Query 012704
Match_columns 458
No_of_seqs 170 out of 587
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 14:37:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012704.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/012704hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2cqk_A C-MPL binding protein; 99.9 6.7E-27 2.3E-31 199.6 4.3 69 390-458 8-76 (101)
2 1s29_A LA protein; winged heli 99.9 3.9E-26 1.3E-30 191.6 5.8 66 393-458 7-74 (92)
3 2voo_A Lupus LA protein; RNA-b 99.8 3.1E-21 1.1E-25 176.1 6.0 65 393-457 9-74 (193)
4 2k9l_A RNA polymerase sigma fa 74.4 3.5 0.00012 32.6 4.4 54 397-455 15-70 (76)
5 2k9m_A RNA polymerase sigma fa 62.4 4.4 0.00015 35.4 2.8 56 395-455 4-61 (130)
6 3htx_A HEN1; HEN1, small RNA m 59.5 3.3 0.00011 46.9 1.9 52 393-444 104-164 (950)
7 2h2m_A Protein MURR1, COMM dom 21.6 17 0.00058 31.5 -0.4 38 403-444 21-59 (108)
8 1vdl_A Ubiquitin carboxyl-term 21.3 36 0.0012 28.1 1.5 22 437-458 28-51 (80)
9 2cx6_A Hypothetical protein YH 15.3 47 0.0016 26.9 0.9 57 393-455 14-74 (90)
10 2rdq_A 1-deoxypentalenic acid 13.0 30 0.001 31.9 -1.0 46 407-452 12-57 (288)
No 1
>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46
Probab=99.93 E-value=6.7e-27 Score=199.58 Aligned_cols=69 Identities=26% Similarity=0.401 Sum_probs=66.1
Q ss_pred CCCcHHHHHHHHhhhhhhcCcCCcCcchHhHhhcCCCCcEehhhhccchhhhhccCCHHHHHHHhhhCC
Q 012704 390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL 458 (458)
Q Consensus 390 P~~e~~L~~~I~kQIEYYFSDeNL~kD~FLrk~Md~dGwVPIslIasFnRVK~LT~Di~~Il~ALr~St 458 (458)
++.+++|+++|++||||||||+||++|.||+++|+.||||+|++|++|||||+||+|+++|++||+.|+
T Consensus 8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~ 76 (101)
T 2cqk_A 8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSP 76 (101)
T ss_dssp SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSS
T ss_pred CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCC
Confidence 346789999999999999999999999999999999999999999999999999999999999999985
No 2
>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46
Probab=99.92 E-value=3.9e-26 Score=191.64 Aligned_cols=66 Identities=27% Similarity=0.442 Sum_probs=63.6
Q ss_pred cHHHHHHHHhhhhhhcCcCCcCcchHhHhhc--CCCCcEehhhhccchhhhhccCCHHHHHHHhhhCC
Q 012704 393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL 458 (458)
Q Consensus 393 e~~L~~~I~kQIEYYFSDeNL~kD~FLrk~M--d~dGwVPIslIasFnRVK~LT~Di~~Il~ALr~St 458 (458)
+++++++|++||||||||+||++|.||+++| +.||||+|++|++|||||+||.|+++|++||+.|+
T Consensus 7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~ 74 (92)
T 1s29_A 7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSE 74 (92)
T ss_dssp CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCS
T ss_pred CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCC
Confidence 5689999999999999999999999999999 78999999999999999999999999999999985
No 3
>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A
Probab=99.83 E-value=3.1e-21 Score=176.12 Aligned_cols=65 Identities=35% Similarity=0.679 Sum_probs=62.6
Q ss_pred cHHHHHHHHhhhhhhcCcCCcCcchHhHhhcC-CCCcEehhhhccchhhhhccCCHHHHHHHhhhC
Q 012704 393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQISYFLITCSQFS 457 (458)
Q Consensus 393 e~~L~~~I~kQIEYYFSDeNL~kD~FLrk~Md-~dGwVPIslIasFnRVK~LT~Di~~Il~ALr~S 457 (458)
.++|+++|++||||||||+||++|.||+++|+ ++|||+|.+|++|+|||.|+.|+++|++||+.|
T Consensus 9 ~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S 74 (193)
