Query 002557
Match_columns 908
No_of_seqs 295 out of 992
Neff 3.6
Searched_HMMs 29240
Date Tue Mar 26 21:05:18 2013
Command hhsearch -i /local_scratch/syshi/lefta3m2/002557.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H2_58-62//hhsearch_pdb/002557hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1rq8_A Conserved hypothetical 1.0 1 1 195.0 13.1 88 253-340 1-88 (104)
2 1jo0_A Hypothetical protein HI 1.0 1 1 194.4 12.7 90 252-341 1-90 (98)
3 1rq8_A Conserved hypothetical 1.0 1 1 188.8 13.2 97 663-764 1-97 (104)
4 1jo0_A Hypothetical protein HI 1.0 1 1 184.1 13.2 96 663-764 2-97 (98)
5 2e6x_A TT1592, hypothetical pr 1.0 1 1 16.0 1.9 17 315-331 3-19 (69)
6 3ka5_A Ribosome-associated pro 1.0 1 1 15.9 6.2 49 296-344 1-52 (65)
7 3lyv_A Ribosome-associated fac 1.0 1 1 15.4 2.9 49 296-344 2-53 (66)
8 3k2t_A LMO2511 protein; lister 1.0 1 1 15.2 3.3 47 297-343 2-51 (57)
9 1ik9_A DNA repair protein XRCC 1.0 1 1 14.7 3.3 11 397-407 65-75 (213)
10 2zkr_g 60S acidic ribosomal pr 1.0 1 1 14.6 0.0 27 450-477 34-60 (317)
No 1
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=1.00 E-value=1 Score=195.02 Aligned_cols=88 Identities=18% Similarity=0.316 Sum_probs=76.6
Q ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEECCE
Q ss_conf 99999999999611089872882789987999999999987299398996289856499999999998499289898548
Q 002557 253 TLPESELRRLRNLTFQTKSKTRIKGAGLTQAVVDIIHEKWKTSEIVRLKIEGAPALNMKRMHEILERKTGGLVIWRSGTA 332 (908)
Q Consensus 253 tLT~kErr~LR~lAh~LkpvV~IGK~GVTd~VIeeIheaLk~hELVKIKil~~~~~dmk~v~e~LEekTGgeVVqrIG~v 332 (908)
|||++|+++||++||+++|+|+|||+|||++|+++|+++|++||||||||++++.++++++++.|+++|||++||+||++
T Consensus 1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq~IG~~ 80 (104)
T 1rq8_A 1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVIGSM 80 (104)
T ss_dssp CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEEETTE
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCCEEEEEECCE
T ss_conf 97989999999974689986997788799999999999999789479998079877899999999998699999999999
Q ss_pred EEEEECCC
Q ss_conf 99950689
Q 002557 333 VSLYRGVS 340 (908)
Q Consensus 333 iVLYRg~n 340 (908)
+||||++.
T Consensus 81 ~VLYR~~~ 88 (104)
T 1rq8_A 81 IVIYRESK 88 (104)
T ss_dssp EEEEECCC
T ss_pred EEEEECCC
T ss_conf 99995788
No 2
>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A
Probab=1.00 E-value=1 Score=194.41 Aligned_cols=90 Identities=22% Similarity=0.331 Sum_probs=81.8
Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEECC
Q ss_conf 69999999999961108987288278998799999999998729939899628985649999999999849928989854
Q 002557 252 LTLPESELRRLRNLTFQTKSKTRIKGAGLTQAVVDIIHEKWKTSEIVRLKIEGAPALNMKRMHEILERKTGGLVIWRSGT 331 (908)
Q Consensus 252 ltLT~kErr~LR~lAh~LkpvV~IGK~GVTd~VIeeIheaLk~hELVKIKil~~~~~dmk~v~e~LEekTGgeVVqrIG~ 331 (908)
.+||++|+++||++||+++|+|+|||+|||++|+++|+++|++||||||||++++.+++++++++|+++|||++||+||+
T Consensus 1 ~~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~IG~ 80 (98)
T 1jo0_A 1 TTLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTIGH 80 (98)
T ss_dssp CCCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEETT
T ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEEECCCHHHHHHHHHHHHHHHCCEEEEEECC
T ss_conf 98998999999997547998699778779999999999999977927999817987789999999999969999999999
Q ss_pred EEEEEECCCC
Q ss_conf 8999506899
Q 002557 332 AVSLYRGVSY 341 (908)
Q Consensus 332 viVLYRg~nY 341 (908)
++||||++..
