Query 003851
Match_columns 791
No_of_seqs 330 out of 1043
Neff 3.8
Searched_HMMs 29240
Date Mon Mar 25 06:07:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003851.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/003851hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1rq8_A Conserved hypothetical 99.9 4.2E-27 1.4E-31 214.2 13.5 96 660-760 1-96 (104)
2 1jo0_A Hypothetical protein HI 99.9 1.1E-26 3.9E-31 209.2 13.5 96 660-761 2-97 (98)
3 1rq8_A Conserved hypothetical 99.9 1.8E-26 6E-31 210.1 13.2 88 249-336 1-88 (104)
4 1jo0_A Hypothetical protein HI 99.9 1.5E-26 5E-31 208.6 12.5 87 249-335 2-88 (98)
5 3ka5_A Ribosome-associated pro 42.0 54 0.0018 27.8 6.1 50 292-341 1-53 (65)
6 3nmd_A CGMP dependent protein 35.4 1.4E+02 0.0048 25.9 7.7 54 583-650 18-71 (72)
7 3k2t_A LMO2511 protein; lister 25.4 60 0.0021 26.7 3.6 49 292-340 1-52 (57)
8 3lyv_A Ribosome-associated fac 23.1 65 0.0022 27.4 3.5 50 292-341 2-54 (66)
9 3ka5_A Ribosome-associated pro 22.1 1.5E+02 0.0051 25.1 5.5 50 703-753 1-50 (65)
10 1ydh_A AT5G11950; structural g 21.5 1.3E+02 0.0044 30.2 5.9 54 669-726 128-186 (216)
11 3p04_A Uncharacterized BCR; SE 21.1 1.4E+02 0.0047 26.4 5.3 57 282-339 19-78 (87)
12 2k48_A Nucleoprotein; viral pr 20.8 1.4E+02 0.0047 27.7 5.3 30 615-644 38-67 (107)
No 1
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=99.94 E-value=4.2e-27 Score=214.23 Aligned_cols=96 Identities=25% Similarity=0.427 Sum_probs=92.8
Q ss_pred CCCHHHHHHHHHccCCCCceEeeCCCCCCHHHHHHHHHHHHhcceEEEEecCCCHHHHHHHHHHHHHHhCCeEEeeeecC
Q 003851 660 TITNEERFLLRKMGLSMKPYLLLGRRGIYDGTIENMHLHWKYRELVKIIVKGKSFAQVKQIAISLEAESGGVLVSLDKTP 739 (791)
Q Consensus 660 ~LT~eERk~LRklGhkLKPvV~IGK~GVtdgVIeeI~~ALk~hELVKIkv~~~~~ed~keia~~Le~~SGg~LVqVIk~~ 739 (791)
|||++||++||++||+|+|+|+|||+|||++|+++|++||++||||||+|.+++.++++++|+.|++.|||++||+|
T Consensus 1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq~I--- 77 (104)
T 1rq8_A 1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVI--- 77 (104)
T ss_dssp CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEEE---
T ss_pred CCCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEEeCCCHHHHHHHHHHHHHHhCCEEEEEE---
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCcEEEEeccCCCCCCCccCC
Q 003851 740 KGIAIIVYRGKNYVRPLKLRP 760 (791)
Q Consensus 740 iG~~iILYRgkNy~rP~illP 760 (791)
|+++||||+++ ..|.+.+|
