHHCCCCCCCC
Q ss_conf             51167898736895678857752108124011
Q gi|254780739|r   15 ILVCPLTKGNLTLISEGTELLSKKASLAYPIR   46 (64)
Q Consensus        15 iL~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~   46 (64)
                      +--||.|+..+..+.+.+.++|+.|+..|=..
T Consensus        18 ~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~   49 (73)
T d2ct7a1          18 FLWCAQCSFGFIYEREQLEATCPQCHQTFCVR   49 (73)
T ss_dssp             EECCSSSCCCEECCCSCSCEECTTTCCEECSS
T ss_pred             CCCCCCCCCEEEECCCCCEEECCCCCCEECCC
T ss_conf             88999999976877999987869989917706


No 10 
>d1g8kb_ b.33.1.1 (B:) Arsenite oxidase Rieske subunit {Alcaligenes faecalis [TaxId: 511]}
Probab=48.66  E-value=9.2  Score=17.82  Aligned_cols=37  Identities=11%  Similarity=0.062  Sum_probs=31.1

Q ss_pred             CCCCCCCEEEEECCCCEEECHHCCCCCCC-CCCEEECC
Q ss_conf             16789873689567885775210812401-17634058
Q gi|254780739|r   17 VCPLTKGNLTLISEGTELLSKKASLAYPI-RSGVPIML   53 (64)
Q Consensus        17 ~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI-~dgIPvLL   53 (64)
                      +||.-+.+|.+..+.+.++|+-.+-.|-+ +.|-.+--
T Consensus        59 ~CpH~g~~l~~~~~~~~i~Cp~Hg~~Fd~~~~G~~~~g   96 (133)
T d1g8kb_          59 LCTHMGCPTSYDSSSKTFSCPCHFTEFDAEKAGQMICG   96 (133)
T ss_dssp             BCTTTCCBCEEETTTTEEECTTTCCEEEGGGTTEEEES
T ss_pred             HCCCCCCCCCCCCCCCEEECCCCCEEEECCCCCEEECC
T ss_conf             45778935335854398989978719836999229687


No 11 
>d1dgsa1 a.60.2.2 (A:401-581) NAD+-dependent DNA ligase, domain 3 {Thermus filiformis [TaxId: 276]}
Probab=45.22  E-value=4.8  Score=19.29  Aligned_cols=20  Identities=20%  Similarity=0.233  Sum_probs=15.3

Q ss_pred             CCCCCCCEEEEECCCCEEECHH
Q ss_conf             1678987368956788577521
Q gi|254780739|r   17 VCPLTKGNLTLISEGTELLSKK   38 (64)
Q Consensus        17 ~CP~~k~~L~~~~~~~~Lvc~~   38 (64)
                      .||.|+++|..+  +..+.|..
T Consensus         5 ~CP~C~s~l~~e--~~~~~C~n   24 (181)
T d1dgsa1           5 ACPECGHRLVKE--GKVHRCPN   24 (181)
T ss_dssp             BCTTTCCBCEEE--TTEEECCC
T ss_pred             CCCCCCCEEEEC--CCEEECCC
T ss_conf             799998952622--84067899


No 12 
>d2f9yb1 c.14.1.4 (B:23-285) Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta, AccD {Escherichia coli [TaxId: 562]}
Probab=44.71  E-value=1.1  Score=22.73  Aligned_cols=28  Identities=14%  Similarity=0.011  Sum_probs=10.6

Q ss_pred             CCCCCCCEEEEEC-CCCEEECHHCCCCCC
Q ss_conf             1678987368956-788577521081240
Q gi|254780739|r   17 VCPLTKGNLTLIS-EGTELLSKKASLAYP   44 (64)
Q Consensus        17 ~CP~~k~~L~~~~-~~~~Lvc~~~~~~YP   44 (64)
                      .||.|+..+.-.+ +++--||+.|+..|+
T Consensus         4 ~C~~C~~~~~~~~l~~~~~vC~~C~~h~~   32 (263)
T d2f9yb1           4 KCDSCGQVLYRAELERNLEVCPKCDHHMR   32 (263)
T ss_dssp             CCTTTCCCEETTHHHHTTTBCTTTCCBCC
T ss_pred             CCCCCCCEEEHHHHHHHCCCCCCCCCCCC
T ss_conf             17877650269999985889939989987


