Query 016805
Match_columns 382
No_of_seqs 206 out of 1192
Neff 5.5
Searched_HMMs 29240
Date Mon Mar 25 04:05:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016805.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/016805hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2pa8_D DNA-directed RNA polyme 100.0 4.7E-69 1.6E-73 516.9 23.7 255 76-382 1-261 (265)
2 1twf_C B44.5, DNA-directed RNA 100.0 6.7E-68 2.3E-72 520.7 15.8 250 74-381 4-262 (318)
3 3h0g_C DNA-directed RNA polyme 100.0 8.4E-68 2.9E-72 514.8 12.9 250 74-382 3-264 (297)
4 1bdf_A RNA polymerase alpha su 100.0 5.2E-49 1.8E-53 372.5 16.2 213 71-379 7-233 (235)
5 2a6h_A DNA-directed RNA polyme 100.0 7.5E-49 2.5E-53 385.1 15.3 209 72-379 6-227 (315)
6 3lu0_A DNA-directed RNA polyme 100.0 4.4E-38 1.5E-42 309.8 8.6 221 68-379 4-233 (329)
7 2pa8_L DNA-directed RNA polyme 94.4 0.057 1.9E-06 43.6 5.4 35 76-110 1-35 (92)
8 1xpp_A TA1416, DNA-directed RN 93.9 0.074 2.5E-06 44.8 5.2 37 74-110 9-45 (115)
9 2pa8_L DNA-directed RNA polyme 92.3 0.24 8.1E-06 39.9 5.7 38 344-381 50-87 (92)
10 3h0g_K DNA-directed RNA polyme 91.0 0.33 1.1E-05 41.2 5.6 38 344-381 67-104 (123)
11 1twf_K B13.6, DNA-directed RNA 91.0 0.43 1.5E-05 40.3 6.2 38 344-381 68-105 (120)
12 1twf_K B13.6, DNA-directed RNA 89.5 0.23 8E-06 41.9 3.4 40 73-113 16-55 (120)
13 1xpp_A TA1416, DNA-directed RN 87.3 0.74 2.5E-05 38.6 5.0 37 344-381 60-96 (115)
14 3h0g_K DNA-directed RNA polyme 77.1 1.1 3.9E-05 37.9 2.3 34 77-110 17-52 (123)
15 1jnr_B Adenylylsulfate reducta 30.6 23 0.00079 30.1 2.2 36 291-329 20-55 (150)
16 3gyx_B Adenylylsulfate reducta 29.2 25 0.00085 30.4 2.2 36 291-329 19-54 (166)
17 7fd1_A FD1, protein (7-Fe ferr 24.5 51 0.0017 25.6 3.1 33 291-329 15-47 (106)
18 2gmh_A Electron transfer flavo 23.6 35 0.0012 35.0 2.4 39 290-329 522-561 (584)
No 1
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_D 3hkz_D 2waq_D 2wb1_D 2y0s_D
Probab=100.00 E-value=4.7e-69 Score=516.93 Aligned_cols=255 Identities=31% Similarity=0.516 Sum_probs=229.9
Q ss_pred ceEEEEEecCceEEEEEEccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCccC--Cceeeeec
Q 016805 76 FRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVD--PRLFEYMS 153 (382)
Q Consensus 76 ~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~~d--~~~~~~~~ 153 (382)
|+|++.++++++++|+|+|++++|||||||||||||||+||+.|+|++|||+|+||+|||||||||+..+ ++.+.|+.
T Consensus 1 ~~i~i~~~~~~~~~f~l~g~~~t~~NalRRills~vp~~AI~~V~i~~Ntsvl~DE~v~Hr~~~Ip~~~edv~k~~~~~~ 80 (265)
T 2pa8_D 1 MSINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPE 80 (265)
T ss_dssp -CEEEEEECSSEEEEEEESSCHHHHHHHHHHHHHSCCEEEEEEEEEEEECSSSCHHHHHHHHTTSCBCCTTHHHHSCCGG
T ss_pred CeEEEEEcCCCEEEEEEeCCCHHHHHHHHHHHHHcCccceEEEEEEEeCCCccccHHHHHhhcCCcCcccCchhhccccc
Confidence 5789999999999999999999999999999999999999999999999999999999999999999876 68888876
Q ss_pred cc---CCCCCCceEEEEEEEEeecCCCcceEEcCCceecCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCc
Q 016805 154 EN---DTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNNPI 230 (382)
Q Consensus 154 ~~---d~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p~g~q~~~~~~~~~~~~~~~~~~~~f~~~q~~~~~f~~~~i 230 (382)
.| +..|+.|+++|+|+++|+++ +..|||+||++. ++++
T Consensus 81 ~~~~~~~~~~~~~~~~~l~~~~~~g--~~~V~a~Di~~~-------------------------------------~~~v 121 (265)
T 2pa8_D 81 ECIECTENCEKCYTKIYIEAEAPNE--PRMIYSKDIKSE-------------------------------------DPSV 121 (265)
T ss_dssp GCTTCCSSCTTTEEEEEEEEECCSS--CEEEEGGGCEES-------------------------------------STTC
T ss_pred cccccccCCCCcEEEEEEEEEecCC--CcEEEhhhcccC-------------------------------------CCCc
Confidence 54 45677899999999999543 489999999962 2358
Q ss_pred cccCC-eEEEEeCCCceEEEEEEEEecccccccccCccceeeeccccceecccccchhhHHHHhhcCCCceEEeccCCCC
Q 016805 231 RPMLD-ITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPVNVFDIEDIGSG 309 (382)
Q Consensus 231 ~~v~~-IlIakL~pGQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i~~~~a~~l~~~~p~gvi~id~~~~g 309 (382)
+|+|| |+||||++||+|+|+|+|.||+||+||||+|+++++||++|.|.+. ..+.++++.||.|+|.+++.
