Query         T0576 3NA2, Leptospirillum rubarum, 172 residues
Match_columns 172
No_of_seqs    2 out of 4
Neff          1.1 
Searched_HMMs 15564
Date          Fri Jun  4 14:25:29 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0576.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/scop70_1.75_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/scop70search/T0576.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1k7ka_ c.51.4.1 (A:) Hypothet  81.5    0.18 1.2E-05   27.8   0.3   39   11-49      1-44  (209)
  2 d1tf1a_ d.110.2.2 (A:) Transcr  32.8     2.3 0.00015   21.0  -1.7   35   13-50      1-38  (184)
  3 d1xiwa_ b.1.1.4 (A:) CD3 epsil  31.1      13 0.00083   16.2   1.9   14   62-75      3-16  (91)
  4 d1jbja2 b.1.1.4 (A:1-100) CD3   26.8      17  0.0011   15.5   1.9   13   63-75      8-20  (100)
  5 d1m55a_ d.89.1.3 (A:) Replicat  22.3     5.5 0.00035   18.6  -1.3   75   77-154    86-182 (193)
  6 d1txka1 b.1.18.2 (A:397-511) G  17.8      33  0.0021   13.7   3.1   38   90-129    76-114 (115)
  7 d2pgga1 e.8.1.4 (A:31-804) Vir  15.0      35  0.0023   13.5   1.5   45  118-167   407-456 (774)
  8 d1l8ya_ a.21.1.1 (A:) Nucleola  13.6      34  0.0022   13.6   1.1   13  127-139     3-15  (84)
  9 d1s4ca1 b.82.2.7 (A:1-143) Hyp  12.5      26  0.0017   14.3   0.2   37  128-164    52-88  (143)
 10 d1sf9a_ b.34.15.1 (A:) Hypothe  11.3      15 0.00095   15.9  -1.4    8   13-20      4-11  (118)

No 1  
>d1k7ka_ c.51.4.1 (A:) Hypothetical protein YggV {Escherichia coli [TaxId: 562]}
Probab=81.48  E-value=0.18  Score=27.85  Aligned_cols=39  Identities=38%  Similarity=0.716  Sum_probs=21.4

Q ss_pred             CCCCCCEEEEEECCCC--HHHHHH--HHHHHHHHC-CEEEEEEC
Q ss_conf             4554310576402741--246889--999999736-81688741
Q T0576            11 SSGRENLYFQGHVEPG--VTDRIG--QMILEMFRT-GMCLFSVR   49 (172)
Q Consensus        11 ssgrenlyfqgh~~~~--vtdrig--~milemfr~-gmclfsvr   49 (172)
                      ||||+||||+|.|..-  +|--.+  .-+-++|.. +..+.+..
T Consensus         1 ~~~~~~~~~~~~M~kI~~aT~N~~K~~E~~~iL~~~~i~v~~~~   44 (209)
T d1k7ka_           1 SSGRENLYFQGHMQKVVLATGNVGKVRELASLLSDFGLDIVAQT   44 (209)
T ss_dssp             CCCTTSSCC--CCEEEEESCCCHHHHHHHHHHHGGGTEEEEETT
T ss_pred             CCCCCCCHHHCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEEHH
T ss_conf             99520216454787899993988899999997512597798546


No 2  
>d1tf1a_ d.110.2.2 (A:) Transcriptional regulator AllR, C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=32.77  E-value=2.3  Score=20.96  Aligned_cols=35  Identities=37%  Similarity=0.734  Sum_probs=20.7

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHH--CC-EEEEEECC
Q ss_conf             5431057640274124688999999973--68-16887418
Q T0576            13 GRENLYFQGHVEPGVTDRIGQMILEMFR--TG-MCLFSVRS   50 (172)
Q Consensus        13 grenlyfqgh~~~~vtdrig~milemfr--~g-mclfsvrs   50 (172)
                      ||+||||++++|  +.+ +..-+|+.+.  +| .|.+++++
T Consensus         1 ~r~~l~y~~~~d--l~~-~A~p~L~~La~~~getv~L~v~~   38 (184)
T d1tf1a_           1 GRENLYFQGHMD--VLS-VAGPFMRRLMLLSGETVNVAIRN   38 (184)
T ss_dssp             CTTSTTCHHHHH--HHH-HHHHHHHHHHHHHCSEEEEEEEE
T ss_pred             CCCCEEEECCCC--HHH-HHHHHHHHHHHHHCCEEEEEEEE
T ss_conf             965135645699--899-99999999999879959999999


No 3  
>d1xiwa_ b.1.1.4 (A:) CD3 epsilon chain ectodomain fragment {Human (Homo sapiens) [TaxId: 9606]}
Probab=31.05  E-value=13  Score=16.23  Aligned_cols=14  Identities=36%  Similarity=0.603  Sum_probs=11.0