T Consensus 78 -G~~~VLYR~~~-~~~~i~~~ 96 (104)
T 1rq8_A 78 -GSMIVIYRESK-ENKEIELP 96 (104)
T ss_dssp -TTEEEEEECCC-SCCSCCCC
T ss_pred -CCEEEEEeCCC-CCCceecc
Confidence 99999999987 55888888
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=99.94 E-value=1.1e-26 Score=209.25 Aligned_cols=96 Identities=20% Similarity=0.371 Sum_probs=91.9
Q ss_pred CCCHHHHHHHHHccCCCCceEeeCCCCCCHHHHHHHHHHHHhcceEEEEecCCCHHHHHHHHHHHHHHhCCeEEeeeecC
Q 003851 660 TITNEERFLLRKMGLSMKPYLLLGRRGIYDGTIENMHLHWKYRELVKIIVKGKSFAQVKQIAISLEAESGGVLVSLDKTP 739 (791)
Q Consensus 660 ~LT~eERk~LRklGhkLKPvV~IGK~GVtdgVIeeI~~ALk~hELVKIkv~~~~~ed~keia~~Le~~SGg~LVqVIk~~ 739 (791)
.||++||++||++||+|+|+|+||++|||++|+++|++||++||||||+|.+++.++++++|+.|++.|||++||+|
T Consensus 2 ~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~I--- 78 (98)
T 1jo0_A 2 TLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTI--- 78 (98)
T ss_dssp CCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEE---
T ss_pred CCCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHHCCeEEEEEeCCCHHHHHHHHHHHHHHhCCEEEEEE---
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCcEEEEeccCCCCCCCccCCc
Q 003851 740 KGIAIIVYRGKNYVRPLKLRPQ 761 (791)
Q Consensus 740 iG~~iILYRgkNy~rP~illP~ 761 (791)
|+++||||++.. |.+.+|+
T Consensus 79 -G~~~vLyR~~~~--~~i~lp~ 97 (98)
T 1jo0_A 79 -GHILVLYRPSEE--AKIQLPR 97 (98)
T ss_dssp -TTEEEEECCCSS--CCBCCCC
T ss_pred -CCEEEEEccCCC--CCcCCCC
Confidence 999999999844 7788885
No 3
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=99.94 E-value=1.8e-26 Score=210.14 Aligned_cols=88 Identities=19% Similarity=0.316 Sum_probs=86.6
Q ss_pred CCCHHHHHHHHHhhccCCCeEEeCCCCCCHHHHHHHHHHhhhCCeEEEEecCCChHhHHHHHHHHHHHhCCeEEEEEccE
Q 003851 249 MIPEHELQRLRNISLRMLERTKVGSAGITQALVDSIHEKWKLDEVVKLKFEEPHSLQMKRTHEILERRTGGLVIWRSGSS 328 (791)
Q Consensus 249 tLT~kErr~LRklAh~LkpvV~IGK~GVTd~VVeeIh~awk~hELVKVK~~~~~~~dm~~~~e~LEekTGg~VVqrIG~v 328 (791)
|||++|+++||++||+|+|+|+|||+|||++|+++|+++|++||||||+|.+++..+++++++.|+++|||++||+||++
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
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecCC
Q 003851 329 VVLFRGMA 336 (791)
Q Consensus 329 iVLYRG~N 336 (791)
+||||++.
T Consensus 81 ~VLYR~~~ 88 (104)
T 1rq8_A 81 IVIYRESK 88 (104)
T ss_dssp EEEEECCC
T ss_pred EEEEeCCC
Confidence 99999875
