Query psy7584
Match_columns 67
No_of_seqs 115 out of 779
Neff 5.1
Searched_HMMs 29240
Date Fri Aug 16 22:09:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7584.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/7584hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1twf_B DNA-directed RNA polyme 99.9 1.2E-22 4.2E-27 165.3 6.9 60 8-67 930-989 (1224)
2 4ayb_B DNA-directed RNA polyme 99.8 7.4E-21 2.5E-25 153.1 6.7 57 11-67 834-890 (1131)
3 3h0g_B DNA-directed RNA polyme 99.8 2.7E-21 9.1E-26 157.7 4.1 60 8-67 919-978 (1210)
4 2a6h_C DNA-directed RNA polyme 99.8 1.1E-20 3.7E-25 153.4 6.6 60 8-67 781-848 (1119)
5 3lu0_C DNA-directed RNA polyme 99.7 3.9E-17 1.3E-21 134.3 4.4 30 38-67 1046-1075(1342)
6 3tbi_B DNA-directed RNA polyme 95.3 0.021 7.2E-07 40.0 4.4 29 8-36 80-108 (228)
7 2hvy_B GAR1, small nucleolar R 22.9 1.2E+02 0.0042 18.3 3.9 44 16-63 36-82 (104)
8 2ey4_C Small nucleolar RNP sim 16.4 1.7E+02 0.0059 16.7 4.0 39 16-58 36-77 (82)
9 3sjy_A Translation initiation 16.3 2.4E+02 0.0082 19.5 4.7 24 41-64 365-390 (403)
10 1gyu_A Adapter-related protein 15.5 74 0.0025 19.8 1.7 23 25-48 94-116 (140)
No 1
>1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ...
Probab=99.87 E-value=1.2e-22 Score=165.35 Aligned_cols=60 Identities=70% Similarity=1.019 Sum_probs=56.0
Q ss_pred CccceeeeeEEcCCCCCeEEEEEEEEeccCCcEEEEEEEeeecCCCcCeeeeeccCCcCC
Q psy7584 8 KRFSKRDGSTFLRNSETGIVDQVMLTLNVDGYKFCKIRVRSVRIPQIGDKFASRHGQKGT 67 (67)
Q Consensus 8 ~~~~~rd~S~~~k~~e~g~Vd~V~~~~~~~g~~~vkV~vR~~R~P~iGDKFsSRHGQKGv 67 (67)
+...++|+|++++++|.|+||+|+++.+++|.++|||++|++|+|+||||||||||||||
T Consensus 930 ~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkV~ir~~R~p~iGDKfasRHGqKGv 989 (1224)
T 1twf_B 930 AYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGT 989 (1224)
T ss_dssp ---CCBBCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECCCTTCEEECTTSCEEE
T ss_pred ccCccceeEEEeeCCCCeEEEEEEEEecCCCCEEEEEEEEecCCCCchhhhhhhccCcce
Confidence 446789999999999999999999999999999999999999999999999999999997
No 2
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Probab=99.82 E-value=7.4e-21 Score=153.13 Aligned_cols=57 Identities=60% Similarity=0.933 Sum_probs=55.3
Q ss_pred ceeeeeEEcCCCCCeEEEEEEEEeccCCcEEEEEEEeeecCCCcCeeeeeccCCcCC
Q psy7584 11 SKRDGSTFLRNSETGIVDQVMLTLNVDGYKFCKIRVRSVRIPQIGDKFASRHGQKGT 67 (67)
Q Consensus 11 ~~rd~S~~~k~~e~g~Vd~V~~~~~~~g~~~vkV~vR~~R~P~iGDKFsSRHGQKGv 67 (67)
.++|+|++++++|.|+||.|.++.+++|++.|+|+||+.|+|++|||||||||||||
T Consensus 834 ~~~d~sl~~~~g~~g~Vd~v~~~~~~~~~~~vkV~i~~~R~~~vGDK~agRHGnKGv 890 (1131)
T 4ayb_B 834 AKRDTSIVTRHGEMGIVDLVLITETAEGNKLVKVRVRDLRIPSIGDKFASRHGQKGV 890 (1131)
T ss_dssp CCCCCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECCCTTCEEEETTSCEEE
T ss_pred eeeeeeEEccCCCceEEEEEEEeeccCCceEEEEEEeccccCcccccccccccccce
Confidence 468999999999999999999999999999999999999999999999999999997
No 3
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=99.82 E-value=2.7e-21 Score=157.72 Aligned_cols=60 Identities=70% Similarity=1.007 Sum_probs=57.5
Q ss_pred CccceeeeeEEcCCCCCeEEEEEEEEeccCCcEEEEEEEeeecCCCcCeeeeeccCCcCC
Q psy7584 8 KRFSKRDGSTFLRNSETGIVDQVMLTLNVDGYKFCKIRVRSVRIPQIGDKFASRHGQKGT 67 (67)
