Query psy15249
Match_columns 235
No_of_seqs 122 out of 231
Neff 6.0
Searched_HMMs 46136
Date Sat Aug 17 01:10:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15249.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15249hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02270 TFIIF_beta: Transcrip 100.0 1.3E-54 2.8E-59 389.4 8.9 190 25-218 1-275 (275)
2 KOG2905|consensus 100.0 2.6E-53 5.6E-58 368.2 13.2 192 23-226 6-253 (254)
3 COG5090 TFG2 Transcription ini 100.0 6.7E-43 1.5E-47 302.3 14.6 187 25-226 19-262 (297)
4 KOG2905|consensus 98.6 3.9E-09 8.4E-14 92.8 -2.2 52 1-54 190-241 (254)
5 COG5090 TFG2 Transcription ini 93.4 0.016 3.5E-07 51.5 -0.9 49 1-51 199-247 (297)
6 PF05132 RNA_pol_Rpc4: RNA pol 91.4 0.55 1.2E-05 37.8 5.8 64 56-145 66-130 (131)
7 KOG3122|consensus 86.2 0.87 1.9E-05 42.0 3.8 64 56-145 244-309 (310)
8 PF12157 DUF3591: Protein of u 77.8 1.9 4.2E-05 41.9 2.9 90 129-224 214-310 (457)
9 PF04004 Leo1: Leo1-like prote 45.5 1.8E+02 0.0039 24.3 9.0 50 107-166 99-150 (171)
10 KOG0008|consensus 45.1 19 0.00041 39.6 3.1 39 187-225 730-768 (1563)
11 PF04801 Sin_N: Sin-like prote 34.9 24 0.00053 33.5 1.9 27 187-216 365-391 (421)
12 PF10390 ELL: RNA polymerase I 23.8 32 0.00069 31.3 0.5 26 187-216 231-256 (284)
No 1
>PF02270 TFIIF_beta: Transcription initiation factor IIF, beta subunit; InterPro: IPR003196 Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter. ; GO: 0005524 ATP binding, 0006367 transcription initiation from RNA polymerase II promoter, 0005674 transcription factor TFIIF complex; PDB: 1F3U_C 2BBY_A 1BBY_A.
Probab=100.00 E-value=1.3e-54 Score=389.42 Aligned_cols=190 Identities=45% Similarity=0.738 Sum_probs=107.5
Q ss_pred cccccccccccceeeccccHHHHhhhhCCCCC--ccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeee
Q psy15249 25 IVNLDLTQASRGVWLVKVPKYVANKWEKVPGN--IEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQI 102 (235)
Q Consensus 25 ~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~--~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~ 102 (235)
|++||+++++++|||||||+||+++|++++++ ++||+|||+++++++++|+|+|++.+.++ +.||++|+|+|++
T Consensus 1 ~~~LD~s~a~~~vWLvKVPk~l~e~W~~~~~~~~~~iG~lri~~~~~~~~~v~l~L~~~~~~~----~~iPkey~L~~~~ 76 (275)
T PF02270_consen 1 DGDLDTSKADRSVWLVKVPKFLSEKWSKAPDDDEIEIGKLRISKDPNGKPKVSLTLNDSLANH----GNIPKEYDLDMSK 76 (275)
T ss_dssp -TBEE-HHHHTEEEEEEEEHHHHHHHTTSBTT--TEEEEEEEEEE-TTEEEEEEEE-HHHHT-----T-S--EEEEEEE-
T ss_pred Ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc----ccccccccccccc
Confidence 47899999999999999999999999999875 99999999998555889999999987654 4899999999999
Q ss_pred eCCeeEEEeeecCCCCCCCC--------------------------------CCCCccceeEEEEEeeeEEEeecCCHHH
Q psy15249 103 VNRQTLGVFSHYIPPVNPDA--------------------------------IVPESEKLMLEGKIVQKLECRPYADSCY 150 (235)
Q Consensus 103 ~~~~n~~VFsE~~~p~~~~~--------------------------------~k~ip~~t~leG~V~~e~~~~P~~~~~Y 150 (235)
..++|||||||.++|++++. .+++|++++|+|+|.|+|+|+|+.+++|
