Query psy13659
Match_columns 306
No_of_seqs 223 out of 1754
Neff 7.0
Searched_HMMs 13730
Date Fri Aug 16 17:05:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13659.a3m -d /work/01045/syshi/HHdatabase/scop70.hhm -o /work/01045/syshi/hhsearch_scop/13659hhsearch_scop -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 d1gjja2 a.140.1.1 (A:111-153) 10.7 36 0.0026 20.3 0.7 13 293-305 15-27 (43)
2 d1hmja_ d.78.1.1 (A:) RNA poly 7.1 26 0.0019 22.9 -1.2 19 286-304 29-47 (68)
3 d1rtra_ a.128.1.1 (A:) Farnesy 6.1 2.3E+02 0.017 22.7 4.2 59 17-78 64-122 (290)
4 d2bs2c1 f.21.2.1 (C:1-254) Fum 6.0 5.8E+02 0.042 19.8 8.1 20 232-251 199-218 (254)
5 d1rqja_ a.128.1.1 (A:) Farnesy 5.9 3.6E+02 0.026 21.4 5.5 61 15-78 65-125 (299)
6 d1iwga8 f.35.1.1 (A:513-566,A: 5.7 5.5E+02 0.04 19.2 9.5 12 33-44 4-15 (222)
7 d1eika_ d.78.1.1 (A:) RNA poly 5.1 52 0.0038 21.8 -0.7 17 288-304 42-58 (77)
8 d1fftb2 f.17.2.1 (B:27-117) Cy 4.7 2.2E+02 0.016 18.8 2.6 35 234-268 10-46 (91)
9 d1ltqa1 c.108.1.9 (A:153-301) 4.5 1.2E+02 0.009 20.9 1.1 20 162-181 129-148 (149)
10 d1dzfa2 d.78.1.1 (A:144-215) E 4.3 42 0.003 22.0 -1.7 37 268-304 14-54 (72)
No 1
>d1gjja2 a.140.1.1 (A:111-153) Thymopoietin, LAP2 {Human (Homo sapiens) [TaxId: 9606]}
Probab=10.73 E-value=36 Score=20.26 Aligned_cols=13 Identities=31% Similarity=0.749 Sum_probs=10.6
Q ss_pred ccccccccccccC
Q psy13659 293 ATLGLKLGPVIET 305 (306)
Q Consensus 293 ~~~~~~~~~~~~~ 305 (306)
.+.|.+.|||..|
T Consensus 15 ~~~G~~~GPIt~s 27 (43)
T d1gjja2 15 VKYGVNPGPIVGT 27 (43)
T ss_dssp EBTTCCCCCCCSS
T ss_pred HHcCCCCCCcCcc
Confidence 4679999999876
No 2
>d1hmja_ d.78.1.1 (A:) RNA polymerase subunit RBP5 (RNA polymerase subunit H) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=7.14 E-value=26 Score=22.86 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=13.1
Q ss_pred cccCCcccccccccccccc
Q psy13659 286 LITPPNPATLGLKLGPVIE 304 (306)
Q Consensus 286 ~~~~~~~~~~~~~~~~~~~ 304 (306)
+..-|....+|+|.|-|++
T Consensus 29 ~~~DPva~~~g~k~Gdvvk 47 (68)
T d1hmja_ 29 YEDDPVIQEIGAKEGDVVR 47 (68)
T ss_pred cccCHHHHHhCCCCCcEEE
Confidence 3444556678999888875
No 3
>d1rtra_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Staphylococcus aureus [TaxId: 1280]}
Probab=6.08 E-value=2.3e+02 Score=22.66 Aligned_cols=59 Identities=8% Similarity=0.085 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHHhhcccccCcCCCCCCCCCCcccCCCCCHHHHHHHHHHHHHHHHHHH
Q psy13659 17 LICSLGTGLVSSAANAVNQYHEVPFDSQMSRTKNRVLVRGVLSPLHALGFALASSAAGTAML 78 (306)
Q Consensus 17 ll~~l~~~l~~~a~~~iND~~D~~iD~~~~Rt~~RPL~sG~Is~~~A~~~~~~l~~~gl~l~ 78 (306)
.-+..+.=+++.++-+..|+.|.|-|.. | +.||-...+.....|...+-.+...+.-+.