T Consensus 122 ~~~~~~i~I~~L~~g~~l~~e~~~~~G~G~~~ak~~pv~t~~yr~~p~I~i~-----~~C~~C~~~CP~g~I~id~~--- 193 (265)
T 2pa8_D 122 VPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSLSVVRYYPKVEIL-----ANCEKAVNVCPEGVFELKDG--- 193 (265)
T ss_dssp CBSCSCCEEEEECTTCEEEEEEEEEEECTTTCGGGCCEEEEEEEEEEEEEEC-----SCCTTHHHHCTTCCEEEETT---
T ss_pred eecCCCcEEEEeCCCCEEEEEEEEecCccccccCcccceeeeeccccchhhh-----hhHHHHHHhCcccCeEecCC---
Confidence 89999 9999999999999999999999999999999999999999999987 34667888999999999852
Q ss_pred ceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhhC
Q 016805 310 KKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERVITELS 382 (382)
Q Consensus 310 ~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L~ 382 (382)
..++.++++|++|++|++ .. ++.|.+.+++|+|+|+|||+|+++|++++.+|+++|++||+.|++.|+
T Consensus 194 --~~v~~d~~~C~~C~~C~~-vC--p~aI~~~~~~d~~i~~VEt~Gsl~Pee~v~~A~~iL~~~~~~~~~~l~ 261 (265)
T 2pa8_D 194 --KLSVKNELSCTLCEECLR-YC--NGSIRISFVEDKYILEIESVGSLKPERILLEAGKSIIRKIEELEKKLV 261 (265)
T ss_dssp --EEEESCGGGCCCCCHHHH-HH--TTSEEEEEEEEEEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred --eeEEeccccCCCchHHHH-hC--CCceEEEecCCeEEEEeccCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 266789999999999998 21 268999999999999999999999999999999999999999998773
No 2
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1 d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C 1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C* 1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C 1y77_C* ...
Probab=100.00 E-value=6.7e-68 Score=520.67 Aligned_cols=250 Identities=30% Similarity=0.496 Sum_probs=212.9
Q ss_pred CCceEEEEEecCceEEEEEEccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCc-cCCceeeee
Q 016805 74 NNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPII-VDPRLFEYM 152 (382)
Q Consensus 74 ~~~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~-~d~~~~~~~ 152 (382)
++++|+|.++++++++|+|+|++++||||||||||||||||||+.|+|++|||||+||+|||||||||+. +|++.|.|+
T Consensus 4 ~~p~I~i~~~~~~~~kF~leG~~~tlaNALRRiLLSevPg~AI~~V~I~~NTSvl~DE~vaHrlglIP~v~eDvk~l~~~ 83 (318)
T 1twf_C 4 EGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDIEQLEYS 83 (318)
T ss_dssp CSSBCCCSCCCSSEECCEEBSSCHHHHHHHHHHHHHCCCEEEEEEEEEEEECSSSCHHHHHHHHHTSCEEETTGGGSCCT
T ss_pred cCCeEEEEEecCCEEEEEEEccChhHHHHHHHHHHHcCccceEEEEEEEeCCcccccceeEeecccCCCcccChhheEEe
Confidence 4577899999999999999999999999999999999999999999999999999999999999999998 589999998
Q ss_pred ccc--CCCCCCceEEEEEEEEeecCCCcceEEcCCceecC--CCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCC
Q 016805 153 SEN--DTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLP--NGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEFSNN 228 (382)
Q Consensus 153 ~~~--d~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p--~g~q~~~~~~~~~~~~~~~~~~~~f~~~q~~~~~f~~~ 228 (382)
..| +..|+.|+++|+|+|+|++++ ++.|||+||+|.+ .|++ |.++
T Consensus 84 ~~~~~~~~c~~~~v~l~L~v~c~~~g-~~~Vta~Di~~~~~~~~~~------------------------------~~~p 132 (318)
T 1twf_C 84 RDCFCEDHCDKCSVVLTLQAFGESES-TTNVYSKDLVIVSNLMGRN------------------------------IGHP 132 (318)
T ss_dssp TTSSSSSCCTTTEEEEEEEEECCSSS-CEEEEGGGEEECSCCTTCS------------------------------EEEE
T ss_pred eccccccCCCCceEEEEEEEEecCCC-CeeEEhHhccccCcccccc------------------------------ccCC
Confidence 654 457889999999999998876 5899999999965 2211 2233
Q ss_pred Cc-cccCC-eEEEEeCCCceEEEEEEEEecccccccccCccceeeeccccceeccccc--chhhHHHHhhcCCCceEEec
Q 016805 229 PI-RPMLD-ITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDV--EDEDAEKLVKTCPVNVFDIE 304 (382)
Q Consensus 229 ~i-~~v~~-IlIakL~pGQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i--~~~~a~~l~~~~p~gvi~id 304 (382)
.+ .++|| |+||||++||+|+|+|+|+||+||+|||||||++|+||++|++++.+++ ...++. ++||+
T Consensus 133 ~v~ei~npdi~IakL~~gq~L~me~~a~kG~G~~hAk~sPva~~~y~~~P~~~~~~~~~~i~~D~~---~~f~p------ 203 (318)
T 1twf_C 133 IIQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSA---KEWPQ------ 203 (318)
T ss_dssp CCCSTTSCCSEEEEECTTCEEEEEEEEEEECTTTCGGGCCEEEEEEEECSSTTSCCSCCCCSSCHH---HHSCC------
T ss_pred CccccCCCCeEEEEECCCCEEEEEEEEEcCcccccccccccccceecccccccccccccccccCch---hhCCC------
Confidence 45 37899 9999999999999999999999999999999999999999999886532 112222 23442
Q ss_pred cCCCCceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 305 DIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 305 ~~~~g~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
.++|.++.++.. ..+|.+++++|||+|+|||+|+|+|++||.+|++||++||+.|++.|
T Consensus 204 -------------v~~v~~~ve~~~-----~~rv~~~~d~dkfif~VET~Gsi~Peeav~~A~kIL~~kl~~f~~~l 262 (318)
T 1twf_C 204 -------------SKNCEYEDPPNE-----GDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLAL 262 (318)
T ss_dssp -------------CGGGTTSCCCCS-----SSCCCTTCCCCCEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred -------------CcceeEEecccc-----cccccccccCCEEEEEEEecCCcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 245666666532 24588889999999999999999999999999999999999999876
No 3