T Consensus 81 ~~vLyR~~~~ 90 (98)
T 1jo0_A 81 ILVLYRPSEE 90 (98)
T ss_dssp EEEEECCCSS
T ss_pred EEEEECCCCC
T ss_conf 9999806998
No 3
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=1.00 E-value=1 Score=188.83 Aligned_cols=97 Identities=23% Similarity=0.407 Sum_probs=92.2
Q ss_pred CCCHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEECCCCC
Q ss_conf 99999999999601387624882778989899999999987078287998389988899999999999499797016654
Q 002557 663 SITDEERFMFRKLGLRMKAFLLLGRRGVFDGTVENMHLHWKYRELVKIIVKVKTFDQAKKIALALEAESGGVLVSVDKIS 742 (908)
Q Consensus 663 ~LT~kERk~LRklghkLKpvVlIGKrGVtdgVIeeIh~alK~hELVKVkv~~~~~edvkeiA~~Le~~SGGiLVqV~k~~ 742 (908)
|||++||++||++||+|+|+|+||++|||++||++|+.+|++||||||+|.+++.++++++|+.|++.|||++|| +
T Consensus 1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq----~ 76 (104)
T 1rq8_A 1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQ----V 76 (104)
T ss_dssp CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEE----E
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCCEEEE----E
T ss_conf 979899999999746899869977887999999999999997894799980798778999999999986999999----9
Q ss_pred CCCEEEEEECCCCCCCCCCCCC
Q ss_conf 1429999805899999877887
Q 002557 743 KGYAMVVYRGKDYQRPSTLRPK 764 (908)
Q Consensus 743 IG~tiILYRGkNY~rP~~l~Pk 764 (908)
||+++||||++. ..|.+.+|-
T Consensus 77 IG~~~VLYR~~~-~~~~i~~~~ 97 (104)
T 1rq8_A 77 IGSMIVIYRESK-ENKEIELPL 97 (104)
T ss_dssp ETTEEEEEECCC-SCCSCCCC-
T ss_pred ECCEEEEEECCC-CCCCEECCC
T ss_conf 999999995788-788523451
No 4
>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A
Probab=1.00 E-value=1 Score=184.09 Aligned_cols=96 Identities=19% Similarity=0.355 Sum_probs=90.0
Q ss_pred CCCHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEECCCCC
Q ss_conf 99999999999601387624882778989899999999987078287998389988899999999999499797016654
Q 002557 663 SITDEERFMFRKLGLRMKAFLLLGRRGVFDGTVENMHLHWKYRELVKIIVKVKTFDQAKKIALALEAESGGVLVSVDKIS 742 (908)
Q Consensus 663 ~LT~kERk~LRklghkLKpvVlIGKrGVtdgVIeeIh~alK~hELVKVkv~~~~~edvkeiA~~Le~~SGGiLVqV~k~~ 742 (908)
+||++||++||++||+|+|+|+||++|||++|+++|+.||++||||||+|.+++.++++++|+.|++.|||++|| +
T Consensus 2 ~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq----~ 77 (98)
T 1jo0_A 2 TLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQ----T 77 (98)
T ss_dssp CCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEE----E
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEEECCCHHHHHHHHHHHHHHHCCEEEE----E
T ss_conf 899899999999754799869977877999999999999997792799981798778999999999996999999----9
Q ss_pred CCCEEEEEECCCCCCCCCCCCC
Q ss_conf 1429999805899999877887
Q 002557 743 KGYAMVVYRGKDYQRPSTLRPK 764 (908)
Q Consensus 743 IG~tiILYRGkNY~rP~~l~Pk 764 (908)
||+++||||++.. |.+..|+
T Consensus 78 IG~~~vLyR~~~~--~~i~lp~ 97 (98)
T 1jo0_A 78 IGHILVLYRPSEE--AKIQLPR 97 (98)
T ss_dssp ETTEEEEECCCSS--CCBCCCC
T ss_pred ECCEEEEECCCCC--CCCCCCC
T ss_conf 9999999806998--7767989
No 5
>2e6x_A TT1592, hypothetical protein TTHA1281; unknown function protein, NPPSFA, national project on protei structural and functional analyses; 2.00A {Thermus thermophilus}
Probab=1.00 E-value=1 Score=16.01 Aligned_cols=17 Identities=35% Similarity=0.642 Sum_probs=14.3
Q ss_pred HHHHHHHCCEEEEEECC
Q ss_conf 99999849928989854
Q 002557 315 EILERKTGGLVIWRSGT 331 (908)
Q Consensus 315 e~LEekTGgeVVqrIG~ 331 (908)
..+-++.|+.+|||||+
T Consensus 3 ~d~L~~LG~~LvWRiGk 19 (69)
T 2e6x_A 3 KDLLDKLGQHLVWRMGR 19 (69)
T ss_dssp HHHHHHTTCCEEEEEEE
T ss_pred HHHHHHHHCEEEEEECC
T ss_conf 78999974102786435
No 6
>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum}
Probab=1.00 E-value=1 Score=15.91 Aligned_cols=49 Identities=12% Similarity=0.114 Sum_probs=36.7
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCCC
Q ss_conf 9398996289856499999999998499289898---548999506899998
Q 002557 296 EIVRLKIEGAPALNMKRMHEILERKTGGLVIWRS---GTAVSLYRGVSYEVP 344 (908)
Q Consensus 296 ELVKIKil~~~~~dmk~v~e~LEekTGgeVVqrI---G~viVLYRg~nY~~p 344 (908)
++|+.|-....+++..+|+.+++..-.--+|-+- |.+-|+||.++.++-
T Consensus 1 ~iVr~K~~~~kpMsveEAv~qmel~gh~F~vF~n~etg~~nVVYRR~dG~yG 52 (65)
T 3ka5_A 1 EIVKTKRFAIKPMSEEEAVLEMELLGHNFFVFQNGDSNEVNVVYKRKDGNYG 52 (65)
T ss_dssp CEEEEECSCCSCBCHHHHHHHHHHHTCSEEEEEETTTTEEEEEEECTTSCEE
T ss_pred CEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEECCCCCEEEEEEECCCCEE
T ss_conf 9599986057989999999998707993999981789979899996899799
No 7
>3lyv_A Ribosome-associated factor Y; ribosomal protein S30AE family, structural genomics, PSI-2, structure initiative; 2.70A {Streptococcus pyogenes}
Probab=1.00 E-value=1 Score=15.41 Aligned_cols=49 Identities=18% Similarity=0.247 Sum_probs=33.4
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCCC
Q ss_conf 9398996289856499999999998499289898---548999506899998
Q 002557 296 EIVRLKIEGAPALNMKRMHEILERKTGGLVIWRS---GTAVSLYRGVSYEVP 344 (908)
Q Consensus 296 ELVKIKil~~~~~dmk~v~e~LEekTGgeVVqrI---G~viVLYRg~nY~~p 344 (908)
++|+.|-....+++.++|+.+++-.-.--+|-+- |.+-|+||.++.++-
T Consensus 2 ~iVr~K~~~~kpMsveEAv~qMel~gh~F~vF~n~etg~~nVVYRR~dG~yG 53 (66)
T 3lyv_A 2 QVVRTKNVTLKPMDVEEARLQMELLGHDFFIYTDSEDGATNILYRREDGNLG 53 (66)
T ss_dssp CCCCCCCCCCCEECHHHHHHHHHTTTCSEEEEEETTTCSEEEEEECTTSSEE
T ss_pred EEEEEEECCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCEEEEEEECCCCEE
T ss_conf 1799987057989999999998707993999981789989899997899799
No 8
>3k2t_A LMO2511 protein; listeria monocytogenes,binding, structural genomics, PSI-2, protein structure initiative; 2.40A {Listeria monocytogenes}
Probab=1.00 E-value=1 Score=15.18 Aligned_cols=47 Identities=11% Similarity=0.072 Sum_probs=27.3
Q ss_pred EEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCC
Q ss_conf 398996289856499999999998499289898---54899950689999
Q 002557 297 IVRLKIEGAPALNMKRMHEILERKTGGLVIWRS---GTAVSLYRGVSYEV 343 (908)
Q Consensus 297 LVKIKil~~~~~dmk~v~e~LEekTGgeVVqrI---G~viVLYRg~nY~~ 343 (908)
+|+.|-.....+...+++.+++..-.--+|-+- |.+-|+||.++.++
T Consensus 2 ivr~K~~~~kpmsveEAv~qmel~gh~F~vF~n~~t~~~nVvYrR~dG~y 51 (57)
T 3k2t_A 2 IVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKY 51 (57)
T ss_dssp CCCCCC---CCBCHHHHHHHHHHHTCSEEEEEBSSSCCEEEEEECTTSCE
T ss_pred EEEEEECCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCEEEEEEECCCCE
T ss_conf 38998626798999999999872799599998078898989999679979
No 9
>1ik9_A DNA repair protein XRCC4; DNA END joining, double-strand break repair, V(D)J recombination, protein-protein complex, coiled coil; HET: DNA; 2.30A {Homo sapiens} SCOP: b.59.1.1 h.1.11.1 PDB: 3ii6_A* 1fu1_A* 3rwr_A*
Probab=1.00 E-value=1 Score=14.67 Aligned_cols=11 Identities=45% Similarity=0.516 Sum_probs=4.4
Q ss_pred CHHHHHHHHHC
Q ss_conf 10789986510
Q 002557 397 KYEDEVEKLLD 407 (908)
Q Consensus 397 ~~e~E~d~LLD 407 (908)
+|..++-+.|.
T Consensus 65 ey~~~l~~aL~ 75 (213)
T 1ik9_A 65 KYVGELRKALL 75 (213)
T ss_dssp HHHHHHHHHHC
T ss_pred HHHHHHHHHHH
T ss_conf 99999999971
No 10
>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=1.00 E-value=1 Score=14.64 Aligned_cols=27 Identities=11% Similarity=0.188 Sum_probs=20.2
Q ss_pred CCCHHHHHHHHHHCCCCCCEEEECCCCH
Q ss_conf 5777989999982016998488546622
Q 002557 450 TLARKEATNLQRLARVLPPHFALGRSRQ 477 (908)
Q Consensus 450 ~Lt~~E~T~LRrLar~lPpHfaLGRNr~ 477 (908)
.|+..+|+.||+..|.- ..|..|+|+-
T Consensus 34 gl~v~ql~~LR~~lR~~-~~~~V~KNTL 60 (317)
T 2zkr_g 34 NVGSKQMQQIRMSLRGK-AVVLMGKNTM 60 (317)
T ss_dssp ----------------------------
T ss_pred CCCHHHHHHHHHHHHCC-CEEEEEEHHH
T ss_conf 98789999999997668-4899970799
Done!