T Consensus 77 ~~~~n~~VFse~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~G~I~~~~~~~P~~~~~Y 156 (275)
T PF02270_consen 77 DNVQNMYVFSESDQPGFKAKNKERAGAPNAGIPASLLREKKKKDRKRKYQPYVKTIPKKTALEGRIVHECDCRPVLNDEY 156 (275)
T ss_dssp -TTEEEEEEEEETT----------------------------------------ETT--EEEEEEEEEEEEE--------
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccccccccccCCCCceEEEEEEEEEEEeEECCCHHH
Confidence 98999999999999876541 1688999999999999999999999999
Q ss_pred HHHHHHHHHHHcCCCcceEEeecc-cccccccCC-------------------------------------Cch------
Q psy15249 151 MKLKLDSIIKASQPLRQVKHLDKI-VQNYKPVSN-------------------------------------HKH------ 186 (235)
Q Consensus 151 ~~l~r~r~~~a~~p~r~vq~ld~~-~~~~kP~~~-------------------------------------~~~------ 186 (235)
++++++|+.++++|+|++++|++. .+.++|++. |+|
T Consensus 157 ~~~~~~r~~~a~~~kr~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~K~~R~~~~eL~d~lF~~Fe~~~ywslK~L 236 (275)
T PF02270_consen 157 RRLKRERIEKANKPKRTVQQIDEDVSQSYKPVSFHSANSKFFIKKKKKQEEKRARMDKNELLDLLFKLFEKHQYWSLKDL 236 (275)
T ss_dssp -----------------------------------------------------THHHHHHHHHHHHHHHHH-S-B-HHHH
T ss_pred HHHHHHHHHHhcCCCCeeEEeccccccCCCCcccccccchhcccccccccccceeCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence 999999999999999999999984 334444110 233
Q ss_pred -------hHHHHHHHHHHhhhhccCCCCcccccChhhhc
Q psy15249 187 -------LTYLKEILKEVCNYNLKNPHKNMWELKPEYRC 218 (235)
Q Consensus 187 -------e~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk~ 218 (235)
++||||||++||+||++|||+|||+||||||+
T Consensus 237 ~~~t~QP~~yLKeiL~eIa~~~k~g~~~~~w~LKpeyk~ 275 (275)
T PF02270_consen 237 RQRTQQPEAYLKEILEEIAVLNKRGPHKNMWELKPEYKH 275 (275)
T ss_dssp HHH--S-HHHHHHHHHHH--EE--TT---EE----SS--
T ss_pred HHHHCCCHHHHHHHHHHHHHHhccCCcCCcEecchHHcC
Confidence 99999999999999999999999999999996
No 2
>KOG2905|consensus
Probab=100.00 E-value=2.6e-53 Score=368.17 Aligned_cols=192 Identities=44% Similarity=0.692 Sum_probs=172.0
Q ss_pred CCcccccccccccceeeccccHHHHhhhhCCCCCccceeEEEecCCCCCceEEEEeCCccccCCCC---CCCCCCCceee
Q psy15249 23 QPIVNLDLTQASRGVWLVKVPKYVANKWEKVPGNIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPN---EEKIPKDHRLD 99 (235)
Q Consensus 23 ~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~---~~~iPkey~L~ 99 (235)
..+++|+..+.+.+|||||||+||+++|.+++...++|+|+|.+.++ .++|+|.|+...++.... .+.+|..|.++
T Consensus 6 ~~~~dl~l~~~~~~vWLvKvP~fLa~kw~~~~~~~e~g~l~i~k~~~-daki~l~L~e~~p~~~~~~a~~g~~p~~~~~~ 84 (254)
T KOG2905|consen 6 TESLDLDLENSGRGVWLVKVPKFLAEKWRKIPNSHESGKLRINKTPS-DAKIVLLLNEAIPEKQEREADVGKFPQQYKLN 84 (254)
T ss_pred hhhhhhccccccceEEEEeccHHHHHHHHhcccccccccccccCCCC-cceEEEEeccccccchhhhhhcccCchhhhhc
Confidence 35688899999999999999999999999999888999999998765 479999999666553322 67899999999
Q ss_pred eeeeCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeecCCHHHHHHHHHHHHHHcCCCcceEEeecccc-cc
Q psy15249 100 VQIVNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NY 178 (235)