No 13 
>d2k4xa1 g.41.8.8 (A:1-55) Ribosomal protein S27ae {Thermoplasma acidophilum [TaxId: 2303]}
Probab=43.59  E-value=4.2  Score=19.61  Aligned_cols=31  Identities=10%  Similarity=0.161  Sum_probs=24.8

Q ss_pred             CCCCCCCEEEEECCCCEEECHHCCCCCCCCC
Q ss_conf             1678987368956788577521081240117
Q gi|254780739|r   17 VCPLTKGNLTLISEGTELLSKKASLAYPIRS   47 (64)
Q Consensus        17 ~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~d   47 (64)
                      .||.|+.-..+.+-.+.+.|-+|++.+=...
T Consensus        20 ~CP~CG~GvFmA~H~dR~~CGKCgyTefkk~   50 (55)
T d2k4xa1          20 FCPRCGPGVFLAEHADRYSCGRCGYTEFKKA   50 (55)
T ss_dssp             CCTTTTTTCCCEECSSEEECTTTCCCEECCC
T ss_pred             CCCCCCCCEEEEECCCCCCCCCCCCCEEECC
T ss_conf             4959999577412589766347756179025


No 14 
>d1l1oc_ b.40.4.3 (C:) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}
Probab=41.03  E-value=7.4  Score=18.32  Aligned_cols=29  Identities=14%  Similarity=0.302  Sum_probs=21.7

Q ss_pred             HHCCCC--CCCEEEEECCCCEEECHHCCCCCC
Q ss_conf             511678--987368956788577521081240
Q gi|254780739|r   15 ILVCPL--TKGNLTLISEGTELLSKKASLAYP   44 (64)
Q Consensus        15 iL~CP~--~k~~L~~~~~~~~Lvc~~~~~~YP   44 (64)
                      --+||.  |+.++. +...+.-.|.+|+..||
T Consensus        40 Y~aCp~~~C~KKv~-~~~~g~~~C~kC~~~~~   70 (178)
T d1l1oc_          40 YQACPTQDCNKKVI-DQQNGLYRCEKCDTEFP   70 (178)
T ss_dssp             EEBCCSTTCCCBCE-EETTTEEEETTTTEEES
T ss_pred             ECCCCCCCCCCCCC-CCCCCCEECCCCCCCCC
T ss_conf             84789732578441-07897288888888688


No 15 
>d1rfsa_ b.33.1.1 (A:) ISP subunit from chloroplast cytochrome bf complex {Spinach (Spinacia oleracea) [TaxId: 3562]}
Probab=38.59  E-value=12  Score=17.28  Aligned_cols=38  Identities=11%  Similarity=0.086  Sum_probs=31.8

Q ss_pred             HCCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCH
Q ss_conf             116789873689567885775210812401176340587
Q gi|254780739|r   16 LVCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLV   54 (64)
Q Consensus        16 L~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~   54 (64)
                      -+||.-+.+|.+...++.++|+-.+-.|-. +|..+--|
T Consensus        53 ~~C~H~g~~l~~~~~~~~~~Cp~Hg~~Fd~-~G~~~~~P   90 (127)
T d1rfsa_          53 AVCTHLGCVVPFNAAENKFICPCHGSQYNN-QGRVVRGP   90 (127)
T ss_dssp             CBCTTTCCBCCEETTTTEEECTTTCCEEET-TCCEEESS
T ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCEEECC-CCCCCCCC
T ss_conf             999899989667556995783999929999-98998688


No 16 
>d2dkta1 g.89.1.1 (A:8-81) RING finger and CHY zinc finger domain-containing protein 1 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=32.00  E-value=1.2  Score=22.55  Aligned_cols=34  Identities=9%  Similarity=0.042  Sum_probs=25.0