Q ss_pred             CEEEEEECCEEEEE
Q ss_conf             10677405346765
Q T0576            62 ARKVEITGTSLTIE   75 (172)
Q Consensus        62 arkv~i~gtsltie   75 (172)
                      .-||.||||+.++-
T Consensus         3 ~~~VsISGTtV~LT   16 (91)
T d1xiwa_           3 PYKVSISGTTVILT   16 (91)
T ss_dssp             CCEEEEETTEEEEE
T ss_pred             CEEEEEECCEEEEE
T ss_conf             34899837899997


No 4  
>d1jbja2 b.1.1.4 (A:1-100) CD3 epsilon chain ectodomain fragment {Mouse (Mus musculus) [TaxId: 10090]}
Probab=26.83  E-value=17  Score=15.49  Aligned_cols=13  Identities=46%  Similarity=0.672  Sum_probs=10.6

Q ss_pred             EEEEEECCEEEEE
Q ss_conf             0677405346765
Q T0576            63 RKVEITGTSLTIE   75 (172)
Q Consensus        63 rkv~i~gtsltie   75 (172)
                      -||.||||+.++-
T Consensus         8 ykVSISGTtV~LT   20 (100)
T d1jbja2           8 YKVSISGTSVELT   20 (100)
T ss_dssp             CEEEEETTEEEEE
T ss_pred             EEEEEECCEEEEE
T ss_conf             8999858899997


No 5  
>d1m55a_ d.89.1.3 (A:) Replication protein Rep, nuclease domain {Adeno-associated virus, aav-5 [TaxId: 272636]}
Probab=22.26  E-value=5.5  Score=18.57  Aligned_cols=75  Identities=31%  Similarity=0.569  Sum_probs=44.0

Q ss_pred             CCEEEEEEEEEEEE------------------EEEE-CCCCCCCCEEEEEEEECCCCCCEEHHHHCHH-HCCCCCCCHHH
Q ss_conf             12167775322237------------------7674-2757578648999970366674201100100-06798787678
Q T0576            77 EDWHLHCKLETVET------------------VVFD-LSPKDNGGIRMAVVFRDKHQAPVLRAAWLPR-LMPETPSPPEQ  136 (172)
Q Consensus        77 e~whlhc~letvet------------------vvfd-lspk~nggirmavvf~dkhq~pvlraawlpr-lmp~tpsppeq  136 (172)
                      +.+|||+-+++-.-                  .+|+ .+|+-.+=.+++...+++ +--++-...+|+ |||.+  |||-
T Consensus        86 ~~fHlHvli~~~~i~~r~~gr~l~~~~~~~~~~~~~g~~p~~~~w~~~~k~kk~g-~~ri~d~~fI~nYLlpK~--ppe~  162 (193)
T d1m55a_          86 EYFHLHTLVETSGISSMVLGRYVSQIRAQLVKVVFQGIEPQINDWVAITKVKKGG-ANKVVDSGYIPAYLLPKV--QPEL  162 (193)
T ss_dssp             SCEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHTSTTCCCCSTTSEEECBSSTTS-CBCCEETTHHHHHTTTCC--TTTE
T ss_pred             CCEEEEEEECCCCCCCEEHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCC-CCEECCHHHHHHHHCCCC--CCCC
T ss_conf             8526999954899783109999999999999986266776766633688741688-745621878898745678--8650


Q ss_pred             HHHHHH--HHCCCCEEEECC
Q ss_conf             877655--420141577046
Q T0576           137 FWAFTQ--RYIDLPMVVDAR  154 (172)
Q Consensus       137 fwaftq--ryidlp~vvdar  154 (172)
                      -||+|.  +|++.-.-+..|
T Consensus       163 ~WAwTNi~e~~~acLs~~~R  182 (193)
T d1m55a_         163 QWAWTNLDEYKLAALNLEER  182 (193)
T ss_dssp             EEEEECCGGGTTGGGCHHHH
T ss_pred             EEEEECHHHHHHHHHHHHHH
T ss_conf             79871698899998658999


No 6  
>d1txka1 b.1.18.2 (A:397-511) Glucans biosynthesis protein G (MdoG, OpgG), C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=17.75  E-value=33  Score=13.72  Aligned_cols=38  Identities=21%  Similarity=0.345  Sum_probs=25.6

Q ss_pred             EEEEECCCCC-CCCEEEEEEEECCCCCCEEHHHHCHHHCCC
Q ss_conf             7767427575-786489999703666742011001000679
Q T0576            90 TVVFDLSPKD-NGGIRMAVVFRDKHQAPVLRAAWLPRLMPE  129 (172)
Q Consensus        90 tvvfdlspk~-nggirmavvf~dkhq~pvlraawlprlmp~  129 (172)
                      -+.|+|.|.| +.-+-|-...++..+  .|--.||-|+-|+
T Consensus        76 Rl~f~l~p~d~~~~vELR~~L~~~~~--~lSETWlYq~~~~  114 (115)
T d1txka1          76 RLVMRVKVKDAKKTTEMRAALVNADQ--TLSETWSYQLPAN  114 (115)
T ss_dssp             EEEEEEEESCTTSCEEEEEEEECSSS--EEEEEEEEEECTT
T ss_pred             EEEEEEECCCCCCCEEEEEEEECCCE--ECCCEEEEECCCC
T ss_conf             99999983899998799999605995--3140693445889


