Query 031427
Match_columns 160
No_of_seqs 117 out of 1089
Neff 4.5
Searched_HMMs 29240
Date Mon Mar 25 22:29:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031427.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031427hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3r8s_N 50S ribosomal protein L 100.0 2.8E-57 9.4E-62 346.3 13.6 115 2-116 5-119 (120)
2 1gd8_A 50S ribosomal protein L 100.0 9.7E-57 3.3E-61 342.4 12.1 113 2-114 5-118 (118)
3 2zjr_K 50S ribosomal protein L 100.0 2.1E-56 7.2E-61 339.7 13.3 112 2-113 5-116 (116)
4 2cqm_A Ribosomal protein L17 i 100.0 2.1E-53 7.2E-58 325.6 9.9 118 10-135 1-120 (122)
5 3bbo_P Ribosomal protein L17; 100.0 3.3E-53 1.1E-57 346.5 11.1 112 2-113 94-205 (205)
6 1sy9_B Cyclic-nucleotide-gated 38.6 2 6.9E-05 24.1 -2.1 12 86-97 2-13 (26)
7 1t6s_A Conserved hypothetical 32.7 75 0.0026 24.4 5.2 55 37-92 4-60 (162)
8 1ceu_A Protein (HIV-1 regulato 23.4 71 0.0024 20.6 3.0 21 124-144 4-24 (51)
9 2z99_A Putative uncharacterize 21.8 1.5E+02 0.0053 23.8 5.4 53 39-92 14-66 (219)
10 1x4p_A Putative splicing facto 20.6 14 0.00049 25.1 -0.9 39 40-78 6-52 (66)
No 1
>3r8s_N 50S ribosomal protein L17; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_N 3j19_N 2wwq_N 3oat_N* 3oas_N* 3ofd_N 3ofc_N 3ofr_N* 3ofz_N* 3og0_N 3ofq_N 3r8t_N 3i1n_N 1p85_L 1p86_L 1vs8_N 1vs6_N 2aw4_N 2awb_N 1vt2_N ...
Probab=100.00 E-value=2.8e-57 Score=346.29 Aligned_cols=115 Identities=49% Similarity=0.784 Sum_probs=113.3
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhccceeecHHhHHHHHhhHHHHHHhhccCChHHHHHHHHhccChhHHHHHHHHHH
Q 031427 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (160)
Q Consensus 2 ~~~rklgr~~~hR~allRnlvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~~r~a~~~L~~~~~v~KLF~~la 81 (160)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+||+|++|+|++||.|+++|+|||++|+
T Consensus 5 ~~~rkLgr~~~hR~amlrnl~tsLi~herI~TT~~KAKelr~~aEklITlaK~~~l~~rR~a~~~l~~~~~v~KLF~ela 84 (120)
T 3r8s_N 5 KSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEIVAKLFNELG 84 (120)
T ss_dssp CCCCCTTSCHHHHHHHHHHHHHHHHHHSEEEEEHHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHSSCCHHHHHHHHHTHH
T ss_pred CCCCCCCCChHHHHHHHHHHHHHHHHcCeEEEcHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCeeEEEcccCCCCCCCCeeeeEeccCc
Q 031427 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIEFVDRE 116 (160)
Q Consensus 82 pRy~~R~GGYTRI~kl~~R~GD~ApmaiIElVd~~ 116 (160)
|||++|+||||||+|+|+|.||+||||||||||++
T Consensus 85 pry~~R~GGYTRI~K~~~R~GD~A~maiiELVd~~ 119 (120)
T 3r8s_N 85 PRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRS 119 (120)
T ss_dssp HHTTTCCSCCEEEEEEEECTTTCCEEEEEEESSCC
T ss_pred HHhcCCCCCeEEEEECCCCCCCCcCeEEEEEecCC
Confidence 99999999999999999999999999999999975
No 2
>1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein S8-like domain, Trp repressor-like domain, helix-turn-helix motif; 2.30A {Thermus thermophilus} SCOP: d.188.1.1 PDB: 1vsa_L 1vsp_L 1yl3_0 2b66_R 2b9n_R 2b9p_R 2hgj_Q 2hgq_Q 2hgu_Q 2j01_R 2j03_R 2jl6_R 2jl8_R 2v47_R 2v49_R 2wdi_R 2wdj_R 2wdl_R 2wdn_R 2wh2_R ...
