Query 012097
Match_columns 471
No_of_seqs 190 out of 620
Neff 3.8
Searched_HMMs 29240
Date Mon Mar 25 21:34:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012097.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/012097hhsearch_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; 100.0 5.4E-30 1.9E-34 219.4 5.1 78 390-467 8-85 (101)
2 1s29_A LA protein; winged heli 100.0 3.1E-29 1.1E-33 211.2 6.4 77 393-469 7-87 (92)
3 2voo_A Lupus LA protein; RNA-b 99.9 5.2E-23 1.8E-27 188.7 6.9 74 394-467 10-86 (193)
4 1wfx_A Probable RNA 2'-phospho 91.6 0.14 4.9E-06 47.8 4.2 47 422-469 23-73 (186)
5 3htx_A HEN1; HEN1, small RNA m 79.9 1.3 4.6E-05 50.2 4.5 78 393-470 104-203 (950)
6 2k9l_A RNA polymerase sigma fa 75.6 3.3 0.00011 32.9 4.5 54 397-455 15-70 (76)
7 2k9m_A RNA polymerase sigma fa 63.0 4.5 0.00015 35.4 3.0 57 395-456 4-62 (130)
8 2jo7_A Glycosylphosphatidylino 27.8 36 0.0012 32.4 3.1 51 394-455 5-59 (224)
9 3c18_A Nucleotidyltransferase- 20.7 48 0.0016 33.1 2.5 68 396-463 204-272 (290)
10 1vdl_A Ubiquitin carboxyl-term 13.1 71 0.0024 26.4 1.4 22 437-458 28-51 (80)
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=99.96 E-value=5.4e-30 Score=219.39 Aligned_cols=78 Identities=36% Similarity=0.540 Sum_probs=74.5
Q ss_pred CCCcHHHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097 390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF 467 (471)
Q Consensus 390 P~~e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki 467 (471)
++.+++|+++|++||||||||+||+||+||+++||.||||||++|++|||||+||.|+++|++||+.|++|||++|+.
T Consensus 8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~~levsedg~ 85 (101)
T 2cqk_A 8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGE 85 (101)
T ss_dssp SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSS
T ss_pred CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCCcEEEcCCCC
Confidence 346789999999999999999999999999999999999999999999999999999999999999999999998854
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=99.95 E-value=3.1e-29 Score=211.24 Aligned_cols=77 Identities=26% Similarity=0.518 Sum_probs=73.1
Q ss_pred cHHHHHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCc--cc
Q 012097 393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYL--FI 468 (471)
Q Consensus 393 e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDk--iR 468 (471)
+++++++|++||||||||+||+||+||+++| +.||||||++|++|||||+||.|+++|++||+.|+.|||++|+ ||
T Consensus 7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg~~VR 86 (92)
T 1s29_A 7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMVR 86 (92)
T ss_dssp CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEEE
T ss_pred CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCCCEEe
Confidence 5689999999999999999999999999999 7999999999999999999999999999999999999999885 45
Q ss_pred c
Q 012097 469 D 469 (471)
Q Consensus 469 ~ 469 (471)
+
T Consensus 87 R 87 (92)
T 1s29_A 87 R 87 (92)
T ss_dssp E
T ss_pred C
Confidence 4
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=99.87 E-value=5.2e-23 Score=188.72 Aligned_cols=74 Identities=38% Similarity=0.781 Sum_probs=71.4
Q ss_pred HHHHHHHHhhhhhhcCcCCcCcchhhhhccC-CCccEehhhhccchhhhhhccCHHHHHHHHhcC--CcEEEcCCcc
Q 012097 394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTS--TVVEVQSYLF 467 (471)
Q Consensus 394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md-~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S--~~LEVseDki 467 (471)
++|+++|++||||||||+||++|.||+++|+ ++|||+|.+|++|+|||.|+.|+++|++||+.| ..|||++|++
T Consensus 10 ~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~lev~ed~~ 86 (193)
T 2voo_A 10 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKT 86 (193)
T ss_dssp HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSS
T ss_pred HHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEEEecccc
Confidence 5899999999999999999999999999997 799999999999999999999999999999999 9999999865
No 4
>1wfx_A Probable RNA 2'-phosphotransferase; tRNA splicing, NAD, structural GE riken structural genomics/proteomics initiative, RSGI; 2.80A {Aeropyrum pernix} SCOP: d.166.1.5
Probab=91.56 E-value=0.14 Score=47.77 Aligned_cols=47 Identities=11% Similarity=0.063 Sum_probs=36.5
Q ss_pred ccCCCccEehhhhccchhhh--hhccCHHHHHHHHhcCC--cEEEcCCcccc
Q 012097 422 NMDDQGWVPITLIASFPRVK--NLTSNIQLILDSLRTST--VVEVQSYLFID 469 (471)
Q Consensus 422 ~Md~dG~VPIslIasFnRVK--~LT~D~~lI~eALr~S~--~LEVseDkiR~ 469 (471)
.||.+|||.|+.|+. -+.+ ....+.+.|.++++... -.|+++++||.