Q Consensus 100 ~~~~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~~~~~Y~~l~r~r~~~a~~p~r~vq~ld~~~~-~~ 178 (235)
+... ..||+|||+.+. |+++++||+|+|+|+|+|+.|++|+++||+|+.+|+.|+|+||+||++++ +|
T Consensus 85 ~~~~-~~~~~~~sd~~~----------~~k~a~eG~V~~e~~~~P~~ne~Y~Rl~r~r~~k~~~k~r~vQ~iD~~~g~~~ 153 (254)
T KOG2905|consen 85 MKRR-FFNMFVESDSSG----------PKKTAVEGTVVHECDVRPSANEEYMRLKRERIVKASKKKRQVQVIDKVVGVHM 153 (254)
T ss_pred cCcc-ccceeeeecCCC----------CccceeeeeeeeeeecccccCHHHHHHHHHHHHHhcCcccccccchhhccccc
Confidence 9766 679999999886 58999999999999999999999999999999999999999999999988 79
Q ss_pred cccCCCc---------------------------------------h-------------hHHHHHHHHHHhhhhccCCC
Q psy15249 179 KPVSNHK---------------------------------------H-------------LTYLKEILKEVCNYNLKNPH 206 (235)
Q Consensus 179 kP~~~~~---------------------------------------~-------------e~yLKEiL~eIa~lnk~Gp~ 206 (235)
+|+++|. | ++||||||++||+||++|||
T Consensus 154 ~p~~~~~~~~~~~~~~rkK~k~e~Kr~R~dk~evld~lFk~FEk~~ywtlK~Lv~~t~QP~~fLKEiL~~icv~NkKg~~ 233 (254)
T KOG2905|consen 154 KPVPGHLRSSSNIAYERKKAKEEGKRTRRDKNEVLDMLFKAFEKYQYWTLKDLVEITKQPEAFLKEILKDICVLNKKGPY 233 (254)
T ss_pred ccCCCcccccchhHHHHHhhhhccccccccHHHHHHHHHHHhhcCccccHHHHHHHhcCHHHHHHHHHHHHHHHhccCcc
Confidence 9866432 1 99999999999999999999
Q ss_pred CcccccChhhhccchhhHhh
Q psy15249 207 KNMWELKPEYRCYKEEEKKE 226 (235)
Q Consensus 207 ~~~weLKPEYk~~~~~e~~~ 226 (235)
+|+||||||||+|.++|+++
T Consensus 234 k~tyeLKPEYK~~~~ee~~~ 253 (254)
T KOG2905|consen 234 KNTYELKPEYKKYKEEEKKE 253 (254)
T ss_pred cCceecCHHHhhhhhhhhcC
Confidence 99999999999999999875
No 3
>COG5090 TFG2 Transcription initiation factor IIF, small subunit (RAP30) [Transcription]
Probab=100.00 E-value=6.7e-43 Score=302.27 Aligned_cols=187 Identities=25% Similarity=0.375 Sum_probs=162.2
Q ss_pred cccccccccccceeeccccHHHHhhhhCCCC--CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeee
Q psy15249 25 IVNLDLTQASRGVWLVKVPKYVANKWEKVPG--NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQI 102 (235)
Q Consensus 25 ~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~~--~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~ 102 (235)
+.+||..+.+..|||||||.||+++|.+.+. +..+|++|+.++ ++.|+|.|+.... ++++|++|+|.+.+
T Consensus 19 ~~dLdl~~~~~kVWLvkvP~FLaekw~sr~~~~g~~lg~~r~~~d---~a~isLlL~ne~~-----n~~~P~~ydl~i~~ 90 (297)
T COG5090 19 DADLDLNNRHTKVWLVKVPLFLAEKWLSREAEIGELLGTKRTSTD---PAVISLLLSNEFC-----NGGFPSSYDLKIKP 90 (297)
T ss_pred cccccccccCceEEEEeccHHHHHHHhcchhhhhhhhceeeecCC---cceEEEEeccCCc-----cCCCCcceeeeecc
Confidence 4688888899999999999999999998774 668999999876 4599999976543 46899999999999
Q ss_pred eCCeeEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeecCCHHHHHHHHHHHHHHcCCCcceEEeecccc-cc---
Q psy15249 103 VNRQTLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYADSCYMKLKLDSIIKASQPLRQVKHLDKIVQ-NY--- 178 (235)
Q Consensus 103 ~~~~n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~~~~~Y~~l~r~r~~~a~~p~r~vq~ld~~~~-~~--- 178 (235)
..+.|.|||.|..+ .++++.|+|+|+|.|||.+.|..|++|+++++.|..++..|++.||+||...+ ..