T 2voo_A 9 MAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS 74 (193)
T ss_dssp CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTC
T ss_pred cHHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhc
Confidence 35899999999999999999999999999997 799999999999999999999999999999988
No 4
>2k9l_A RNA polymerase sigma factor RPON; protein, transcription; NMR {Aquifex aeolicus}
Probab=74.42 E-value=3.5 Score=32.57 Aligned_cols=54 Identities=13% Similarity=0.086 Sum_probs=38.1
Q ss_pred HHHHHhhhhhhcCcCCcCcchHhHhhcCCCCcE--ehhhhccchhhhhccCCHHHHHHHhh
Q 012704 397 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWV--PITLIASFPRVSFYSQISYFLITCSQ 455 (458)
Q Consensus 397 ~~~I~kQIEYYFSDeNL~kD~FLrk~Md~dGwV--PIslIasFnRVK~LT~Di~~Il~ALr 455 (458)
.+.+..||...|++.-..==.||...+|++||+ ++..|+. .|..+.+.|.++|+
T Consensus 15 ~ehL~~Ql~~~~~~~~~~Ia~~iI~~LD~~GYL~~~l~eia~-----~l~~~~~eve~vL~ 70 (76)
T 2k9l_A 15 LEELQQNIKLELEGKEQELALELLNYLNEKGFLSKSVEEISD-----VLRCSVEELEKVRQ 70 (76)
T ss_dssp HHHHHHHHHHHCCTTSHHHHHHHHHHCTTSSTTCCCHHHHHH-----HHTSCHHHHHHHHH
T ss_pred HHHHHHHHcccCCHHHHHHHHHHHHhcCCCCCCCCCHHHHHH-----HcCCCHHHHHHHHH
Confidence 788999999556665544457899999999996 5666763 23356666666654
No 5
>2k9m_A RNA polymerase sigma factor RPON; core binding domain, transcription; NMR {Aquifex aeolicus}
Probab=62.43 E-value=4.4 Score=35.37 Aligned_cols=56 Identities=14% Similarity=0.080 Sum_probs=38.3
Q ss_pred HHHHHHHhhhhhhcCcCCcCcchHhHhhcCCCCcE--ehhhhccchhhhhccCCHHHHHHHhh
Q 012704 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWV--PITLIASFPRVSFYSQISYFLITCSQ 455 (458)
Q Consensus 395 ~L~~~I~kQIEYYFSDeNL~kD~FLrk~Md~dGwV--PIslIasFnRVK~LT~Di~~Il~ALr 455 (458)
.|.+.+..||...|++.-..==.||...+|++||+ ++..|+. .|..+.+.|.++|+
T Consensus 4 sL~e~L~~Ql~~~~~~~~~~ia~~iI~~LD~~GYL~~~l~eia~-----~l~~~~~eve~vL~ 61 (130)
T 2k9m_A 4 SELEELQQNIKLELEGKEQELALELLNYLNEKGFLSKSVEEISD-----VLRCSVEELEKVRQ 61 (130)
T ss_dssp CHHHHHHHHHHHHCCSHHHHHHHHHTTSBCTTSSBSSCHHHHHH-----HTTCCHHHHHHHHH
T ss_pred CHHHHHHHHHcccCCHHHHHHHHHHHHhcCCCCCCCCCHHHHHH-----HcCCCHHHHHHHHH
Confidence 57888999999556665544456888888999997 5666663 23355666666554
No 6
>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}
Probab=59.54 E-value=3.3 Score=46.93 Aligned_cols=52 Identities=23% Similarity=0.386 Sum_probs=42.5
Q ss_pred cHHHHHHHHhhhhhhcCcCCcCcchHhHhhcC--------CCCcEehhhhccc-hhhhhcc
Q 012704 393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD--------DQGWVPITLIASF-PRVSFYS 444 (458)
Q Consensus 393 e~~L~~~I~kQIEYYFSDeNL~kD~FLrk~Md--------~dGwVPIslIasF-nRVK~LT 444 (458)
.++-.+.|+.+|+|.|+|+=|.-++=|..++. --|.||+.+|+.| -||-.++
T Consensus 104 ~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~c 164 (950)
T 3htx_A 104 VDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRC 164 (950)
T ss_dssp HHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHH
T ss_pred hhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhh
Confidence 46788999999999999999988887777762 4589999999998 4555555
No 7
>2h2m_A Protein MURR1, COMM domain-containing protein 1; all alpha-helical, metal transport; NMR {Homo sapiens}
Probab=21.56 E-value=17 Score=31.54 Aligned_cols=38 Identities=18% Similarity=0.297 Sum_probs=27.3
Q ss_pred hhhhhcCcCCcCcchHhHhhcCCCCcEehhhhccc-hhhhhcc
Q 012704 403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASF-PRVSFYS 444 (458)
Q Consensus 403 QIEYYFSDeNL~kD~FLrk~Md~dGwVPIslIasF-nRVK~LT 444 (458)
|-|| |.|.-+ .|.||++++=.| |+++.|..| +||+.|.