Q ss_pred             HHCCCCCCCEEEEEC----CCCEEECHHCCCCCCCCCC
Q ss_conf             511678987368956----7885775210812401176
Q gi|254780739|r   15 ILVCPLTKGNLTLIS----EGTELLSKKASLAYPIRSG   48 (64)
Q Consensus        15 iL~CP~~k~~L~~~~----~~~~Lvc~~~~~~YPI~dg   48 (64)
                      +..||.|..+|.+..    +.+.|+|-.|+..+|+.+-
T Consensus        29 ~~~C~~C~~~lt~H~~~~k~~~~l~CH~Cg~~~~~~~~   66 (74)
T d2dkta1          29 LYTCRLCHDTNEDHQLDRFKVKEVQCINCEKLQHAQQT   66 (74)
T ss_dssp             EESSHHHHHHTSSSCCCSSSCCCEEESSSCCEECSCSB
T ss_pred             EEECCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC
T ss_conf             62189888751203435246887983567974437884


No 17 
>d1fqta_ b.33.1.1 (A:) Rieske-type ferredoxin associated with biphenyl dioxygenase {Burkholderia cepacia [TaxId: 292]}
Probab=31.04  E-value=7.3  Score=18.34  Aligned_cols=37  Identities=16%  Similarity=0.074  Sum_probs=25.5

Q ss_pred             HCCCCCCCEEEE--ECCCCEEECHHCCCCCCCCCCEEEC
Q ss_conf             116789873689--5678857752108124011763405
Q gi|254780739|r   16 LVCPLTKGNLTL--ISEGTELLSKKASLAYPIRSGVPIM   52 (64)
Q Consensus        16 L~CP~~k~~L~~--~~~~~~Lvc~~~~~~YPI~dgIPvL   52 (64)
                      -.||..+++|..  ..+.+.+.|+-.+..|-+.+|=.+-
T Consensus        41 ~~CpH~g~~l~~g~~~~~~~i~Cp~H~~~F~l~tG~~~~   79 (109)
T d1fqta_          41 DRCTHGDWSLSDGGYLEGDVVECSLHMGKFCVRTGKVKS   79 (109)
T ss_dssp             SBCTTSSCBSSTTCCEETTEEECTTTCCEEETTTCCEEE
T ss_pred             EECCCCCCCCCCCEEECCCEEECCCCCCEEECCCCCCCC
T ss_conf             544424752013405148778745548799889821705


No 18 
>d2e74d1 b.33.1.1 (D:46-179) ISP subunit from the cytochrome b6f complex, soluble domain {Mastigocladus laminosus [TaxId: 83541]}
Probab=30.23  E-value=10  Score=17.61  Aligned_cols=35  Identities=14%  Similarity=0.117  Sum_probs=28.8

Q ss_pred             CCCCCCCEEEEECCCCEEECHHCCCCCCCCCCEEEC
Q ss_conf             167898736895678857752108124011763405
Q gi|254780739|r   17 VCPLTKGNLTLISEGTELLSKKASLAYPIRSGVPIM   52 (64)
Q Consensus        17 ~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvL   52 (64)
                      +||.-+.+|.+....+.++|+-.+..|-+ +|-.+-
T Consensus        62 ~C~H~G~~l~~g~~~~~~~Cp~Hg~~Fd~-~G~~~~   96 (134)
T d2e74d1          62 VCTHLGCVVPWNAAENKFKCPCHGSQYDE-TGKVIR   96 (134)
T ss_dssp             BCTTTCCBCCBCTTTSCEEETTTTEEECS-SSCBCS
T ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCEECC-CCCEEE
T ss_conf             01697778633665895598999868999-999871


No 19 
>d1neea2 g.59.1.1 (A:99-135) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=30.11  E-value=17  Score=16.40  Aligned_cols=32  Identities=9%  Similarity=0.180  Sum_probs=23.1

