Query         T0556 HR4435B, , 73 residues
Match_columns 73
No_of_seqs    8 out of 10
Neff          1.6 
Searched_HMMs 15564
Date          Tue May 25 15:42:59 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0556.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/scop70_1.75_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/scop70search/T0556.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d2icta1 a.35.1.3 (A:8-94) Anti  87.5    0.42 2.7E-05   25.8   4.4   39   15-53      5-45  (87)
  2 d2o38a1 a.35.1.13 (A:28-116) H  79.8     2.3 0.00015   21.9   5.5   49   10-59     10-60  (89)
  3 d2croa_ a.35.1.2 (A:) cro 434   79.7    0.72 4.6E-05   24.6   2.9   39    9-47      1-41  (65)
  4 d2ofya1 a.35.1.3 (A:3-84) Puta  71.3     1.3 8.3E-05   23.2   2.4   41   12-52     15-56  (82)
  5 d2a6ca1 a.35.1.13 (A:1-69) HTH  68.1     3.2  0.0002   21.1   3.8   37   11-47      6-44  (69)
  6 d1ic8a2 a.35.1.1 (A:87-180) He  66.5     4.1 0.00026   20.6   4.1   46   22-69     41-86  (94)
  7 d1b0na2 a.35.1.3 (A:1-68) SinR  64.9     1.5 9.9E-05   22.8   1.7   47   14-60      4-55  (68)
  8 d2r1jl1 a.35.1.2 (L:3-68) P22   64.8     3.9 0.00025   20.6   3.8   42   12-53      4-47  (66)
  9 d1utxa_ a.35.1.3 (A:) Putative  60.3     2.1 0.00013   22.1   1.7   36   20-57     12-47  (66)
 10 d2b5aa1 a.35.1.3 (A:1-77) Regu  60.3       6 0.00039   19.7   4.0   41   12-52     11-53  (77)
 11 d1y9qa1 a.35.1.8 (A:4-82) Prob  57.4     7.2 0.00046   19.2   4.0   43   11-53      8-52  (79)
 12 d1y7ya1 a.35.1.3 (A:5-73) Rest  53.7     3.2  0.0002   21.1   1.7   46   12-59     10-57  (69)
 13 d1x57a1 a.35.1.12 (A:8-85) End  52.1     3.2 0.00021   21.1   1.5   43   11-53      6-50  (78)
 14 d1r69a_ a.35.1.2 (A:) 434 C1 r  47.7     8.7 0.00056   18.8   3.2   36   12-47      2-39  (63)
 15 d1d1la_ a.35.1.2 (A:) cro lamb  38.9     8.8 0.00057   18.8   2.1   29   15-43      6-34  (61)
 16 d1hlva1 a.4.1.7 (A:1-66) DNA-b  38.0      17  0.0011   17.3   3.4   34   13-46     14-49  (66)
 17 d2ppxa1 a.35.1.3 (A:30-91) Unc  34.2      10 0.00067   18.4   1.9   31   21-51     11-41  (62)
 18 d2qjza1 a.40.1.1 (A:13-132) Mi  24.3      21  0.0013   16.8   2.0   41   17-68     64-104 (120)
 19 d2fbha1 a.4.5.28 (A:8-144) Tra  22.5      19  0.0012   17.0   1.4   24   22-45     43-66  (137)
 20 d1lmb3_ a.35.1.2 (3:) lambda C  22.1      35  0.0022   15.6   3.9   37   21-59     24-60  (87)
 21 d1ub9a_ a.4.5.28 (A:) Hypothet  20.1      39  0.0025   15.3   3.0   60   10-69     15-94  (100)

No 1  
>d2icta1 a.35.1.3 (A:8-94) Antitoxin HigA {Escherichia coli [TaxId: 562]}
Probab=87.49  E-value=0.42  Score=25.80  Aligned_cols=39  Identities=10%  Similarity=0.195  Sum_probs=30.6