Probab=100.00 E-value=9.7e-57 Score=342.42 Aligned_cols=113 Identities=44% Similarity=0.715 Sum_probs=103.5
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhccceeecHHhHHHHHhhHHHHHHhhccCChHHHHHHHHhccChhHHHHHHHHHH
Q 031427 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (160)
Q Consensus 2 ~~~rklgr~~~hR~allRnlvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~~r~a~~~L~~~~~v~KLF~~la 81 (160)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+||+|++|+|.+||.|+++|+|||++|+
T Consensus 5 ~~~rkLgr~~~hR~amlrnl~tsLi~herI~TT~~KAKelr~~aEklITlaK~g~l~~rR~a~~~l~~~~~v~KLF~~ia 84 (118)
T 1gd8_A 5 KSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIA 84 (118)
T ss_dssp ---------CHHHHHHHHHHHHHHHHHSEEEEEHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHSCCHHHHHHHHHTHH
T ss_pred CCCCCCCCChHHHHHHHHHHHHHHHhcCEEEecHHHHHHHHHHHHHHHhhhhcCCHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCeeEEEccc-CCCCCCCCeeeeEecc
Q 031427 82 YRYKDRAGGYTRLLRSR-IRVGDAAPMAYIEFVD 114 (160)
Q Consensus 82 pRy~~R~GGYTRI~kl~-~R~GD~ApmaiIElVd 114 (160)
|||++||||||||+|++ +|.||+||||||||||
T Consensus 85 pry~~R~GGYTRI~K~~~~R~GD~A~maiiELVd 118 (118)
T 1gd8_A 85 PRYRDRQGGYTRVLKLAERRRGDGAPLALVELVE 118 (118)
T ss_dssp HHTSSCCSCCEEEEEEEEECTTTCCEEEEEEECC
T ss_pred HHhCCCCCCeEEEEECCCCCCCCCCCeEEEEecC
Confidence 99999999999999999 9999999999999996
No 3
>2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.188.1.1 PDB: 1nwx_L* 1nwy_L* 1sm1_L* 1xbp_L* 2zjp_K* 2zjq_K 1nkw_L 3cf5_K* 3dll_K* 3pio_K* 3pip_K* 1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O 1voy_O 1vp0_O
Probab=100.00 E-value=2.1e-56 Score=339.74 Aligned_cols=112 Identities=39% Similarity=0.637 Sum_probs=109.8
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhccceeecHHhHHHHHhhHHHHHHhhccCChHHHHHHHHhccChhHHHHHHHHHH
Q 031427 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (160)
Q Consensus 2 ~~~rklgr~~~hR~allRnlvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~~r~a~~~L~~~~~v~KLF~~la 81 (160)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+||+|++|+|.+||.|+++|+|||++|+
T Consensus 5 ~~~rkLgr~~~hR~amlrnl~tsLi~herI~TT~~KAKelr~~aEklITlaK~~~l~~rR~a~~~l~~~~~v~KLF~~ia 84 (116)
T 2zjr_K 5 KAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDEVA 84 (116)
T ss_dssp CCCCCCSSCTTHHHHHHHHHHHHHHHSSEEEEEHHHHHHHHHHHHHHHHHHTTCSHHHHHHHTTSCCCHHHHHHHHHTHH
