Query psy16395
Match_columns 157
No_of_seqs 108 out of 118
Neff 4.3
Searched_HMMs 29240
Date Fri Aug 16 20:14:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16395.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/16395hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ufm_A COP9 complex subunit 4; 93.9 0.039 1.3E-06 38.6 3.0 23 39-61 20-42 (84)
2 4b4t_R RPN7, 26S proteasome re 93.0 0.15 5E-06 43.9 5.8 87 25-150 327-422 (429)
3 4b4t_P 26S proteasome regulato 83.6 3 0.0001 36.0 7.2 33 25-61 339-371 (445)
4 3txn_A 26S proteasome regulato 83.5 2.8 9.5E-05 36.5 7.0 41 21-61 288-328 (394)
5 1xn7_A Hypothetical protein YH 77.9 5.9 0.0002 26.9 5.8 44 36-94 3-46 (78)
6 2k02_A Ferrous iron transport 64.0 12 0.00041 26.1 4.8 43 36-93 3-45 (87)
7 4b4t_Q 26S proteasome regulato 56.3 19 0.00064 28.3 5.3 34 28-61 335-368 (434)
8 2jt1_A PEFI protein; solution 38.6 32 0.0011 23.1 3.6 53 33-101 6-60 (77)
9 3r07_C Putative lipoate-protei 33.4 6.9 0.00024 27.2 -0.6 32 113-149 20-54 (91)
10 3hug_A RNA polymerase sigma fa 25.2 1.4E+02 0.0049 19.3 6.0 45 36-95 38-84 (92)
11 1jli_A Interleukin 3, multi-CS 24.7 65 0.0022 23.9 3.4 43 2-45 12-66 (112)
12 1no5_A Hypothetical protein HI 24.6 29 0.00098 24.1 1.4 20 102-121 35-54 (114)
13 3k2z_A LEXA repressor; winged 24.0 1.2E+02 0.0042 22.6 5.0 46 32-92 6-52 (196)
14 3ulb_A Target of rapamycin com 23.5 57 0.0019 24.5 2.9 23 109-131 25-47 (121)
15 3t5v_A Nuclear mRNA export pro 23.0 65 0.0022 27.0 3.5 47 25-85 200-246 (316)
No 1
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47
Probab=93.91 E-value=0.039 Score=38.61 Aligned_cols=23 Identities=22% Similarity=0.401 Sum_probs=21.4
Q ss_pred hhHhHHhhhccCChHHHHHHhhc
Q psy16395 39 TIRSYLKLYTTLPLSKLATFMGN 61 (157)
Q Consensus 39 ~iRSYLKLYtti~l~KLAsfmdv 61 (157)
.||.|.|.|++|+++.||..+++
T Consensus 20 nl~~is~~Y~~Isl~~La~ll~l 42 (84)
T 1ufm_A 20 NLLSASKLYNNITFEELGALLEI 42 (84)
T ss_dssp HHHHHHHSCSEEEHHHHHHHTTS
T ss_pred HHHHHHHhcCeeeHHHHHHHHCc
Confidence 46789999999999999999999
No 2
>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=93.04 E-value=0.15 Score=43.86 Aligned_cols=87 Identities=22% Similarity=0.338 Sum_probs=42.6
Q ss_pred HHHHHHHHhhhhchhhHhHHhhhccCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhcceeeeecCCCCCC
Q psy16395 25 QVFMDEVNQQKMLPTIRSYLKLYTTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKMKNVVWTRGPSGL 104 (157)
Q Consensus 25 ~~Fl~eV~~Q~~lp~iRSYLKLYtti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~rql~w~~G~~~l 104 (157)
..|.++|.. -.++.|++.|++++++.||..+++ +++.+-..|..+=
T Consensus 327 ~~l~~~ir~----~~l~q~~~~Ys~I~l~~mA~~l~~---------------s~~~~E~~L~~lI--------------- 372 (429)
T 4b4t_R 327 DFFVREMRR----KVYAQLLESYKTLSLKSMASAFGV---------------SVAFLDNDLGKFI--------------- 372 (429)
T ss_dssp HHHHHHHHH----HHHHHHHHTCSEEEHHHHHHHHTS---------------CHHHHHHHHHHHH---------------
T ss_pred HHHHHHHHH----HHHHHHhHHhceeeHHHHHHHhCc---------------CHHHHHHHHHHHH---------------
Confidence 344444443 457899999999999999999999 6776666655441
Q ss_pred CcceeeccceeEEEeC--CeEEEeeccc-hhh------hhhHHHHHHHHHHHHHH
Q psy16395 105 EGTFQSGSELDFYIDN--EMIHIADTKV-AHR------YGDFFIRKIIKFEELNK 150 (157)
