Query         T0642 J0KE1, Homo sapiens, 387 residues
Match_columns 387
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 22458
Date          Thu Jul 22 14:50:16 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0642.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0642.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1dzl_A Late major capsid prote  35.5      13  0.0006   15.6   1.8  103  112-229   321-428 (505)
  2 2r5k_A Major capsid protein L1  33.6      16 0.00072   15.1   1.9   75  113-201   301-375 (424)
  3 1wyz_A Putative S-adenosylmeth  19.5      30  0.0014   13.5   1.2   52  159-214   187-240 (242)
  4 2con_A RUH-035 protein, NIN on  13.8      50  0.0022   12.3   1.2   16  170-185     9-24  (79)
  5 1fyx_A TOLL-like receptor 2; b  11.9      45   0.002   12.6   0.5   13   28-40     13-25  (149)
  6 1oy5_A TRNA (guanine-N(1)-)-me  11.7      58  0.0026   12.0   1.1   14  199-212   107-120 (257)
  7 3iyj_F Major capsid protein L1  11.7      58  0.0026   11.9   2.5   76  113-202   319-396 (495)
  8 3knu_A TRNA (guanine-N(1)-)-me  11.4      60  0.0027   11.9   1.1   16  199-214   125-140 (253)
  9 1ual_A TRNA (guanine-N(1)-)-me  10.4      64  0.0028   11.7   0.8   15  199-213   125-139 (274)
 10 2r2y_A Protein ADRM1; proteaso  10.1      66  0.0029   11.6   1.3   73    2-86     81-153 (153)

No 1  
>1dzl_A Late major capsid protein L1; icosahedral; 3.50A {Human papillomavirus type 16} SCOP: b.121.6.1
Probab=35.49  E-value=13  Score=15.55  Aligned_cols=103  Identities=25%  Similarity=0.386  Sum_probs=55.5

Q ss_pred             HHHHHHCEEEEEECCCCCCCE--ECCCCCCHHHHHHHHCCCCCCCCCCHHCCCCCEEEEECCCCCEEEEEECCEEECHHH
Q ss_conf             322320316898537764210--000145412333210135543201010008847898347974478762003210145
Q T0642           112 STSCIENTIFICCENTERSTH--ISTARGETISDIFFERENTANDHASVERYSPECIFICSHAPEWILLCHECKITATTH  189 (387)
Q Consensus       112 stscientificcentersth--istargetisdifferentandhasveryspecificshapewillcheckitatth  189 (387)
                      .--|-.|.+|+-+-.+-|+|.  ||.+...  +..-|...|-..-.-.||-|.-..||            .-|||+-|..
T Consensus       321 NGicW~NqlFVTVvDnTR~TNftIsv~~~~--~~~~Y~~~~fk~YlRHvEEyeLsfI~------------QLCkV~Lt~E  386 (505)
T 1dzl_A          321 NGICWGNQLFVTVVDTTRSTNMSLCAAIST--SETTYKNTNFKEYLRHGEEYDLQFIF------------QLCKITLTAD  386 (505)
T ss_dssp             CSEEGGGCCEEEEEECSBCCCEEEEEESCS--CCSSCCGGGEEEEEEEEEEEEEEEEE------------EEEEEECCHH
T ss_pred             CCEEECCEEEEEEEECCCCCCEEEEEECCC--CCCCCCHHHHHHHHHHHHHEEEEEEE------------EEEEEECCHH
T ss_conf             835776767999886888861799962689--74543577757775443121327476------------8753057899


Q ss_pred             HHHHHHCCCCCEEE--EEECCHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf             67876416782126--77512023-345666778877777543
Q T0642           190 EMEETINGINPACI--FICGRVEH-AHALASTWCFINALISTS  229 (387)
Q Consensus       190 emeetinginpaci--ficgrveh-ahalastwcfinalists  229 (387)
                      -| -.|++.||.-+  +--|-+-- ...|..++-||+.+-.+-
T Consensus       387 vl-A~ih~Mnp~ILe~Wnlg~~Ppp~~~leD~YRfi~S~At~C  428 (505)
T 1dzl_A          387 VM-TYIHSMNSTILEDWNFGLQPPPGGTLEDTYRFVTSQAIAC  428 (505)
T ss_dssp             HH-HHHHHHCTHHHHHSCCCCCCCTTCCHHHHHHHHHHHHTTC
T ss_pred             HH-HHHHCCCCHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCC
T ss_conf             99-9987059016641616741698897543123412502148


