Query 011523
Match_columns 484
No_of_seqs 188 out of 499
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 09:53:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011523.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011523hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2j0o_A Invasin IPAD; type III 16.3 68 0.0023 32.2 2.5 38 387-427 12-49 (318)
2 1v54_M VIIIB, IX, cytochrome C 13.3 1.2E+02 0.0043 22.0 2.6 30 45-74 15-44 (46)
3 1zl8_A LIN-7; heterodimer, alp 10.7 98 0.0034 23.1 1.3 14 102-115 38-51 (53)
4 2y69_M Cytochrome C oxidase po 9.9 2.3E+02 0.0078 22.4 3.3 31 44-74 38-68 (70)
5 4htp_A DNA ligase 4; helical d 8.6 1.7E+02 0.0058 27.7 2.5 22 62-83 169-190 (240)
6 3d8m_A BPP, baseplate protein, 7.8 2.4E+02 0.0083 25.7 3.0 50 399-450 6-55 (165)
7 1muk_A Minor core protein lamb 7.2 1.4E+02 0.0046 34.4 1.2 18 1-18 833-850 (1267)
8 1fft_B Ubiquinol oxidase; elec 6.3 1.5E+02 0.0051 29.6 0.9 28 1-28 1-28 (315)
9 1y8x_B Ubiquitin-activating en 6.0 1.1E+02 0.0038 25.5 -0.2 29 370-398 60-89 (98)
10 1cfr_A CFR10I, restriction end 5.6 1.3E+02 0.0045 29.6 0.1 56 409-468 108-163 (285)
No 1
>2j0o_A Invasin IPAD; type III secretion, cell invasion, T3SS, plasmid, virulence; 3.00A {Shigella flexneri} SCOP: a.250.1.1
Probab=16.31 E-value=68 Score=32.24 Aligned_cols=38 Identities=32% Similarity=0.477 Sum_probs=18.3
Q ss_pred ceeeecccccccccccchhhhhhhhhhhhhhhhHhhhhhhh
Q 011523 387 EIIVDDMKYTVSHVVEPVERGIAKINKTFHQISENVKRHEK 427 (484)
Q Consensus 387 ~~~v~dv~~~~~~~~~p~e~~~~~~~~~~~~~~~~~~~~~~ 427 (484)
|-|-.|+|.|-+ .+||. ..+-+|+|+|+|--......|
T Consensus 12 ~~~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~ 49 (318)
T 2j0o_A 12 ETVNSDIKTTTS--SHPVS-SLTMLNDTLHNIRTTNQALKK 49 (318)
T ss_dssp ---------------CHHH-HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhcccccccccc--CCchh-HHHHHHHHHHHHHhhhHHHHH
Confidence 445689999988 78985 479999999999764443333
No 2
>1v54_M VIIIB, IX, cytochrome C oxidase polypeptide VIII-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.7.1 PDB: 1oco_M* 1occ_M* 1ocz_M* 1ocr_M* 1v55_M* 2dyr_M* 2dys_M* 2eij_M* 2eik_M* 2eil_M* 2eim_M* 2ein_M* 2occ_M* 2ybb_X* 2zxw_M* 3abk_M* 3abl_M* 3abm_M* 3ag1_M* 3ag2_M* ...