Q ss_pred             HHHHHHHH--HHHHHHHHHCCHHHHHHHHHHCCCHHCCCCH
Q ss_conf             99999986--2055455433303888998861310002248
Q T0556            15 ALKDLLKD--MNQSSLAKECPLSQSMISSIVNSTYYANVSA   53 (73)
Q Consensus        15 Alk~LLke--mnQStLakecpLsQSmiSsIVNstyyanvsa   53 (73)
                      -|++++++  ++|..||+.+-++++.||.|.|+....+...
T Consensus         5 ~lke~r~~~glsq~~LA~~lGvs~~~is~ie~g~~~~s~~~   45 (87)
T d2icta1           5 IIQESLDELNVSLREFARAMEIAPSTASRLLTGKAALTPEM   45 (87)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHTCCHHHHHHHHHTSSCCCHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHCHHHHHHHHHHCCCCCHHH
T ss_conf             99999998699999999997246999999998501798999


No 2  
>d2o38a1 a.35.1.13 (A:28-116) Hypothetical protein RPA3824 {Rhodopseudomonas palustris [TaxId: 1076]}
Probab=79.85  E-value=2.3  Score=21.90  Aligned_cols=49  Identities=16%  Similarity=0.248  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHH--HHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHHHH
Q ss_conf             789999999998--62055455433303888998861310002248888999
Q T0556            10 TTVRNALKDLLK--DMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQEF   59 (73)
Q Consensus        10 ~tVrnAlk~LLk--emnQStLakecpLsQSmiSsIVNstyyanvsa~kCqEF   59 (73)
                      ..+-..++++.+  .|+|..||+.|-++|+.||.|.|+.+ .+++..+...+
T Consensus        10 ~~l~~~i~~~r~~~gltq~~lA~~~gis~~~is~ie~G~~-~~~~~~~L~~i   60 (89)
T d2o38a1          10 LRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKL-EGFSVERLMTL   60 (89)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCC-TTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC-CCCCHHHHHHH
T ss_conf             9999999999999599999999999733708999984997-89868999999


No 3  
>d2croa_ a.35.1.2 (A:) cro 434 {Bacteriophage 434 [TaxId: 10712]}
Probab=79.66  E-value=0.72  Score=24.57  Aligned_cols=39  Identities=26%  Similarity=0.227  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHH--HHHHHHHHHHCCHHHHHHHHHHCCCH
Q ss_conf             3789999999998--62055455433303888998861310
Q T0556             9 HTTVRNALKDLLK--DMNQSSLAKECPLSQSMISSIVNSTY   47 (73)
Q Consensus         9 h~tVrnAlk~LLk--emnQStLakecpLsQSmiSsIVNsty   47 (73)
                      |.++...++++.+  .|+|..||+.+-++++.||.+.|+..
T Consensus         1 M~~i~~rlr~~R~~~gltq~~lA~~~gvs~~ti~~~E~g~~   41 (65)
T d2croa_           1 MQTLSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAGVT   41 (65)
T ss_dssp             CCSHHHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCC
T ss_conf             94899999999998499999999997867949998787799


No 4  
>d2ofya1 a.35.1.3 (A:3-84) Putative transcriptional regulator RHA1_ro04071 {Rhodococcus sp. RHA1 [TaxId: 101510]}
Probab=71.30  E-value=1.3  Score=23.23  Aligned_cols=41  Identities=15%  Similarity=0.149  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHH-CCCC
Q ss_conf             9999999998620554554333038889988613100-0224
Q T0556            12 VRNALKDLLKDMNQSSLAKECPLSQSMISSIVNSTYY-ANVS   52 (73)
Q Consensus        12 VrnAlk~LLkemnQStLakecpLsQSmiSsIVNstyy-anvs   52 (73)
                      +-..++++=++++|+-||+.+-++++.||.|-|+... -++.
T Consensus        15 lG~~ir~~R~~~t~~eLA~~~Gvs~~~ls~iE~G~~~~ps~~   56 (82)
T d2ofya1          15 LGELLRSARGDMSMVTVAFDAGISVETLRKIETGRIATPAFF   56 (82)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHTCCHHHHHHHHTTCCSSCBHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHH
T ss_conf             999999999807999999897179999999982986788899