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=99.94 E-value=1.5e-26 Score=208.57 Aligned_cols=87 Identities=17% Similarity=0.272 Sum_probs=85.9
Q ss_pred CCCHHHHHHHHHhhccCCCeEEeCCCCCCHHHHHHHHHHhhhCCeEEEEecCCChHhHHHHHHHHHHHhCCeEEEEEccE
Q 003851 249 MIPEHELQRLRNISLRMLERTKVGSAGITQALVDSIHEKWKLDEVVKLKFEEPHSLQMKRTHEILERRTGGLVIWRSGSS 328 (791)
Q Consensus 249 tLT~kErr~LRklAh~LkpvV~IGK~GVTd~VVeeIh~awk~hELVKVK~~~~~~~dm~~~~e~LEekTGg~VVqrIG~v 328 (791)
+||++|+++||++||+|+|+|+|||+|||++|+++|+++|++||||||+|.+++.++++++++.|+++|||++||+||++
T Consensus 2 ~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~IG~~ 81 (98)
T 1jo0_A 2 TLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTIGHI 81 (98)
T ss_dssp CCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEETTE
T ss_pred CCCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHHCCeEEEEEeCCCHHHHHHHHHHHHHHhCCEEEEEECCE
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecC
Q 003851 329 VVLFRGM 335 (791)
Q Consensus 329 iVLYRG~ 335 (791)
+||||++
T Consensus 82 ~vLyR~~ 88 (98)
T 1jo0_A 82 LVLYRPS 88 (98)
T ss_dssp EEEECCC
T ss_pred EEEEccC
Confidence 9999987
No 5
>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum}
Probab=41.97 E-value=54 Score=27.79 Aligned_cols=50 Identities=12% Similarity=0.100 Sum_probs=41.5
Q ss_pred CeEEEEecCCChHhHHHHHHHHHHHhCCeEEEEE---ccEEEEeecCCCCCCC
Q 003851 292 EVVKLKFEEPHSLQMKRTHEILERRTGGLVIWRS---GSSVVLFRGMAYKLPC 341 (791)
Q Consensus 292 ELVKVK~~~~~~~dm~~~~e~LEekTGg~VVqrI---G~viVLYRG~NY~~p~ 341 (791)
++|+.|--...+.+.++|+.+|+-.-.--+|.+- |.+-|+||.++.++..
T Consensus 1 ~iVr~K~~~~kpMsveEAv~qmel~gh~F~vF~n~etg~~nVVYRR~dG~yGl 53 (65)
T 3ka5_A 1 EIVKTKRFAIKPMSEEEAVLEMELLGHNFFVFQNGDSNEVNVVYKRKDGNYGL 53 (65)
T ss_dssp CEEEEECSCCSCBCHHHHHHHHHHHTCSEEEEEETTTTEEEEEEECTTSCEEE
T ss_pred CeEEEEeecCCCCCHHHHHHHHHhCCCcEEEEEeCCCCCEEEEEEeCCCCEEE
Confidence 5788888888889999999999987666667764 8999999998887763
No 6
>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}
Probab=35.38 E-value=1.4e+02 Score=25.87 Aligned_cols=54 Identities=20% Similarity=0.260 Sum_probs=38.8
Q ss_pred cchhHHHHHHhhhccCCCChhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 003851 583 AGTLAETLAATSRWGRQPSYEDVEKMMRDSTLSRHASLLRYLEQKLALAKRKLKMADKALAKVQESLD 650 (791)
Q Consensus 583 aGtl~E~~~a~~~wg~~~~~~~~~~~~~e~~~~~~~~~~k~~e~kL~~a~~K~~rae~~LaKl~~~~~ 650 (791)
-||+.|.+++- ..++.++.....+++.+|.+|.....-+..-...|-|+.+-+.