T Consensus 23 ~ld~~G~v~v~~LL~-~~~~~~~~~~t~~~l~~vV~~~~K~Rf~l~~~~IRA 73 (186)
T 1wfx_A 23 RLTREGWARVSEVVE-GLRKAGWSWVEEWHIVGVALHDPKGRYELRNGEIRA 73 (186)
T ss_dssp CCCTTCCEEHHHHHH-HHHHTTCTTCCHHHHHHHHHHCSSCCEEEETTEEEE
T ss_pred ccCCCCCEEHHHHHh-hhhhcccCCCCHHHHHHHHhcCCCCceEeeccEEEe
Confidence 368999999999998 3333 23447888999998765 48999999986
No 5
>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}
Probab=79.88 E-value=1.3 Score=50.17 Aligned_cols=78 Identities=17% Similarity=0.298 Sum_probs=58.7
Q ss_pred cHHHHHHHHhhhhhhcCcCCcCcchhhhhcc--------CCCccEehhhhccc-hhhhhhcc--------C----HHHHH
Q 012097 393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--------DDQGWVPITLIASF-PRVKNLTS--------N----IQLIL 451 (471)
Q Consensus 393 e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--------d~dG~VPIslIasF-nRVK~LT~--------D----~~lI~ 451 (471)
.++-.+.|+.+|+|.|+|+=|.-++=|..|+ +--|.||+.+|+.+ -||-.|++ | +.+|.
T Consensus 104 ~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~~~~~~~~ 183 (950)
T 3htx_A 104 VDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPFLAISYVM 183 (950)
T ss_dssp HHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChHHHHHHHH
Confidence 4688899999999999999888888777765 24689999999999 56665554 1 57788
Q ss_pred HHHhcC-CcEEEcCCccccC
Q 012097 452 DSLRTS-TVVEVQSYLFIDS 470 (471)
Q Consensus 452 eALr~S-~~LEVseDkiR~~ 470 (471)
.|.+.+ ..+..++..||+.
T Consensus 184 ~a~~~~~~~~~~~~~~~~~~ 203 (950)
T 3htx_A 184 KAAAKLADYIVASPHGLRRK 203 (950)
T ss_dssp HHHHHCCSSEEEETTEEEES
T ss_pred HHhhcCCCcEEeCCcccccC
Confidence 888876 4555555566553
No 6
>2k9l_A RNA polymerase sigma factor RPON; protein, transcription; NMR {Aquifex aeolicus}
Probab=75.60 E-value=3.3 Score=32.91 Aligned_cols=54 Identities=11% Similarity=0.156 Sum_probs=38.6
Q ss_pred HHHHHhhhhhhcCcCCcCcchhhhhccCCCccE--ehhhhccchhhhhhccCHHHHHHHHh
Q 012097 397 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWV--PITLIASFPRVKNLTSNIQLILDSLR 455 (471)
Q Consensus 397 ~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~V--PIslIasFnRVK~LT~D~~lI~eALr 455 (471)
.+.|..||...|++.-..==.||...+|++||+ ++..|+. .|..+.+.|.++|+
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 888999999556665555567888999999996 5666653 23356666666665
No 7
>2k9m_A RNA polymerase sigma factor RPON; core binding domain, transcription; NMR {Aquifex aeolicus}
Probab=63.02 E-value=4.5 Score=35.44 Aligned_cols=57 Identities=12% Similarity=0.145 Sum_probs=39.4
Q ss_pred HHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccE--ehhhhccchhhhhhccCHHHHHHHHhc
Q 012097 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWV--PITLIASFPRVKNLTSNIQLILDSLRT 456 (471)
Q Consensus 395 ~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~V--PIslIasFnRVK~LT~D~~lI~eALr~ 456 (471)
.|.+.|..||...|++.-..==.||...+|++||+ ++..|+. .|..+.+.|.++|+.
