Query psy4909
Match_columns 361
No_of_seqs 179 out of 393
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 20:55:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4909.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4909hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2150|consensus 100.0 2.2E-50 4.7E-55 409.7 16.2 251 104-359 318-575 (575)
2 PF04153 NOT2_3_5: NOT2 / NOT3 100.0 3.4E-43 7.3E-48 301.1 10.1 131 226-356 1-134 (134)
3 COG5665 NOT5 CCR4-NOT transcri 100.0 6.2E-40 1.3E-44 323.6 6.3 134 224-359 413-547 (548)
4 COG5601 CDC36 General negative 99.9 5E-26 1.1E-30 201.8 4.9 107 249-356 60-172 (172)
5 KOG2151|consensus 98.5 9E-08 1.9E-12 93.8 3.7 71 229-304 242-312 (312)
6 KOG2151|consensus 98.3 3.6E-07 7.9E-12 89.6 2.5 78 271-357 96-175 (312)
7 PF05523 FdtA: WxcM-like, C-te 25.4 51 0.0011 28.5 2.1 32 275-317 30-61 (131)
8 COG3109 ProQ Activator of osmo 23.2 79 0.0017 30.3 3.0 46 254-307 22-71 (208)
9 PF10180 DUF2373: Uncharacteri 21.8 23 0.00051 27.9 -0.6 18 300-317 10-27 (65)
10 KOG3705|consensus 10.2 1E+02 0.0022 33.1 0.2 13 298-310 248-260 (580)
No 1
>KOG2150|consensus
Probab=100.00 E-value=2.2e-50 Score=409.70 Aligned_cols=251 Identities=38% Similarity=0.647 Sum_probs=213.1
Q ss_pred cccccccccccccccCCCcceeeEEecCcccccccCCCCCCCCCCCCCCCccchHHHHHhhhhhcCCCCCCCCCCCChhh
Q psy4909 104 PQSQQSHNSLMSLNHGTSGATHLRVTNTRAVLNLRRRPPATTTTLTPPPHLWRSRVIAQDVLDKAGLELPPPASDSNSQQ 183 (361)
Q Consensus 104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~lsslk~~a~~~~~~~gle~~~~~~~~t~~~ 183 (361)
+|+-|.-++..+++|+-+-.-- .+.+....+.+.||...........+++|.|.++++ .++.+..+|.+......
T Consensus 318 ~~~~qq~~~~~s~~~P~~~~p~--~~~~~~~~st~~~p~~p~~q~~~~~P~~s~k~~~~~---s~~~~~~vp~~~~~~~~ 392 (575)
T KOG2150|consen 318 HQSPQQLRIPLSMPPPHSPTPS--LKRIQHKVSTLDGPRTPPEQSEENTPLSSAKLQASK---SESPPKGVPELEEEAAA 392 (575)
T ss_pred CCccccccccCCCCCCCCCCcc--ccchhhccccccCCCCCcccccccChhhhchhccCc---ccCCCCCCCcccccccc
Confidence 3444445555566777654433 344555666777776555445567789999999988 67777777777655441
Q ss_pred hccccccC------CCCCCcccccCCcCCCCCCCCC-CCchhhhhHHHHHHHHhhcCCCCCCcccCCCCCCCCCcCCCCC
Q psy4909 184 QQQQEVYD------KSLAPSEAHIPYMLGVVPLGPQ-PLHKAHHYQYQLVDQAYHHLPTPADSERLRHYITRTPCTTPSY 256 (361)
Q Consensus 184 ~~~~~i~~------~~~~~~~~~ip~~lGv~PlGp~-~ltke~~~q~~mLEaS~~~~P~p~DsErpR~Y~PrnP~ptP~~ 256 (361)
..-.-..+ ++....+.++|.++|++|+|++ .+++|++.++.++|+++..||.|.|+|+|+.|.|++|+++|.+
T Consensus 393 ~~~s~~~~~~~~~~~~~~~~~~~s~~~~~~~p~g~~~~~~~e~i~~~~~~e~a~~~~~~psdsE~pq~y~pk~p~~tp~~ 472 (575)
T KOG2150|consen 393 STLSPDSSEPASANTPLSSKEQHSPFELGLSPLGVQSEITNEQIRFLYALEAACKLVPIPSDSEKPQGYLPKTPLPTPSY 472 (575)
T ss_pred CCCCCCccccccccCCCCccccccchhhccccccccccccccccchHHHHHhhhccCCCCchhhcccCCCCCCCCCCCcc
Confidence 11000011 6688899999999999999998 8999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCChHHhhcCCCcceEEEeecCCccHHHHHHHHHHhccCceeeccceeeeeccCCCcccCCceeeeeEEEEc
