Query 031308
Match_columns 161
No_of_seqs 119 out of 1023
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 19:40:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031308.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031308hhsearch_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 1.8E-56 6E-61 342.0 13.5 115 2-117 5-119 (120)
2 1gd8_A 50S ribosomal protein L 100.0 5.3E-56 1.8E-60 338.5 12.3 113 2-115 5-118 (118)
3 2zjr_K 50S ribosomal protein L 100.0 9.8E-56 3.4E-60 336.2 13.1 112 2-114 5-116 (116)
4 3bbo_P Ribosomal protein L17; 100.0 1.4E-52 4.7E-57 343.0 11.2 112 2-114 94-205 (205)
5 2cqm_A Ribosomal protein L17 i 100.0 2.3E-52 8E-57 320.0 10.1 106 11-117 2-109 (122)
6 1t6s_A Conserved hypothetical 34.8 73 0.0025 24.4 5.5 54 37-92 4-60 (162)
7 1sy9_B Cyclic-nucleotide-gated 33.1 2.5 8.4E-05 23.7 -2.3 12 86-97 2-13 (26)
8 2z99_A Putative uncharacterize 22.4 1.6E+02 0.0055 23.7 5.6 53 39-93 14-67 (219)
9 3h0d_A CTSR; protein DNA compl 20.1 38 0.0013 26.3 1.3 12 88-99 63-74 (155)
10 1x4p_A Putative splicing facto 19.4 20 0.00067 24.4 -0.4 33 40-72 6-45 (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=1.8e-56 Score=341.99 Aligned_cols=115 Identities=48% Similarity=0.781 Sum_probs=113.3
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhcCceeecHHhHHHHHHhHHHHHHHhhcCChHHHHHHHHhhcChhHHHHHHHHHH
Q 031308 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (161)
Q Consensus 2 ~~~rkLgR~~~hR~allRnLvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~rr~a~~~L~d~~~v~KLF~ela 81 (161)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+|++|++|+|.+||.|+++|+|||++|+
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 HhhccCCCCeEEEEeccCCCCCCCcceeeecccCCc
Q 031308 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIDRFVDRE 117 (161)
Q Consensus 82 PRy~~R~GGYTRI~kl~~R~GD~A~maiIE~lVd~~ 117 (161)
|||++|+||||||+|+++|.||+||||||| |||++
T Consensus 85 pry~~R~GGYTRI~K~~~R~GD~A~maiiE-LVd~~ 119 (120)
T 3r8s_N 85 PRFASRAGGYTRILKCGFRAGDNAPMAYIE-LVDRS 119 (120)
T ss_dssp HHTTTCCSCCEEEEEEEECTTTCCEEEEEE-ESSCC
T ss_pred HHhcCCCCCeEEEEECCCCCCCCcCeEEEE-EecCC
Confidence 999999999999999999999999999999 99974
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=5.3e-56 Score=338.50 Aligned_cols=113 Identities=43% Similarity=0.713 Sum_probs=103.4
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhcCceeecHHhHHHHHHhHHHHHHHhhcCChHHHHHHHHhhcChhHHHHHHHHHH
Q 031308 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (161)
Q Consensus 2 ~~~rkLgR~~~hR~allRnLvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~rr~a~~~L~d~~~v~KLF~ela 81 (161)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+|++|++|+|.+||.|+++|+|||++|+
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 HhhccCCCCeEEEEecc-CCCCCCCcceeeecccC
Q 031308 82 YRYKDRAGGYTRLLRSR-IRVGDAAPMAYIDRFVD 115 (161)
Q Consensus 82 PRy~~R~GGYTRI~kl~-~R~GD~A~maiIE~lVd 115 (161)
|||++|+||||||+|++ +|.||+||||||| |||
T Consensus 85 pry~~R~GGYTRI~K~~~~R~GD~A~maiiE-LVd 118 (118)
T 1gd8_A 85 PRYRDRQGGYTRVLKLAERRRGDGAPLALVE-LVE 118 (118)
T ss_dssp HHTSSCCSCCEEEEEEEEECTTTCCEEEEEE-ECC
T ss_pred HHhCCCCCCeEEEEECCCCCCCCCCCeEEEE-ecC
Confidence 99999999999999999 9999999999999 996
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=9.8e-56 Score=336.18 Aligned_cols=112 Identities=38% Similarity=0.635 Sum_probs=109.8
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhcCceeecHHhHHHHHHhHHHHHHHhhcCChHHHHHHHHhhcChhHHHHHHHHHH
Q 031308 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (161)
Q Consensus 2 ~~~rkLgR~~~hR~allRnLvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~rr~a~~~L~d~~~v~KLF~ela 81 (161)