Q ss_pred             HCCCCCCCE---EEEECCCCEEECHHCCCCCCCCC
Q ss_conf             116789873---68956788577521081240117
Q gi|254780739|r   16 LVCPLTKGN---LTLISEGTELLSKKASLAYPIRS   47 (64)
Q Consensus        16 L~CP~~k~~---L~~~~~~~~Lvc~~~~~~YPI~d   47 (64)
                      ..|+.|++|   |.-+..-..|.|.+|+-.-||..
T Consensus         2 V~C~~C~spDT~l~ke~R~~~l~C~aCGa~r~V~~   36 (37)
T d1neea2           2 VICHECNRPDTRIIREGRISLLKCEACGAKAPLKN   36 (37)
T ss_dssp             HHHTCCSSCSSCCEEETTTTEEECSTTSCCCCSCC
T ss_pred             EECCCCCCCCCEEEECCCEEEEEECCCCCCCCCCC
T ss_conf             19978899888989729879998526899860366


No 20 
>d1jova_ b.30.5.7 (A:) Hypothetical protein HI1317 {Haemophilus influenzae [TaxId: 727]}
Probab=29.15  E-value=5.6  Score=18.95  Aligned_cols=16  Identities=38%  Similarity=0.443  Sum_probs=13.0

Q ss_pred             CCCCCCCCCEEECCHH
Q ss_conf             8124011763405877
Q gi|254780739|r   40 SLAYPIRSGVPIMLVS   55 (64)
Q Consensus        40 ~~~YPI~dgIPvLL~d   55 (64)
                      ...-|||.|||++.|-
T Consensus        64 ~~~~~IRGGiPi~fP~   79 (269)
T d1jova_          64 KNGNAIRGGVPICYPW   79 (269)
T ss_dssp             CTTSCCSBSCCEEBSS
T ss_pred             CCCCCCCCCCCEECCC
T ss_conf             6778634886030766


No 21 
>d1vm9a_ b.33.1.1 (A:) Toluene-4-monooxygenase system protein C, TmoC {Pseudomonas mendocina [TaxId: 300]}
Probab=29.12  E-value=8.1  Score=18.12  Aligned_cols=36  Identities=19%  Similarity=0.245  Sum_probs=26.7

Q ss_pred             HCCCCCCCEEEE-ECCCCEEECHHCCCCCCCCCCEEE
Q ss_conf             116789873689-567885775210812401176340
Q gi|254780739|r   16 LVCPLTKGNLTL-ISEGTELLSKKASLAYPIRSGVPI   51 (64)
Q Consensus        16 L~CP~~k~~L~~-~~~~~~Lvc~~~~~~YPI~dgIPv   51 (64)
                      -+||.-+++|.. ..+++.++|+-.+-.|-+.+|--+
T Consensus        42 ~~CpH~g~~l~~g~~~~~~i~Cp~Hg~~F~l~~G~~~   78 (109)
T d1vm9a_          42 AMCPHQEILLSEGSYEGGVITCRAHLWTFNDGTGHGI   78 (109)
T ss_dssp             SBCSSSSCBGGGSEEETTEEECTTTCCEEETTTCBBS
T ss_pred             EECCCCCCCCEEEECCCCEEECCCCCCEEECCCCCCC
T ss_conf             6689877532257636999975367832877996697


No 22 
>d3c0da1 b.33.1.3 (A:4-111) NADH-nitrite reductase small subunit NirD {Vibrio parahaemolyticus [TaxId: 670]}
Probab=28.46  E-value=14  Score=16.87  Aligned_cols=36  Identities=14%  Similarity=0.059  Sum_probs=25.8