>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=8.4e-68 Score=514.81 Aligned_cols=250 Identities=29% Similarity=0.429 Sum_probs=207.1
Q ss_pred CCceEEEEEecCceEEEEEEccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCccC-C-----c
Q 016805 74 NNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIVD-P-----R 147 (382)
Q Consensus 74 ~~~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~~d-~-----~ 147 (382)
.+++|+|.++++++++|+|+|+|++||||||||||||||||||+.|+|++|||+||||+|||||||||+..+ . +
T Consensus 3 ~~p~I~i~~~~~~~~~F~l~g~~~tiaNALRRiLLSeVPt~AI~~V~I~~NtSvl~DE~laHrlglIP~v~edv~e~~~~ 82 (297)
T 3h0g_C 3 SETHITIRNISKNSVDFVLTNTSLAVANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHRLGMIPLDSSNIDEPPPV 82 (297)
T ss_dssp -CCSBCCCCBCSSEEEEEECSCCHHHHHHHHHHHHSSCCEEEEEEEEEEEECSSSCHHHHHHHHHHSCBCCTTCSSCSSS
T ss_pred CCCeEEEEEccCCEEEEEEECCChhHHHHHHHHHHHcCccceEEEEEEEeCCccccccceeeeeccCCcccccccccccc
Confidence 357899999999999999999999999999999999999999999999999999999999999999999864 3 3
Q ss_pred eeeeecccC--CCCCCceEEEEEEEEeecCCCcceEEcCCceecCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCC
Q 016805 148 LFEYMSEND--TSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQDLLPEF 225 (382)
Q Consensus 148 ~~~~~~~~d--~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p~g~q~~~~~~~~~~~~~~~~~~~~f~~~q~~~~~f 225 (382)
.|+|+..|+ ..|+.|+++|+|+|+|+++. +++|||+||+|.+. .+ |
T Consensus 83 ~l~~k~~c~~~~~~~~~~v~l~L~v~g~~~~-~~~Vta~Dl~~~~~-~~------------------------------~ 130 (297)
T 3h0g_C 83 GLEYTRNCDCDQYCPKCSVELFLNAKCTGEG-TMEIYARDLVVSSN-SS------------------------------L 130 (297)
T ss_dssp CCCCSSSCSSSSSCGGGSCEEEEEECCCCSS-CEEEEGGGCBCCSC-CS------------------------------S
T ss_pred eeEeccccccccCCCCceEEEEEEEEeccCC-CceEEcccccccCc-cc------------------------------c
Confidence 488886654 56788999999999998655 58999999999541 11 0
Q ss_pred CCCCc--cccCC-eEEEEeCCCceEEEEEEEEecccccccccCccceeeeccccceecccccc-hhhHHHHhhcCCCceE
Q 016805 226 SNNPI--RPMLD-ITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVE-DEDAEKLVKTCPVNVF 301 (382)
Q Consensus 226 ~~~~i--~~v~~-IlIakL~pGQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i~-~~~a~~l~~~~p~gvi 301 (382)
. .++ .+++| |+||||+|||+|+|+|+|+||+||+||||||||+|+|||+|+|+|+++.. .+ +.+.+.||++++
T Consensus 131 ~-~pv~~~~~n~di~IakL~~gq~l~le~~a~kG~G~~HAKwsPv~~~~y~~~P~i~l~~~~~~~e--~~~~~~~P~~~~ 207 (297)
T 3h0g_C 131 G-HPILADPKSRGPLICKLRKEQEISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFE--NDADAEWPKSKN 207 (297)
T ss_dssp C-CBCCCSTTSCCSEEEEECSSCCEEEEEEEEEECGGGCTTSCCBCCCCCCSSSSCSSCCSCCCCS--SCSTTTSCCCGG
T ss_pred c-ccccccCCCCCeEEEEECCCCEEEEEEEEECCEeccccccCcceEEEEEeccceEEcccccccc--chhHhhCCcccc
Confidence 0 011 25789 99999999999999999999999999999999999999999999987521 00 123456887765
Q ss_pred EeccCCCCceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 302 DIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 302 ~id~~~~g~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
... +..|. ....+.+.+++|||+|+|||+|+|+|++||.+|+++|++|++.|++.|
T Consensus 208 ~~~-------------------~~~~~-----~~~~~~~~~~~dkfif~VET~Gsl~p~eiv~~A~~iL~~kl~~f~~~L 263 (297)
T 3h0g_C 208 ADW-------------------EEPPR-----EGEPFNFQEEPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDL 263 (297)
T ss_dssp GTT-------------------CCCCS-----CCSCCCSSCCCCCEEEEEEBCSSSCTTTTTHHHHHHHHHHHHHHHHHH
T ss_pred cee-------------------ecccc-----ccccccccccCCEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 321 11110 112366788999999999999999999999999999999999999887
Q ss_pred C
Q 016805 382 S 382 (382)
Q Consensus 382 ~ 382 (382)
+
T Consensus 264 ~ 264 (297)
T 3h0g_C 264 D 264 (297)
T ss_dssp H
T ss_pred H
Confidence 3
No 4
>1bdf_A RNA polymerase alpha subunit; nucleotidyltransferase, assemble; 2.50A {Escherichia coli} SCOP: d.74.3.1 d.181.1.1
Probab=100.00 E-value=5.2e-49 Score=372.46 Aligned_cols=213 Identities=18% Similarity=0.269 Sum_probs=180.2
Q ss_pred hccCCceEEEEEecCceEEEEEE----ccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCcc-C
Q 016805 71 HFCNNFRVEVIRLTKDDMEFDLI----GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIV-D 145 (382)
Q Consensus 71 ~f~~~~~I~i~~~~~~~~~F~l~----Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~~-d 145 (382)
+|.++.+|++.+.++++++|.|+ |++.++||||||+|||||||+||+.|+| |.++||||+||+.. |
T Consensus 7 ~~~~p~~i~i~~~~~~~~~F~l~Ple~G~~~tlgNaLRRiLLsevpg~AI~~V~I---------e~v~He~~~Ipgv~Ed 77 (235)
T 1bdf_A 7 EFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVTEVEI---------DGVLHEYSTKEGVQED 77 (235)
T ss_dssp CSCCCCEEEEEESSSSEEEEEEEEEETTHHHHHHHHHHHHHTTSCCCEEEEEEEE---------TTCCSTTCCCTTBSSC
T ss_pred hhcCCceEEEEEccCCEEEEEEEecCCCCchHHHHHHHHHHHhcCCceEEEEEEE---------cceeeccccCCCccCC
Confidence 79988889999999999999997 9999999999999999999999999999 67999999999985 7
Q ss_pred -------CceeeeecccCCCCCCceEEEEEEEEeecCCCcceEEcCCceecCCCCCCCCCCCCCCCCCCCCCcccccCCC
Q 016805 146 -------PRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSS 218 (382)
Q Consensus 146 -------~~~~~~~~~~d~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p~g~q~~~~~~~~~~~~~~~~~~~~f~~~ 218 (382)
.+.+.|+..+ .|+++++|+++|+ +.|||+||+.
