Query 003789
Match_columns 795
No_of_seqs 250 out of 485
Neff 6.4
Searched_HMMs 29240
Date Mon Mar 25 04:05:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003789.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/003789hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2j7n_A RNA-dependent RNA polym 100.0 6E-127 2E-131 1146.8 19.3 545 61-626 131-776 (1022)
2 1b64_A Elongation factor 1-bet 44.2 24 0.00082 30.7 4.5 59 116-177 20-78 (91)
3 1gh8_A Translation elongation 40.7 24 0.00084 30.5 4.0 61 116-179 18-78 (89)
4 1f60_B Elongation factor EEF1B 36.1 26 0.00089 30.7 3.4 59 116-177 23-81 (94)
5 3lu0_D DNA-directed RNA polyme 33.8 22 0.00076 44.7 3.5 53 443-507 415-470 (1407)
6 2yy3_A Elongation factor 1-bet 33.3 31 0.0011 30.0 3.5 59 116-177 20-79 (91)
7 4ayb_A DNA-directed RNA polyme 33.1 13 0.00046 45.1 1.5 52 443-506 411-465 (880)
8 1twf_A B220, DNA-directed RNA 25.1 30 0.001 45.0 2.7 52 443-506 436-490 (1733)
9 2a6h_D DNA-directed RNA polyme 24.2 39 0.0013 43.0 3.4 52 443-506 694-748 (1524)
10 2cos_A Serine/threonine protei 15.6 1.2E+02 0.004 23.9 3.1 43 301-349 7-49 (54)
No 1
>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA polymerase, hydrolase; 2.30A {Neurospora crassa} PDB: 2j7o_A
Probab=100.00 E-value=5.7e-127 Score=1146.81 Aligned_cols=545 Identities=20% Similarity=0.292 Sum_probs=439.5
Q ss_pred CceeecCccccccCccccccCCCCCcEEEEEEeeCCCccccc-----------------------------------ccc
Q 003789 61 SKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYS-----------------------------------TVL 105 (795)
Q Consensus 61 t~i~~~~P~~~~sNRvlR~f~~~~d~FlRV~F~DE~~~~l~~-----------------------------------~~~ 105 (795)
.++.|.+|+++.|||+.|+|++ ||||||+|.+++....+. .+.
T Consensus 131 ~~l~L~p~~l~~s~R~~RrfGs--DrFL~V~fp~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~gr~~r~f~~~d~ 208 (1022)
T 2j7n_A 131 YLVKLKPLMFEQGCRLTRRFGP--DRFFEILIPSPTSTSPSVPPVVSKQPAAVEEVIQWLTMGQHSLVGRQWRAFFAKDA 208 (1022)
T ss_dssp EEEEECCCEEEECBHHHHHHCG--GGEEEEEEECTTCCCSSSCTTSSSSSSCHHHHHHHHHSSCEEETTEEEEEEEEEEC
T ss_pred eEEEecCCccCCCceEEEeeCC--ceeEEEEecCCccccccccchhccchHHHHHHHHHHhcCcEEEecceeEEEeeccc
Confidence 4788999999999999999996 899999999886442110 000
Q ss_pred CCCccC-----CcchhhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCCCHHHHHHHhCCCCCc--
Q 003789 106 SPLISS-----TNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDI-- 178 (795)
Q Consensus 106 ~p~~~~-----~~~~~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~~~~~Ir~~lG~f~~i-- 178 (795)
+++... .+.+....++.|+..++.+|+.|++++|+||++ ||+|++++| .+++|+++||+|||+|+.+