Q ss_pred             CCCCCCCEEE-----EE-CCCCEEECHHCCCCCCCCCCEEEC
Q ss_conf             1678987368-----95-678857752108124011763405
Q gi|254780739|r   17 VCPLTKGNLT-----LI-SEGTELLSKKASLAYPIRSGVPIM   52 (64)
Q Consensus        17 ~CP~~k~~L~-----~~-~~~~~Lvc~~~~~~YPI~dgIPvL   52 (64)
                      .||..+++|.     .+ .++..+.|+-.+-.|-+++|-++=
T Consensus        43 ~CpH~g~~L~~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG~~~~   84 (108)
T d3c0da1          43 WDPIGKAYVMSRGIVGDINGEMCVASPLYKQHFSLKSGQCLE   84 (108)
T ss_dssp             EETTTTEECGGGSEEEESSSSEEEECTTTCCEEETTTCBBSS
T ss_pred             CCCCCCCCCCCCCEEEECCCCEEEECCCCCCEEECCCCCCCC
T ss_conf             579778612356378852896089544466088634772546


No 23 
>d2jzaa1 b.33.1.3 (A:1-122) NADH-nitrite reductase small subunit NirD {Erwinia carotovora [TaxId: 554]}
Probab=28.30  E-value=14  Score=16.92  Aligned_cols=36  Identities=8%  Similarity=0.144  Sum_probs=25.0

Q ss_pred             CCCCCCCEE------EEECCCCEEECHHCCCCCCCCCCEEEC
Q ss_conf             167898736------895678857752108124011763405
Q gi|254780739|r   17 VCPLTKGNL------TLISEGTELLSKKASLAYPIRSGVPIM   52 (64)
Q Consensus        17 ~CP~~k~~L------~~~~~~~~Lvc~~~~~~YPI~dgIPvL   52 (64)
                      .||..+++|      ....++..+.|+-.+-.|-+++|-.+-
T Consensus        45 ~CpH~g~~ll~~G~v~~~~~~~~i~Cp~Hg~~F~l~tG~~~~   86 (122)
T d2jzaa1          45 IDPFAQASVLSRGIVAEHQDDLWVASPLKKQHFRLYDGFCLE   86 (122)
T ss_dssp             CCTTTSSGGGTSSEEEESSSSEEEECSSSCCEEETTTCCBSS
T ss_pred             CCCCCCCCCCCCCEEEECCCCCEEECCCCCCEEECCCCEEEE
T ss_conf             897635634323236503699889799789765513324530


No 24 
>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
Probab=28.07  E-value=1.7  Score=21.74  Aligned_cols=45  Identities=13%  Similarity=0.065  Sum_probs=32.0

Q ss_pred             CCCCCEEEEECCCCEEECHHCCCCCCCCCCEEECCHHHHEECCCC
Q ss_conf             789873689567885775210812401176340587771304458
Q gi|254780739|r   19 PLTKGNLTLISEGTELLSKKASLAYPIRSGVPIMLVSEARQVDDQ   63 (64)
Q Consensus        19 P~~k~~L~~~~~~~~Lvc~~~~~~YPI~dgIPvLL~deAr~l~~~   63 (64)
                      |+|+.=.+|...++.-.|++|+-+|--..|-|..--|+-..--|+
T Consensus        44 PvCrpCyEYErkeG~q~CpqCkt~Ykr~kgsprv~gDe~e~~~d~   88 (93)
T d1weoa_          44 PACRPCYEYERREGTQNCPQCKTRYKRLRGSPRVEGDEDEEDIDS   88 (93)
T ss_dssp             CCCHHHHHHHHHTSCSSCTTTCCCCCCCTTCCCCTTSCCCCCSCC
T ss_pred             CCCHHHHHHHHHCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCC
T ss_conf             645078999985167027444872455258987778710014346


No 25 
>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=27.29  E-value=11  Score=17.48  Aligned_cols=32  Identities=13%  Similarity=0.101  Sum_probs=22.0