T Consensus 78 v~~iilNlk~i~~~~~~-----~~~~~~~L~v~gp-----~~VtA~Di~~------------------------------ 117 (235)
T 1bdf_A 78 ILEILLNLKGLAVRVQG-----KDEVILTLNKSGI-----GPVTAADITH------------------------------ 117 (235)
T ss_dssp HHHHHHHHHTCCEECSS-----CSEEEEEEEEESS-----EEEEGGGBCC------------------------------
T ss_pred HHHHhhchheeEEeccC-----CceEEEEEEEecC-----eEEEhHhCCC------------------------------
Confidence 4667776542 4899999999974 8999999984
Q ss_pred CCCCCCCCCCCccccCC-eEEEEeCC-CceEEEEEEEEecccccccccCccceeeeccccceecccccchhhHHHHhhcC
Q 016805 219 QDLLPEFSNNPIRPMLD-ITIARLGP-GQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTC 296 (382)
Q Consensus 219 q~~~~~f~~~~i~~v~~-IlIakL~p-GQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i~~~~a~~l~~~~ 296 (382)
+.+++++|| ++||||++ ||+|+|+|+|.||+||+|||||-. .+ .++|
T Consensus 118 --------~~~v~ivnpd~~IatL~~~g~~l~~e~~~~kG~Gy~~ak~si~-------------~~----------~~~~ 166 (235)
T 1bdf_A 118 --------DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIH-------------SE----------EDER 166 (235)
T ss_dssp --------CSSCEESCTTCEEEEECSTTCEEEEEEEEEECCSEECGGGTC----------------------------CC
T ss_pred --------CCCCEEcCCCeEEEEECCCCCEEEEEEEEEecccceecccccc-------------cc----------cccC
Confidence 234889999 99999999 999999999999999999999710 00 2468
Q ss_pred CCceEEeccCCCCceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHH
Q 016805 297 PVNVFDIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCER 376 (382)
Q Consensus 297 p~gvi~id~~~~g~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~ 376 (382)
|.|+|.+|+.+ .+.+++.++.|.. +|.+++++|||+|+|||+|+++|+++|.+|+++|++||+.
T Consensus 167 ~~g~i~iD~~f--------~pv~~v~y~ve~~--------~v~~~~~~d~li~eIeT~Gsi~P~eal~~A~~iL~~~~~~ 230 (235)
T 1bdf_A 167 PIGRLLVDACY--------SPVERIAYNVEAA--------RVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEA 230 (235)
T ss_dssp CCSCCBCCEEC--------CSEEEEEEECCBC--------CCSSCSSEEEEEEEEEECSSSCHHHHHHHHHHHHHHHGGG
T ss_pred CCcEEEECCCC--------CcEEEEEEEccCc--------cccccccCcEEEEEEEecCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999998654 2233344444433 3778889999999999999999999999999999999998
Q ss_pred HHH
Q 016805 377 VIT 379 (382)
Q Consensus 377 ~~~ 379 (382)
|.+
T Consensus 231 f~~ 233 (235)
T 1bdf_A 231 FVD 233 (235)
T ss_dssp GC-
T ss_pred Hhc
Confidence 754
No 5
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A* 3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* ...
Probab=100.00 E-value=7.5e-49 Score=385.09 Aligned_cols=209 Identities=22% Similarity=0.283 Sum_probs=185.5
Q ss_pred ccCCceEEEEEecCceEEEEEE----ccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCcc-C-
Q 016805 72 FCNNFRVEVIRLTKDDMEFDLI----GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPIIV-D- 145 (382)
Q Consensus 72 f~~~~~I~i~~~~~~~~~F~l~----Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~~-d- 145 (382)
|.+ ++|++.+.++++++|.++ |++.++||||||+|||||||+||+.|+|++ ++||||+||+.. |
T Consensus 6 ~~~-p~i~i~~~~~~~~~F~l~Ple~G~~~TlgNaLRRiLLsevpg~AI~~V~I~~---------v~He~~~Ipgv~Edv 75 (315)
T 2a6h_A 6 LKA-PVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIED---------VLHEFSTIPGVKEDV 75 (315)
T ss_dssp TSC-CEEEEEEETTTEEEEEEEEECTTCHHHHHHHHHHHHHHTCEEEEEEEEEESS---------CCSTTCBCTTBSSBH
T ss_pred ccC-CeEEEEEccCCEEEEEEEccCCCchhHHHHHHHHHHHhcCCceEEEEEEEec---------chhccCCCCCccCCH
Confidence 543 679999999999999996 999999999999999999999999999987 999999999985 7
Q ss_pred ------CceeeeecccCCCCCCceEEEEEEEEeecCCCcceEEcCCceecCCCCCCCCCCCCCCCCCCCCCcccccCCCC
Q 016805 146 ------PRLFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQ 219 (382)
Q Consensus 146 ------~~~~~~~~~~d~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p~g~q~~~~~~~~~~~~~~~~~~~~f~~~q 219 (382)
.+.+.|+..| |..|+++++|+++|+ +.|||+||+|.