T Consensus 209 ~~r~~~~~~~l~~~~~~~~~~~Rv~~f~~~G~~i~~~~f~fl~~--s~lre~s~~----~~~ls~~~ir~wmg~f~~n~~ 282 (1022)
T 2j7n_A 209 GYRKPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSV--VPAEEPVEQ----RTEFKVSQMLDWLLQLDNNTW 282 (1022)
T ss_dssp C--------------CCCCCEEEEEEEEEEETTCBCCCC---------------C----CBCCCHHHHHHHHHCGGGCTT
T ss_pred cccccccccccccccccccccceEEEEeccCccccCcccccccc--ccccccccc----cCCCCHHHHHHhccChhhccc
Confidence 000000 000011223345556778888999999999998 699999998 4779999999999999986
Q ss_pred cCHHHHHHHHcccccCCcceeeecCCCeEEc-CCccccCCCcccccccccccccHHHHHHHHHHcCCCCCCCceEEEeec
Q 003789 179 KNVAKYAARLGQSFGSSREALHVDSSDIEII-PDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYG 257 (795)
Q Consensus 179 ~~~aK~aARlgq~FS~T~~tv~i~~~~i~~i-~Di~~~~~g~~~~fTDG~G~IS~~la~~I~~~l~l~~~~PSafQiR~~ 257 (795)
++++|||||||||||+|.+++.|.+++|..+ |||+. .+|++|+||||||+||++||++|++++++ ..+|||||||||
T Consensus 283 q~~aK~aARigq~FS~T~~tv~v~~~~I~~~~dDI~~-~~g~g~vFTDGvG~IS~~lA~~I~~~l~l-~~~PSAfQiR~g 360 (1022)
T 2j7n_A 283 QPHLKLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLS-PSGTGEVMNDGVGRMSRSVAKRIRDVLGL-GDVPSAVQGRFG 360 (1022)
T ss_dssp SBHHHHHHTTHHHHSBCEEEEECCGGGEEECSSCCBC-TTSSCCBSSTTEEEECHHHHHHHHHHHTC-SSCCSEEEEEET
T ss_pred chHHHHHHHhhhhhcCccCcEEechHHEEEcCCcccc-CCCCCCeecCCchHhhHHHHHHHHHHcCC-CCCCcEEEEEec
Confidence 4599999999999999999999999999985 78863 34678999999999999999999999999 679999999999
Q ss_pred CceEEEEeCCCCC---ceEEeccccccCCCC-----CCcEEEEecc-CCccccccHHHHHHHhcCCCChHHHHHHHHHH-
Q 003789 258 GYKGVVAVDPTSS---TKLSLRKSMLKYKSE-----STSLDILANS-KYQPCFLNRQLITLLSTLGIRDHVFEKKQREG- 327 (795)
Q Consensus 258 G~KGvl~vdp~~~---~~i~lR~Sm~KF~~~-----~~~leI~~~S-~~~~~~LNrq~I~iL~~lGV~~~vF~~lq~~~- 327 (795)
||||||+|||++. .+|+|||||.||+++ +++||||++| ++.|++||||+|+||+++||+.++|++++.+.
T Consensus 361 GaKGvl~vdp~~~~~~~~I~lRpSm~KF~~~~~d~~~~~LEIv~~s~~~~~~~LNRQlI~lL~~lGV~~~~f~~~i~~~~ 440 (1022)
T 2j7n_A 361 SAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRL 440 (1022)
T ss_dssp TEEEEEEECTTCCSCCCCEEECTTTBCSCCCCCSGGGSEEEEEEECCCCCCCCBCTTTHHHHHHTBSSHHHHHHHHHHHH
T ss_pred cceEEEEECcccCCCcceEEeCCcceeecCCCCCcccCeEEEEeecCCCCCceecHHHHHHHHhCCcCHHHHHHHHHHHH
Confidence 9999999999863 359999999999963 5789999998 58999999999999999999999998875443
Q ss_pred HHH-------HHHHhcCHHHHHHHHHhcC------------------CCCcHHHHHHHHHCCCCCCCcHHHHHHHHHHHH
Q 003789 328 VAQ-------LDAILTDPLKAHEALELMS------------------SGENTNVLKELLMCGYKPDVEPFLLMMLQTFRA 382 (795)
Q Consensus 328 l~~-------l~~~~~d~~~a~~~l~~~~------------------~~~~~~~l~~ll~~Gf~~~~epfl~~~l~~~~~ 382 (795)
.+. ...+++++..++.++.... +...++++..|+.+||+|.++||++++++.++.