T Consensus 4 sL~e~L~~Ql~~~~~~~~~~ia~~iI~~LD~~GYL~~~l~eia~-----~l~~~~~eve~vL~~ 62 (130)
T 2k9m_A 4 SELEELQQNIKLELEGKEQELALELLNYLNEKGFLSKSVEEISD-----VLRCSVEELEKVRQK 62 (130)
T ss_dssp CHHHHHHHHHHHHCCSHHHHHHHHHTTSBCTTSSBSSCHHHHHH-----HTTCCHHHHHHHHHH
T ss_pred CHHHHHHHHHcccCCHHHHHHHHHHHHhcCCCCCCCCCHHHHHH-----HcCCCHHHHHHHHHH
Confidence 57889999999556665544457888889999997 5666653 233566666666653
No 8
>2jo7_A Glycosylphosphatidylinositol-anchored merozoite surface protein; surface antigen, GPI-anchored protein, recombinant vaccine; NMR {Babesia divergens}
Probab=27.76 E-value=36 Score=32.45 Aligned_cols=51 Identities=20% Similarity=0.240 Sum_probs=42.1
Q ss_pred HHHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhh----hccCHHHHHHHHh
Q 012097 394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKN----LTSNIQLILDSLR 455 (471)
Q Consensus 394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~----LT~D~~lI~eALr 455 (471)
++|+..++.|=| +||.+.|+++|-+-|--|..|=||.. |..|-+.|.+|-+
T Consensus 5 e~lR~Elk~qRE-----------~~Ls~Ii~sdGp~tIlQLid~LRiidtDlLlkVD~~~V~kAG~ 59 (224)
T 2jo7_A 5 DVLRGELRGQRE-----------AFLSEIIKSDGPFTILQLVGYLRVVDTDLLLKVDSTKVDEAGK 59 (224)
T ss_dssp HHHHHHHHHHHH-----------HHHHHHHHCCSCCCTTHHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred HHHHHHHHHHHH-----------HHHHHHHccCCCeeHHHHHHHHHHhccchhhccCHHHHHHHHH
Confidence 588889998855 89999999999999999999999986 3357777776654
No 9
>3c18_A Nucleotidyltransferase-like protein; ZP_00538802.1, structur genomics, joint center for structural genomics, JCSG; 1.90A {Exiguobacterium sibiricum}
Probab=20.69 E-value=48 Score=33.08 Aligned_cols=68 Identities=9% Similarity=0.140 Sum_probs=49.9
Q ss_pred HHHHHHhhhhhhcCcCCcCcchhhhhccC-CCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEc
Q 012097 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ 463 (471)
Q Consensus 396 L~~~I~kQIEYYFSD~NL~kD~FLR~~Md-~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVs 463 (471)
..+.+.--+||+.-..=-.-=.+|.+.|. .+++..+..|..-..++.+.-|++.|++-|-.-..|++.
T Consensus 204 rielllla~Ef~I~sk~~~~~~~Ll~~m~ek~~~wS~~Ei~~~p~~~~~~idle~iL~~Lv~k~lI~~~ 272 (290)
T 3c18_A 204 RIHLALIGLEHLLQSKVLSGGKYLFEVMRERDRPWTMHELMEESRLTELKVDLGSLVDFFIRKGLIRIS 272 (290)
T ss_dssp HHHHHHHHHHHHHHHTHHHHHHHHHHHHTTSSSCEEHHHHHHCGGGGGGHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHhcCcccccccCCHHHHHHHHHHcCCeEEe
Confidence 33344444555443322223456677775 678999999999999999999999999999999988766
No 10
>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=13.11 E-value=71 Score=26.37 Aligned_cols=22 Identities=18% Similarity=0.511 Sum_probs=18.0
Q ss_pred chhhhhhc--cCHHHHHHHHhcCC
Q 012097 437 FPRVKNLT--SNIQLILDSLRTST 458 (471)
Q Consensus 437 FnRVK~LT--~D~~lI~eALr~S~ 458 (471)
.|.||.+| .|.+++.+||+.|.
T Consensus 28 LnQLrEITGiqD~~~L~~ALkas~ 51 (80)
T 1vdl_A 28 LNQLREITGINDAQILQQALKDSN 51 (80)
T ss_dssp HHHHHHHSCCCCHHHHHHHHHHHT
T ss_pred HHHHHHHhCCCcHHHHHHHHHhcc
Confidence 46788887 59999999999875
Done!