T Consensus 18 mgti~eLq~~L--------------~~K~eELr~kd~~I~eLEk~L~ekd~eI~~LqseLDKfrSVl~ 71 (72)
T 3nmd_A 18 RGSLRDLQYAL--------------QEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYRSVIR 71 (72)
T ss_dssp -CHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTC
T ss_pred CCcHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 58888887752 1222334556677999999999999988888888988876553
No 7
>3k2t_A LMO2511 protein; listeria monocytogenes,binding, structural genomics, PSI-2, protein structure initiative; 2.40A {Listeria monocytogenes}
Probab=25.42 E-value=60 Score=26.69 Aligned_cols=49 Identities=8% Similarity=0.106 Sum_probs=35.6
Q ss_pred CeEEEEecCCChHhHHHHHHHHHHHhCCeEEEEE---ccEEEEeecCCCCCC
Q 003851 292 EVVKLKFEEPHSLQMKRTHEILERRTGGLVIWRS---GSSVVLFRGMAYKLP 340 (791)
Q Consensus 292 ELVKVK~~~~~~~dm~~~~e~LEekTGg~VVqrI---G~viVLYRG~NY~~p 340 (791)
++|+.|-....+.+.++|+.+|+-.-.--+|-+- |.+-|+||.++.++-
T Consensus 1 ~ivr~K~~~~kpmsveEAv~qmel~gh~F~vF~n~~t~~~nVvYrR~dG~yG 52 (57)
T 3k2t_A 1 EIVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKYG 52 (57)
T ss_dssp CCCCCCC---CCBCHHHHHHHHHHHTCSEEEEEBSSSCCEEEEEECTTSCEE
T ss_pred CeEEEEeccCCCCCHHHHHHHHHhCCCcEEEEEcCCCCCEEEEEEeCCCCEE
Confidence 3455665666678889999999987666677763 899999998887764
No 8
>3lyv_A Ribosome-associated factor Y; ribosomal protein S30AE family, structural genomics, PSI-2, structure initiative; 2.70A {Streptococcus pyogenes}
Probab=23.09 E-value=65 Score=27.35 Aligned_cols=50 Identities=18% Similarity=0.258 Sum_probs=39.0
Q ss_pred CeEEEEecCCChHhHHHHHHHHHHHhCCeEEEEE---ccEEEEeecCCCCCCC
Q 003851 292 EVVKLKFEEPHSLQMKRTHEILERRTGGLVIWRS---GSSVVLFRGMAYKLPC 341 (791)
Q Consensus 292 ELVKVK~~~~~~~dm~~~~e~LEekTGg~VVqrI---G~viVLYRG~NY~~p~ 341 (791)
++|+.|-....+.+.++|+.+|+-.-.--+|.+- |.+-|+||.++.++..
T Consensus 2 ~iVr~K~~~~kpMsveEAv~qMel~gh~F~vF~n~etg~~nVVYRR~dG~yGl 54 (66)
T 3lyv_A 2 QVVRTKNVTLKPMDVEEARLQMELLGHDFFIYTDSEDGATNILYRREDGNLGL 54 (66)
T ss_dssp CCCCCCCCCCCEECHHHHHHHHHTTTCSEEEEEETTTCSEEEEEECTTSSEEE
T ss_pred eEEEEEEccCCCCCHHHHHHHHHcCCCcEEEEEeCCCCCEEEEEEECCCCEEE
Confidence 4566666677788999999999976666666664 8999999998887763
No 9
>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum}
Probab=22.12 E-value=1.5e+02 Score=25.11 Aligned_cols=50 Identities=16% Similarity=0.148 Sum_probs=36.7
Q ss_pred ceEEEEecCCCHHHHHHHHHHHHHHhCCeEEeeeecCCCcEEEEeccCCCC
Q 003851 703 ELVKIIVKGKSFAQVKQIAISLEAESGGVLVSLDKTPKGIAIIVYRGKNYV 753 (791)
Q Consensus 703 ELVKIkv~~~~~ed~keia~~Le~~SGg~LVqVIk~~iG~~iILYRgkNy~ 753 (791)
++|+.+...-....+++++.+++- +|-.+.-+....-|..-|+||.++..
T Consensus 1 ~iVr~K~~~~kpMsveEAv~qmel-~gh~F~vF~n~etg~~nVVYRR~dG~ 50 (65)
T 3ka5_A 1 EIVKTKRFAIKPMSEEEAVLEMEL-LGHNFFVFQNGDSNEVNVVYKRKDGN 50 (65)
T ss_dssp CEEEEECSCCSCBCHHHHHHHHHH-HTCSEEEEEETTTTEEEEEEECTTSC
T ss_pred CeEEEEeecCCCCCHHHHHHHHHh-CCCcEEEEEeCCCCCEEEEEEeCCCC
Confidence 467777666666678888888765 46666666666679999999988654
No 10
>1ydh_A AT5G11950; structural genomics, protein structure initiative, center for eukaryotic structural genomics, CESG; 2.15A {Arabidopsis thaliana} SCOP: c.129.1.1 PDB: 2q4d_A
Probab=21.54 E-value=1.3e+02 Score=30.22 Aligned_cols=54 Identities=15% Similarity=0.198 Sum_probs=35.3
Q ss_pred HHHccCCCCceEeeCCCCCCHHHHHHHHHHHHh-----cceEEEEecCCCHHHHHHHHHHHHH
Q 003851 669 LRKMGLSMKPYLLLGRRGIYDGTIENMHLHWKY-----RELVKIIVKGKSFAQVKQIAISLEA 726 (791)
Q Consensus 669 LRklGhkLKPvV~IGK~GVtdgVIeeI~~ALk~-----hELVKIkv~~~~~ed~keia~~Le~ 726 (791)
+..+|.+-+|++.+|.+|.++.+++-++...+. ..+-.+.+.. +.+++.+.|+.