Q Consensus 105 ~Ge~~~~sDlDFyID~--DmIhIaetk~-~rr------ygd~Fir~I~K~e~l~~ 150 (157)
..+.++.-||. .+|+...... ... -||-++..|+|+..+++
T Consensus 373 -----~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~gd~Ll~riqkl~~~i~ 422 (429)
T 4b4t_R 373 -----PNKQLNCVIDRVNGIVETNRPDNKNAQYHLLVKQGDGLLTKLQKYGAAVR 422 (429)
T ss_dssp -----HHTSSCEEEETTTTEEEECC------------------------------
T ss_pred -----HcCCeEEEEcCCCCEEEECCCCchhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 11223555653 5676654322 123 36667777887766654
No 3
>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=83.62 E-value=3 Score=35.98 Aligned_cols=33 Identities=15% Similarity=0.298 Sum_probs=26.6
Q ss_pred HHHHHHHHhhhhchhhHhHHhhhccCChHHHHHHhhc
Q psy16395 25 QVFMDEVNQQKMLPTIRSYLKLYTTLPLSKLATFMGN 61 (157)
Q Consensus 25 ~~Fl~eV~~Q~~lp~iRSYLKLYtti~l~KLAsfmdv 61 (157)
..+...|.. -.||.+.|.|++|+++.||.++++
T Consensus 339 ~~L~~~v~e----hnl~~i~k~Ys~I~l~~la~lL~l 371 (445)
T 4b4t_P 339 EDLQKRVIE----HNLRVISEYYSRITLLRLNELLDL 371 (445)
T ss_dssp HHHHHHHHH----HHHHHHHHHEEEEEHHHHHHHHTS
T ss_pred HHHHHHHHH----HHHHHHHHHhceeeHHHHHHHhCc
Confidence 444444444 458999999999999999999999
No 4
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A
Probab=83.50 E-value=2.8 Score=36.46 Aligned_cols=41 Identities=7% Similarity=0.155 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHhhhhchhhHhHHhhhccCChHHHHHHhhc
Q psy16395 21 SPFRQVFMDEVNQQKMLPTIRSYLKLYTTLPLSKLATFMGN 61 (157)
Q Consensus 21 ep~~~~Fl~eV~~Q~~lp~iRSYLKLYtti~l~KLAsfmdv 61 (157)
||+-+.....+.+....-.|+.|++-|++|+++.+|..+++
T Consensus 288 D~~l~~h~~~L~~~Ir~~~L~~i~~pYsrIsl~~iA~~l~l 328 (394)
T 3txn_A 288 DVIVQAHLGTLYDTMLEQNLCRIIEPYSRVQVAHVAESIQL 328 (394)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHTTCSEEEHHHHHHHHTC
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhHhhceeeHHHHHHHHCc
Confidence 55544445666677777888999999999999999999999
No 5
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62
Probab=77.92 E-value=5.9 Score=26.93 Aligned_cols=44 Identities=14% Similarity=0.168 Sum_probs=39.4
Q ss_pred hchhhHhHHhhhccCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhccee
Q psy16395 36 MLPTIRSYLKLYTTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKMKN 94 (157)
Q Consensus 36 ~lp~iRSYLKLYtti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~rq 94 (157)
.|-.|+.||+-...++++.||..++| +++.+|..|-..=.++.-
T Consensus 3 ~L~~Il~~L~~~g~vsv~eLa~~l~V---------------S~~TIRrdL~~Le~~G~l 46 (78)
T 1xn7_A 3 SLIQVRDLLALRGRMEAAQISQTLNT---------------PQPMINAMLQQLESMGKA 46 (78)
T ss_dssp CHHHHHHHHHHSCSBCHHHHHHHTTC---------------CHHHHHHHHHHHHHHTSE
T ss_pred hHHHHHHHHHHcCCCcHHHHHHHHCc---------------CHHHHHHHHHHHHHCCCE
Confidence 45679999999999999999999999 999999999888777753
No 6
>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}
Probab=63.95 E-value=12 Score=26.13 Aligned_cols=43 Identities=16% Similarity=0.128 Sum_probs=38.1
Q ss_pred hchhhHhHHhhhccCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhcce
Q psy16395 36 MLPTIRSYLKLYTTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKMK 93 (157)
Q Consensus 36 ~lp~iRSYLKLYtti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~r 93 (157)
.|-.|+.||+-.-.++++.||..++| ++..+|..|-..=.++.
