Query 027998
Match_columns 215
No_of_seqs 223 out of 929
Neff 5.1
Searched_HMMs 29240
Date Mon Mar 25 07:02:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027998.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/027998hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y9j_Y Lipoprotein PRGK, prote 48.6 21 0.00073 28.7 4.6 48 42-94 123-170 (170)
2 2fao_A Probable ATP-dependent 28.9 43 0.0015 29.8 3.6 59 37-95 168-233 (309)
3 3o71_B Peptide of deleted in c 28.8 22 0.00074 20.7 1.1 14 31-44 8-21 (27)
4 1yd6_A UVRC; DNA binding prote 27.1 36 0.0012 25.1 2.4 30 2-34 18-47 (99)
5 1yj7_A ESCJ; mixed alpha/beta, 25.5 1.1E+02 0.0037 24.5 5.3 48 43-95 120-167 (171)
6 1oth_A Protein (ornithine tran 20.1 77 0.0026 28.0 3.6 47 46-95 179-233 (321)
7 1u9d_A Hypothetical protein VC 18.8 38 0.0013 26.1 1.1 60 36-103 8-67 (122)
8 2iru_A Putative DNA ligase-lik 18.8 45 0.0016 29.6 1.7 60 36-95 169-235 (303)
9 1yd0_A Uvrabc system protein C 18.3 75 0.0026 23.2 2.6 29 2-34 18-46 (96)
10 3tpf_A Otcase, ornithine carba 16.4 1.3E+02 0.0044 26.4 4.1 46 46-94 170-222 (307)
No 1
>2y9j_Y Lipoprotein PRGK, protein PRGK; protein transport, type III secretion, IR1, inner membrane R C24-fold; 6.40A {Salmonella enterica subsp}
Probab=48.61 E-value=21 Score=28.75 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=36.8
Q ss_pred cCCCCcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhcccccCCCceEEEEEec
Q 027998 42 DKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPW 94 (215)
Q Consensus 42 ~~~pGaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S~kg~k~~~V~V~YT~~ 94 (215)
..-|+|-|+|++.+| .++++.+.--..|++ .|..|-+.++|+|+..|.
T Consensus 123 ~~~~sASV~l~~~~g----~l~~~qv~~I~~LVa-~SV~gL~~e~VtVv~~~~ 170 (170)
T 2y9j_Y 123 PKPVHLSALAVYERG----SPLAHQISDIKRFLK-NSFADVDYDNISVVLSER 170 (170)
T ss_dssp CCCEEEEEEEEECTT----CCCGGGHHHHHHHHH-HHSTTCCGGGEEEEEEEC
T ss_pred CCCCcEEEEEEECCC----CCCHHHHHHHHHHHH-HhcCCCCccceEEEEecC
Confidence 346899999999887 256677777777765 566688899999998774
No 2
>2fao_A Probable ATP-dependent DNA ligase; polymerase, primase, NHEJ, hydrolase/transferase complex; 1.50A {Pseudomonas aeruginosa} PDB: 2faq_A* 2far_A*
Probab=28.89 E-value=43 Score=29.84 Aligned_cols=59 Identities=15% Similarity=0.174 Sum_probs=36.1
Q ss_pred EEEEecCCCCcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhc-------ccccCCCceEEEEEecc
Q 027998 37 IWFHVDKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANS-------IQGNKVNNIDVVYTPWA 95 (215)
Q Consensus 37 lWFHv~~~pGaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S-------~kg~k~~~V~V~YT~~k 95 (215)
-|.-..+-.|-|||+.+.++.+|+++-.-....|..|+...- .+.+-.++|-|+|.+-.