Q Consensus 8 ~~~~~rd~S~~~k~~e~g~Vd~V~~~~~~~g~~~vkV~vR~~R~P~iGDKFsSRHGQKGv 67 (67)
+.+.++|+|++++++|.|+||+|+++.+++|.++|+|++|++|+|++|||||||||||||
T Consensus 919 ~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkv~~~~~R~~~~GDK~a~RhGqKGv 978 (1210)
T 3h0g_B 919 QLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRSTRIPQIGDKFASRHGQKGT 978 (1210)
T ss_dssp CCCCCCCCCCCCCTTCCCCCCEEEEEECSSSSEEEEEEECCCBCCCTTCEEECTTCCCEE
T ss_pred cccccceeeEEecCCCCeEEEEEEEEEecCCCeEEEEEEEEecCCCchhhhhcccCCCce
Confidence 456789999999999999999999999999999999999999999999999999999997
No 4
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Probab=99.82 E-value=1.1e-20 Score=153.39 Aligned_cols=60 Identities=35% Similarity=0.452 Sum_probs=55.6
Q ss_pred CccceeeeeEEcCCCCCeEEEEEEEEeccC-Cc-------EEEEEEEeeecCCCcCeeeeeccCCcCC
Q psy7584 8 KRFSKRDGSTFLRNSETGIVDQVMLTLNVD-GY-------KFCKIRVRSVRIPQIGDKFASRHGQKGT 67 (67)
Q Consensus 8 ~~~~~rd~S~~~k~~e~g~Vd~V~~~~~~~-g~-------~~vkV~vR~~R~P~iGDKFsSRHGQKGv 67 (67)
+...++|+|++++++|.|+|++|.++.+++ |. +.|+|++|++|+|++|||||||||||||
T Consensus 781 k~~~~rd~Sl~~~~~e~G~V~~V~~~~~~~~g~~l~~~~~~~vkV~i~~~R~~~vGDKfasRHGqKGV 848 (1119)
T 2a6h_C 781 KARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGVREVVRVYVAQKRKLQVGDKLANRHGNKGV 848 (1119)
T ss_dssp CCCCEEECCEECCSSCCCEEEEEEEECSSCSSCCCCTTEEEEEEEEEEEEEECCTTCEEECTTSCEEE
T ss_pred cccccceeeEEccCCccEEEEEEEEEccCCCCcccCCCcceEEEEEEcccCCcccCchhhhccCCCce
Confidence 345789999999999999999999998887 64 8999999999999999999999999997
No 5
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C*
Probab=99.66 E-value=3.9e-17 Score=134.31 Aligned_cols=30 Identities=43% Similarity=0.561 Sum_probs=28.4
Q ss_pred CcEEEEEEEeeecCCCcCeeeeeccCCcCC
Q psy7584 38 GYKFCKIRVRSVRIPQIGDKFASRHGQKGT 67 (67)
Q Consensus 38 g~~~vkV~vR~~R~P~iGDKFsSRHGQKGv 67 (67)
..++|||++|++|+|++|||||||||||||
T Consensus 1046 v~k~VkV~ia~kRk~qvGDK~AgRHGnKGV 1075 (1342)
T 3lu0_C 1046 VLKIVKVYLAVKRRIQPGDKMAGRHGNKGV 1075 (1342)
T ss_dssp SSCEEEEEEEEEECCCTTCEEECSSSCCEE
T ss_pred CceEEEEEEEEeccCCCCCCcccccCCCce
Confidence 468999999999999999999999999997
No 6
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli}
Probab=95.32 E-value=0.021 Score=39.96 Aligned_cols=29 Identities=24% Similarity=0.156 Sum_probs=25.7
Q ss_pred CccceeeeeEEcCCCCCeEEEEEEEEecc
Q psy7584 8 KRFSKRDGSTFLRNSETGIVDQVMLTLNV 36 (67)
Q Consensus 8 ~~~~~rd~S~~~k~~e~g~Vd~V~~~~~~ 36 (67)
+....+|+|+++++++.|+|+.|.+++..
T Consensus 80 k~~~vkDtSL~vp~G~~G~VidV~if~r~ 108 (228)
T 3tbi_B 80 KASDVKDSSLRVPNGVSGTVIDVQVFTRD 108 (228)
T ss_dssp TSSCEEECCEECCSSCBEEEEEEEEEEBT
T ss_pred ccccceeCcEecCCCCcEEEEEEEEEecC
Confidence 45678999999999999999999998754
No 7
>2hvy_B GAR1, small nucleolar RNP similar to GAR1; H/ACA RNA, RNP, pseudouridine synthase, guide RNA, isomerase biosynthetic protein-RNA complex; HET: ATP; 2.30A {Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3hay_B*
Probab=22.92 E-value=1.2e+02 Score=18.27 Aligned_cols=44 Identities=16% Similarity=0.299 Sum_probs=27.2
Q ss_pred eEEcCC-CCCeEEEEEEEEeccCCcEEEEEEEeeecCCC--cCeeeeeccC
Q psy7584 16 STFLRN-SETGIVDQVMLTLNVDGYKFCKIRVRSVRIPQ--IGDKFASRHG 63 (67)
Q Consensus 16 S~~~k~-~e~g~Vd~V~~~~~~~g~~~vkV~vR~~R~P~--iGDKFsSRHG 63 (67)
++.... ..-|.|++|+=-.+ ..++.|.+-. ..++ +||||=-.-.