T Consensus 3 ~L~~Il~~L~~~g~vsv~eLA~~l~V---------------S~~TIRrDL~~Le~~G~ 45 (87)
T 2k02_A 3 SLMEVRDMLALQGRMEAKQLSARLQT---------------PQPLIDAMLERMEAMGK 45 (87)
T ss_dssp CTHHHHHHHHHSCSEEHHHHHHHTTC---------------CHHHHHHHHHHHHTTCC
T ss_pred hHHHHHHHHHHcCCCcHHHHHHHHCc---------------CHHHHHHHHHHHHHCCC
Confidence 46689999999999999999999999 99999999987766654
No 7
>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=56.34 E-value=19 Score=28.29 Aligned_cols=34 Identities=6% Similarity=0.277 Sum_probs=27.6
Q ss_pred HHHHHhhhhchhhHhHHhhhccCChHHHHHHhhc
Q psy16395 28 MDEVNQQKMLPTIRSYLKLYTTLPLSKLATFMGN 61 (157)
Q Consensus 28 l~eV~~Q~~lp~iRSYLKLYtti~l~KLAsfmdv 61 (157)
..........-.++.+.+-|++++++.+|..+++
T Consensus 335 ~~~l~~~~~~~~l~~~~~~y~~i~l~~la~~l~~ 368 (434)
T 4b4t_Q 335 FNALYDTLLESNLCKIIEPFECVEISHISKIIGL 368 (434)
T ss_dssp HHHHHHHHHHHHHHHHHSSCSCEEHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhCc
Confidence 3444445555678899999999999999999999
No 8
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=38.57 E-value=32 Score=23.13 Aligned_cols=53 Identities=8% Similarity=0.015 Sum_probs=37.7
Q ss_pred hhhhchhhHhHHhhh--ccCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhcceeeeecCCC
Q psy16395 33 QQKMLPTIRSYLKLY--TTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKMKNVVWTRGP 101 (157)
Q Consensus 33 ~Q~~lp~iRSYLKLY--tti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~rql~w~~G~ 101 (157)
.++.+--|+++++-. -..++..||..+++ .+.++|..|-..-.++. +.++.|+
T Consensus 6 ~~~IL~~I~~~i~~~~g~~psv~EIa~~lgv---------------S~~TVrr~L~~Le~kG~-I~R~~gg 60 (77)
T 2jt1_A 6 VTKIISIVQERQNMDDGAPVKTRDIADAAGL---------------SIYQVRLYLEQLHDVGV-LEKVNAG 60 (77)
T ss_dssp HHHHHHHHHHHHHHHTTSCEEHHHHHHHHTC---------------CHHHHHHHHHHHHHTTS-EEEESCS
T ss_pred HHHHHHHHHHHHhhccCCCcCHHHHHHHHCC---------------CHHHHHHHHHHHHHCCc-EEecCCC
Confidence 344444455554443 67889999999999 88999999999988764 3444443
No 9
>3r07_C Putative lipoate-protein ligase A subunit 2; adenylate-forming enzyme, BI-partite, ATP-binding, transferase; 2.70A {Thermoplasma acidophilum dsm 1728}
Probab=33.37 E-value=6.9 Score=27.24 Aligned_cols=32 Identities=31% Similarity=0.526 Sum_probs=20.4
Q ss_pred ceeEEEeCCeEEEeeccchhhhhhHHHH---HHHHHHHHH
Q psy16395 113 ELDFYIDNEMIHIADTKVAHRYGDFFIR---KIIKFEELN 149 (157)
Q Consensus 113 DlDFyID~DmIhIaetk~~rrygd~Fir---~I~K~e~l~ 149 (157)
++++-++++.| +..+-|||||.. -|..+++.+
T Consensus 20 ~v~l~v~~G~I-----~~vki~GDFf~~p~~~i~~le~~L 54 (91)