T Consensus 76 ~eIilNlk~i~~~~~~---~~~~~~~~~L~v~gp-----~~VtA~Di~~~------------------------------ 117 (315)
T 2a6h_A 76 VEIILNLKELVVRFLN---PSLQTVTLLLKAEGP-----KEVKARDFLPV------------------------------ 117 (315)
T ss_dssp HHHHHHHHTCCEEECS---TTCSBCCEEEEEESS-----CEEEGGGSCCC------------------------------
T ss_pred HHHhhhhheEEEeccc---CCCCeEEEEEEEecC-----eeEEhhhCCcC------------------------------
Confidence 4667777654 346899999999974 79999999972
Q ss_pred CCCCCCCCCCccccCC-eEEEEeCCCceEEEEEEEEecccccccccCccceeeeccccceecccccchhhHHHHhhcCCC
Q 016805 220 DLLPEFSNNPIRPMLD-ITIARLGPGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPV 298 (382)
Q Consensus 220 ~~~~~f~~~~i~~v~~-IlIakL~pGQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i~~~~a~~l~~~~p~ 298 (382)
.++.++|| ++||+|++||+|+|+|+|.||+||+||||++ ++||.
T Consensus 118 --------~~v~ivnpd~~IatL~~g~~l~me~~~~kG~Gy~~ak~~~---------------------------~~~p~ 162 (315)
T 2a6h_A 118 --------ADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGYVPAEKHG---------------------------IKDRI 162 (315)
T ss_dssp --------TTEEESCTTCEEEEBCSSCEEEEEEEEEEEESEECHHHHC---------------------------CCSST
T ss_pred --------CCcEEcCCCeEEEEECCCCEEEEEEEEEecCCccccccCc---------------------------ccCCc
Confidence 34899999 9999999999999999999999999999995 24799
Q ss_pred ceEEeccCCCCceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHH
Q 016805 299 NVFDIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERVI 378 (382)
Q Consensus 299 gvi~id~~~~g~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~ 378 (382)
|+|.+|+.+ .+.++|+|+.|+.| |..++++|||+|+|||+|+++|+++|.+|+++|++||..|.
T Consensus 163 g~i~iDa~f--------~pv~~v~y~ve~~r--------v~~~~~~dkli~eIeT~Gsi~P~eal~~A~~iL~~~l~~f~ 226 (315)
T 2a6h_A 163 NAIPVDAVF--------SPVRRVAFQVEDTR--------LGQRTDLDKLTLRIWTDGSVTPLEALNQAVEILREHLTYFS 226 (315)
T ss_dssp TCEECCEEC--------CCEEEEEEEEEECC--------BTTBCCCEEEEEEEEECSSSCHHHHHHHHHHHHHHHHHTTC
T ss_pred ceEeecCCC--------CCceeEEEEeeeee--------ecccccccEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 999998643 56788999999887 66778899999999999999999999999999999999884
Q ss_pred H
Q 016805 379 T 379 (382)
Q Consensus 379 ~ 379 (382)
+
T Consensus 227 ~ 227 (315)
T 2a6h_A 227 N 227 (315)
T ss_dssp S
T ss_pred h
Confidence 3
No 6
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=100.00 E-value=4.4e-38 Score=309.80 Aligned_cols=221 Identities=19% Similarity=0.275 Sum_probs=177.5
Q ss_pred chhhccCCceEEEEEecCceEEEEEE----ccChhhHHHHHHHHHhhCCcceEEEEEEeeCcccccccceeeecccCCCc
Q 016805 68 QLDHFCNNFRVEVIRLTKDDMEFDLI----GIDAAIANAFRRILIAELPTMAIEKVLIANNTSVIQDEVLAHRLGLIPII 143 (382)
Q Consensus 68 ~~~~f~~~~~I~i~~~~~~~~~F~l~----Gvd~siaNAlRRILlsEVPT~AIe~V~I~~NTSvi~DEvLAHRLGLIPl~ 143 (382)
.+.+|.++-.+++.+.++.+++|.++ |++.++||||||+|||+|||+||+.|+|.+ ++||||+||+.