T Consensus 91 k~v~n~yVfre~et-------~t~~k~tavvGtV~hEC~V~P~vNd~Y~r~~q~r~~~~~~~K~~vq~iD~~~g~~~~~~ 163 (297)
T COG5090 91 KDVNNYYVFRESET-------STHEKNTAVVGTVNHECYVTPEVNDEYLRYKQDRGFKSDSKKSDVQVIDYLKGGKRGEK 163 (297)
T ss_pred ccccceEEEecccc-------cccccccceeeeeccceeecccccHHHHHHHHHhhhhhcCccccceeeecccCceeccC
Confidence 98999999988776 57889999999999999999999999999999999999999999999996443 11
Q ss_pred ---------------ccc-----------------------CCCch-------------hHHHHHHHHHHhhhhccCCCC
Q psy15249 179 ---------------KPV-----------------------SNHKH-------------LTYLKEILKEVCNYNLKNPHK 207 (235)
Q Consensus 179 ---------------kP~-----------------------~~~~~-------------e~yLKEiL~eIa~lnk~Gp~~ 207 (235)
+|. .+++| ++||||||++||+|||+|||+
T Consensus 164 ~~s~Rs~~~~fl~~~r~k~~~~~K~~RlpknEvlD~lFK~Fe~Y~yWtlKgL~e~~~QPea~lkEild~iavLnKkgpya 243 (297)
T COG5090 164 FGSLRSSTLEFLARKRKKMLMDKKRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDIAVLNKKGPYA 243 (297)
T ss_pred ccccccchHHHHHhcchhhhcchhhcccchhHHHHHHHHHhhcCCchhhhhHHHHhcChHHHHHHHHHHHHhhhccCccc
Confidence 111 11233 999999999999999999999
Q ss_pred cccccChhhhccchhhHhh
Q psy15249 208 NMWELKPEYRCYKEEEKKE 226 (235)
Q Consensus 208 ~~weLKPEYk~~~~~e~~~ 226 (235)
++|+|+||||...++++..
T Consensus 244 ~kY~LrPEYK~~~de~rqa 262 (297)
T COG5090 244 NKYELRPEYKQTMDELRQA 262 (297)
T ss_pred ceeecCHHHHhHHHHHHHh
Confidence 9999999999999887754
No 4
>KOG2905|consensus
Probab=98.59 E-value=3.9e-09 Score=92.79 Aligned_cols=52 Identities=48% Similarity=0.592 Sum_probs=47.4
Q ss_pred ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhhCCC
Q psy15249 1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWEKVP 54 (235)
Q Consensus 1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~~~~ 54 (235)
|||+||||||||+||||+++|.||..+|.....+.+|++.|=| ....|+--+
T Consensus 190 ~lFk~FEk~~ywtlK~Lv~~t~QP~~fLKEiL~~icv~NkKg~--~k~tyeLKP 241 (254)
T KOG2905|consen 190 MLFKAFEKYQYWTLKDLVEITKQPEAFLKEILKDICVLNKKGP--YKNTYELKP 241 (254)
T ss_pred HHHHHhhcCccccHHHHHHHhcCHHHHHHHHHHHHHHHhccCc--ccCceecCH
Confidence 6999999999999999999999999999999999999999988 677786544
No 5
>COG5090 TFG2 Transcription initiation factor IIF, small subunit (RAP30) [Transcription]
Probab=93.37 E-value=0.016 Score=51.51 Aligned_cols=49 Identities=41% Similarity=0.516 Sum_probs=41.4
Q ss_pred ChhHhhhhhcccchhhhhhhhcCCcccccccccccceeeccccHHHHhhhh