T ss_pred CCCCCCCCChHHHHHHHHHHHHHHHhcCEEEecHHHHHHHHHHHHHHhhHHhcCCHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCeeEEEcccCCCCCCCCeeeeEec
Q 031427 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIEFV 113 (160)
Q Consensus 82 pRy~~R~GGYTRI~kl~~R~GD~ApmaiIElV 113 (160)
|||+||+||||||+|+++|.||+|||||||||
T Consensus 85 pry~~R~GGYTRI~K~~~R~GD~A~maiiElV 116 (116)
T 2zjr_K 85 PKYAERPGGYTRILRVGTRRGDGVTMALIELV 116 (116)
T ss_dssp HHTTTSCSCCCEEEECCCCTTTCCCEEEEEC-
T ss_pred HHhCCCCCCeeEEEECCCCCCCCCceEEEEeC
Confidence 99999999999999999999999999999997
No 4
>2cqm_A Ribosomal protein L17 isolog; alpha and beta (A+B), structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.188.1.1 PDB: 2ftc_J 3iy9_S
Probab=100.00 E-value=2.1e-53 Score=325.62 Aligned_cols=118 Identities=39% Similarity=0.579 Sum_probs=109.1
Q ss_pred CchHHHHHHHHHHHHHHhccceeecHHhHHHHHhhHHHHHHhhccCChH--HHHHHHHhccChhHHHHHHHHHHHhhCCC
Q 031427 10 PTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLC--AARRAAAFVRGDDVIHKLFTELAYRYKDR 87 (160)
Q Consensus 10 ~~~hR~allRnlvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~--~~r~a~~~L~~~~~v~KLF~~lapRy~~R 87 (160)
.|+||++|||||+||||+||||+||++||||+|+|||+|||+||+|++| ++|+|.+||.|+++|+|||++|+|||++|
T Consensus 1 g~~~R~amlrnl~tsLi~herI~TT~~KAKelR~~aEklITlaK~g~~~~r~rR~a~~~l~d~~~v~KLF~elapry~~R 80 (122)
T 2cqm_A 1 GSSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLTEKDLIPKLFQVLAPRYKDQ 80 (122)
T ss_dssp CCCCCSSHHHHHHHHHHHTTEEEEEHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHCCCTTHHHHHHTTHHHHHHHS
T ss_pred CcHHHHHHHHHHHHHHHhcCEEEecHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHcCCHHHHHHHHHHHHHHhcCC
Confidence 3689999999999999999999999999999999999999999999998 56999999999999999999999999999
Q ss_pred CCCeeEEEcccCCCCCCCCeeeeEeccCchhhhcCCCCCCCCCCCCCC
Q 031427 88 AGGYTRLLRSRIRVGDAAPMAYIEFVDRENELRQSKPAVPQPPPRAAL 135 (160)
Q Consensus 88 ~GGYTRI~kl~~R~GD~ApmaiIElVd~~~e~~~~~~~~~~~~~~~~~ 135 (160)
+||||||+|+++|.||+||||||||||+| ..++++...++
T Consensus 81 ~GGYTRI~K~~~R~GD~A~maiIELVd~p--------~~pl~~~~~~~ 120 (122)
T 2cqm_A 81 TGGYTRMLQIPNRSLDRAKMAVIEYKGNC--------LPPLPLPSGPS 120 (122)
T ss_dssp CSCCEEEEEECCCSSSCCCEEEEEESSCC--------CCCCCCCCSSC
T ss_pred CCCeeEEEECCCCCCCCCCeEEEEeCCCC--------CCCCCCcCCCC
Confidence 99999999999999999999999999974 55555544443
No 5
