Query 041684
Match_columns 100
No_of_seqs 109 out of 222
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 16:21:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041684.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041684hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iz5_k 60S ribosomal protein L 100.0 6E-57 2.1E-61 318.4 0.4 98 2-99 1-98 (112)
2 3izc_k 60S ribosomal protein R 100.0 2.1E-56 7.2E-61 310.6 1.0 95 2-99 1-95 (100)
3 4a18_Q RPL36, 60S ribosomal pr 100.0 3.6E-54 1.2E-58 301.1 8.5 92 8-99 2-99 (104)
4 3qks_C DNA double-strand break 55.4 4.2 0.00014 23.0 0.9 13 54-66 4-16 (34)
5 3r0a_A Putative transcriptiona 39.9 21 0.0007 23.2 2.6 27 44-70 14-40 (123)
6 2oyn_A Hypothetical protein MJ 31.0 20 0.00069 25.6 1.6 18 41-58 26-43 (146)
7 3mxn_A RECQ-mediated genome in 23.6 73 0.0025 23.0 3.4 75 11-94 37-120 (157)
8 1tua_A Hypothetical protein AP 18.6 2.2E+02 0.0076 20.5 5.2 53 43-97 62-129 (191)
9 3tgu_G UQCRQ, mitochondrial ub 14.8 16 0.00054 23.7 -1.7 12 52-63 16-27 (81)
10 1ng7_A Poliovirus 3A-N, genome 13.2 79 0.0027 19.5 1.3 21 60-80 21-41 (60)
No 1
>3iz5_k 60S ribosomal protein L36 (L36E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_k
Probab=100.00 E-value=6e-57 Score=318.45 Aligned_cols=98 Identities=69% Similarity=1.036 Sum_probs=62.5
Q ss_pred CCCCCCCCcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhh
Q 041684 2 IAPKLPNTDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKL 81 (100)
Q Consensus 2 ma~~~~~~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRl 81 (100)
|++..|++||||||||||+||+|++++|||+++|.+|||++||||||+|||||||||+|+||||++|+|||||||+||||
T Consensus 1 m~~~~~~~~iavGlnKGhkvTk~~~k~r~s~~kg~ltK~tkfVrdiIrEV~GfAPYErR~mELLKvskDKRALKf~KKRl 80 (112)
T 3iz5_k 1 MAPSQPKSGLFVGINKGHVVTKRELPPRPSDRKGKGTKRVHFVRNLIREVAGFAPYEKRITELLKVGKDKRALKVAKRKL 80 (112)
T ss_dssp -----------------------------------CTTTSSCSHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHSSCC
T ss_pred CCCCCCCCCeeeecCCCcccCCCCCCCCcccccCCCcchhHHHHHHHHHHhcCchHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence 66666789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhHhHHHHHhhhhh
Q 041684 82 STHEGTKTKCEEMSNASA 99 (100)
Q Consensus 82 Gth~RAKrK~eel~~vl~ 99 (100)
|||+|||+|+|||+|||+
T Consensus 81 Gth~RAKrKreel~~vl~ 98 (112)
T 3iz5_k 81 GTHKRAKKKREEMSSVLR 98 (112)
T ss_dssp SHHHHHHHHHTSSCCCHH
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 999999999999999986
No 2
>3izc_k 60S ribosomal protein RPL36 (L36E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_k 3u5e_i 3u5i_i 4b6a_i
Probab=100.00 E-value=2.1e-56 Score=310.62 Aligned_cols=95 Identities=39% Similarity=0.657 Sum_probs=71.5
Q ss_pred CCCCCCCCcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhh
Q 041684 2 IAPKLPNTDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKL 81 (100)
Q Consensus 2 ma~~~~~~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRl 81 (100)
||+ ++||||||||||+||+++++||||+++|.+|||++||||||+|||||||||+|+||||++|+|||||||+||||