No 2  
>2r5k_A Major capsid protein L1; HPV11, pentamer, structure, type specific epitope, late protein, virion, viral protein; 3.20A {Human papillomavirus type 11} PDB: 2r5h_A 2r5j_A
Probab=33.63  E-value=16  Score=15.10  Aligned_cols=75  Identities=24%  Similarity=0.388  Sum_probs=37.9

Q ss_pred             HHHHHCEEEEEECCCCCCCEECCCCCCHHHHHHHHCCCCCCCCCCHHCCCCCEEEEECCCCCEEEEEECCEEECHHHHHH
Q ss_conf             22320316898537764210000145412333210135543201010008847898347974478762003210145678
Q T0642           113 TSCIENTIFICCENTERSTHISTARGETISDIFFERENTANDHASVERYSPECIFICSHAPEWILLCHECKITATTHEME  192 (387)
Q Consensus       113 tscientificcentersthistargetisdifferentandhasveryspecificshapewillcheckitattheme  192 (387)
                      --|-.|.+|+-+-.+-|+|.++-.-..+-+. -|...|-..-.-.||-|.-..||            .-|||+-|..-| 
T Consensus       301 GIcW~NqlFVTVvDnTR~TN~tIs~~~~~~~-~Y~~~~fkeYlRHvEEyeLsfIf------------QLCkV~Lt~Evl-  366 (424)
T 2r5k_A          301 GICWGNHLSVTVVDTTRSTNMTLCASVSKSA-TYTNSDYKEYMRHVEEFDLQFIF------------QLCSITLSAEVM-  366 (424)
T ss_dssp             SBCGGGCCEEEEEECTBCCCEEEEEESCTTS-SSCGGGEEEEEEEEEEEEEEEEE------------EEEEEECCHHHH-
T ss_pred             CCEECCEEEEEEEECCCCCEEEEEEECCCCC-CCCHHHHHHHHHHHHHEEEEEEE------------EEEEEECCHHHH-
T ss_conf             6333672699988778885489985079756-46767766765444230117376------------885305789999-


Q ss_pred             HHHCCCCCE
Q ss_conf             764167821
Q T0642           193 ETINGINPA  201 (387)
Q Consensus       193 etinginpa  201 (387)
                      ..|++.||.
T Consensus       367 a~ih~Mnp~  375 (424)
T 2r5k_A          367 AYIHTMNPS  375 (424)
T ss_dssp             HHHHHHCHH
T ss_pred             HHHHCCCHH
T ss_conf             998706902


No 3  
>1wyz_A Putative S-adenosylmethionine-dependent methytransferase; northeast structural genomics consortium, BTR28; 2.50A {Bacteroides thetaiotaomicron vpi-5482} SCOP: c.90.1.1
Probab=19.52  E-value=30  Score=13.55  Aligned_cols=52  Identities=23%  Similarity=0.317  Sum_probs=29.3

Q ss_pred             HCCCCC-EEEEECCCCCEEEEEECCEEECHHHHHHHHHC-CCCCEEEEEECCHHHHHH
Q ss_conf             000884-78983479744787620032101456787641-678212677512023345
Q T0642           159 ERYSPE-CIFICSHAPEWILLCHECKITATTHEMEETIN-GINPACIFICGRVEHAHA  214 (387)
Q Consensus       159 eryspe-cificshapewillcheckitatthemeetin-ginpacificgrvehaha  214 (387)
                      +.++|+ -++||..+-    .-||--++.+-.++.+.+. +...-+||+-|+|||.|.
T Consensus       187 ~~~~~~t~v~I~~elT----k~~E~i~~gtl~~i~~~i~~~~K~p~Viiig~v~~~~~  240 (242)
T 1wyz_A          187 QNCRPQTKLCIAANIT----CEGEFIQTRTVKDWKGHIPELSKIPCIFLLYKLEHHHH  240 (242)
T ss_dssp             HHSCSSSEEEEEESTT----SSSCEEEEEEHHHHSSCCC---CCCEEEEEEC------
T ss_pred             HCCCCCCEEEEEEECC----CCCEEEEEEEHHHHHHHHHHCCCCCEEEEEECEECCCC
T ss_conf             6138997899999586----40669999299999875351279988999977002556


No 4  
>2con_A RUH-035 protein, NIN one binding protein; ribosome, RNA binding protein, unknown function, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.15.1
Probab=13.76  E-value=50  Score=12.31  Aligned_cols=16  Identities=44%  Similarity=0.773  Sum_probs=12.2