No 5  
>d2a6ca1 a.35.1.13 (A:1-69) HTH-motif protein NE1354 {Nitrosomonas europaea [TaxId: 915]}
Probab=68.07  E-value=3.2  Score=21.14  Aligned_cols=37  Identities=16%  Similarity=0.225  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHH--HHHHHHHHHHCCHHHHHHHHHHCCCH
Q ss_conf             89999999998--62055455433303888998861310
Q T0556            11 TVRNALKDLLK--DMNQSSLAKECPLSQSMISSIVNSTY   47 (73)
Q Consensus        11 tVrnAlk~LLk--emnQStLakecpLsQSmiSsIVNsty   47 (73)
                      .....++++.+  .|+|..||+-+-++|+.||.|-|+..
T Consensus         6 ~l~~~i~~~r~~~gltq~elA~~~gv~~~~is~ie~g~~   44 (69)
T d2a6ca1           6 QLLIVLQEHLRNSGLTQFKAAELLGVTQPRVSDLMRGKI   44 (69)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHTTCG
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHCCCC
T ss_conf             999999999999699999999998747847999976652


No 6  
>d1ic8a2 a.35.1.1 (A:87-180) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Human (Homo sapiens) [TaxId: 9606]}
Probab=66.55  E-value=4.1  Score=20.55  Aligned_cols=46  Identities=20%  Similarity=0.309  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             620554554333038889988613100022488889999999998753
Q T0556            22 DMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQEFGRWYKHFKKT   69 (73)
Q Consensus        22 emnQStLakecpLsQSmiSsIVNstyyanvsa~kCqEFGrWyk~ykk~   69 (73)
                      ...|.+.|...-|+||-||--.|...  .++..|-.-|=+||-.-|+.
T Consensus        41 ~I~Q~~Va~~TGlsQS~iSq~L~~g~--~M~~~KR~alYtWylr~kR~   86 (94)
T d1ic8a2          41 NIPQREVVDTTGLNQSHLSQHLNKGT--PMKTQKRAALYTWYVRKQRE   86 (94)
T ss_dssp             TCCHHHHHHHHCCCHHHHHHHHHSBC--CCCHHHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCC--CCCHHHHHHHHHHHHHHHHH
T ss_conf             88599999998015999999982799--85179999999999999999


No 7  
>d1b0na2 a.35.1.3 (A:1-68) SinR repressor, DNA-binding domain {Bacillus subtilis [TaxId: 1423]}
Probab=64.91  E-value=1.5  Score=22.81  Aligned_cols=47  Identities=19%  Similarity=0.229  Sum_probs=33.2

Q ss_pred             HHHHHHH--HHHHHHHHHHHCCHHHHHHHHHHCCC-HHCCCC--HHHHHHHH
Q ss_conf             9999999--86205545543330388899886131-000224--88889999
Q T0556            14 NALKDLL--KDMNQSSLAKECPLSQSMISSIVNST-YYANVS--AAKCQEFG   60 (73)
Q Consensus        14 nAlk~LL--kemnQStLakecpLsQSmiSsIVNst-yyanvs--a~kCqEFG   60 (73)
                      +.++++.  +.|+|..||+.+-++++.||.|.|+. +..++.  ..=|+.||
T Consensus         4 ~~ik~~R~~~gltq~~la~~~gis~~~i~~~E~g~~~~ps~~~l~~ia~~l~   55 (68)
T d1b0na2           4 QRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLD   55 (68)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCCSCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHC
T ss_conf             9999999982999999998979799999999859989999999999999989


No 8  
>d2r1jl1 a.35.1.2 (L:3-68) P22 C2 repressor, DNA-binding domain {Salmonella bacteriophage P22 [TaxId: 10754]}
Probab=64.83  E-value=3.9  Score=20.64  Aligned_cols=42  Identities=19%  Similarity=0.130  Sum_probs=32.4