Q psy15249 1 MLFAAFEKHQYYNIKDLVKITKQPIVNLDLTQASRGVWLVKVPKYVANKWE 51 (235)
Q Consensus 1 ~~~~~f~~~~y~~~~~~~~~~~~~~~~L~~~~~~~~vWLVKVPk~L~e~W~ 51 (235)
|||++||+--|++||+|.+...||..+|......+.+-+-|=| ++...+
T Consensus 199 ~lFK~Fe~Y~yWtlKgL~e~~~QPea~lkEild~iavLnKkgp--ya~kY~ 247 (297)
T COG5090 199 MLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDIAVLNKKGP--YANKYE 247 (297)
T ss_pred HHHHHhhcCCchhhhhHHHHhcChHHHHHHHHHHHHhhhccCc--ccceee
Confidence 7999999999999999999999999999888877777777766 444443
No 6
>PF05132 RNA_pol_Rpc4: RNA polymerase III RPC4; InterPro: IPR007811 This family comprises a specific subunit for Pol III, the tRNA specific polymerase.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006383 transcription from RNA polymerase III promoter, 0005666 DNA-directed RNA polymerase III complex
Probab=91.45 E-value=0.55 Score=37.78 Aligned_cols=64 Identities=17% Similarity=0.223 Sum_probs=39.9
Q ss_pred CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeeeeCCeeEEEeeec-CCCCCCCCCCCCccceeEEE
Q psy15249 56 NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVNRQTLGVFSHY-IPPVNPDAIVPESEKLMLEG 134 (235)
Q Consensus 56 ~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~~~~~n~~VFsE~-~~p~~~~~~k~ip~~t~leG 134 (235)
++.||+|+|.+. | +|+|.|-+-.-... .+.+-.| .|.+.+.... .. +.....|
T Consensus 66 ~G~iGkL~V~kS-G---kv~l~iG~~~~dV~---~G~~~~F--------lQevv~i~~~~~~-----------~~~~~LG 119 (131)
T PF05132_consen 66 EGQIGKLRVHKS-G---KVTLKIGGVVFDVS---PGTQCSF--------LQEVVAIDEEEEE-----------GECYFLG 119 (131)
T ss_pred CCeeEEEEEEeC-C---cEEEEECCEEEEec---CCCCCCc--------hheEEEeeccCCC-----------CeEEEec
Confidence 569999999983 5 78888874221110 1222221 2333333331 23 6889999
Q ss_pred EEeeeEEEeec
Q psy15249 135 KIVQKLECRPY 145 (235)
Q Consensus 135 ~V~~e~~~~P~ 145 (235)
.|.+++.|.|.
T Consensus 120 ~v~~k~v~tPd 130 (131)
T PF05132_consen 120 QVSGKFVVTPD 130 (131)
T ss_pred cccceEEEccC
Confidence 99999999994
No 7
>KOG3122|consensus
Probab=86.22 E-value=0.87 Score=42.04 Aligned_cols=64 Identities=23% Similarity=0.264 Sum_probs=41.6
Q ss_pred CccceeEEEecCCCCCceEEEEeCCccccCCCCCCCCCCCceeeeeeeC--CeeEEEeeecCCCCCCCCCCCCccceeEE
Q psy15249 56 NIEAGKLKIVRNPGQKPVVSLSLSEATMCVDPNEEKIPKDHRLDVQIVN--RQTLGVFSHYIPPVNPDAIVPESEKLMLE 133 (235)
Q Consensus 56 ~~~lG~lri~~~~g~~~~v~l~L~~~~~~~~~~~~~iPkey~L~~~~~~--~~n~~VFsE~~~p~~~~~~k~ip~~t~le 133 (235)
+++||+|+|++ +| +|+|.|-+-+ |++.|.... -|-+.+.+-.+. ..+...+.