T Consensus 441 ~~~L~~~l~~~~~al~~~~~~r~~l~~~~~~~~~r~~~g~~~~~~glp~s~~~~l~~Ll~aGf~p~~epfL~~~l~~~~~ 520 (1022)
T 2j7n_A 441 INDLQRQFSEQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQK 520 (1022)
T ss_dssp HHHHHHHHHHHHHHTTSHHHHHHHHHHHSCCHHHHHHHTSCCEETTEESSHHHHHHHHHHTTCCTTTBHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHhhccccccccccccchhhccCccchHHHHHHHHHcCCCccccHHHHHHHHHHHH
Confidence 222 3445677766666554221 112346789999999999999999999999999
Q ss_pred HHHHHhhcceeEEecCceeeeeecCCCCCCCCCCEEEEeccccccccccCcCCCCCCCceeee-eeEEEeeCCCCCCCCe
Q 003789 383 SNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVE-GKVVVAKNPCLHPGDM 461 (795)
Q Consensus 383 ~~l~~lk~k~rI~Vp~s~~l~GV~DetG~L~~gEVfvq~s~~~~~~~~~~~~~~~~~~~~~i~-G~VlV~RnP~lhPgDI 461 (795)
..|+.||+|+||+||+|++||||+||||+|+||||||+++.... + ..+...++. |+|+|+||||+|||||
T Consensus 521 ~~l~~LK~k~rI~V~~s~~L~GV~DetG~L~eGEVfv~~s~~~~----~-----~~~~~~~l~gg~VlVtRnP~lhPGDI 591 (1022)
T 2j7n_A 521 RKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFR----D-----EEESFTLLSDCDVLVARSPAHFPSDI 591 (1022)
T ss_dssp HHHHHHHHHCCBCCSSEEEEEEEECTTSCCCTTEEEEEEEEEEE----E-----TTEEEEEECSEEEEEECSSCCSGGGE
T ss_pred HHHHHHHHhhccccccceEEEEEecCCCccCCCeEEEEeccccc----c-----CCCCceeecCceEEEEeCCCcCcCce
Confidence 99999999999999999999999999999999999999986421 0 112234555 6999999999999999
Q ss_pred eEEEeecCCCCCCCCCeEEecCCCCCCCCCcccCCCCCCCeEEEEecCCCCCCCCCCCCCCCCCcc-------ccc----
Q 003789 462 RVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPE-------KVL---- 530 (795)
Q Consensus 462 r~v~AV~~P~L~hl~dvIVFp~~G~rplps~lsGgDlDGD~y~ViWD~~Lv~~~~~~P~~y~~~~~-------~~l---- 530 (795)
|+|+||++|+||||+||||||++|+||+||||||||||||+|||||||+|||++.+.|++..+... ..+
T Consensus 592 rvv~AV~~PeL~hL~DvIVFp~kG~Rplps~lSGGDLDGD~Y~ViWD~~Lv~~f~na~~p~~p~~~~y~~k~~~~~~~~~ 671 (1022)
T 2j7n_A 592 QRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLM 671 (1022)
T ss_dssp EEEEECCCGGGTTCCSEEEECSCSSSCHHHHTTTCCSSSCEEEEECCHHHHHTBCCCCCCCCCCCTTTSEECCCBHHHHH
T ss_pred eEEEeccChhhhccCCeEEccCCCCCCChhHhcCCCCCCCeEEEEechhhcccccCCCCCCCCchhhhccccccchhhhh
Confidence 999999999999999999999999999999999999999999999999999998776655332211 000
Q ss_pred C--------CCCCHH-HHHHHHHHhhccChhhhHHHHHHHHhccCCCCCCCHHHHHHHHHHhhcccccCCCCcccc--CC
Q 003789 531 A--------RDMTIE-DVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATI--PS 599 (795)
Q Consensus 531 ~--------~~~~~~-di~~ff~~y~~~d~LG~isn~hl~~aD~~~~g~~~~~cl~LA~l~s~aVD~~KtG~~~~~--p~ 599 (795)
. ++++.+ .+++||+.||++|.||+|||+|+..+|++ .|+.+++|++||+|||+||||||||+++++ |+
T Consensus 672 ~~~~~g~~~~~~~~~d~i~~ff~~~m~~d~LG~is~~h~~~~~~~-~g~~~~~cl~LA~L~S~AVD~~KtG~pv~~~~~~ 750 (1022)
T 2j7n_A 672 ASHGTGSAAKEQTTYDMIQKSFHFALQPNFLGMCTNYKERLCYIN-NSVSNKPAIILSSLVGNLVDQSKQGIVFNEASWA 750 (1022)
T ss_dssp TTTCSSHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHH-TCSSSHHHHHHHHHHHHHTTHHHHTEECCHHHHH
T ss_pred hccccccccCchhHHHHHHHHHHHhcCcchHHHHHHHHHHHHhhc-CCCCCHHHHHHHHHHHHhhCccccCcccChhhhh
Confidence 0 112333 45678999999999999999999888775 699999999999999999999999999998 77
Q ss_pred CCCCCCCCCccCCCCCCcccccchhhH
Q 003789 600 GLRVEIYPDFMEKQDKTCYESQRVIGK 626 (795)
Q Consensus 600 ~l~~~~~Pdfm~k~~~~~Y~S~~ilG~ 626 (795)
+++++.+||||+ +++|+|+|++++|+
T Consensus 751 ~lr~~~~p~~m~-~~~p~Y~s~~~~g~ 776 (1022)
T 2j7n_A 751 QLRRELLGGALS-LPDPMYKSDSWLGR 776 (1022)
T ss_dssp HHHHHHSCCSSC-CCCCGGGSSSCCSS
T ss_pred hhhHhhCCCCCC-CCCCccccCcccCC
Confidence 889999999999 67899999877665
No 2
>1b64_A Elongation factor 1-beta; guanine nucleotide exchange factor, G-protein, translation elongation; NMR {Homo sapiens} SCOP: d.58.12.1
Probab=44.22 E-value=24 Score=30.71 Aligned_cols=59 Identities=19% Similarity=0.309 Sum_probs=50.2
Q ss_pred hhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCCCHHHHHHHhCCCCC
Q 003789 116 RHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRD 177 (795)
Q Consensus 116 ~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~~~~~Ir~~lG~f~~ 177 (795)
....+.++|+.++..|+..++-..+.+||+ ++.=.+.++-++...+.+++.+-+..|..