Q ss_pred             HHHHHHHHH--HHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCH
Q ss_conf             999999999--862055455433303888998861310002248
Q T0556            12 VRNALKDLL--KDMNQSSLAKECPLSQSMISSIVNSTYYANVSA   53 (73)
Q Consensus        12 VrnAlk~LL--kemnQStLakecpLsQSmiSsIVNstyyanvsa   53 (73)
                      +.+.++++.  +.++|..||+.+-++++.+|.+.|+....++..
T Consensus         4 ig~rik~~R~~~g~tq~~lA~~~gvs~~~i~~~e~g~~~p~~~~   47 (66)
T d2r1jl1           4 MGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGEN   47 (66)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHHTTSSCCBHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHH
T ss_conf             99999999998599999999997989999999986998999999


No 9  
>d1utxa_ a.35.1.3 (A:) Putative transcription regulator CylR2 {Enterococcus faecalis [TaxId: 1351]}
Probab=60.29  E-value=2.1  Score=22.14  Aligned_cols=36  Identities=28%  Similarity=0.259  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHH
Q ss_conf             98620554554333038889988613100022488889
Q T0556            20 LKDMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQ   57 (73)
Q Consensus        20 LkemnQStLakecpLsQSmiSsIVNstyyanvsa~kCq   57 (73)
                      -+.|+|..||+.+-++++.+|.|.|+...  .+.....
T Consensus        12 ~~g~tq~elA~~~gis~~~is~~e~g~~~--p~~~~l~   47 (66)
T d1utxa_          12 KKKISQSELAALLEVSRQTINGIEKNKYN--PSLQLAL   47 (66)
T ss_dssp             HTTCCHHHHHHHHTSCHHHHHHHHTTSCC--CCHHHHH
T ss_pred             HCCCCHHHHHHHCCCCHHHHHHHHCCCCC--CCHHHHH
T ss_conf             85999999988635579899999869989--9999999


No 10 
>d2b5aa1 a.35.1.3 (A:1-77) Regulatory protein C.BclI {Bacillus caldolyticus [TaxId: 1394]}
Probab=60.27  E-value=6  Score=19.66  Aligned_cols=41  Identities=20%  Similarity=0.237  Sum_probs=31.0

Q ss_pred             HHHHHHHHHH--HHHHHHHHHHCCHHHHHHHHHHCCCHHCCCC
Q ss_conf             9999999998--6205545543330388899886131000224
Q T0556            12 VRNALKDLLK--DMNQSSLAKECPLSQSMISSIVNSTYYANVS   52 (73)
Q Consensus        12 VrnAlk~LLk--emnQStLakecpLsQSmiSsIVNstyyanvs   52 (73)
                      +...++++.+  .++|..||+.+-++++.|+.|.|+.....+.
T Consensus        11 ~g~~ik~~R~~~gltq~~lA~~~gis~~~i~~~e~g~~~p~~~   53 (77)
T d2b5aa1          11 FGRTLKKIRTQKGVSQEELADLAGLHRTYISEVERGDRNISLI   53 (77)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCSCCBHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHH
T ss_conf             9999999999809999999989797999999998699899999


No 11 
>d1y9qa1 a.35.1.8 (A:4-82) Probable transcriptional regulator VC1968, N-terminal domain {Vibrio cholerae [TaxId: 666]}
Probab=57.37  E-value=7.2  Score=19.25  Aligned_cols=43  Identities=19%  Similarity=0.314  Sum_probs=32.1