T Consensus 244 eGqvGkllV~K-SG---rVkLklG~V~-------------fDV~~G~~~~FLQEl~sV~l~d~---------rs~nm~~L 297 (310)
T KOG3122|consen 244 EGQVGKLLVYK-SG---RVKLKLGDVL-------------FDVSMGLDCSFLQELMSVGLGDS---------RSGNMTLL 297 (310)
T ss_pred cCcceeEEEEe-cC---ceEEEecCEE-------------EEeccCchhHhhhhhheeecccc---------cCCceEEe
Confidence 67999999998 35 7888877521 333332221 133333433321 23899999
Q ss_pred EEEeeeEEEeec
Q psy15249 134 GKIVQKLECRPY 145 (235)
Q Consensus 134 G~V~~e~~~~P~ 145 (235)
|.|.|++.|.|-
T Consensus 298 G~v~~klvvTPD 309 (310)
T KOG3122|consen 298 GSVKKKLVVTPD 309 (310)
T ss_pred ccccceeeeCCC
Confidence 999999999994
No 8
>PF12157 DUF3591: Protein of unknown function (DUF3591); InterPro: IPR022591 This functionally uncharacterised domain is found centrally in the eukaryotic transcription initiation factor TFIID subunit 1.
Probab=77.76 E-value=1.9 Score=41.92 Aligned_cols=90 Identities=23% Similarity=0.395 Sum_probs=56.4
Q ss_pred ceeEEEEEeeeEEEeecCCHHHHHHHHHHHH-------HHcCCCcceEEeecccccccccCCCchhHHHHHHHHHHhhhh
Q psy15249 129 KLMLEGKIVQKLECRPYADSCYMKLKLDSII-------KASQPLRQVKHLDKIVQNYKPVSNHKHLTYLKEILKEVCNYN 201 (235)
Q Consensus 129 ~t~leG~V~~e~~~~P~~~~~Y~~l~r~r~~-------~a~~p~r~vq~ld~~~~~~kP~~~~~~e~yLKEiL~eIa~ln 201 (235)
.+-++|...=..++-...+.....+.+.|++ ....++| | .++++..+| |.. .+.=+|+-|++.|.|.
T Consensus 214 ~lf~VGQ~~P~~EVp~P~Sr~~t~~~knrL~~~iyRlf~~~~~~r-i-~~~di~~~F-p~~---se~~iRkrLKe~~~~~ 287 (457)
T PF12157_consen 214 HLFVVGQQEPLVEVPGPHSRKVTNFSKNRLKMIIYRLFNKSQPRR-I-KVDDIKKHF-PDQ---SESQIRKRLKEFADFQ 287 (457)
T ss_pred cEEEeeccccceecCCCCchhHHHHHHHHHHHHHHHHHhhccCCc-c-CHHHHHHhC-CCC---cHHHHHHHHHHHHhcc
Confidence 4556666665555555555555555555543 2222222 1 222222233 321 2788999999999999
Q ss_pred ccCCCCcccccChhhhccchhhH
Q psy15249 202 LKNPHKNMWELKPEYRCYKEEEK 224 (235)
Q Consensus 202 k~Gp~~~~weLKPEYk~~~~~e~ 224 (235)
|.|...|.|.|||.|+--.+++-
T Consensus 288 R~g~~~~~W~lk~~~~lp~eeel 310 (457)
T PF12157_consen 288 RTGDDSGWWVLKPGFRLPDEEEL 310 (457)
T ss_pred CCCCCCCeEEECCCCCCCCHHHH
Confidence 99999999999998886555443
No 9
>PF04004 Leo1: Leo1-like protein; InterPro: IPR007149 Members of this family are part of the Paf1/RNA polymerase II complex [, ]. The Paf1 complex probably functions during the elongation phase of transcription [].