T Consensus 4 ~~~~~~~p~~~~v~~~~~~~~kF~l~PlerG~g~TlgNaLRRvLLssvpg~AIt~V~I~g---------v~Hefs~Ipgv 74 (329)
T 3lu0_A 4 SVTEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG---------VLHEYSTKEGV 74 (329)
T ss_dssp STTTSSSCCCCCEEECTTSEEEEEECCCCTTCHHHHHHHHHHHTTTSSCEEEEEEEEESS---------CSSTTCCCTTB
T ss_pred hhhhccCCceEEEEEcCCCEEEEEEEecCCCChhHHHHHHHHHHHhcCCceEEEEEEEeC---------ccccccccccc
Confidence 45679988899999999999999999 999999999999999999999999999965 89999999986
Q ss_pred -cCCc--eeeeecccCCCCCCceEEEEEEEEeecCCCcceEEcCCceecCCCCCCCCCCCCCCCCCCCCCcccccCCCCC
Q 016805 144 -VDPR--LFEYMSENDTSNEKNTIVFKLHVLCERGGPRLTVKTNELKWLPNGSELPLETKPDSNPSSKPRTYTSFSSSQD 220 (382)
Q Consensus 144 -~d~~--~~~~~~~~d~~~~~~tv~~~L~v~c~~~~~~~~VyS~DL~~~p~g~q~~~~~~~~~~~~~~~~~~~~f~~~q~ 220 (382)
+|.- .++++...-..+..|++.++|+++++ +.|||+||++ |
T Consensus 75 ~Edv~eiilNlK~i~~k~~~~~~~~~~L~~~Gp-----~~VtA~DI~~-~------------------------------ 118 (329)
T 3lu0_A 75 QEDILEILLNLKGLAVRVQGKDEVILTLNKSGI-----GPVTAADITH-D------------------------------ 118 (329)
T ss_dssp SSCHHHHHHHHHSCCCEESSCSCEEEEECCCSS-----SCEETTSSCC-C------------------------------
T ss_pred cCCHHHHHhhhccceEecCCCceEEEEEEEeCC-----eEEEeeeecc-C------------------------------
Confidence 5531 12333211112346789999998753 7999999987 2
Q ss_pred CCCCCCCCCccccCC-eEEEEeC-CCceEEEEEEEEecccccccccCccceeeeccccceecccccchhhHHHHhhcCCC
Q 016805 221 LLPEFSNNPIRPMLD-ITIARLG-PGQEIELEAHAVKGIGKTHAKWSPVATAWYRMLPEIVLLEDVEDEDAEKLVKTCPV 298 (382)
Q Consensus 221 ~~~~f~~~~i~~v~~-IlIakL~-pGQeI~le~~a~KGiGk~HAKwsPVata~Yr~~P~i~i~~~i~~~~a~~l~~~~p~ 298 (382)
..+.++|| ++||+|+ +||+|+|+++|.+|+||.+|.++... +. ...|.
T Consensus 119 -------~~veivnpd~~IatL~~~~~~L~me~~i~~G~GY~~a~~~~~~-------------~~----------~~~~i 168 (329)
T 3lu0_A 119 -------GDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHS-------------EE----------DERPI 168 (329)
T ss_dssp -------SSEECSCTTCEEECBCSSCCCCCEEEEEEEESSEECTTTSCCC-------------ST----------TSSSC
T ss_pred -------CCCEEeCCCcEEEEEccCCcEEEEEEEEECcccceechhcccc-------------cc----------ccCcC
Confidence 24889999 9999999 99999999999999999999886310 00 11356
Q ss_pred ceEEeccCCCCceeEEEecCccccccccceecCcccccceEEEEEcCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHH
Q 016805 299 NVFDIEDIGSGKKRATVAQPRACTLCRECLRCGEEWEKRVSIRRVKDHFIFTIESTGALSPETLFTEAVKILEDKCERVI 378 (382)
Q Consensus 299 gvi~id~~~~g~~~~~V~~~r~~t~~rec~r~~~~~~~~V~l~~~~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~ 378 (382)
|+|.+|+.+ .+.+++.|..|..| |....+.|+++|+|||+|+++|++++.+|+++|.+++..|+
T Consensus 169 g~i~iDa~f--------sPV~~Vny~Ve~~r--------vgq~td~dkL~leI~TdGsi~P~eAl~~Aa~iL~~~l~~f~ 232 (329)
T 3lu0_A 169 GRLLVDACY--------SPVERIAYNVEAAR--------VEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFV 232 (329)
T ss_dssp CCEECCEEC--------CCEEEEEEEEEEEC--------CSSCSCEEEEEEEEEECSSSCHHHHHHHHHHHHHHHTTTSS
T ss_pred ceEeeCCCC--------CceeeEEEEEeccc--------cCCCcccceEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 999998755 34455555555555 56667789999999999999999999999999999987765
Q ss_pred H
Q 016805 379 T 379 (382)
Q Consensus 379 ~ 379 (382)
+
T Consensus 233 ~ 233 (329)
T 3lu0_A 233 D 233 (329)
T ss_dssp S
T ss_pred c
Confidence 3
No 7
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L 2y0s_L
Probab=94.39 E-value=0.057 Score=43.57 Aligned_cols=35 Identities=14% Similarity=0.325 Sum_probs=30.0
Q ss_pred ceEEEEEecCceEEEEEEccChhhHHHHHHHHHhh
Q 016805 76 FRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAE 110 (382)
Q Consensus 76 ~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsE 110 (382)
|.|+|.+.+++.++|.+.|=|.++||+||-.|+..
T Consensus 1 Meikvi~k~~n~~~f~i~~EDHTLgN~Lr~~L~~~ 35 (92)
T 2pa8_L 1 MEIRILKSESNYLELEIEGEDHTLGNLIAGTLRRI 35 (92)
T ss_dssp CEEEEEEEETTEEEEEEETCCHHHHHHHHHHHHTS
T ss_pred CceEEEecCCCeEEEEEecCchhHHHHHHHHHhcC
Confidence 46888888999999999999999999999887753
No 8
>1xpp_A TA1416, DNA-directed RNA polymerase subunit L; structural genomics, protein structure initiative, MCSG; 1.60A {Thermoplasma acidophilum} SCOP: d.74.3.2
Probab=93.86 E-value=0.074 Score=44.75 Aligned_cols=37 Identities=14% Similarity=0.321 Sum_probs=33.2
Q ss_pred CCceEEEEEecCceEEEEEEccChhhHHHHHHHHHhh
Q 016805 74 NNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAE 110 (382)
Q Consensus 74 ~~~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsE 110 (382)
+++++++...+++.++|.+.|=|.+++|+||-.|+..