Q ss_pred             HHHHHHHHHH--HHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCH
Q ss_conf             8999999999--862055455433303888998861310002248
Q T0556            11 TVRNALKDLL--KDMNQSSLAKECPLSQSMISSIVNSTYYANVSA   53 (73)
Q Consensus        11 tVrnAlk~LL--kemnQStLakecpLsQSmiSsIVNstyyanvsa   53 (73)
                      .+-+.|+++.  +.|+|..||+.+-++.+.|+.|.|+....++..
T Consensus         8 ~ig~~lr~~R~~~g~sq~~lA~~~gis~~~i~~~E~g~~~p~~~~   52 (79)
T d1y9qa1           8 QIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIAT   52 (79)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHSSCHHHHHHHHTTCSCCCHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHH
T ss_conf             999999999998299999999987711648999986998999999


No 12 
>d1y7ya1 a.35.1.3 (A:5-73) Restriction-modification controller protein C.AhdI {Aeromonas hydrophila [TaxId: 644]}
Probab=53.69  E-value=3.2  Score=21.13  Aligned_cols=46  Identities=20%  Similarity=0.247  Sum_probs=33.9

Q ss_pred             HHHHHHHHHH--HHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHHHH
Q ss_conf             9999999998--62055455433303888998861310002248888999
Q T0556            12 VRNALKDLLK--DMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQEF   59 (73)
Q Consensus        12 VrnAlk~LLk--emnQStLakecpLsQSmiSsIVNstyyanvsa~kCqEF   59 (73)
                      ..+.++++-+  .|+|..||+.|-.+++.||.+-++...  .+......+
T Consensus        10 ~g~~ik~~R~~~gltq~~lA~~~gis~~~i~~~E~g~~~--p~~~~l~~i   57 (69)
T d1y7ya1          10 FGQRLRELRTAKGLSQETLAFLSGLDRSYVGGVERGQRN--VSLVNILKL   57 (69)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHTTCSC--CBHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCCC--CCHHHHHHH
T ss_conf             999999999983999999986829989899999879999--999999999


No 13 
>d1x57a1 a.35.1.12 (A:8-85) Endothelial differentiation-related factor 1, EDF1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=52.12  E-value=3.2  Score=21.11  Aligned_cols=43  Identities=16%  Similarity=0.155  Sum_probs=32.7

Q ss_pred             HHHHHHHHHH--HHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCH
Q ss_conf             8999999999--862055455433303888998861310002248
Q T0556            11 TVRNALKDLL--KDMNQSSLAKECPLSQSMISSIVNSTYYANVSA   53 (73)
Q Consensus        11 tVrnAlk~LL--kemnQStLakecpLsQSmiSsIVNstyyanvsa   53 (73)
                      ++-..++++-  +.|+|..||+.+-++++.||.+-|+....++..
T Consensus         6 ~iG~~I~~~R~~~gltq~~lA~~~gis~~~is~~E~G~~~p~~~~   50 (78)
T d1x57a1           6 EVGKVIQQGRQSKGLTQKDLATKINEKPQVIADYESGRAIPNNQV   50 (78)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHTSCHHHHHHHHHTCSCCCHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHCCCCCHHHHHHHHCCCCCCCHHH
T ss_conf             999999999998599726788718878999999980677999999


No 14 
>d1r69a_ a.35.1.2 (A:) 434 C1 repressor, DNA-binding domain {Bacteriophage 434 [TaxId: 10712]}
Probab=47.65  E-value=8.7  Score=18.79  Aligned_cols=36  Identities=22%  Similarity=0.278  Sum_probs=28.3

Q ss_pred             HHHHHHHHH--HHHHHHHHHHHCCHHHHHHHHHHCCCH
Q ss_conf             999999999--862055455433303888998861310
Q T0556            12 VRNALKDLL--KDMNQSSLAKECPLSQSMISSIVNSTY   47 (73)
Q Consensus        12 VrnAlk~LL--kemnQStLakecpLsQSmiSsIVNsty   47 (73)
                      +-..++++.  +.|+|..||+.+-.+++.||.+-|+..
T Consensus         2 ig~rik~~R~~~g~sq~elA~~~gvs~~~is~~E~g~~   39 (63)
T d1r69a_           2 ISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKT   39 (63)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHCCCC
T ss_conf             89999999998499699999983739999999878989