T Consensus 64 ~~~A~avEllH~asLIHDDI~d~D~~~~--R-Rg~pt~~~~~g~~~Ail~Gd~l~~~a~~l~ 122 (290)
T d1rtra_ 64 MKSAIALEMIHTYSLIHDDLPAMDNDDY--R-RGKLTNHKVYGEWTAILAGDALLTKAFELI 122 (290)
T ss_dssp HHHHHHHHHHHHHHHHHHHSTTTTCCSE--E-TTEECHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcchhhhhhhhh--h-hcchhhHHHhhhhHHHHcCcchhHHHHHHH
Confidence 3444566789999999999988776654 2 377888888888888877777666665443
No 4
>d2bs2c1 f.21.2.1 (C:1-254) Fumarate reductase respiratory complex cytochrome b subunit, FrdC {Wolinella succinogenes [TaxId: 844]}
Probab=6.02 E-value=5.8e+02 Score=19.83 Aligned_cols=20 Identities=10% Similarity=0.049 Sum_probs=11.5
Q ss_pred cCChHHHHHHHHHHhHHHHH
Q psy13659 232 ESDSSSSRKLFRFSLLHLPA 251 (306)
Q Consensus 232 ~~~~~~~~~~F~~s~~~~~~ 251 (306)
.+++++.|+.++.-.+.+.+
T Consensus 199 ~~~~~~~R~~~~~~~~~l~~ 218 (254)
T d2bs2c1 199 GETPDKTRANLKKLKTLMSA 218 (254)
T ss_dssp TTCHHHHHHHHHHHHHHHHH
T ss_pred CcchHhHHHHHHHHHHHHHH
Confidence 34556667766655554444
No 5
>d1rqja_ a.128.1.1 (A:) Farnesyl diphosphate synthase (geranyltranstransferase) {Escherichia coli [TaxId: 562]}
Probab=5.91 E-value=3.6e+02 Score=21.43 Aligned_cols=61 Identities=8% Similarity=-0.032 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccCcCCCCCCCCCCcccCCCCCHHHHHHHHHHHHHHHHHHH
Q psy13659 15 SFLICSLGTGLVSSAANAVNQYHEVPFDSQMSRTKNRVLVRGVLSPLHALGFALASSAAGTAML 78 (306)
Q Consensus 15 ~~ll~~l~~~l~~~a~~~iND~~D~~iD~~~~Rt~~RPL~sG~Is~~~A~~~~~~l~~~gl~l~ 78 (306)
...-+..+.=+++.++-+..|+.|.|-|.. | +.+|-+-.+.....|+..+-.+...+.-.+
T Consensus 65 ~~~~~A~aiEllH~asLiHDDI~d~d~~~~--R-RG~pt~h~~~G~~~AIl~Gd~l~~~a~~~l 125 (299)
T d1rqja_ 65 TLDAPAAAVECIHAYSLIHDDLPAMDDDDL--R-RGLPTCHVKFGEANAILAGDALQTLAFSIL 125 (299)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTSTTTTCCCE--E-TTEECHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHccchhhhhhhc--c-cccccceeeeCcchhhhhcchHHHHHHHHH
Confidence 344455667789999999999999876644 2 367777667777778777776666665443
No 6
>d1iwga8 f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux transporter AcrB transmembrane domain {Escherichia coli [TaxId: 562]}
Probab=5.71 E-value=5.5e+02 Score=19.21 Aligned_cols=12 Identities=17% Similarity=0.105 Sum_probs=7.7
Q ss_pred hhcccccCcCCC
Q psy13659 33 VNQYHEVPFDSQ 44 (306)
Q Consensus 33 iND~~D~~iD~~ 44 (306)
+|+-+|+..|+.