T Consensus 1 m~~---~~~iavGlnKGhkvtk~~~k~r~s~~kg~~tK~tkfVrdiIrEV~GfaPYErr~mELLkvskdKrAlKf~KKRl 77 (100)
T 3izc_k 1 MTV---KTGIAIGLNKGKKVTSMTPAPKISYKKGAASNRTKFVRSLVREIAGLSPYERRLIDLIRNSGEKRARKVAKKRL 77 (100)
T ss_dssp --------------------------CCCCSSCSHHHHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHTSCCSHHHHHHHH
T ss_pred CCC---ccceeeeccCCcccccCCCCCCcccccCCCCchhHHHHHHHHHHhcCchhHHHHHHHHHhcchHHHHHHHHHHh
Confidence 565 48999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhHhHHHHHhhhhh
Q 041684 82 STHEGTKTKCEEMSNASA 99 (100)
Q Consensus 82 Gth~RAKrK~eel~~vl~ 99 (100)
|||+|||+|+|||+|||+
T Consensus 78 Gth~RAKrKreel~~vl~ 95 (100)
T 3izc_k 78 GSFTRAKAKVEEMNNIIA 95 (100)
T ss_dssp HHHSCSCHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 999999999999999997
No 3
>4a18_Q RPL36, 60S ribosomal protein L36; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_Q 4a1b_Q 4a1d_Q
Probab=100.00 E-value=3.6e-54 Score=301.06 Aligned_cols=92 Identities=45% Similarity=0.625 Sum_probs=90.3
Q ss_pred CCcceeeecCCceec---ccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcch---hhHHHHHHHHhh
Q 041684 8 NTDLFVGLNKGHVVT---KKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDE---DKRALKAAKRKL 81 (100)
Q Consensus 8 ~~g~avGlnkGh~vt---k~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~sk---dKrAlKf~KKRl 81 (100)
++||||||||||+|| +++++||||+++|.+|||++||||||+|||||||||+|+||||++|+ |||||||+|+||
T Consensus 2 ~~~iavGlnKGhkvT~~~k~~~k~r~s~rkg~ltK~tkfVrdiIrEV~GfaPYErR~mELLKvsk~~~dKRAlKf~KKRl 81 (104)
T 4a18_Q 2 AKGQAVGINKGFITTQLEKKLQKHSAVQRKGKLGKRVALVRQVIREVTGFAPYEKRIIELIKAGSAKDSKKATKIARKRL 81 (104)
T ss_dssp CTTSTTSSSCSCCCCCCCTTTSCCCSTTCCSCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred CCCeeeecCCCcccccccccCCCCCcccccCCCcchHHHHHHHHHHHhcCchhHHHHHHHHHcccchhhHHHHHHHHHHh
Confidence 478999999999999 99999999999999999999999999999999999999999999999 999999999999
Q ss_pred chhhhhHhHHHHHhhhhh
Q 041684 82 STHEGTKTKCEEMSNASA 99 (100)
Q Consensus 82 Gth~RAKrK~eel~~vl~ 99 (100)
|||+|||+|+|||+|||+
T Consensus 82 Gth~RAKrKreel~~vl~ 99 (104)
T 4a18_Q 82 GTHRRAKVKKALLEEAVR 99 (104)
T ss_dssp CSHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 999999999999999987
No 4
>3qks_C DNA double-strand break repair protein MRE11; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_C* 3qku_C*
Probab=55.37 E-value=4.2 Score=22.95 Aligned_cols=13 Identities=38% Similarity=0.705 Sum_probs=9.4
Q ss_pred cchhHHHHHHHhh
Q 041684 54 FTPYEKTITELLK 66 (100)
Q Consensus 54 faPYErr~mELlk 66 (100)
|.|+|.+++||+-
T Consensus 4 Ft~~ElKiI~l~G 16 (34)
T 3qks_C 4 FTEFELKIIDILG 16 (34)
T ss_dssp --CHHHHHHHHC-
T ss_pred ccHHHHHHHHHHc
Confidence 7899999999963
No 5
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}
Probab=39.93 E-value=21 Score=23.22 Aligned_cols=27 Identities=15% Similarity=0.201 Sum_probs=22.1
Q ss_pred HHHHHhhhhccchhHHHHHHHhhcchh
Q 041684 44 ERNVIREVAGFTPYEKTITELLKVDED 70 (100)
Q Consensus 44 vr~vIrEv~GfaPYErr~mELlk~skd 70 (100)
+.++...+.|++|.|..++..|-....