T Consensus 168 ~f~KTSGgkGlHV~vPl~~~~~~~~vr~fa~~~A~~l~~~~Pd~~t~~~~k~~R~gkIfiDy~qN~ 233 (309)
T 2fao_A 168 AFLKTSGGKGMHLLVPLERRHGWDEVKDFAQAISQHLARLMPERFSAVSGPRNRVGKIFVDYLRNS 233 (309)
T ss_dssp CEEEECSSSSEEEEEECCSCSCHHHHHHHHHHHHHHHHHHCTTTEECSCSGGGSTTSEEEECGGGS
T ss_pred eeeEccCCCeeEEEEEcCCCCCHHHHHHHHHHHHHHHHHhCcceeehhhhHhhCCCCEEEeCccCC
Confidence 467778889999999998754443333333344444444332 12334688999997654
No 3
>3o71_B Peptide of deleted in colorectal cancer; protein-peptide complex, kinase, DCC, transferase-protein BI complex; 1.95A {Rattus norvegicus}
Probab=28.83 E-value=22 Score=20.71 Aligned_cols=14 Identities=36% Similarity=0.752 Sum_probs=10.5
Q ss_pred hcCCCcEEEEecCC
Q 027998 31 YGFPEDIWFHVDKM 44 (215)
Q Consensus 31 ~a~~~DlWFHv~~~ 44 (215)
-.+|-|+|.|-+.+
T Consensus 8 Dlkppdlwihhe~~ 21 (27)
T 3o71_B 8 DLRPPDLWIHHEEM 21 (27)
T ss_pred CCCCcceeeehhhh
Confidence 35788999997643
No 4
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Probab=27.12 E-value=36 Score=25.10 Aligned_cols=30 Identities=20% Similarity=0.252 Sum_probs=22.2
Q ss_pred EEEEEecccCCCeEEEEeCChhhhHHHHHhcCC
Q 027998 2 VFYFKARPEAGDYTIFMGLDKYENEELIKYGFP 34 (215)
Q Consensus 2 v~~f~s~~~~~g~~I~vGRn~~ENe~L~k~a~~ 34 (215)
||+|.. ..|-.||||+-+.=-.++..|-.+
T Consensus 18 VY~~~d---~~g~vlYVGKAknLr~Rv~syf~~ 47 (99)
T 1yd6_A 18 CYLMKD---KHGTVIYVGKAKSLKERVRSYFTG 47 (99)
T ss_dssp EEEEEC---SSCCEEEEEEESCHHHHHHGGGSS
T ss_pred EEEEEc---CCCCEEEEecCcCHHHHHHHHccc
Confidence 788876 368899999987666667666443
No 5
>1yj7_A ESCJ; mixed alpha/beta, extended linker, protein transport; 1.80A {Escherichia coli}
Probab=25.52 E-value=1.1e+02 Score=24.54 Aligned_cols=48 Identities=25% Similarity=0.249 Sum_probs=33.3
Q ss_pred CCCCcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhcccccCCCceEEEEEecc
Q 027998 43 KMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPWA 95 (215)
Q Consensus 43 ~~pGaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S~kg~k~~~V~V~YT~~k 95 (215)
.-|+|-|+|++.+|. .+++... +-.-..+.|..|-+.++|+|+=.++.
T Consensus 120 ~~~sASV~l~~~~g~---~l~~~q~--~I~~LVa~SV~gL~~enVtVvdq~~~ 167 (171)
T 1yj7_A 120 QPSSAAVLVISSPEV---NLAPSVI--QIKNLVKNSVDDLKLENISVVIKSSS 167 (171)
T ss_dssp --CEEEEEEEECTTC---CCGGGHH--HHHHHHHHHSTTCCGGGEEEEEEECC
T ss_pred CCceEEEEEEeCCCC---CCcHhHH--HHHHHHHHhcCCCCcccEEEEeCCCC
Confidence 458899999998886 4555543 33334456766888899999877764
No 6
>1oth_A Protein (ornithine transcarbamoylase); transferase; HET: PAO; 1.85A {Homo sapiens} SCOP: c.78.1.1 c.78.1.1 PDB: 1ep9_A 1fvo_A 1c9y_A* 1fb5_A
Probab=20.14 E-value=77 Score=28.02 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=32.8
Q ss_pred CcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhc--cc-----ccCCCceEEEEE-ecc
Q 027998 46 SAHVYLRLHKGQTIDDISEGVLEDCAQLVKANS--IQ-----GNKVNNIDVVYT-PWA 95 (215)
Q Consensus 46 GaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S--~k-----g~k~~~V~V~YT-~~k 95 (215)
|++|.+-.|+|- .+|++.+..|..+|+... +. ..-...++|+|| .|-
T Consensus 179 G~~v~~~~P~~~---~~~~~~~~~~~~~a~~~G~~~~~~~d~~eav~~aDvvy~d~w~ 233 (321)
T 1oth_A 179 GMHLQAATPKGY---EPDASVTKLAEQYAKENGTKLLLTNDPLEAAHGGNVLITDTWI 233 (321)
T ss_dssp TCEEEEECCTTC---CCCHHHHHHHHHHHHHHTCCEEEESCHHHHHTTCSEEEECCSS
T ss_pred CCeEEEECCccc---cCCHHHHHHHHHHHHHcCCeEEEEECHHHHhccCCEEEEeccc
Confidence 899999999874 578888888887777542 10 012456889999 554
No 7
>1u9d_A Hypothetical protein VC0714; structural genomics, MCSG, protein STR initiative, PSI, midwest center for structural genomics; 1.70A {Vibrio cholerae o1 biovar eltor str} SCOP: d.80.1.5