T Consensus 128 ~~qlg~~~kPvvll~~~gfw~~l~~~l~~~~~~Gfi~~~~~~~~~~~d----~~ee~~~~l~~ 186 (216)
T 1ydh_A 128 WSQLGIHKKTVGLLNVDGYYNNLLALFDTGVEEGFIKPGARNIVVSAP----TAKELMEKMEE 186 (216)
T ss_dssp HHHHTSCCCEEEEECGGGTTHHHHHHHHHHHHTTSSCHHHHTTEEEES----SHHHHHHHHHH
T ss_pred HHHhcccCCCEEEecCCccchHHHHHHHHHHHCCCCChHHcCeEEEeC----CHHHHHHHHHH
Confidence 445667889999999999999999988644322 1122234433 35556666654
No 11
>3p04_A Uncharacterized BCR; SEPF homolog, DUF552, PSI-biology, NESG, structural genomics structure initiative; 2.20A {Corynebacterium glutamicum}
Probab=21.11 E-value=1.4e+02 Score=26.44 Aligned_cols=57 Identities=9% Similarity=0.043 Sum_probs=47.3
Q ss_pred HHHHHHhhhCCeEEEEecCCChHhHHHHHHHHHHH---hCCeEEEEEccEEEEeecCCCCC
Q 003851 282 DSIHEKWKLDEVVKLKFEEPHSLQMKRTHEILERR---TGGLVIWRSGSSVVLFRGMAYKL 339 (791)
Q Consensus 282 eeIh~awk~hELVKVK~~~~~~~dm~~~~e~LEek---TGg~VVqrIG~viVLYRG~NY~~ 339 (791)
.+|-++++....|-|.+..-.....+++.+.+.-. .+|. ++++|+.++|+=+.|.+-
T Consensus 19 ~~I~d~Lr~~~~VvvNL~~ld~~~AqRivDF~sG~~yal~G~-i~kI~~~IFl~~P~~V~i 78 (87)
T 3p04_A 19 QVIGGAFRDGDAVVFDMSLLSREEARRIVDFAAGLCFALHGK-MQKIDSVTFAVVPELSNI 78 (87)
T ss_dssp HHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHHHHHTTCE-EEEEETTEEEEECCCCCC
T ss_pred HHHHHHHHCCCEEEEECCCCCHHHHHHHHHHhccceEEeccE-EEEEcCCEEEEECCCeEE
Confidence 58999999999999999999999999999998864 4665 466788888887777654
No 12
>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}
Probab=20.84 E-value=1.4e+02 Score=27.68 Aligned_cols=30 Identities=33% Similarity=0.330 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003851 615 SRHASLLRYLEQKLALAKRKLKMADKALAK 644 (791)
Q Consensus 615 ~~~~~~~k~~e~kL~~a~~K~~rae~~LaK 644 (791)
.++...+..+|..|..|++|+..|++.-.+
T Consensus 38 eeLQ~Ei~~~E~QL~iArQKLkdAe~~~E~ 67 (107)
T 2k48_A 38 QELQENITAHEQQLVTARQKLKDAEKAVEV 67 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 345667889999999999999999987653
Done!