T 3r07_C 20 RVTLDLDGNRI-----KDIHISGDFFMFPEDSINRLEDML 54 (91)
T ss_dssp EEEEEEETTEE-----EEEEEEEEBCCBSTTHHHHHHHHH
T ss_pred EEEEEEcCCEE-----EEEEEEcccCCCcchhHHHHHHHH
Confidence 34566667765 456889999963 355555444
No 10
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=25.23 E-value=1.4e+02 Score=19.31 Aligned_cols=45 Identities=13% Similarity=0.176 Sum_probs=36.6
Q ss_pred hchhhHhHHhh--hccCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhcceee
Q psy16395 36 MLPTIRSYLKL--YTTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKMKNV 95 (157)
Q Consensus 36 ~lp~iRSYLKL--Ytti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~rql 95 (157)
+-|.-|.-+.| +.-++.+..|.-|++ .+.+++.++-..+.+.|..
T Consensus 38 L~~~~r~vl~l~~~~g~s~~eIA~~lgi---------------s~~tV~~~l~ra~~~Lr~~ 84 (92)
T 3hug_A 38 LSAEHRAVIQRSYYRGWSTAQIATDLGI---------------AEGTVKSRLHYAVRALRLT 84 (92)
T ss_dssp SCHHHHHHHHHHHTSCCCHHHHHHHHTS---------------CHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHCc---------------CHHHHHHHHHHHHHHHHHH
Confidence 44566666665 678999999999999 9999999998888877654
No 11
>1jli_A Interleukin 3, multi-CSF; hematopoietic growth factor, colony-stimulating factor, cytokine; NMR {Homo sapiens} SCOP: a.26.1.2
Probab=24.70 E-value=65 Score=23.92 Aligned_cols=43 Identities=16% Similarity=-0.007 Sum_probs=30.8
Q ss_pred ccccccccccCCCCCCCCchHHH------------HHHHHHHHhhhhchhhHhHHh
Q psy16395 2 RLLNKLIVVKPGLFYSHFISPFR------------QVFMDEVNQQKMLPTIRSYLK 45 (157)
Q Consensus 2 ~~~~~fi~~~~~~f~n~~~ep~~------------~~Fl~eV~~Q~~lp~iRSYLK 45 (157)
..|++--+| +.+|.+.|.|-.. ..|+..|+.-+....|.|=||
T Consensus 12 ~~L~~~p~p-~~~~~~Ln~~e~~~L~~~tLrrpNL~aF~~a~~~~~n~s~I~snLk 66 (112)
T 1jli_A 12 HHLKRPPNP-LLDPNNLNSEDMDILMERNLRTPNLLAFVRAVKHLENASAIESILK 66 (112)
T ss_dssp HHSCCCCCC-CCCSCCCCHHHHHHHHSSTTHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred HHcCCCCCC-ccccccCChHHHHHHhhhccccccHHHHHHHHHHhhhHHHHHHHHH
Confidence 345655455 5567676655443 889999999999999998776
No 12
>1no5_A Hypothetical protein HI0073; structural genomics, nucleotidyl transferase structure 2 function project, S2F, unknown function; 1.80A {Haemophilus influenzae} SCOP: d.218.1.5
Probab=24.55 E-value=29 Score=24.14 Aligned_cols=20 Identities=35% Similarity=0.406 Sum_probs=16.3
Q ss_pred CCCCcceeeccceeEEEeCC
Q psy16395 102 SGLEGTFQSGSELDFYIDNE 121 (157)
Q Consensus 102 ~~l~Ge~~~~sDlDFyID~D 121 (157)
|...|++...||+|+.|..+
T Consensus 35 S~ArG~~~~~SDIDl~V~~~ 54 (114)
T 1no5_A 35 SRVKGKAKKYSDLDLAIISE 54 (114)