No 15 
>d1d1la_ a.35.1.2 (A:) cro lambda repressor {Bacteriophage lambda [TaxId: 10710]}
Probab=38.85  E-value=8.8  Score=18.77  Aligned_cols=29  Identities=31%  Similarity=0.360  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             99999986205545543330388899886
Q T0556            15 ALKDLLKDMNQSSLAKECPLSQSMISSIV   43 (73)
Q Consensus        15 Alk~LLkemnQStLakecpLsQSmiSsIV   43 (73)
                      .|.|.+.+..|.+.|+..-+.|+-||--+
T Consensus         6 tL~dyv~~~GQaKaA~~LGv~Q~AIsKAi   34 (61)
T d1d1la_           6 TLKDYAMRFGQTKTAKDLGVYQSAINKAI   34 (61)
T ss_dssp             EHHHHHHHHCHHHHHHHHTCCTHHHHHHH
T ss_pred             EHHHHHHHHCHHHHHHHCCCCHHHHHHHH
T ss_conf             19999999775989998296488999999


No 16 
>d1hlva1 a.4.1.7 (A:1-66) DNA-binding domain of centromere binding protein B (CENP-B) {Human (Homo sapiens) [TaxId: 9606]}
Probab=38.05  E-value=17  Score=17.30  Aligned_cols=34  Identities=12%  Similarity=0.386  Sum_probs=25.7

Q ss_pred             HHHHHHHHHH--HHHHHHHHHCCHHHHHHHHHHCCC
Q ss_conf             9999999986--205545543330388899886131
Q T0556            13 RNALKDLLKD--MNQSSLAKECPLSQSMISSIVNST   46 (73)
Q Consensus        13 rnAlk~LLke--mnQStLakecpLsQSmiSsIVNst   46 (73)
                      ...+..+-..  |.|+.+|++--+..|.+|+|+.+.
T Consensus        14 ~~ii~~~e~g~k~sq~eIA~~fGv~~STvs~IlKnK   49 (66)
T d1hlva1          14 SRIIQEVEENPDLRKGEIARRFNIPPSTLSTILKNK   49 (66)
T ss_dssp             HHHHHHHHHCTTSCHHHHHHHHTCCHHHHHHHHHTH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             999999980872109999999599764799999879


No 17 
>d2ppxa1 a.35.1.3 (A:30-91) Uncharacterized protein Atu1735 {Agrobacterium tumefaciens [TaxId: 358]}
Probab=34.20  E-value=10  Score=18.38  Aligned_cols=31  Identities=3%  Similarity=0.050  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHCCCHHCCC
Q ss_conf             8620554554333038889988613100022
Q T0556            21 KDMNQSSLAKECPLSQSMISSIVNSTYYANV   51 (73)
Q Consensus        21 kemnQStLakecpLsQSmiSsIVNstyyanv   51 (73)
                      ..|+|..||+.+-.++++||.+-|+....+.
T Consensus        11 ~gltQ~elA~~lGvs~~tvs~~E~G~~~P~~   41 (62)
T d2ppxa1          11 LKLTQEEFSARYHIPLGTLRDWEQGRSEPDQ   41 (62)
T ss_dssp             TTCCHHHHHHHHTCCHHHHHHHHTTSSCCCH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHCCCCCCCH
T ss_conf             6999999999969899999988779889999