T Consensus 20 Dl~~L~~~Vr~i~~~Gl~wg~~k~~piafG---ikkL~i~~vveDd~v~tD~lee~i~~~ed 78 (91)
T 1b64_A 20 DMAKLEECVRSIQADGLVWGSSKLVPVGYG---IKKLQIQCVVEDDKVGTDMLEEQITAFED 78 (91)
T ss_dssp CHHHHHHHHHHCCCTTCEEEEEEEEESSSS---CEEEEEEEEECTTSSCHHHHHHHHTTCTT
T ss_pred CHHHHHHHHHHhCcCCcEEEEEEEEEEEee---EEEEEEEEEEECCccChHHHHHHHHhccC
Confidence 367788999999999999999999999998 77777777777777889999888877765
No 3
>1gh8_A Translation elongation factor 1BETA; alpha-beta sandwich, gene regulation, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.58.12.1
Probab=40.71 E-value=24 Score=30.54 Aligned_cols=61 Identities=11% Similarity=0.188 Sum_probs=50.4
Q ss_pred hhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCCCHHHHHHHhCCCCCcc
Q 003789 116 RHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIK 179 (795)
Q Consensus 116 ~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~~~~~Ir~~lG~f~~i~ 179 (795)
....+.+.|+.++..|+.+++-..+.+||+ |+.=.+.++-++...+.+.+-+-+..|...+
T Consensus 18 Dl~~L~~~vk~~~~~gl~w~~~k~~piafG---lk~L~i~~vveD~~~~td~lee~i~~~e~Vq 78 (89)
T 1gh8_A 18 DLEALKKEIQERIPEGTELHKIDEEPIAFG---LVALNVMVVVGDAEGGTEAAEESLSGIEGVS 78 (89)
T ss_dssp CHHHHHHHHHHHSCTTSEECCCCEEECSSS---CEEEEEEEEESSSCGGGGHHHHHHTTSCSSE
T ss_pred CHHHHHHHHHHhccCCcEEeeeeEEEEEcc---eeeEEEEEEEEcCCcChHHHHHHHhccCCcc
Confidence 367788999999999999999999999998 7777777777777778888887777776543
No 4
>1f60_B Elongation factor EEF1BA; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: d.58.12.1 PDB: 1g7c_B* 2b7c_B 2b7b_B 1ije_B* 1ijf_B*
Probab=36.11 E-value=26 Score=30.69 Aligned_cols=59 Identities=15% Similarity=0.293 Sum_probs=48.7
Q ss_pred hhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCCCHHHHHHHhCCCCC
Q 003789 116 RHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRD 177 (795)
Q Consensus 116 ~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~~~~~Ir~~lG~f~~ 177 (795)
....+.+.|+.++..|+.+++-..+.+||+ |+.=.+.++-++...+.+++-+-+..|..