>3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Probab=100.00 E-value=3.3e-53 Score=346.52 Aligned_cols=112 Identities=48% Similarity=0.826 Sum_probs=110.6
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhccceeecHHhHHHHHhhHHHHHHhhccCChHHHHHHHHhccChhHHHHHHHHHH
Q 031427 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (160)
Q Consensus 2 ~~~rklgr~~~hR~allRnlvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~~r~a~~~L~~~~~v~KLF~~la 81 (160)
++++||||+++||++|||||+|+||+||||+||++||||+|+|||+|||+||+||+|++|+|++||+|+++|+|||++|+
T Consensus 94 ~~~rKLgRtssHRkAmLRNLvtsLI~HeRI~TT~aKAKElR~~aEkLITlAK~gdlhaRR~a~~~L~dk~~V~KLF~eia 173 (205)
T 3bbo_P 94 RKVPKLNRPPDQRRALLRGLTTQLLKHGRIKTTKARARAVRKYVDKMITMAKDGSLHKRRQALGFIYEKQIVHALFAEVP 173 (205)
T ss_dssp CCSCCTTSCGGGHHHHHHHHHHHHHHTSCEEECHHHHHHHHHHHHHHHHHHHHCTTHHHHHHHTTCCCTTHHHHHTTSSG
T ss_pred cCCCCCCCChHHHHHHHHHHHHHHHhCCeEEecHHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCeeEEEcccCCCCCCCCeeeeEec
Q 031427 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIEFV 113 (160)
Q Consensus 82 pRy~~R~GGYTRI~kl~~R~GD~ApmaiIElV 113 (160)
|||+||+||||||+|+++|.||+|||||||||
T Consensus 174 PRY~dR~GGYTRIlKlg~R~GD~ApMAiIELV 205 (205)
T 3bbo_P 174 DRYGERNGGYTRIIRTLPRRGDNAPMAYIELV 205 (205)
T ss_dssp GGGSSCCSCCEECCBCSCCSSSCCCCEEEEEC
T ss_pred HHhCCCCCCeeEEEECCCCCCCCcceEEEEeC
Confidence 99999999999999999999999999999998
No 6
>1sy9_B Cyclic-nucleotide-gated olfactory channel; helix-turn-helix, calcium-binding protein; NMR {Xenopus laevis}
Probab=38.61 E-value=2 Score=24.09 Aligned_cols=12 Identities=42% Similarity=0.888 Sum_probs=10.3
Q ss_pred CCCCCeeEEEcc
Q 031427 86 DRAGGYTRLLRS 97 (160)
Q Consensus 86 ~R~GGYTRI~kl 97 (160)
.|.|||-||.++
T Consensus 2 qrrggfrri~rl 13 (26)
T 1sy9_B 2 QRRGGFRRIARL 13 (26)
T ss_pred ccchhHHHHHHH
Confidence 578999999886
No 7
>1t6s_A Conserved hypothetical protein; A winged helix-turn-helix, structural genomics, BSGC structu by NIH, protein structure initiative, PSI; 1.95A {Chlorobium tepidum tls} SCOP: a.4.5.60 a.4.5.60
Probab=32.72 E-value=75 Score=24.35 Aligned_cols=55 Identities=9% Similarity=0.143 Sum_probs=37.9
Q ss_pred hHHHHHhhHHHHHHhhccCChHHHHHHHHhc--cChhHHHHHHHHHHHhhCCCCCCee
Q 031427 37 KAKEVRRLADNMVQLGKEGSLCAARRAAAFV--RGDDVIHKLFTELAYRYKDRAGGYT 92 (160)
Q Consensus 37 KAKelr~~aEkLIt~AK~g~~~~~r~a~~~L--~~~~~v~KLF~~lapRy~~R~GGYT 92 (160)
...++...+|-++..+-. .+...+++.-.= .+.+.+..+.++|...|.+++.|+.