Probab=18.81 E-value=38 Score=26.14 Aligned_cols=60 Identities=12% Similarity=0.280 Sum_probs=36.9
Q ss_pred cEEEEecCCCCcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhcccccCCCceEEEEEeccceecCCCC
Q 027998 36 DIWFHVDKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPWANLKKTASM 103 (215)
Q Consensus 36 DlWFHv~~~pGaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S~kg~k~~~V~V~YT~~knvkK~~~~ 103 (215)
.++|..... ||+.+|.-+-+.+..+++.++++-|.|+ +++.+.+++.|-+-.++.--.+|
T Consensus 8 ~~~~~~~~M--Phlr~rgi~~e~v~~lS~~Lid~La~i~------~~~~e~fTle~i~s~~i~~G~~M 67 (122)
T 1u9d_A 8 NLYFSSNAM--PHLRFRAVEAHIVESLVPTLLNELSSLL------STARNAFTFELINTQYFAEGGVY 67 (122)
T ss_dssp TTTBTTCCC--CEEEEESSCHHHHHHHHHHHHHHHHHHH------TCCGGGCEEEECCCCCCCTTCCC
T ss_pred eeeeccCCC--ceEEECCCCHHHHHHHhHHHHHHHHHHH------CCCcccEEEEEeeeEEEecCCCC
Confidence 344433333 5998884433233345555666666666 57888999999998888544333
No 8
>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase, primase, NHEJ, transferase; 1.65A {Mycobacterium tuberculosis} PDB: 2irx_A* 2iry_A* 2r9l_A* 3pky_A*
Probab=18.75 E-value=45 Score=29.62 Aligned_cols=60 Identities=10% Similarity=0.042 Sum_probs=35.6
Q ss_pred cEEEEecCCCCcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhc-------ccccCCCceEEEEEecc
Q 027998 36 DIWFHVDKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANS-------IQGNKVNNIDVVYTPWA 95 (215)
Q Consensus 36 DlWFHv~~~pGaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S-------~kg~k~~~V~V~YT~~k 95 (215)
.-|.-..+-.|-|||+.+.++.+|+++-.-....|..|+..+- .+.+-.++|-|+|.+-.
T Consensus 169 ~~f~KTSGgkGlHV~vPl~~~~~~~~vr~fa~~~A~~l~~~~Pd~~t~~~~k~~R~gkIfvDy~qN~ 235 (303)
T 2iru_A 169 VTFPVTSGSKGLHLYTPLDEPVSSRGATVLAKRVAQRLEQAMPALVTSTMTKSLRAGKVFVDWSQNS 235 (303)
T ss_dssp CCEEEECSSSCEEEEEEEEEEECHHHHHHHHHHHHHHHHHHCTTTEESSCCGGGCTTSEEEECGGGS
T ss_pred ccceEccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHHCcceehhhhhHHhCCCCEEEECccCC
Confidence 3477788889999999997654333333333334444444332 12334678888887543
No 9
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A
Probab=18.31 E-value=75 Score=23.21 Aligned_cols=29 Identities=31% Similarity=0.482 Sum_probs=20.5
Q ss_pred EEEEEecccCCCeEEEEeCChhhhHHHHHhcCC
Q 027998 2 VFYFKARPEAGDYTIFMGLDKYENEELIKYGFP 34 (215)
Q Consensus 2 v~~f~s~~~~~g~~I~vGRn~~ENe~L~k~a~~ 34 (215)
||+|.. +|-.||||+-+.=-.++..|-.+
T Consensus 18 VY~~~d----~g~vlYVGKAknLr~Rv~syf~~ 46 (96)
T 1yd0_A 18 VYIFKN----KGVPIYIGKAKRLSNRLRSYLNP 46 (96)
T ss_dssp EEEEEE----TTEEEEEEEESSHHHHHHGGGSC
T ss_pred EEEEEC----CCeEEEEecCcCHHHHHHHHccC
Confidence 788864 58899999987655566555433
No 10
>3tpf_A Otcase, ornithine carbamoyltransferase; structural genomics, center for structural genomics of infec diseases, csgid, rossman fold; 2.70A {Campylobacter jejuni subsp}
Probab=16.39 E-value=1.3e+02 Score=26.41 Aligned_cols=46 Identities=17% Similarity=0.135 Sum_probs=32.0
Q ss_pred CcEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhccc-------ccCCCceEEEEEec
Q 027998 46 SAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQ-------GNKVNNIDVVYTPW 94 (215)
Q Consensus 46 GaHViLR~~~g~~~~~ipe~~L~~AAqLaa~~S~k-------g~k~~~V~V~YT~~ 94 (215)
|.+|++-.|+|- .+|++.+..|..+|+.+... ..-...++|+||.+
T Consensus 170 G~~v~~~~P~~~---~~~~~~~~~~~~~a~~~g~~~~~~~d~~eav~~aDvvyt~~ 222 (307)
T 3tpf_A 170 GFEISIAMPKNY---KISPEIWEFAMKQALISGAKISLGYDKFEALKDKDVVITDT 222 (307)
T ss_dssp TCEEEEECCTTC---CCCHHHHHHHHHHHHHHTCEEEEESCHHHHHTTCSEEEECC
T ss_pred CCEEEEECCCcc---CCCHHHHHHHHHHHHHcCCeEEEEcCHHHHhcCCCEEEecC
Confidence 788999988874 57788888888887765310 01135678888865
Done!