T Consensus 23 Dl~~L~~~Vr~i~~~Gl~wg~~k~~piafG---lkkL~i~~vveDd~~~tD~lee~i~~~ed 81 (94)
T 1f60_B 23 NLEEMVANVKAIEMEGLTWGAHQFIPIGFG---IKKLQINCVVEDDKVSLDDLQQSIEEDED 81 (94)
T ss_dssp CHHHHHHHHHTCCCTTEEEEEEEEEEEETT---EEEEEEEEEEETTTCCHHHHHHHHHTCTT
T ss_pred CHHHHHHHHHHhCcCCcEEEEEEEEEEeee---eEEEEEEEEEECCccChHHHHHHHHhccC
Confidence 367788999999999999999999999998 77766777767777888888877766654
No 5
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D*
Probab=33.76 E-value=22 Score=44.66 Aligned_cols=53 Identities=26% Similarity=0.441 Sum_probs=38.1
Q ss_pred eeee-eEEEeeCCCCCCCCeeEEEeecCCCCCCCCCeEEecCCCCCCCCCccc--CCCCCCCeEEEEe
Q 003789 443 VVEG-KVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECS--GSDLDGDVYFVCW 507 (795)
Q Consensus 443 ~i~G-~VlV~RnP~lhPgDIr~v~AV~~P~L~hl~dvIVFp~~G~rplps~ls--GgDlDGD~y~ViW 507 (795)
++.| .|+.-|.|+||.--||-++++-.|. +-=|=+|.-|+ ..|+|||+-.|--
T Consensus 415 vi~gd~VLlNRqPTLHr~sIma~~~~l~~~------------ktirlnp~vC~~yNADFDGDeMnvHv 470 (1407)
T 3lu0_D 415 VIREHPVLLNRAPTLHRLGIQAFEPVLIEG------------KAIQLHPLVCAAYNADFDGDQMAVHV 470 (1407)
T ss_dssp TTTSCCEEEEESSCCSGGGEEEEEEEEESS------------SSEEECTGGGGTTTCCSSSCEEEEEC
T ss_pred HhhceeeeecCCcccccccceeeeEEecCC------------ceEEeChhhcccccCCcccceeeeec
Confidence 4567 6999999999999999999876553 11122333333 5799999988764
No 6
>2yy3_A Elongation factor 1-beta; structural genomics, NPPSFA, national Pro protein structural and functional analyses; 2.50A {Pyrococcus horikoshii}
Probab=33.33 E-value=31 Score=30.01 Aligned_cols=59 Identities=10% Similarity=0.214 Sum_probs=48.0
Q ss_pred hhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCC-CHHHHHHHhCCCCC
Q 003789 116 RHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPEL-TAADIRESMGDFRD 177 (795)
Q Consensus 116 ~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~-~~~~Ir~~lG~f~~ 177 (795)
....+.+.|+.++..|+.+++-..+.+||+ |+.=.+.++-++... +.+++-+-+..|..
T Consensus 20 Dl~~L~~~vk~~~~~gl~w~~~k~~pIafG---lk~L~i~~vveD~~~~~tD~lee~i~~~e~ 79 (91)
T 2yy3_A 20 NLDELEEKLKKVIPEKYGLAKVEREPIAFG---LVALKFYVLGRDEEGYSFDEVAEKFEEVEN 79 (91)
T ss_dssp CHHHHHHHHHHHSCTTCEEEEEEEEECTTS---CEEEEEEEEECSSTTCCHHHHHHHHHHSTT
T ss_pred CHHHHHHHHHHhccCCcEEeeeeEEEEEcc---eeeEEEEEEEECCCccccHHHHHHHhcCCC
Confidence 367788999999999999999999999998 777777777777667 88887766655554
No 7
>4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A 2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A
Probab=33.11 E-value=13 Score=45.10 Aligned_cols=52 Identities=25% Similarity=0.356 Sum_probs=37.4
Q ss_pred eeee-eEEEeeCCCCCCCCeeEEEeecCCCCCCCCCeEEecCCCCCCCCCccc--CCCCCCCeEEEE
Q 003789 443 VVEG-KVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECS--GSDLDGDVYFVC 506 (795)
Q Consensus 443 ~i~G-~VlV~RnP~lhPgDIr~v~AV~~P~L~hl~dvIVFp~~G~rplps~ls--GgDlDGD~y~Vi 506 (795)
++.| .|+.-|.|.||.--||=++++-.|. + -=|=||.-|+ ..|+|||+-.|-
T Consensus 411 l~dgd~VLlNRqPTLHr~si~a~~~~l~~g-k-----------tirlhp~vC~~yNADFDGDeMnvH 465 (880)