T ss_dssp GGTTTCCCTTCCEEEEEECS
T ss_pred ccCCCCCCCCCCeEEEEEeC
Confidence 56689988899999998654
No 13
>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}
Probab=24.05 E-value=1.2e+02 Score=22.59 Aligned_cols=46 Identities=20% Similarity=0.296 Sum_probs=37.3
Q ss_pred HhhhhchhhHhHHhhhc-cCChHHHHHHhhccccCCCccccccccCChHHHHHHHHHhhhcc
Q psy16395 32 NQQKMLPTIRSYLKLYT-TLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHLLAFKHKM 92 (157)
Q Consensus 32 ~~Q~~lp~iRSYLKLYt-ti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~Ll~~K~k~ 92 (157)
+|++.+-.|+.|++-.- ..++..||.-+++ +..+++.+|-.+..++
T Consensus 6 ~q~~il~~I~~~~~~~g~~~s~~eia~~lgl---------------~~~tv~~~l~~Le~~G 52 (196)
T 3k2z_A 6 RQRKVLLFIEEFIEKNGYPPSVREIARRFRI---------------TPRGALLHLIALEKKG 52 (196)
T ss_dssp HHHHHHHHHHHHHHHHSSCCCHHHHHHHHTS---------------CHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHhCCCCCHHHHHHHcCC---------------CcHHHHHHHHHHHHCC
Confidence 56777788888887765 6899999999999 6778999888886553
No 14
>3ulb_A Target of rapamycin complex 2 subunit AVO1; PH domain, membrane localization, membrane protein; 1.90A {Saccharomyces cerevisiae} PDB: 3ulc_A
Probab=23.47 E-value=57 Score=24.45 Aligned_cols=23 Identities=22% Similarity=0.192 Sum_probs=17.7
Q ss_pred eeccceeEEEeCCeEEEeeccch
Q psy16395 109 QSGSELDFYIDNEMIHIADTKVA 131 (157)
Q Consensus 109 ~~~sDlDFyID~DmIhIaetk~~ 131 (157)
.+.++-=|.||||=|||..+..+
T Consensus 25 ~~~~ER~L~IDGdYIHImP~~~~ 47 (121)
T 3ulb_A 25 INKHERTLAIDGDYIYIVPPEGR 47 (121)
T ss_dssp EEEEEEEEEEETTEEEEECCC--
T ss_pred cccccEEEEEcCceEEEecCCCC
Confidence 45677889999999999987544
No 15
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Probab=23.04 E-value=65 Score=27.02 Aligned_cols=47 Identities=11% Similarity=0.162 Sum_probs=36.8
Q ss_pred HHHHHHHHhhhhchhhHhHHhhhccCChHHHHHHhhccccCCCccccccccCChHHHHHHH
Q psy16395 25 QVFMDEVNQQKMLPTIRSYLKLYTTLPLSKLATFMGNARAGQDSEIERDVDKETKSLITHL 85 (157)
Q Consensus 25 ~~Fl~eV~~Q~~lp~iRSYLKLYtti~l~KLAsfmdv~~~~~~~~~~~~~~~d~e~lr~~L 85 (157)
..|...|+....-...++|-+=..++|++.|+..|.. ++++++...+
T Consensus 200 e~~~~~vR~~AL~~i~kay~~k~~~~pl~~L~~~L~F--------------ds~ee~~~F~ 246 (316)
T 3t5v_A 200 QMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLF--------------NNRQEIIEFC 246 (316)
T ss_dssp GGGHHHHHHHHHHHHHHHSCTTCCCEEHHHHHHHTTC--------------SSHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCcCHHHHHHHhCC--------------CCHHHHHHHH
Confidence 6677788888777777777655579999999999999 2567776665
Done!