Probab=13.29 E-value=1.2e+02 Score=22.00 Aligned_cols=30 Identities=13% Similarity=0.283 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCChh
Q 011523 45 VFTASLFVLVALILSTYLIIEHLAAYNQPE 74 (484)
Q Consensus 45 ~~iag~f~llai~iSl~~I~~HL~~Yt~P~ 74 (484)
..++...+.+++++---=|+.||.+|.+.|
T Consensus 15 ~aigl~v~f~~~L~PagWVLshL~~YKk~e 44 (46)
T 1v54_M 15 QAIGLSVTFLSFLLPAGWVLYHLDNYKKSS 44 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTHHHHHTC-
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhcccc
Confidence 345555555666666556778999998874
No 3
>1zl8_A LIN-7; heterodimer, alpha helix, scaffold, assembly, specifici signaling, protein binding; NMR {Caenorhabditis elegans} SCOP: a.194.1.1
Probab=10.69 E-value=98 Score=23.09 Aligned_cols=14 Identities=21% Similarity=0.356 Sum_probs=11.9
Q ss_pred hhhHHHHHHHHHHH
Q 011523 102 AAFNCEVIRDCYEA 115 (484)
Q Consensus 102 ~aiy~d~iRd~YEA 115 (484)
-|-||..+|++||-
T Consensus 38 qSdF~~aVREVYEh 51 (53)
T 1zl8_A 38 QSEFFGAVREVYET 51 (53)
T ss_dssp SCSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 45789999999995
No 4
>2y69_M Cytochrome C oxidase polypeptide 8H; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=9.93 E-value=2.3e+02 Score=22.38 Aligned_cols=31 Identities=13% Similarity=0.268 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCChh
Q 011523 44 PVFTASLFVLVALILSTYLIIEHLAAYNQPE 74 (484)
Q Consensus 44 a~~iag~f~llai~iSl~~I~~HL~~Yt~P~ 74 (484)
-..|+...+++++++---=|+.||.+|.+.|
T Consensus 38 E~aigltv~f~~~L~PagWVLshLe~YKk~e 68 (70)
T 2y69_M 38 EQAIGLSVTFLSFLLPAGWVLYHLDNYKKSS 68 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTHHHHSCC-
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhcccc
Confidence 3445555666666666566788999999874
No 5
>4htp_A DNA ligase 4; helical domain, DNA binding domain, DNA, ligase-HYD complex; HET: DNA; 2.25A {Homo sapiens} PDB: 4hto_A*
Probab=8.61 E-value=1.7e+02 Score=27.73 Aligned_cols=22 Identities=32% Similarity=0.378 Sum_probs=17.3
Q ss_pred HHHHHHHhCCChhhhHHhhhhh
Q 011523 62 LIIEHLAAYNQPEEQKFLIGLI 83 (484)
Q Consensus 62 ~I~~HL~~Yt~P~~Qr~IIRIL 83 (484)
.++..|..-..|.+|||++||+
T Consensus 169 ~~l~~Ll~~~t~~E~k~liRii 190 (240)
T 4htp_A 169 KSLLQLITQSSALEQKWLIRMI 190 (240)
T ss_dssp HHHHHHHHTSCHHHHHHHHHHH
T ss_pred HHHHHHHHHCCHHHHHHHHHHH
Confidence 3555666667899999999987
No 6
>3d8m_A BPP, baseplate protein, receptor binding protein; lactococcal phage P2, lactococcal phage TP901-1, receptor BI protein; 3.35A {Lactococcus phage tp901-1}
Probab=7.79 E-value=2.4e+02 Score=25.72 Aligned_cols=50 Identities=14% Similarity=0.273 Sum_probs=28.2
Q ss_pred ccccchhhhhhhhhhhhhhhhHhhhhhhhhhhccCCCCCccccCCCcccccc
Q 011523 399 HVVEPVERGIAKINKTFHQISENVKRHEKERKRSSKDDSYLIPLNSWTREFS 450 (484)
Q Consensus 399 ~~~~p~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 450 (484)
-.-++||.|-.-||+.|-+|...+++-+. -++++.|.+ ++-.-.|.+.++
T Consensus 6 kiyrgm~ngae~i~~n~~~~~~e~~~~~~-~v~ktgde~-i~G~KtftgdI~ 55 (165)
T 3d8m_A 6 KVYRGMKNGAETINDDLEAINSELTSGGN-VVHKTGDET-IAGKKTFTGNVE 55 (165)
T ss_dssp -----------CTTHHHHHHHHHTTSSTT-CCCSSSCCC-CCSCCCCCSCCC