Q ss_pred             HHCCCCCCCEEEEECCCCEEECHHCCCCCCCCC
Q ss_conf             511678987368956788577521081240117
Q gi|254780739|r   15 ILVCPLTKGNLTLISEGTELLSKKASLAYPIRS   47 (64)
Q Consensus        15 iL~CP~~k~~L~~~~~~~~Lvc~~~~~~YPI~d   47 (64)
                      -++|.+|++.-. ......+.|..|+..|=..=
T Consensus        16 ~~~C~iC~~~~~-~~~~~~v~Cd~C~~~~H~~C   47 (88)
T d1weva_          16 GLACVVCRQMTV-ASGNQLVECQECHNLYHQDC   47 (88)
T ss_dssp             CCSCSSSCCCCC-CTTCCEEECSSSCCEEETTT
T ss_pred             CCCCCCCCCCCC-CCCCEEEECCCCCCCCCCCC
T ss_conf             599257899067-89996888489997456112


No 26 
>d2jo6a1 b.33.1.3 (A:1-108) NADH-nitrite reductase small subunit NirD {Escherichia coli [TaxId: 562]}
Probab=26.94  E-value=17  Score=16.43  Aligned_cols=37  Identities=8%  Similarity=0.064  Sum_probs=27.0

Q ss_pred             CCCCCCCEE------EEECCCCEEECHHCCCCCCCCCCEEECC
Q ss_conf             167898736------8956788577521081240117634058
Q gi|254780739|r   17 VCPLTKGNL------TLISEGTELLSKKASLAYPIRSGVPIML   53 (64)
Q Consensus        17 ~CP~~k~~L------~~~~~~~~Lvc~~~~~~YPI~dgIPvLL   53 (64)
                      .||..+++|      ....++..++|+-.+-.|-+.+|-++=-
T Consensus        45 ~CpH~g~~ll~~G~~~~~~~~~~i~Cp~Hg~~F~l~tG~~~~~   87 (108)
T d2jo6a1          45 IDPFFESSVLSRGLIAEHQGELWVASPLKKQRFRLSDGLCMED   87 (108)
T ss_dssp             SCSSSCCSCSTTSEEEEETTEEEEEETTTTEEEETTTTEETTT
T ss_pred             CCCCCCCCCCCCEEEECCCCCCEEECCCCCCEEECCCCCCCCC
T ss_conf             4887897502220475042478898998886487798439878


No 27 
>d1k81a_ g.59.1.1 (A:) Zinc-binding domain of translation initiation factor 2 beta {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=26.39  E-value=17  Score=16.44  Aligned_cols=31  Identities=26%  Similarity=0.166  Sum_probs=21.5

Q ss_pred             CCCCCCCEEEEEC-C--CCEEECHHCCCCCCCCC
Q ss_conf             1678987368956-7--88577521081240117
Q gi|254780739|r   17 VCPLTKGNLTLIS-E--GTELLSKKASLAYPIRS   47 (64)
Q Consensus        17 ~CP~~k~~L~~~~-~--~~~Lvc~~~~~~YPI~d   47 (64)
                      .|+.|++|=.-.. +  -..|.|.+|+-.-||+.
T Consensus         2 ~C~~C~spDT~l~ke~R~~~l~C~aCGa~r~V~~   35 (36)
T d1k81a_           2 ICRECGKPDTKIIKEGRVHLLKCMACGAIRPIRM   35 (36)
T ss_dssp             CCSSSCSCEEEEEEETTEEEEEEETTTEEEEECC
T ss_pred             CCCCCCCCCCEEEECCCEEEEEECCCCCCCCCCC
T ss_conf             9977789988989729889998536899871435


No 28 
>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}
Probab=25.11  E-value=20  Score=16.00  Aligned_cols=20  Identities=10%  Similarity=0.404  Sum_probs=15.9

Q ss_pred             HCCHHHHHHHCCCCCCCEEE
Q ss_conf             02868896511678987368
Q gi|254780739|r    7 NIDPQLLEILVCPLTKGNLT   26 (64)
Q Consensus         7 ~~~~~LL~iL~CP~~k~~L~   26 (64)
                      .+-+++.+-+.||+|...+.
T Consensus        15 d~~~d~~~~l~C~IC~~~~~   34 (86)
T d1rmda2          15 DFPAHFVKSISCQICEHILA   34 (86)
T ss_dssp             CCCHHHHHHTBCTTTCSBCS
T ss_pred             CCHHHHCCCCCCCCCCCCHH
T ss_conf             12243056759956784441