T Consensus 21 q~~y-~~~~~I-tee~L~~~lypd--vt~eef~~~~~K~~~li 59 (108)
T 2h2m_A 21 QDTF-HGYPGI-TEELLRSQLYPE--VPPEEFRPFLAKMRGIL 59 (108)
T ss_dssp CCSS-SCCSSC-CHHHHHHHHCSS--SCSSTHHHHHTTTSTTH
T ss_pred HHHH-cCCccc-cHHHHHHHHcCC--CCHHHHHHHHHHHHHHH
Confidence 3454 477766 999999999766 777777766 6666554
No 8
>1vdl_A Ubiquitin carboxyl-terminal hydrolase 25; UBA domain, mouse cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.5.2.1
Probab=21.29 E-value=36 Score=28.05 Aligned_cols=22 Identities=9% Similarity=-0.072 Sum_probs=18.1
Q ss_pred chhhhhcc--CCHHHHHHHhhhCC
Q 012704 437 FPRVSFYS--QISYFLITCSQFSL 458 (458)
Q Consensus 437 FnRVK~LT--~Di~~Il~ALr~St 458 (458)
.|.||.+| .|.+++.+||+.|.
T Consensus 28 LnQLrEITGiqD~~~L~~ALkas~ 51 (80)
T 1vdl_A 28 LNQLREITGINDAQILQQALKDSN 51 (80)
T ss_dssp HHHHHHHSCCCCHHHHHHHHHHHT
T ss_pred HHHHHHHhCCCcHHHHHHHHHhcc
Confidence 47788888 79999999999763
No 9
>2cx6_A Hypothetical protein YHCO; barstar, ribonuclease inhibitor, RSGI, structural genomics; 2.43A {Escherichia coli} SCOP: c.9.1.1
Probab=15.25 E-value=47 Score=26.94 Aligned_cols=57 Identities=16% Similarity=0.049 Sum_probs=32.4
Q ss_pred cHHHHHHHHhhhhh--hcCcCCcCcchHhHhhcCCCCcE-ehhhhccchhh-hhccCCHHHHHHHhh
Q 012704 393 EPSLAAMLIHQIDY--YFSDANLVKDEFLKSNMDDQGWV-PITLIASFPRV-SFYSQISYFLITCSQ 455 (458)
Q Consensus 393 e~~L~~~I~kQIEY--YFSDeNL~kD~FLrk~Md~dGwV-PIslIasFnRV-K~LT~Di~~Il~ALr 455 (458)
.+++.+.|.+++.| ||+ .|| |. |...|. ||| +.-+.+.|..+ .....+...|++.|+
T Consensus 14 ~~~f~~~~~~~~~~p~~fG-~Nl--DA-L~D~Lt--~~~~~~P~~i~~~~~~~~~~~~~~~ll~vf~ 74 (90)
T 2cx6_A 14 QEDFYRDFSQTFGLAKDKV-RDL--DS-LWDVLM--NDVLPLPLEIEFVHLGEKTRRRFGALILLFD 74 (90)
T ss_dssp HHHHHHHHHHHTTCCTTSC-SSH--HH-HHHHHH--TTCSCSSEEEEEESCCHHHHHHTHHHHHHHH
T ss_pred HHHHHHHHHHHhCCchhhC-CCH--HH-HHHHHc--cCCCCCCEEEEEEeCchhhHHHHHHHHHHHH
Confidence 45788999999988 775 455 32 344443 345 44455555555 222334455666554
No 10
>2rdq_A 1-deoxypentalenic acid 11-beta hydroxylase; Fe(II ketoglutarate dependent hydroxylase...; double stranded barrel helix, dioxygenase; HET: AKG; 1.31A {Streptomyces avermitilis} PDB: 2rdn_A* 2rdr_A* 2rds_A*
Probab=12.98 E-value=30 Score=31.95 Aligned_cols=46 Identities=11% Similarity=-0.022 Sum_probs=30.4
Q ss_pred hcCcCCcCcchHhHhhcCCCCcEehhhhccchhhhhccCCHHHHHH
Q 012704 407 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLIT 452 (458)
Q Consensus 407 YFSDeNL~kD~FLrk~Md~dGwVPIslIasFnRVK~LT~Di~~Il~ 452 (458)
-.++..|....-++++++++|||=|.-++.=..|.+|...++.+++
T Consensus 12 ~~~~~~ls~~~~~~~~f~~dGyvvl~~~l~~e~v~~l~~~~~~~~~ 57 (288)
T 2rdq_A 12 TDCTPLLGDRAALDSFYEEHGYLFLRNVLDRDLVKTVAEQMREGLV 57 (288)
T ss_dssp CCCGGGTTCHHHHHHHHHHHSEEEECSCSCHHHHHHHHHHHHHHHH
T ss_pred ccCCcccCCHHHHHHHHHhCCEEEEeCCCCHHHHHHHHHHHHHHHH
Confidence 3445555555557777788888888877776667776665555554
Done!