++++||||+++||++|||||+||||+||+|+||++||||+|+|||+|||+||+|++|++|+|.+||.|+++|+|||++|+
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 HhhccCCCCeEEEEeccCCCCCCCcceeeeccc
Q 031308 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIDRFV 114 (161)
Q Consensus 82 PRy~~R~GGYTRI~kl~~R~GD~A~maiIE~lV 114 (161)
|||+||+||||||+|+++|.||+||||||| ||
T Consensus 85 pry~~R~GGYTRI~K~~~R~GD~A~maiiE-lV 116 (116)
T 2zjr_K 85 PKYAERPGGYTRILRVGTRRGDGVTMALIE-LV 116 (116)
T ss_dssp HHTTTSCSCCCEEEECCCCTTTCCCEEEEE-C-
T ss_pred HHhCCCCCCeeEEEECCCCCCCCCceEEEE-eC
Confidence 999999999999999999999999999999 87
No 4
>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=1.4e-52 Score=342.98 Aligned_cols=112 Identities=47% Similarity=0.823 Sum_probs=110.5
Q ss_pred CcccCCCCCchHHHHHHHHHHHHHHhcCceeecHHhHHHHHHhHHHHHHHhhcCChHHHHHHHHhhcChhHHHHHHHHHH
Q 031308 2 TKFRKLNRPTGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLCAARRAAAFVRGDDVIHKLFTELA 81 (161)
Q Consensus 2 ~~~rkLgR~~~hR~allRnLvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~~rr~a~~~L~d~~~v~KLF~ela 81 (161)
++++||||+++||++|||||+|+||+||+|+||++||||+|+|||+|||+||+|++|++|+|.+||+|+++|+|||+||+
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 56799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccCCCCeEEEEeccCCCCCCCcceeeeccc
Q 031308 82 YRYKDRAGGYTRLLRSRIRVGDAAPMAYIDRFV 114 (161)
Q Consensus 82 PRy~~R~GGYTRI~kl~~R~GD~A~maiIE~lV 114 (161)
|||+||+||||||+|+++|.||+||||||| ||
T Consensus 174 PRY~dR~GGYTRIlKlg~R~GD~ApMAiIE-LV 205 (205)
T 3bbo_P 174 DRYGERNGGYTRIIRTLPRRGDNAPMAYIE-LV 205 (205)
T ss_dssp GGGSSCCSCCEECCBCSCCSSSCCCCEEEE-EC
T ss_pred HHhCCCCCCeeEEEECCCCCCCCcceEEEE-eC
Confidence 999999999999999999999999999999 97
No 5
>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=2.3e-52 Score=319.97 Aligned_cols=106 Identities=40% Similarity=0.601 Sum_probs=103.2
Q ss_pred chHHHHHHHHHHHHHHhcCceeecHHhHHHHHHhHHHHHHHhhcCChH--HHHHHHHhhcChhHHHHHHHHHHHhhccCC
Q 031308 11 TGHRMSMLRTMVSQLVKHERIETTVAKAKEVRRLADNMVQLGKEGSLC--AARRAAAFVRGDDVIHKLFTELAYRYKDRA 88 (161)
Q Consensus 11 ~~hR~allRnLvtsLi~herI~TT~~KAKelr~~aEkLIt~AK~g~~~--~rr~a~~~L~d~~~v~KLF~elaPRy~~R~ 88 (161)
++||++|||||+||||+||+|+||++||||+|+|||+|||+||+|++| ++|+|.+||.|+++|+|||++|+|||++|+
T Consensus 2 ~~~R~amlrnl~tsLi~herI~TT~~KAKelR~~aEklITlaK~g~~~~r~rR~a~~~l~d~~~v~KLF~elapry~~R~ 81 (122)
T 2cqm_A 2 SSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLTEKDLIPKLFQVLAPRYKDQT 81 (122)
T ss_dssp CCCCSSHHHHHHHHHHHTTEEEEEHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHCCCTTHHHHHHTTHHHHHHHSC
T ss_pred cHHHHHHHHHHHHHHHhcCEEEecHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCC
Confidence 689999999999999999999999999999999999999999999998 569999999999999999999999999999
Q ss_pred CCeEEEEeccCCCCCCCcceeeecccCCc
Q 031308 89 GGYTRLLRSRIRVGDAAPMAYIDRFVDRE 117 (161)
Q Consensus 89 GGYTRI~kl~~R~GD~A~maiIE~lVd~~ 117 (161)
||||||+|+++|.||+||||||| |||+|
T Consensus 82 GGYTRI~K~~~R~GD~A~maiIE-LVd~p 109 (122)
T 2cqm_A 82 GGYTRMLQIPNRSLDRAKMAVIE-YKGNC 109 (122)
T ss_dssp SCCEEEEEECCCSSSCCCEEEEE-ESSCC
T ss_pred CCeeEEEECCCCCCCCCCeEEEE-eCCCC
Confidence 99999999999999999999999 99974
No 6
>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=34.76 E-value=73 Score=24.42 Aligned_cols=54 Identities=7% Similarity=0.150 Sum_probs=38.0
Q ss_pred hHHHHHHhHHHHHHHhhcCChHHHHHHHHhhc---ChhHHHHHHHHHHHhhccCCCCeE
Q 031308 37 KAKEVRRLADNMVQLGKEGSLCAARRAAAFVR---GDDVIHKLFTELAYRYKDRAGGYT 92 (161)
Q Consensus 37 KAKelr~~aEkLIt~AK~g~~~~rr~a~~~L~---d~~~v~KLF~elaPRy~~R~GGYT 92 (161)
...++...+|-++-.+ |..-+.......+. +.+.|..+.++|...|+++..|+.