No 29 
>d2fiya1 e.59.1.1 (A:19-308) FdhE homolog PA4809 {Pseudomonas aeruginosa [TaxId: 287]}
Probab=23.18  E-value=21  Score=15.86  Aligned_cols=29  Identities=10%  Similarity=0.038  Sum_probs=14.7

Q ss_pred             CCCCCCCEEEEE--C------CCCEEECHHCCCCCCC
Q ss_conf             167898736895--6------7885775210812401
Q gi|254780739|r   17 VCPLTKGNLTLI--S------EGTELLSKKASLAYPI   45 (64)
Q Consensus        17 ~CP~~k~~L~~~--~------~~~~Lvc~~~~~~YPI   45 (64)
                      .||+|++.=...  .      ..-.|+|.-|+..|..
T Consensus       166 ~CPvCGs~P~~s~l~~~~~~~G~R~l~C~~C~teW~~  202 (290)
T d2fiya1         166 LCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEWHY  202 (290)
T ss_dssp             SCTTTCCCEEEEEEEC----CCEEEEEETTTCCEEEC
T ss_pred             CCCCCCCCCHHHEEECCCCCCCCEEEECCCCCCCCCC
T ss_conf             6999998021140323677788568878999885421


No 30 
>d1lv3a_ g.39.1.9 (A:) Hypothetical zinc finger protein YacG {Escherichia coli [TaxId: 562]}
Probab=22.25  E-value=15  Score=16.64  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=16.3

Q ss_pred             HCCCCCCCEEEEECCCC-E-EECHHCC
Q ss_conf             11678987368956788-5-7752108
Q gi|254780739|r   16 LVCPLTKGNLTLISEGT-E-LLSKKAS   40 (64)
Q Consensus        16 L~CP~~k~~L~~~~~~~-~-Lvc~~~~   40 (64)
                      +.||.|+.+..|..+.. . .-|.+|+
T Consensus         7 v~CP~C~k~~~w~~~~~~rPFCS~RCk   33 (65)
T d1lv3a_           7 VNCPTCGKTVVWGEISPFRPFCSKRCQ   33 (65)
T ss_dssp             EECTTTCCEEECSSSSSCCSSSSHHHH
T ss_pred             EECCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             048899983445777885872547660


No 31 
>d1odha_ d.239.1.1 (A:) Mgcm1 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=21.61  E-value=23  Score=15.71  Aligned_cols=13  Identities=46%  Similarity=0.861  Sum_probs=10.3

Q ss_pred             CCCCCCCEEEEEC
Q ss_conf             1678987368956
Q gi|254780739|r   17 VCPLTKGNLTLIS   29 (64)
Q Consensus        17 ~CP~~k~~L~~~~   29 (64)
                      .||.|+++|+...
T Consensus        99 ~CpnC~g~L~~~~  111 (158)
T d1odha_          99 SCPNCNGPLKLIP  111 (158)
T ss_dssp             BCSSSCCBEEEEC
T ss_pred             CCCCCCCCEEEEE
T ss_conf             9999987456776


No 32 
>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=20.97  E-value=18  Score=16.28  Aligned_cols=17  Identities=24%  Similarity=0.368  Sum_probs=13.2

Q ss_pred             HHHHHHHCCCCCCCEEE
Q ss_conf             68896511678987368
Q gi|254780739|r   10 PQLLEILVCPLTKGNLT   26 (64)
Q Consensus        10 ~~LL~iL~CP~~k~~L~   26 (64)
                      ..+-+.|.||+|...+.
T Consensus        17 ~~l~~~l~C~IC~~~~~   33 (97)
T d1jm7b_          17 DRLEKLLRCSRCTNILR   33 (97)
T ss_dssp             HHHHHTTSCSSSCSCCS
T ss_pred             HHHHHCCCCCCCCCHHH
T ss_conf             96212289925872211


Done!