T Consensus 36 ~Vy~enk~~IGKV~DIfGPV~---~pY~sVKp~~-~s~~~~~G~klYI~~~ 82 (104)
T 2hvy_B 36 RVVDKRLQFVGIVKDVFGPVK---MPYVAIKPKV-SNPEIYVGEVLYVDER 82 (104)
T ss_dssp EEECTTCCEEEEEEEEEEESS---SCEEEEEECS-SCGGGGTTCEEEECC-
T ss_pred EeEcCCCCEeEEEEEEECCCC---CcEEEEEecC-CCccccCCCEEEEcCc
Confidence 444444 35688888864332 4577777776 5677 9999854433
No 8
>2ey4_C Small nucleolar RNP similar to GAR1; trimeric complex, structural genomics, PSI, protein structur initiative; 2.11A {Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3mqk_C 2rfk_C
Probab=16.37 E-value=1.7e+02 Score=16.70 Aligned_cols=39 Identities=18% Similarity=0.372 Sum_probs=24.9
Q ss_pred eEEcCC-CCCeEEEEEEEEeccCCcEEEEEEEeeecCCC--cCeee
Q psy7584 16 STFLRN-SETGIVDQVMLTLNVDGYKFCKIRVRSVRIPQ--IGDKF 58 (67)
Q Consensus 16 S~~~k~-~e~g~Vd~V~~~~~~~g~~~vkV~vR~~R~P~--iGDKF 58 (67)
++..+. ..-|.|++|+=-.+ ..++.|++-. ..++ +||||
T Consensus 36 ~Vy~e~~~~IGkV~dIfGPv~---~pY~sVk~~~-~~~~s~~g~kl 77 (82)
T 2ey4_C 36 RVVDKRLQFVGIVKDVFGPVK---MPYVAIKPKV-SNPEIYVGEVL 77 (82)
T ss_dssp EEECTTCCCCEEEEEEEEESS---SCEEEEEECS-SSCSTTBTCCC
T ss_pred EeEcCCCCEeEEEEEEECCCC---CcEEEEEeCC-CChhhcCCCeE
Confidence 444444 45699998864332 4577777775 4565 88886
No 9
>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*
Probab=16.27 E-value=2.4e+02 Score=19.48 Aligned_cols=24 Identities=13% Similarity=0.026 Sum_probs=19.2
Q ss_pred EEEEEEeeecCCCcCe-eee-eccCC
Q psy7584 41 FCKIRVRSVRIPQIGD-KFA-SRHGQ 64 (67)
Q Consensus 41 ~vkV~vR~~R~P~iGD-KFs-SRHGQ 64 (67)
.+.+.+..+=....|| +|+ ||.+.
T Consensus 365 ~~~~~l~~p~~~~~g~~r~~i~r~~~ 390 (403)
T 3sjy_A 365 EIEVELRRPVAVWSNNIRTVISRQIA 390 (403)
T ss_dssp EEEEEEEEEEECCSSSCEEEEEEEET
T ss_pred eEEEEeCCcEeeccCCEEEEEEEEeC
Confidence 6778888777779999 999 78654
No 10
>1gyu_A Adapter-related protein complex 1 gamma 1 subunit; clathrin, golgi, adaptin, endocytosis, adaptor; 1.81A {Mus musculus} SCOP: b.1.10.2
Probab=15.55 E-value=74 Score=19.76 Aligned_cols=23 Identities=26% Similarity=0.483 Sum_probs=14.7
Q ss_pred eEEEEEEEEeccCCcEEEEEEEee
Q psy7584 25 GIVDQVMLTLNVDGYKFCKIRVRS 48 (67)
Q Consensus 25 g~Vd~V~~~~~~~g~~~vkV~vR~ 48 (67)
+-|.+++...|..+.+ +++++|.
T Consensus 94 ~~ItQ~m~I~n~~~~~-l~LR~kl 116 (140)
T 1gyu_A 94 GTITQVIKVLNPQKQQ-LRMRIKL 116 (140)
T ss_dssp CCEEEEEEEECTTCCC-CCEEEEE
T ss_pred CCEEEEEEEeCCCCCC-EEEEEEE
Confidence 4477777777766644 6666664
Done!