No 7  
>d2pgga1 e.8.1.4 (A:31-804) Viral RNA polymerase {Avian infectious bursal disease virus [TaxId: 10995]}
Probab=15.04  E-value=35  Score=13.51  Aligned_cols=45  Identities=33%  Similarity=0.505  Sum_probs=33.8

Q ss_pred             EHHHHCHHHCCCCCCC-HHHHHHHHHHHCCCCEEEEC----CCCEEECCCCCCCC
Q ss_conf             0110010006798787-67887765542014157704----67467526788888
Q T0576           118 LRAAWLPRLMPETPSP-PEQFWAFTQRYIDLPMVVDA----RNRQLVFPGSGQGG  167 (172)
Q Consensus       118 lraawlprlmp~tpsp-peqfwaftqryidlp~vvda----rnrqlv~pgsgqg~  167 (172)
                      |.-.|-     +.-+| -.+-||.+--||---||||.    -|-|+-+||.|-|.
T Consensus       407 LTRGWs-----~~G~P~fN~TWAt~am~~aP~mvVdsscllmNlQ~kt~GQGSGN  456 (774)
T d2pgga1         407 LTRGWS-----DNGDPMFNQTWATFAMNIAPALVVDSSCLIMNLQIKTYGQGSGN  456 (774)
T ss_dssp             HHHHSE-----ETTEECBCHHHHHHHHHTHHHHHBSCEEEEBTEEEECCSBCTTS
T ss_pred             HHCCCC-----CCCCCCCCHHHHHHHHHCCCCEEECHHHHHHHCCCCCCCCCCCC
T ss_conf             972677-----68985635889999983186136422676520455678888873


No 8  
>d1l8ya_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]}
Probab=13.60  E-value=34  Score=13.60  Aligned_cols=13  Identities=38%  Similarity=1.099  Sum_probs=11.4

Q ss_pred             CCCCCCCHHHHHH
Q ss_conf             6798787678877
Q T0576           127 MPETPSPPEQFWA  139 (172)
Q Consensus       127 mp~tpsppeqfwa  139 (172)
                      .||||..+|+.|.
T Consensus         3 lpetpktaeeiWQ   15 (84)
T d1l8ya_           3 LPESPKRAEEIWQ   15 (84)
T ss_dssp             CCCCCCHHHHHHH
T ss_pred             CCCCCCCHHHHHH
T ss_conf             9989878999999


No 9  
>d1s4ca1 b.82.2.7 (A:1-143) Hypothetical protein HI0227 {Haemophilus influenzae [TaxId: 727]}
Probab=12.52  E-value=26  Score=14.34  Aligned_cols=37  Identities=19%  Similarity=0.309  Sum_probs=0.0

Q ss_pred             CCCCCCHHHHHHHHHHHCCCCEEEECCCCEEECCCCC
Q ss_conf             7987876788776554201415770467467526788
Q T0576           128 PETPSPPEQFWAFTQRYIDLPMVVDARNRQLVFPGSG  164 (172)
Q Consensus       128 p~tpsppeqfwaftqryidlp~vvdarnrqlv~pgsg  164 (172)
                      .+|-.+.+.+|-.-++|||+-.++..+.+--+.+-++
T Consensus        52 ~~t~~~~~~~~E~H~~YiDIq~vl~G~E~i~~~~~~~   88 (143)
T d1s4ca1          52 PETAEPSSKKAELHHEYLDVQVLIRGTENIEVGATYP   88 (143)
T ss_dssp             CBCBCGGGSCEEECSSEEEEEEEEESCEEEEECCSCC
T ss_pred             CCCCCHHHCCCCCCCCEEEEEEEEECCEEEEEECCCC
T ss_conf             7767832356210122699999966766899823777


No 10 
>d1sf9a_ b.34.15.1 (A:) Hypothetical protein YfhH {Bacillus subtilis [TaxId: 1423]}
Probab=11.30  E-value=15  Score=15.87  Aligned_cols=8  Identities=88%  Similarity=1.468  Sum_probs=0.0

Q ss_pred             CCCCEEEE
Q ss_conf             54310576
Q T0576            13 GRENLYFQ   20 (172)
Q Consensus        13 grenlyfq   20 (172)
                      |.||||||
T Consensus         4 ~~~~~~~~   11 (118)
T d1sf9a_           4 GTENLYFQ   11 (118)
T ss_dssp             GGGHHHHH
T ss_pred             CCCCEEEC
T ss_conf             76520340


Done!