T ss_pred HHHHHhhhhhHHHHHHHHHHHHHHhcCCc-eEEeccccc-ccccccccCceE
Confidence 34578999999999999999999888877 666676655 555555565433
No 7
>1muk_A Minor core protein lambda 3; single subunit polymerase fold, fingers, PALM, thumb, right hand configuration, viral protein; 2.50A {Reovirus SP} SCOP: e.8.1.4 PDB: 1mwh_A* 1n1h_A* 1n35_A* 1n38_A* 1uon_A* 2cse_1
Probab=7.18 E-value=1.4e+02 Score=34.35 Aligned_cols=18 Identities=11% Similarity=0.301 Sum_probs=14.3
Q ss_pred CCccchhhHHHHHHHHHH
Q 011523 1 MGWRGILYVLFFLLTVVE 18 (484)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (484)
++||+|||+.+.+.-..+
T Consensus 833 l~WR~WlRfsWalac~~S 850 (1267)
T 1muk_A 833 LQWQRWIRYSWALCCAFS 850 (1267)
T ss_dssp CCHHHHHHHHHHHHHHHS
T ss_pred ccHHHHHHHHHHHHHHhc
Confidence 689999999998765544
No 8
>1fft_B Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane protein, oxidoreductase; HET: HEM HEO; 3.50A {Escherichia coli} SCOP: b.6.1.2 f.17.2.1
Probab=6.29 E-value=1.5e+02 Score=29.63 Aligned_cols=28 Identities=18% Similarity=-0.177 Sum_probs=0.8
Q ss_pred CCccchhhHHHHHHHHHHhhccCceecc
Q 011523 1 MGWRGILYVLFFLLTVVESSSRSFKIWL 28 (484)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 (484)
|.|++++|.+..+.-+...+.+.+|-..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~lsGC~~~ 28 (315)
T 1fft_B 1 MRLRKYNKSLGWLSLFAGTVLLSGCNSA 28 (315)
T ss_dssp --------------------------CC
T ss_pred CchhHHHHHHHHHHHHHHHHHHhcCccC
Confidence 5677777777665544444566777543
No 9
>1y8x_B Ubiquitin-activating enzyme E1C; ubiquitin-conjugating enzyme E2 M, ligase; 2.40A {Homo sapiens} SCOP: c.111.1.2 PDB: 3fn1_A
Probab=5.97 E-value=1.1e+02 Score=25.46 Aligned_cols=29 Identities=17% Similarity=0.428 Sum_probs=24.1
Q ss_pred ccccCCccccce-eecCcceeeeccccccc
Q 011523 370 KRLNFPQSVRDV-VLGSGEIIVDDMKYTVS 398 (484)
Q Consensus 370 ~~~~~~~s~~d~-~~~~g~~~v~dv~~~~~ 398 (484)
-+.|++-++.|. +..|.|++|.|.++..+
T Consensus 60 Tr~NL~k~l~eLgl~~g~ei~VtD~~~p~~ 89 (98)
T 1y8x_B 60 TRPNLSKTLKELGLVDGQELAVADVTTPQT 89 (98)
T ss_dssp HHHHHHSBSGGGTCCTTCEEEEECTTCSSC
T ss_pred hHhhhhCCHHHhCCCCCCEEEEECCCCccc
Confidence 448888889999 88899999999988643
No 10
>1cfr_A CFR10I, restriction endonuclease; restriction enzyme; 2.15A {Citrobacter freundii} SCOP: c.52.1.7
Probab=5.65 E-value=1.3e+02 Score=29.60 Aligned_cols=56 Identities=18% Similarity=0.239 Sum_probs=38.5
Q ss_pred hhhhhhhhhhhHhhhhhhhhhhccCCCCCccccCCCcccccccccCCCCCCccccccccc
Q 011523 409 AKINKTFHQISENVKRHEKERKRSSKDDSYLIPLNSWTREFSEVQDHIPEGSFSDSSISN 468 (484)
Q Consensus 409 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 468 (484)
..+++++++..++++.+.-.....|-|++ |+...+.+| ++.|++.++++++-+++.
T Consensus 108 ~e~~~~i~~~~~~L~~~~v~LitSnPD~v-Iv~~~~~~~---~~~~~l~d~~~~~I~lst 163 (285)
T 1cfr_A 108 SCLSEFIYDLRSKLSLNNVNLITSNPDFS-IIDIRGRRE---ELKSMLKDISFSNISLST 163 (285)
T ss_dssp HHHHHHHHHHHHHHHHTTCCCCCCCCSEE-EEECTTCHH---HHHHHTTTCCSTTCCHHH
T ss_pred HHHHHHHHHHHHhhhhcCcceecCCCCEE-EEEeccccc---cccccchhhccCCcCccc
Confidence 35688888999888777654666676766 444444344 567888888888876553
Done!