Q ss_pred             CCCCCEEEEEECCEEE
Q ss_conf             4797447876200321
Q T0642           170 SHAPEWILLCHECKIT  185 (387)
Q Consensus       170 shapewillcheckit  185 (387)
                      -+.--|+|.||-|--+
T Consensus         9 r~vk~~vLrC~aCf~~   24 (79)
T 2con_A            9 REARSYILRCHGCFKT   24 (79)
T ss_dssp             CCCCCEEEECSSSCCE
T ss_pred             HHHHHHHEEEEECCCC
T ss_conf             7775412264233558


No 5  
>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A
Probab=11.89  E-value=45  Score=12.56  Aligned_cols=13  Identities=54%  Similarity=1.035  Sum_probs=9.7

Q ss_pred             CCCHHHHHHHHHC
Q ss_conf             2100134342102
Q T0642            28 TERDAYWERELEA   40 (387)
Q Consensus        28 terdaywerelea   40 (387)
                      .||||||-..|-.
T Consensus        13 serdaywvenlmv   25 (149)
T 1fyx_A           13 SERDAYWVENLMV   25 (149)
T ss_dssp             CGGGHHHHHTHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             0222899999999


No 6  
>1oy5_A TRNA (guanine-N(1)-)-methyltransferase; structural genomics, TRMD, tRNA (M1G37) methyltransferase, BSGC structure funded by NIH; 2.60A {Aquifex aeolicus} SCOP: c.116.1.4
Probab=11.71  E-value=58  Score=11.95  Aligned_cols=14  Identities=36%  Similarity=0.717  Sum_probs=8.6

Q ss_pred             CCEEEEEECCHHHH
Q ss_conf             82126775120233
Q T0642           199 NPACIFICGRVEHA  212 (387)
Q Consensus       199 npacificgrveha  212 (387)
                      .+.-||||||-|--
T Consensus       107 ~~~liliCGRYEGi  120 (257)
T 1oy5_A          107 KERIMIICGRYEGV  120 (257)
T ss_dssp             CSEEEEEECBTTCB
T ss_pred             CCCEEEEECCCCCH
T ss_conf             99779995363258


No 7  
>3iyj_F Major capsid protein L1; bovine papillomavirus BPV1, single particle cryo-EM, high resolution, late protein, virion; 4.20A {Bovine papillomavirus type 1}
Probab=11.68  E-value=58  Score=11.95  Aligned_cols=76  Identities=18%  Similarity=0.356  Sum_probs=38.7

Q ss_pred             HHHHHCEEEEEECCCCCCCEEC--CCCCCHHHHHHHHCCCCCCCCCCHHCCCCCEEEEECCCCCEEEEEECCEEECHHHH
Q ss_conf             2232031689853776421000--01454123332101355432010100088478983479744787620032101456
Q T0642           113 TSCIENTIFICCENTERSTHIS--TARGETISDIFFERENTANDHASVERYSPECIFICSHAPEWILLCHECKITATTHE  190 (387)
Q Consensus       113 tscientificcentersthis--targetisdifferentandhasveryspecificshapewillcheckitatthe  190 (387)
                      --|-.|.+|+-+-.+-|+|..+  .+...+-.+ -|...|-..-.-.||-|.-.+||            .-|||+-+..-
T Consensus       319 GIcW~NqlFVTVvDnTR~TNftIsv~~~~~~~~-~Y~~s~fkeYlRHvEEyeLsfI~------------QLCkV~Lt~Ev  385 (495)
T 3iyj_F          319 GIAWNNLLFLTVGDNTRGTNLTISVASDGTPLT-EYDSSKFNVYHRHMEEYKLAFIL------------ELCSVEITAQT  385 (495)
T ss_dssp             SEEGGGEEEEEEEESSSCCCEEEEEESSSSCCS-SCCTTTEEEEEEEEEEECEEEEE------------EEEEEECCHHH
T ss_pred             CEEECCEEEEEEEECCCCCCEEEEEECCCCCCC-CCCHHHHHHHHHHHHHHHEEEEE------------EEEEEECCHHH
T ss_conf             436657579998756778517999857998713-36678899998656451105374------------77530478999