T Consensus 4 fNr~f~~~t~~y 15 (222)
T d1iwga8 4 FNRMFEKSTHHY 15 (222)
T ss_dssp HHHHHHHHHTHH
T ss_pred hhHHHHhhhHHH
Confidence 577777666653
No 7
>d1eika_ d.78.1.1 (A:) RNA polymerase subunit RBP5 (RNA polymerase subunit H) {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=5.09 E-value=52 Score=21.84 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=12.1
Q ss_pred cCCcccccccccccccc
Q psy13659 288 TPPNPATLGLKLGPVIE 304 (306)
Q Consensus 288 ~~~~~~~~~~~~~~~~~ 304 (306)
.-|...-+|+|.|-|++
T Consensus 42 ~DPva~~~g~k~Gdvvk 58 (77)
T d1eika_ 42 TDPVAKAIGAKRGDIVK 58 (77)
T ss_dssp TSHHHHGGGCCTTCEEE
T ss_pred cCHhhhhhCCcCCcEEE
Confidence 33445678999998875
No 8
>d1fftb2 f.17.2.1 (B:27-117) Cytochrome O ubiquinol oxidase, subunit II {Escherichia coli [TaxId: 562]}
Probab=4.66 E-value=2.2e+02 Score=18.78 Aligned_cols=35 Identities=14% Similarity=0.102 Sum_probs=19.7
Q ss_pred ChHHHHHHHHHHhHHHHHHHHHH--HHhccccccCCC
Q psy13659 234 DSSSSRKLFRFSLLHLPALMILL--LINKKHWASHGS 268 (306)
Q Consensus 234 ~~~~~~~~F~~s~~~~~~l~~~~--l~~~~~~~~~~~ 268 (306)
..+.-.++|....+...++++.. ++-..-|++++.
T Consensus 10 ~a~~i~~L~~~~~~i~~iv~v~V~~~~~~~~~ryR~~ 46 (91)
T d1fftb2 10 IGLEQRSLILTAFGLMLIVVIPAILMAVGFAWKYRAS 46 (91)
T ss_dssp CHHHHHHHHHHHHHHTTTTTTHHHHHHHTTTTTTTTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhheeeecc
Confidence 33556667777777666555433 223446776543
No 9
>d1ltqa1 c.108.1.9 (A:153-301) Polynucleotide kinase, phosphatase domain {Bacteriophage T4 [TaxId: 10665]}
Probab=4.47 E-value=1.2e+02 Score=20.88 Aligned_cols=20 Identities=20% Similarity=0.278 Sum_probs=15.3
Q ss_pred hcchhHHHcCCccccccCCc
Q psy13659 162 NLRPDYSRAGYRMMAVTNPD 181 (306)
Q Consensus 162 ~D~edD~~~G~~tl~v~~G~ 181 (306)
.|.|-.+++|++++-|.+|.
T Consensus 129 ~dv~a~~~~Gi~~~~V~~Gd 148 (149)
T d1ltqa1 129 QVVEMWRRIGVECWQVASGD 148 (149)
T ss_dssp HHHHHHHHTTCCEEECSCCC
T ss_pred HHHHHHHHCCCcEEEeCCCC
Confidence 44555677999999998884
No 10
>d1dzfa2 d.78.1.1 (A:144-215) Eukaryotic RPB5 C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=4.30 E-value=42 Score=22.04 Aligned_cols=37 Identities=27% Similarity=0.322 Sum_probs=0.0
Q ss_pred CCcccccc--cccccCC--ccccccCCcccccccccccccc
Q psy13659 268 SDAAKDSI--EVSVQPS--IDSLITPPNPATLGLKLGPVIE 304 (306)
Q Consensus 268 ~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 304 (306)
++||++++ ++..+++ +.=+-.-|..--+|+|.|-|++
T Consensus 14 ~~eE~~~il~~y~i~~~qLP~I~~~DPva~~~g~~~Gdvik 54 (72)
T d1dzfa2 14 SSDEKRELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVK 54 (72)
T ss_dssp CHHHHHHHHHHTTCCGGGSCEECTTCHHHHHHTCCTTCEEE
T ss_pred CHHHHHHHHHHhCCCHhHCCeecccCHhhhhcCCCCCCEEE
Done!