Probab=45.52 E-value=1.8e+02 Score=24.32 Aligned_cols=50 Identities=22% Similarity=0.204 Sum_probs=31.8
Q ss_pred eEEEeeecCCCCCCCCCCCCccceeEEEEEeeeEEEeecC--CHHHHHHHHHHHHHHcCCCc
Q psy15249 107 TLGVFSHYIPPVNPDAIVPESEKLMLEGKIVQKLECRPYA--DSCYMKLKLDSIIKASQPLR 166 (235)
Q Consensus 107 n~~VFsE~~~p~~~~~~k~ip~~t~leG~V~~e~~~~P~~--~~~Y~~l~r~r~~~a~~p~r 166 (235)
..|+|..... ..-+...|.|..++.++|.. +...+++-........+..+
T Consensus 99 ~~~L~~~~~~----------~~~l~~~~~i~~~l~~rP~s~~s~thr~l~~~~~~r~~k~~~ 150 (171)
T PF04004_consen 99 HNYLFVRHGS----------SGVLQGQGHITKKLTFRPASTDSATHRRLTQAVASRSSKKQQ 150 (171)
T ss_pred cceEEEEcCC----------cceEEEEEEecccEEEecCCccCHHHHHHHHHHHhhhccccc
Confidence 4788877654 14678999999999999955 33445554333333333443
No 10
>KOG0008|consensus
Probab=45.06 E-value=19 Score=39.58 Aligned_cols=39 Identities=33% Similarity=0.591 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHhhhhccCCCCcccccChhhhccchhhHh
Q psy15249 187 LTYLKEILKEVCNYNLKNPHKNMWELKPEYRCYKEEEKK 225 (235)
Q Consensus 187 e~yLKEiL~eIa~lnk~Gp~~~~weLKPEYk~~~~~e~~ 225 (235)
++=.|.-|++.|.|.|.|+=.|.|.|||.++--.+++-+
T Consensus 730 e~siRKrLKecad~kR~G~~~~~W~LK~df~lp~eeelr 768 (1563)
T KOG0008|consen 730 ESSIRKRLKECADFKRDGMGKNYWVLKPDFRLPDEEELR 768 (1563)
T ss_pred hHHHHHHHHHHHHHhhcCCCCCeeEecccccCCCHHHHh
Confidence 788888999999999999999999999999988877543
No 11
>PF04801 Sin_N: Sin-like protein conserved region; InterPro: IPR006886 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. RNA polymerase III (Pol III) is a complex consisting of 17 subunits, which synthesizes small RNAs, such as 5S rRNA and tRNAs. Pol III is essential for efficient transcription from both the type 2 VAI and type 3 U6 RNA polymerase III promoters and plays a key role in sensing and limiting infection by intracellular bacteria and DNA viruses. Subunit c5 is a specific peripheric component of RNA polymerase III complex. ; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=34.89 E-value=24 Score=33.53 Aligned_cols=27 Identities=37% Similarity=0.514 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHhhhhccCCCCcccccChhh
Q psy15249 187 LTYLKEILKEVCNYNLKNPHKNMWELKPEY 216 (235)
Q Consensus 187 e~yLKEiL~eIa~lnk~Gp~~~~weLKPEY 216 (235)
..=+||||++||+++ |....|+||=.+
T Consensus 365 ~~~~~eiL~~~a~~~---~~~~~W~lk~~~ 391 (421)
T PF04801_consen 365 PEDVKEILKEIAVLR---PSNRGWKLKLPP 391 (421)
T ss_pred HHHHHHHHHHHhhcc---CCCCceEEccCc
Confidence 455799999999988 788899997543
No 12
>PF10390 ELL: RNA polymerase II elongation factor ELL ; InterPro: IPR019464 ELL is a family of RNA polymerase II elongation factors. It is bound stably to elongation-associated factors 1 and 2, EAFs, and together these act as a strong regulator of transcription activity. by direct interaction with Pol II. ELL binds to pol II on its own but the affinity is greatly increased by the cooperation of EAF []. Some members carry an occludin domain (IPR010844 from INTERPRO) just downstream. There is no Saccharomyces cerevisiae (Baker's yeast) member. ; GO: 0006368 transcription elongation from RNA polymerase II promoter, 0008023 transcription elongation factor complex; PDB: 2E5N_A 2DOA_A.
Probab=23.81 E-value=32 Score=31.35 Aligned_cols=26 Identities=42% Similarity=0.598 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHhhhhccCCCCcccccChhh
Q psy15249 187 LTYLKEILKEVCNYNLKNPHKNMWELKPEY 216 (235)
Q Consensus 187 e~yLKEiL~eIa~lnk~Gp~~~~weLKPEY 216 (235)
-.=|..||.+||.+| + -|.|.||+.+
T Consensus 231 k~~l~~iL~~Va~l~-~---~~~y~Lk~~~ 256 (284)
T PF10390_consen 231 KDELDSILQEVANLN-K---DNSYTLKDHF 256 (284)
T ss_dssp HHHHHHHHHHCCEEE-T---TTEEEE-STH
T ss_pred HHHHHHHHHHHhccC-c---CCeEEehHHH
Confidence 345778999999999 3 5799999875
Done!