T Consensus 14 ~~~~l~~~~gLt~~e~~il~~L~~~~~ 40 (123)
T 3r0a_A 14 VEDVIKCALNLTKADLNVMKSFLNEPD 40 (123)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHCCC
Confidence 467788889999999999998875433
No 6
>2oyn_A Hypothetical protein MJ0056; structural genomics, unknown function, PSI-2, protein structure initiative; HET: CDP; 1.85A {Methanocaldococcus jannaschii DSM2661} SCOP: b.43.5.2 PDB: 2p3m_A 2vbs_A 2vbt_A* 2vbu_A* 2vbv_A*
Probab=31.03 E-value=20 Score=25.56 Aligned_cols=18 Identities=28% Similarity=0.744 Sum_probs=15.1
Q ss_pred hhHHHHHHhhhhccchhH
Q 041684 41 VHFERNVIREVAGFTPYE 58 (100)
Q Consensus 41 ~kfvr~vIrEv~GfaPYE 58 (100)
..+.++-++|.+||.||.
T Consensus 26 l~~Y~~qf~~~LGF~PfP 43 (146)
T 2oyn_A 26 LPPYKEIFKKILGFEPYE 43 (146)
T ss_dssp SHHHHHHHHHHHSSCCCS
T ss_pred CHHHHHHHHHHhCCcCCC
Confidence 345788999999999996
No 7
>3mxn_A RECQ-mediated genome instability protein 1; bloom syndrome, helicase, RMI, topoisomerase, replication PR replication; 1.55A {Homo sapiens} PDB: 4day_A 3nbh_A
Probab=23.56 E-value=73 Score=22.96 Aligned_cols=75 Identities=13% Similarity=0.066 Sum_probs=42.1
Q ss_pred ceeeecCCceecccCCCCCCCcccCCC---------CcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhh
Q 041684 11 LFVGLNKGHVVTKKELLPRPANRKGKT---------SKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKL 81 (100)
Q Consensus 11 ~avGlnkGh~vtk~~~k~r~s~~kg~~---------tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRl 81 (100)
..++-=||+.+|-. .+.+.++-+-.+ .=-+.|..+|+.+..||+|-|-..+ + +|....+-++
T Consensus 37 ~~~~kVKafI~tl~-~~l~~~~~~W~l~a~IsDGS~~LdV~f~~~VLt~lIGfS~~E~~~l---k--kdp~~~~~l~--- 107 (157)
T 3mxn_A 37 VTTVKVKAFIVTLT-GNLSSSGGIWSITAKVSDGTAYLDVDFVDEILTSLIGFSVPEMKQS---K--KDPLQYQKFL--- 107 (157)
T ss_dssp CEEEEEEEEEEEEC-SCCBCGGGSCBCEEEEECSSCEEEEEECHHHHHHHHSCCHHHHHHH---T--TSHHHHHHHH---
T ss_pred ceEEEEEEEEEEec-cceeecCCEEEEEEEEeCCceeEEEEeeHHHHHhhhCCCHHHHHHH---h--hCHHHHHHHH---
Confidence 45566688887732 222223322222 2345689999999999999995443 3 4543332232
Q ss_pred chhhhhHhHHHHH
Q 041684 82 STHEGTKTKCEEM 94 (100)
Q Consensus 82 Gth~RAKrK~eel 94 (100)
-+.++++++...|
T Consensus 108 e~L~~~Q~~L~dl 120 (157)
T 3mxn_A 108 EGLQKCQRDLIDL 120 (157)
T ss_dssp HHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhh
Confidence 2445555554443
No 8
>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1
Probab=18.58 E-value=2.2e+02 Score=20.51 Aligned_cols=53 Identities=23% Similarity=0.453 Sum_probs=34.2
Q ss_pred HHHHHHhhh-hccchhHHHHHHHhh---------c----chhhHHHHHHHHhh-chhhhhHhHHHHHhhh
Q 041684 43 FERNVIREV-AGFTPYEKTITELLK---------V----DEDKRALKAAKRKL-STHEGTKTKCEEMSNA 97 (100)
Q Consensus 43 fvr~vIrEv-~GfaPYErr~mELlk---------~----skdKrAlKf~KKRl-Gth~RAKrK~eel~~v 97 (100)
=++|+|.++ .||.| ..++.||. . ...+..+..++-|+ |---+..+-.|+++.+
T Consensus 62 KA~dlI~ai~rgf~~--e~A~~Ll~Dd~~~e~i~i~~~~~~~~~~~~r~~GrIIGk~G~tik~iE~~Tg~ 129 (191)
T 1tua_A 62 KAAEVVKAISLGFPP--EKAFRLLEEDQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDT 129 (191)
T ss_dssp HHHHHHHHHHHTCCH--HHHGGGGSTTEEEEEEETHHHHTTCHHHHHHHHHHHHCGGGHHHHHHHHHHTC
T ss_pred HHHHHHHHHHcCCCH--HHhhhcccCcceeEEEEcccccccCchhHHHHhhheeCCCccHHHHHHHHHCc
Confidence 357888886 68987 33565554 1 11223445566666 8888888989888754
No 9
>3tgu_G UQCRQ, mitochondrial ubiquinol-cytochrome C reductase UB binding protein QP-C; cytochrome BC1, membrane protein, heme protein, rieske iron protein; HET: HEM WF3 UQ CDL PEE HEC BOG; 2.70A {Gallus gallus} PDB: 3cwb_G* 3h1i_G* 3h1h_G* 3h1k_G* 3h1l_G* 3h1j_G* 3l71_G* 3l72_G* 3l73_G* 3l74_G* 3l75_G* 3l70_G*
Probab=14.82 E-value=16 Score=23.69 Aligned_cols=12 Identities=17% Similarity=0.484 Sum_probs=9.2
Q ss_pred hccchhHHHHHH
Q 041684 52 AGFTPYEKTITE 63 (100)
Q Consensus 52 ~GfaPYErr~mE 63 (100)
.+++|||.+++-
T Consensus 16 YsLSP~~Qr~~a 27 (81)
T 3tgu_G 16 YSLSPFEQRAIP 27 (81)
T ss_dssp EEECTTTBCSSC
T ss_pred EEeCcccccccc
Confidence 578999987653
No 10
>1ng7_A Poliovirus 3A-N, genome polyprotein [core protein P3A]; helical hairpin, unfolded domain, symmetric dimer, viral protein; NMR {Human poliovirus 1} SCOP: a.178.1.1
Probab=13.23 E-value=79 Score=19.52 Aligned_cols=21 Identities=19% Similarity=0.355 Sum_probs=17.6
Q ss_pred HHHHHhhcchhhHHHHHHHHh
Q 041684 60 TITELLKVDEDKRALKAAKRK 80 (100)
Q Consensus 60 r~mELlk~skdKrAlKf~KKR 80 (100)
.++|||+..++-..++|+++.
T Consensus 21 aI~DLLksvds~eV~~YC~~k 41 (60)
T 1ng7_A 21 CINDLLQAVDSQEVRDYCEKK 41 (60)
T ss_dssp TTHHHHHHHCCHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHC
Confidence 388999998888889998874
Done!