Q ss_pred             HHHHHCCCCCEE
Q ss_conf             787641678212
Q T0642           191 MEETINGINPAC  202 (387)
Q Consensus       191 meetinginpac  202 (387)
                      | -.|++.||.-
T Consensus       386 l-A~ih~Mnp~I  396 (495)
T 3iyj_F          386 V-SHLQGLMPSV  396 (495)
T ss_dssp             H-HHHHHHCSSH
T ss_pred             H-HHHHHCCHHH
T ss_conf             9-9987058136


No 8  
>3knu_A TRNA (guanine-N(1)-)-methyltransferase; niaid, ssgcid, seattle structural genomics center for infectious disease; 2.25A {Anaplasma phagocytophilum HZ}
Probab=11.39  E-value=60  Score=11.89  Aligned_cols=16  Identities=25%  Similarity=0.495  Sum_probs=11.6

Q ss_pred             CCEEEEEECCHHHHHH
Q ss_conf             8212677512023345
Q T0642           199 NPACIFICGRVEHAHA  214 (387)
Q Consensus       199 npacificgrvehaha  214 (387)
                      .+.-||||||-|--..
T Consensus       125 ~~~liliCGrYEGiDe  140 (253)
T 3knu_A          125 FDNITLLCGRFEGIDE  140 (253)
T ss_dssp             CSEEEEEECCTTCBCH
T ss_pred             CCCEEEEEECEEEECH
T ss_conf             7736999713010003


No 9  
>1ual_A TRNA (guanine-N(1)-)-methyltransferase; spout class, TRMD, tRNA(M1G37) methyltransferase, tRNA modification; HET: SAH; 1.80A {Haemophilus influenzae} SCOP: c.116.1.4 PDB: 1uak_A* 1uaj_A* 1uam_A* 1p9p_A*
Probab=10.36  E-value=64  Score=11.73  Aligned_cols=15  Identities=40%  Similarity=0.762  Sum_probs=10.5

Q ss_pred             CCEEEEEECCHHHHH
Q ss_conf             821267751202334
Q T0642           199 NPACIFICGRVEHAH  213 (387)
Q Consensus       199 npacificgrvehah  213 (387)
                      .+.-||||||-|--.
T Consensus       125 ~~~liliCGrYEGiD  139 (274)
T 1ual_A          125 NQKLILVCGRYEGID  139 (274)
T ss_dssp             CSEEEEECCCTTCCC
T ss_pred             CCCEEEEECCEEHHH
T ss_conf             563899965554076


No 10 
>2r2y_A Protein ADRM1; proteasome, ubiquitin, PH-domain, 19S regulator, receptor, ubiquitin-proteasome-degradation pathway; 1.70A {Mus musculus} PDB: 2z59_A
Probab=10.14  E-value=66  Score=11.64  Aligned_cols=73  Identities=19%  Similarity=0.391  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             74335786533453478850445443210013434210220135554213431000033210378875555675311112
Q T0642             2 DEARCASPERSTERRIFICNEWSYESTERDAYWERELEASEDTHELASTSEQINTHENINTHCASPPLEASEGETRESTE   81 (387)
Q Consensus         2 dearcaspersterrificnewsyesterdaywereleasedthelastseqintheninthcasppleasegetreste   81 (387)
                      +++...--+..+.-|+|+-.-  -.|..|--||-.|-.+..|..-...--+.||.          ||.-++.+..-.+..
T Consensus        81 ~d~~f~~V~~c~tGRVyvLkF--~ss~~r~FFWmQe~~~~~D~~~~~kvN~lLn~----------pp~~~~~~~~g~~~~  148 (153)
T 2r2y_A           81 DDCEFKRVPQCPSGRVYVLKF--KAGSKRLFFWMQEPKTDQDEEHCRKVNECLNN----------PPMPGSLGASGSSGH  148 (153)
T ss_dssp             TSEEEEECTTCTTSCEEEEEE--TTTCCEEEEEECSSSSTTHHHHHHHHHHHHHC-------------------------
T ss_pred             CCEEEEECCCCCCCEEEEEEE--CCCCCEEEEEECCCCCCCHHHHHHHHHHHHCC----------CCCCCCCCCCCCCCC
T ss_conf             963899888689972999995--68984168990589965179999999999749----------998763345787754


Q ss_pred             CHHHH
Q ss_conf             20122
Q T0642            82 DANDL   86 (387)
Q Consensus        82 dandl   86 (387)
                      +..+|
T Consensus       149 e~~~l  153 (153)
T 2r2y_A          149 ELSAL  153 (153)
T ss_dssp             -----
T ss_pred             CCCCC
T ss_conf             33459


Done!