T Consensus 9 ~kmeiki~~k~~n~~~f~i~~EDHTLgNlLr~~Llkd 45 (115)
T 1xpp_A 9 AESSLRVISKEKNSITVEMINYDNTLLRTLVEEILKD 45 (115)
T ss_dssp CCCEEEEEEECSSEEEEEEESCCHHHHHHHHHHHTTC
T ss_pred cceEEEEEcCCCCEEEEEEeCCCchhHHHHHHHHhcC
Confidence 3588999999999999999999999999999987654
No 9
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L 2y0s_L
Probab=92.25 E-value=0.24 Score=39.90 Aligned_cols=38 Identities=21% Similarity=0.441 Sum_probs=34.8
Q ss_pred cCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 344 KDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 344 ~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
.+++.|.|.|+|..+|.++|.+|++-|.+.|+.|.+.+
T Consensus 50 ~~~~~lrIqT~~~~~p~~al~~a~~~l~~~~~~~~~~f 87 (92)
T 2pa8_L 50 SDKIIVKILTDGSITPKDALLKAIENIRGMTSHYIDEI 87 (92)
T ss_dssp SCCEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788999999999999999999999999999998764
No 10
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=91.04 E-value=0.33 Score=41.19 Aligned_cols=38 Identities=21% Similarity=0.419 Sum_probs=34.6
Q ss_pred cCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 344 KDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 344 ~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
.++++|.|.|+|..+|.++|.+|++-|.+.|+.|.+.+
T Consensus 67 e~~~~lrIqT~~~~~p~eaL~~al~~L~~~~~~l~~~F 104 (123)
T 3h0g_K 67 NHNFILRVQTVEDCSPKQVIVDAAKSLITHLEEIKVNF 104 (123)
T ss_dssp SCEEEEEEECCSSSCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36889999999999999999999999999999987754
No 11
>1twf_K B13.6, DNA-directed RNA polymerase II 13.6 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.2 PDB: 1i3q_K 1i6h_K 1k83_K* 1nik_K 1nt9_K 1pqv_K 1r5u_K 1r9s_K* 1r9t_K* 1sfo_K* 1twa_K* 1twc_K* 1i50_K* 1twg_K* 1twh_K* 1wcm_K 1y1v_K 1y1w_K 1y1y_K 1y77_K* ...
Probab=90.96 E-value=0.43 Score=40.28 Aligned_cols=38 Identities=18% Similarity=0.294 Sum_probs=34.7
Q ss_pred cCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 344 KDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 344 ~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
.+++.|.|.|+|..+|.++|.+|++-|.+.|+.|.+.+
T Consensus 68 ~~~~~lrIqT~~~~~p~eaL~~a~~~L~~~~~~l~~~f 105 (120)
T 1twf_K 68 FARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNF 105 (120)
T ss_dssp SCEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788999999999999999999999999999998764
No 12
>1twf_K B13.6, DNA-directed RNA polymerase II 13.6 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.2 PDB: 1i3q_K 1i6h_K 1k83_K* 1nik_K 1nt9_K 1pqv_K 1r5u_K 1r9s_K* 1r9t_K* 1sfo_K* 1twa_K* 1twc_K* 1i50_K* 1twg_K* 1twh_K* 1wcm_K 1y1v_K 1y1w_K 1y1y_K 1y77_K* ...
Probab=89.52 E-value=0.23 Score=41.92 Aligned_cols=40 Identities=10% Similarity=0.174 Sum_probs=32.8
Q ss_pred cCCceEEEEEecCceEEEEEEccChhhHHHHHHHHHhhCCc
Q 016805 73 CNNFRVEVIRLTKDDMEFDLIGIDAAIANAFRRILIAELPT 113 (382)
Q Consensus 73 ~~~~~I~i~~~~~~~~~F~l~Gvd~siaNAlRRILlsEVPT 113 (382)
.+++.+++....++.++|.+.|=|.++||+||-.|+.. |.
T Consensus 16 e~K~~~~~~~k~~n~~~f~i~~EDHTLgNlLr~~Llk~-p~ 55 (120)
T 1twf_K 16 ESKLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLND-RK 55 (120)
T ss_dssp CCSCCEEECSSSTTEEEEEEESCCHHHHHHHHHHHTTC-TT
T ss_pred CceEEEEeccCCCCeEEEEEeCCCchHHHHHHHHHhhC-CC
Confidence 34566777667889999999999999999999998764 54
No 13
>1xpp_A TA1416, DNA-directed RNA polymerase subunit L; structural genomics, protein structure initiative, MCSG; 1.60A {Thermoplasma acidophilum} SCOP: d.74.3.2
Probab=87.32 E-value=0.74 Score=38.61 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=33.2
Q ss_pred cCEEEEEEEecCcCCHHHHHHHHHHHHHHHHHHHHHhh
Q 016805 344 KDHFIFTIESTGALSPETLFTEAVKILEDKCERVITEL 381 (382)
Q Consensus 344 ~d~fiF~IEStGsl~P~~i~~eAikiL~~K~~~~~~~L 381 (382)
.+++.|.|.|+|.. |.++|.+|++-|.+.|+.|.+.+
T Consensus 60 e~~~~lrIqT~~~~-p~eaL~~al~~L~~~~~~l~~~f 96 (115)
T 1xpp_A 60 IDNPQIYVRVKSGK-PQSAIKRAVRKLSKLYEDLGTQF 96 (115)
T ss_dssp TSCCEEEEEESSSC-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCccEEEEEeCCCC-hHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778899999998 99999999999999999998764
No 14
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=77.14 E-value=1.1 Score=37.86 Aligned_cols=34 Identities=18% Similarity=0.187 Sum_probs=27.9
Q ss_pred eEEEEE--ecCceEEEEEEccChhhHHHHHHHHHhh
Q 016805 77 RVEVIR--LTKDDMEFDLIGIDAAIANAFRRILIAE 110 (382)
Q Consensus 77 ~I~i~~--~~~~~~~F~l~Gvd~siaNAlRRILlsE 110 (382)
||++.. ..++.++|.+.|=|.+++|+||-.|+..