T Consensus 4 ~~~~~~~~iEAlLf~~~~-pvs~~~La~~~~~~~~~~~v~~~l~~L~~~y~~~~rg~~ 60 (162)
T 1t6s_A 4 QRQQLLRSLEALIFSSEE-PVNLQTLSQITAHKFTPSELQEAVDELNRDYEATGRTFR 60 (162)
T ss_dssp HHHHHHHHHHHHHHHCSS-CBCHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHTCSEE
T ss_pred cHHHHHHHHHHHHHHcCC-CCCHHHHHHHhCcCCCHHHHHHHHHHHHHHhhhCCCCEE
Confidence 356677889999988832 244444433322 3578899999999999996666654
No 8
>1ceu_A Protein (HIV-1 regulatory protein N-terminal domain VPR); helical domain, amphipaticity, viral protein; NMR {Synthetic} SCOP: j.11.1.1 PDB: 1fi0_A
Probab=23.44 E-value=71 Score=20.57 Aligned_cols=21 Identities=29% Similarity=0.468 Sum_probs=16.1
Q ss_pred CCCCCCCCCCCCCHHHHHHhh
Q 031427 124 PAVPQPPPRAALDPWTRSRLT 144 (160)
Q Consensus 124 ~~~~~~~~~~~~~~~~~~~~~ 144 (160)
++...-||+.|.+.|+...|.
T Consensus 4 aPEdqgP~ReP~~eW~le~Le 24 (51)
T 1ceu_A 4 APEDQGPQREPYNDWTLELLE 24 (51)
T ss_dssp CCCTTTTCCCTTSHHHHHHHH
T ss_pred CCCCCCCCCCCccHHHHHHHH
Confidence 334567899999999987764
No 9
>2z99_A Putative uncharacterized protein; winged helix domain, cell cycle, cell division, chromosome partition, cytoplasm; 2.30A {Mycobacterium tuberculosis}
Probab=21.84 E-value=1.5e+02 Score=23.82 Aligned_cols=53 Identities=17% Similarity=0.153 Sum_probs=37.0
Q ss_pred HHHHhhHHHHHHhhccCChHHHHHHHHhccChhHHHHHHHHHHHhhCCCCCCee
Q 031427 39 KEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELAYRYKDRAGGYT 92 (160)
Q Consensus 39 Kelr~~aEkLIt~AK~g~~~~~r~a~~~L~~~~~v~KLF~~lapRy~~R~GGYT 92 (160)
.++...+|-++..+-.. +...+++.-.=.+...|..+.++|...|.+++.|+.
T Consensus 14 ~~l~~~iEAlLf~a~ep-vs~~~La~~l~~~~~~v~~~l~~L~~~y~~~~rGie 66 (219)
T 2z99_A 14 DELKRVLEALLLVIDTP-VTADALAAATEQPVYRVAAKLQLMADELTGRDSGID 66 (219)
T ss_dssp HHHHHHHHHHHHHCSSC-BCHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCSEE
T ss_pred HHHHHHHHHHHHHcCCC-CCHHHHHHHHCcCHHHHHHHHHHHHHHHhhCCCCEE
Confidence 44677899999887443 444444433324677899999999999987766654
No 10
>1x4p_A Putative splicing factor, arginine/serine-rich 14; SURP domain, SFRS14 protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.217.1.1
Probab=20.56 E-value=14 Score=25.09 Aligned_cols=39 Identities=23% Similarity=0.221 Sum_probs=26.5
Q ss_pred HHHhhHHHHHHhhccCChHH-------HHHHHHhccChhH-HHHHHH
Q 031427 40 EVRRLADNMVQLGKEGSLCA-------ARRAAAFVRGDDV-IHKLFT 78 (160)
Q Consensus 40 elr~~aEkLIt~AK~g~~~~-------~r~a~~~L~~~~~-v~KLF~ 78 (160)
+++..+|+|......|.... ..-|.+||.|++. -.|-|.
T Consensus 6 ~~~~~ieKLa~fVaeGgpe~~~~a~~k~nPaf~FL~D~~S~eykYYr 52 (66)
T 1x4p_A 6 SGVGTIDQLVKRVIEGSLSPKERTLLKEDPAYWFLSDENSLEYKYYK 52 (66)
T ss_dssp CSSHHHHHHHHHHHHTCSCHHHHHHHHHSGGGCTTTCCSSSHHHHHH
T ss_pred hHHHHHHHHHHHHHccCCcHHHHHHcccCCceeeeeCCCcHHHHHHH
Confidence 45678999999888887632 2456689998764 334443
Done!