No 18 
>d2qjza1 a.40.1.1 (A:13-132) Microtubule-associated protein eb1, N-terminal microtubule binding domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=24.32  E-value=21  Score=16.80  Aligned_cols=41  Identities=27%  Similarity=0.547  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999862055455433303888998861310002248888999999999875
Q T0556            17 KDLLKDMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQEFGRWYKHFKK   68 (73)
Q Consensus        17 k~LLkemnQStLakecpLsQSmiSsIVNstyyanvsa~kCqEFGrWyk~ykk   68 (73)
                      |-|-.-++.-.+.|..|     |..+|.+.|-.|+      ||-+|+++|-.
T Consensus        64 klLq~af~kl~I~k~i~-----v~kLikgk~qdnl------eflqWfk~f~d  104 (120)
T d2qjza1          64 KILQAGFKRMGVDKIIP-----VDKLVKGKFQDNF------EFVQWFKKFFD  104 (120)
T ss_dssp             HHHHHHHHHHTCCCCCC-----HHHHTTCCHHHHH------HHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCCCC-----HHHHHCCCCHHHH------HHHHHHHHHHH
T ss_conf             99999999839998888-----9998625606699------99999999998


No 19 
>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]}
Probab=22.46  E-value=19  Score=17.05  Aligned_cols=24  Identities=13%  Similarity=0.272  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHCC
Q ss_conf             620554554333038889988613
Q T0556            22 DMNQSSLAKECPLSQSMISSIVNS   45 (73)
Q Consensus        22 emnQStLakecpLsQSmiSsIVNs   45 (73)
                      .++++.||+...++++.+|.+|+.
T Consensus        43 ~~t~~~la~~~~~~~~~vs~~v~~   66 (137)
T d2fbha1          43 SPTQRELAQSVGVEGPTLARLLDG   66 (137)
T ss_dssp             CCBHHHHHHHHTCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf             976999999989789899999999


No 20 
>d1lmb3_ a.35.1.2 (3:) lambda C1 repressor, DNA-binding domain {Bacteriophage lambda [TaxId: 10710]}
Probab=22.11  E-value=35  Score=15.57  Aligned_cols=37  Identities=19%  Similarity=0.231  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHCCCHHCCCCHHHHHHH
Q ss_conf             862055455433303888998861310002248888999
Q T0556            21 KDMNQSSLAKECPLSQSMISSIVNSTYYANVSAAKCQEF   59 (73)
Q Consensus        21 kemnQStLakecpLsQSmiSsIVNstyyanvsa~kCqEF   59 (73)
                      +.++|..||+..-.+++.||.|-|+.-.  ++...-+.+
T Consensus        24 ~gltq~~lA~~lgis~~~is~~E~g~~~--~s~~~l~~i   60 (87)
T d1lmb3_          24 LGLSQESVADKMGMGQSGVGALFNGINA--LNAYNAALL   60 (87)
T ss_dssp             HTCCHHHHHHHHTSCHHHHHHHHTTSSC--CCHHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHCCCC--CCHHHHHHH
T ss_conf             3999999998867228889999811478--759999999


No 21 
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=20.08  E-value=39  Score=15.33  Aligned_cols=60  Identities=17%  Similarity=0.195  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHH---HHHHHHHHHHHCCHHHHHHHHHHCC-----------------CHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             78999999999---8620554554333038889988613-----------------100022488889999999998753
Q T0556            10 TTVRNALKDLL---KDMNQSSLAKECPLSQSMISSIVNS-----------------TYYANVSAAKCQEFGRWYKHFKKT   69 (73)
Q Consensus        10 ~tVrnAlk~LL---kemnQStLakecpLsQSmiSsIVNs-----------------tyyanvsa~kCqEFGrWyk~ykk~   69 (73)
                      +..|-++...|   .+++.+.||+...++++.+|.+++.                 ..+-.++..--++|.+|+...++.
T Consensus        15 ~p~r~~IL~~L~~~~~~~~~eLa~~l~is~~~vs~~l~~L~~~glV~~~~~~~d~r~~~~~LT~~G~~~~~~~~~~~~~~   94 (100)
T d1ub9a_          15 NPVRLGIMIFLLPRRKAPFSQIQKVLDLTPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGMEEAKRFLSSLKAV   94 (100)
T ss_dssp             SHHHHHHHHHHHHHSEEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCCEEHHHHHHHHHHCCCCCCHHHHHHHHHCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999999876047990199999998625432309999882310368887576776534557899999999999999999


Done!