T Consensus 17 Kv~~~~dtk~~n~~~f~i~~EDHTLgNlLr~~Llk~ 52 (123)
T 3h0g_K 17 KVTYELDSKSPNAAVVTLEKEDHTLANMLANQLLSD 52 (123)
T ss_dssp SCCEEECSSSTTEEEEEEESCCSSHHHHHHHTGGGS
T ss_pred ceEEecCCCCCceEEEEEeCCCcchHHHHHHHHhcC
Confidence 455554 4668999999999999999999988764
No 15
>1jnr_B Adenylylsulfate reductase; oxidoreductase; HET: FAD; 1.60A {Archaeoglobus fulgidus dsm 4304} SCOP: d.58.1.5 PDB: 1jnz_B* 2fja_B* 2fjb_B* 2fjd_B* 2fje_B*
Probab=30.57 E-value=23 Score=30.06 Aligned_cols=36 Identities=19% Similarity=0.525 Sum_probs=27.6
Q ss_pred HHhhcCCCceEEeccCCCCceeEEEecCcccccccccee
Q 016805 291 KLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLR 329 (382)
Q Consensus 291 ~l~~~~p~gvi~id~~~~g~~~~~V~~~r~~t~~rec~r 329 (382)
.+++.||.++|.++..+ ..+.+.++..|+.|..|..
T Consensus 20 ~C~~~CP~~ai~~~~~~---~~~~~id~~~C~~Cg~Cv~ 55 (150)
T 1jnr_B 20 ACEYICPNDLMTLDKEK---MKAYNREPDMCWECYSCVK 55 (150)
T ss_dssp HHHHHCTTSCEEEETTT---TEEEESCGGGCCCCCHHHH
T ss_pred cchhhcCccCeEEecCC---ceeeeeCcccCcCHhHHHH
Confidence 67788999999887532 2345667889999999987
No 16
>3gyx_B Adenylylsulfate reductase; oxidoreductase; HET: FAD; 3.20A {Desulfovibrio gigas}
Probab=29.16 E-value=25 Score=30.41 Aligned_cols=36 Identities=22% Similarity=0.559 Sum_probs=27.7
Q ss_pred HHhhcCCCceEEeccCCCCceeEEEecCcccccccccee
Q 016805 291 KLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLR 329 (382)
Q Consensus 291 ~l~~~~p~gvi~id~~~~g~~~~~V~~~r~~t~~rec~r 329 (382)
.++..||.++|.++..+ ..+.+.++..|+.|..|..
T Consensus 19 ~C~~~CP~~ai~~~~~~---~~~~~~d~~~C~~Cg~Cv~ 54 (166)
T 3gyx_B 19 ACMYICPNDLMILDPEE---MKAFNQEPEACWECYSCIK 54 (166)
T ss_dssp HHHHHCTTSCEEEETTT---TEEEESCGGGCCCCCHHHH
T ss_pred hhHHhCCccccEEecCC---ceeEecCcccCcccChHhH
Confidence 67778999999887532 3455667889999999987
No 17
>7fd1_A FD1, protein (7-Fe ferredoxin I); electron transport, iron-sulfur; 1.30A {Azotobacter vinelandii} SCOP: d.58.1.2 PDB: 1fda_A 1fdb_A 1fer_A 1axq_A 5fd1_A 6fdr_A 6fd1_A 7fdr_A 1frh_A 1fri_A 1fdd_A 1frl_A 1d3w_A 1frm_A 1frx_A 1g6b_A 1pc4_A 1frj_A 2fd2_A 1fd2_A ...
Probab=24.50 E-value=51 Score=25.58 Aligned_cols=33 Identities=30% Similarity=0.555 Sum_probs=25.0
Q ss_pred HHhhcCCCceEEeccCCCCceeEEEecCcccccccccee
Q 016805 291 KLVKTCPVNVFDIEDIGSGKKRATVAQPRACTLCRECLR 329 (382)
Q Consensus 291 ~l~~~~p~gvi~id~~~~g~~~~~V~~~r~~t~~rec~r 329 (382)
.++..||.++|.+++. . .+.+...|+.|..|..
T Consensus 15 ~C~~~CP~~ai~~~~~-----~-~~i~~~~C~~Cg~C~~ 47 (106)
T 7fd1_A 15 DCVEVCPVDCFYEGPN-----F-LVIHPDECIDCALCEP 47 (106)
T ss_dssp HHHHHCTTCCEEECSS-----C-EEECTTTCCCCCTTGG
T ss_pred HHHHHcCccceEcCCC-----c-EEECcccCCChhhhHH
Confidence 5677899999987642 2 3346788999999987
No 18
>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET: BHG FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8 d.58.1.6 PDB: 2gmj_A*
Probab=23.63 E-value=35 Score=35.05 Aligned_cols=39 Identities=18% Similarity=0.422 Sum_probs=26.7
Q ss_pred HHHhhcCCCceEEe-ccCCCCceeEEEecCcccccccccee
Q 016805 290 EKLVKTCPVNVFDI-EDIGSGKKRATVAQPRACTLCRECLR 329 (382)
Q Consensus 290 ~~l~~~~p~gvi~i-d~~~~g~~~~~V~~~r~~t~~rec~r 329 (382)
..++..||.|||.+ +.. +|.....+-|+.+|.-|.-|.-
T Consensus 522 ~~c~~~CPa~~~~~~~~~-~~~~~~~~i~~~~Ci~C~~C~~ 561 (584)
T 2gmh_A 522 GPEQRFCPAGVYEFVPLE-QGDGFRLQINAQNCVHCKTCDI 561 (584)
T ss_dssp CTHHHHCTTCCEEEEECS-STTCEEEEECGGGCCCCCHHHH
T ss_pred chhhhcCChhhEEEeecC-CCCceEEEEeCCCCcCCCCchh
Confidence 34677899999988 421 1212134567889999999866
Done!