T 4ayb_A 411 LTDGDVVLFNRQPSLHRISMMAHRVRVLKG-L-----------TFRLNLLVCPPYNADFDGDEMNLH 465 (880)
T ss_dssp CCTTCEEEEECSSCCSGGGEEEEEEEECSS-S-----------SEEECGGGHHHHTCCSSSCEEEEE
T ss_pred eecCcEEEecCCCcccccceeeeeeecccC-c-----------eeeeccccccccccCcccceeEEe
Confidence 4456 6899999999999999999987764 1 0111233333 479999998874
No 8
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Probab=25.07 E-value=30 Score=45.01 Aligned_cols=52 Identities=25% Similarity=0.371 Sum_probs=38.5
Q ss_pred eeee-eEEEeeCCCCCCCCeeEEEeecCCCCCCCCCeEEecCCCCCCCCCccc--CCCCCCCeEEEE
Q 003789 443 VVEG-KVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECS--GSDLDGDVYFVC 506 (795)
Q Consensus 443 ~i~G-~VlV~RnP~lhPgDIr~v~AV~~P~L~hl~dvIVFp~~G~rplps~ls--GgDlDGD~y~Vi 506 (795)
++.| .|++-|.|.||.--||=++++-.|- +-=|=+|.-|+ ..|+|||+-.|-
T Consensus 436 l~~gd~VllNRqPTLHr~si~a~~~~v~~~------------~tirlnp~vC~~yNADFDGDeMnvH 490 (1733)
T 1twf_A 436 IMDNDPVLFNRQPSLHKMSMMAHRVKVIPY------------STFRLNLSVTSPYNADFDGDEMNLH 490 (1733)
T ss_dssp CCTTCEEEEECSSCCSGGGEEEEEEEEESS------------SSEEECGGGHHHHTCCSSSCEEEEE
T ss_pred eccCCEEEEeCCCccccccceeEEEEEccC------------CeEEeChhhcCCCCccchhhhhhhh
Confidence 5567 6999999999999999998876653 11122344444 489999999876
No 9
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Probab=24.23 E-value=39 Score=43.03 Aligned_cols=52 Identities=29% Similarity=0.498 Sum_probs=37.2
Q ss_pred eeee-eEEEeeCCCCCCCCeeEEEeecCCCCCCCCCeEEecCCCCCCCCCccc--CCCCCCCeEEEE
Q 003789 443 VVEG-KVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECS--GSDLDGDVYFVC 506 (795)
Q Consensus 443 ~i~G-~VlV~RnP~lhPgDIr~v~AV~~P~L~hl~dvIVFp~~G~rplps~ls--GgDlDGD~y~Vi 506 (795)
++.| .|+.-|.|+||.--||=++++-.|. +-=|=||.-|+ ..|+|||+-.|-
T Consensus 694 vidgd~VLlNRqPTLHRlSIqAf~~kl~~g------------kTiRLhplVC~pyNADFDGDEMnvH 748 (1524)
T 2a6h_D 694 VIHGKVVLLNRAPTLHRLGIQAFQPVLVEG------------QSIQLHPLVCEAFNADFDGDQMAVH 748 (1524)
T ss_dssp HSTTCCEEEECSSCCSGGGEEEEEEEEESS------------SCEEECSGGGTTTTCCTTTCEEEEE
T ss_pred eccCceEEEccCCcccccccceeEEEEcCC------------ccceeChhhcCCccCCcccceeeEe
Confidence 4567 6999999999999999999875443 11122333333 479999998874
No 10
>2cos_A Serine/threonine protein kinase LATS2; UBA domain, structure genomics, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1
Probab=15.64 E-value=1.2e+02 Score=23.85 Aligned_cols=43 Identities=23% Similarity=0.207 Sum_probs=27.2
Q ss_pred cccHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcC
Q 003789 301 FLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMS 349 (795)
Q Consensus 301 ~LNrq~I~iL~~lGV~~~vF~~lq~~~l~~l~~~~~d~~~a~~~l~~~~ 349 (795)
-.|||++..|.++|.+.+-- +.+++.... ..-+.|.++|..++
T Consensus 7 ~vn~qmlq~L~eMGFd~era----e~Alk~Tg~--~Gle~AmewL~k~~ 49 (54)
T 2cos_A 7 GVNRQMLQELVNAGCDQEMA----GRALKQTGS--RSIEAALEYISKMS 49 (54)
T ss_dssp SCCHHHHHHHHHHHCCHHHH----HHHHHHHTS--CCHHHHHHHHHHHS
T ss_pred hhHHHHHHHHHHcCCCHHHH----HHHHHHhCc--ccHHHHHHHHHHhc
Confidence 78999999999999997632 223332211 23466667666554
Done!