T Consensus 4 ~~~~~~~~iEAlLf~~--~~pvs~~~La~~~~~~~~~~~v~~~l~~L~~~y~~~~rg~~ 60 (162)
T 1t6s_A 4 QRQQLLRSLEALIFSS--EEPVNLQTLSQITAHKFTPSELQEAVDELNRDYEATGRTFR 60 (162)
T ss_dssp HHHHHHHHHHHHHHHC--SSCBCHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHTCSEE
T ss_pred cHHHHHHHHHHHHHHc--CCCCCHHHHHHHhCcCCCHHHHHHHHHHHHHHhhhCCCCEE
Confidence 3566778899999887 33333333444443 577899999999999996666664
No 7
>1sy9_B Cyclic-nucleotide-gated olfactory channel; helix-turn-helix, calcium-binding protein; NMR {Xenopus laevis}
Probab=33.10 E-value=2.5 Score=23.71 Aligned_cols=12 Identities=42% Similarity=0.888 Sum_probs=10.0
Q ss_pred cCCCCeEEEEec
Q 031308 86 DRAGGYTRLLRS 97 (161)
Q Consensus 86 ~R~GGYTRI~kl 97 (161)
.|.|||.||.++
T Consensus 2 qrrggfrri~rl 13 (26)
T 1sy9_B 2 QRRGGFRRIARL 13 (26)
T ss_pred ccchhHHHHHHH
Confidence 578999999885
No 8
>2z99_A Putative uncharacterized protein; winged helix domain, cell cycle, cell division, chromosome partition, cytoplasm; 2.30A {Mycobacterium tuberculosis}
Probab=22.42 E-value=1.6e+02 Score=23.75 Aligned_cols=53 Identities=15% Similarity=0.135 Sum_probs=36.8
Q ss_pred HHHHHhHHHHHHHhhcCChHHHHHHHHhh-cChhHHHHHHHHHHHhhccCCCCeEE
Q 031308 39 KEVRRLADNMVQLGKEGSLCAARRAAAFV-RGDDVIHKLFTELAYRYKDRAGGYTR 93 (161)
Q Consensus 39 Kelr~~aEkLIt~AK~g~~~~rr~a~~~L-~d~~~v~KLF~elaPRy~~R~GGYTR 93 (161)
.++...+|-++-.+-.. +.....+ ..+ .+...|..+.++|...|.+++.|+.=
T Consensus 14 ~~l~~~iEAlLf~a~ep-vs~~~La-~~l~~~~~~v~~~l~~L~~~y~~~~rGiel 67 (219)
T 2z99_A 14 DELKRVLEALLLVIDTP-VTADALA-AATEQPVYRVAAKLQLMADELTGRDSGIDL 67 (219)
T ss_dssp HHHHHHHHHHHHHCSSC-BCHHHHH-HHHTSCHHHHHHHHHHHHHHHHHTTCSEEE
T ss_pred HHHHHHHHHHHHHcCCC-CCHHHHH-HHHCcCHHHHHHHHHHHHHHHhhCCCCEEE
Confidence 44677889988887443 4333333 334 46678999999999999877767643
No 9
>3h0d_A CTSR; protein DNA complex, winged HTH domain, 4-helix bundle, DNA tandem repeat, transcription/DNA complex; HET: DNA; 2.40A {Bacillus stearothermophilus}
Probab=20.06 E-value=38 Score=26.33 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=10.1
Q ss_pred CCCeEEEEeccC
Q 031308 88 AGGYTRLLRSRI 99 (161)
Q Consensus 88 ~GGYTRI~kl~~ 99 (161)
.|||-||.|+..
T Consensus 63 GGGyIRI~kv~~ 74 (155)
T 3h0d_A 63 GGGYIRIMKVKT 74 (155)
T ss_dssp TTCEEEEEEEEE
T ss_pred CCceEEEEEecc
Confidence 569999999875
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=19.44 E-value=20 Score=24.41 Aligned_cols=33 Identities=24% Similarity=0.225 Sum_probs=24.7
Q ss_pred HHHHhHHHHHHHhhcCChHH-------HHHHHHhhcChhH
Q 031308 40 EVRRLADNMVQLGKEGSLCA-------ARRAAAFVRGDDV 72 (161)
Q Consensus 40 elr~~aEkLIt~AK~g~~~~-------rr~a~~~L~d~~~ 72 (161)
+++..+|+|......|.+.. -.-+++||.|++.
T Consensus 6 ~~~~~ieKLa~fVaeGgpe~~~~a~~k~nPaf~FL~D~~S 45 (66)
T 1x4p_A 6 SGVGTIDQLVKRVIEGSLSPKERTLLKEDPAYWFLSDENS 45 (66)
T ss_dssp CSSHHHHHHHHHHHHTCSCHHHHHHHHHSGGGCTTTCCSS
T ss_pred hHHHHHHHHHHHHHccCCcHHHHHHcccCCceeeeeCCCc
Confidence 46778999999999887642 2456689998764
Done!