Q psy4909 257 YPQVPLPHSDTLDFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQSWRFHTKYMMWFQRHEEPKLINEDYEQGTYIYFD 336 (361)
Q Consensus 257 YPQ~Ppp~~dspe~fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkRgWRYHKkyktWFqR~~ePk~ite~~EqGtY~YFD 336 (361)
|||.+++..++.++|.||+.|||||||||++|+++||+||+||++|+||||++|.+||+|++|||.+++.+|+|+|+|||
T Consensus 473 ~~q~~~~~~ds~~~~~rl~~dTLFfiFY~~qgt~eQylAaKeLkk~sWrfhkky~tWFqR~~EpK~itd~~E~G~y~yFD 552 (575)
T KOG2150|consen 473 FPQTPPSLTDSTEITERLDPDTLFFIFYYQQGTYEQYLAAKELKKRSWRFHKKYTTWFQRHEEPKNITDIYEQGDYRYFD 552 (575)
T ss_pred CCCCCCcccchhhHHhhccccceeeEEeeecchHHHHHHHHHHhhcceeEeecceeEeeeccCccchhhhhhcCceEEEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccceeEecccccccC
Q psy4909 337 NEKWSQRKKEGFTFEYKYLEDRD 359 (361)
Q Consensus 337 ye~W~~r~KedFtFeY~~LEd~~ 359 (361)
|++|++|.|.||+|+|+|||+.+
T Consensus 553 ~~~W~qrkK~dFtfeY~yLE~~~ 575 (575)
T KOG2150|consen 553 YKDWSQRKKIDFTFEYQYLEDSE 575 (575)
T ss_pred hhHhhhhhccceeeehhhccCCC
Confidence 99999999999999999999864
No 2
>PF04153 NOT2_3_5: NOT2 / NOT3 / NOT5 family; InterPro: IPR007282 NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=3.4e-43 Score=301.05 Aligned_cols=131 Identities=47% Similarity=0.900 Sum_probs=125.9
Q ss_pred HHHHhhcCCCCCCc-ccCCCCC-CCCCcCCCCCCCCCCCCC-CCChHHhhcCCCcceEEEeecCCccHHHHHHHHHHhcc
Q psy4909 226 VDQAYHHLPTPADS-ERLRHYI-TRTPCTTPSYYPQVPLPH-SDTLDFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQ 302 (361)
Q Consensus 226 LEaS~~~~P~p~Ds-ErpR~Y~-PrnP~ptP~~YPQ~Ppp~-~dspe~fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkR 302 (361)
|+.++.++|+..|+ ++++.|. |+++..+|.+||+.|++. ++.+++|++|++||||||||++|||++|++||+||++|
T Consensus 1 L~~sf~sp~~~~~~~~~~~~y~~P~~~~~~~~~~p~~p~~~~~~~~~~~~k~~~eTLFyiFY~~p~~~~Q~~AA~eL~~R 80 (134)
T PF04153_consen 1 LYSSFASPPSDSDSRQQEPQYQIPSCYLPTPSSYPQRPPPIILDSPEKFQKFSEETLFYIFYYMPGDYQQLLAAKELYKR 80 (134)
T ss_pred CccccCCCCCCCCCCCCCCCCCCCCCcCcCccccCCCcCcccccchHHHhhcCCceEEEEEeecCCcHHHHHHHHHHHHC
Confidence 56788999999999 8889997 999999999999999887 88899999999999999999999999999999999999
Q ss_pred CceeeccceeeeeccCCCcccCCceeeeeEEEEcccccccccccceeEeccccc
Q psy4909 303 SWRFHTKYMMWFQRHEEPKLINEDYEQGTYIYFDNEKWSQRKKEGFTFEYKYLE 356 (361)
Q Consensus 303 gWRYHKkyktWFqR~~ePk~ite~~EqGtY~YFDye~W~~r~KedFtFeY~~LE 356 (361)
||||||++++||+|+++++.+++++|+|+|+|||+++|++++|.||+|+|++||
T Consensus 81 ~Wryhk~~~~W~~r~~~~~~~~~~~e~g~y~~FD~~~W~~~~k~~f~~~y~~LE 134 (134)
T PF04153_consen 81 GWRYHKEYKTWFQRDSEPKPITEQYERGSYVYFDPESWEKRRKKNFTFDYSDLE 134 (134)
T ss_pred CcEEecCcCEEeeECCCCCccccceeeeeEEEechHHhcCcchhccEEeHHHcC
Confidence 999999999999999999999999999999999999999999999999999998
No 3
>COG5665 NOT5 CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=100.00 E-value=6.2e-40 Score=323.64 Aligned_cols=134 Identities=42% Similarity=0.804 Sum_probs=128.4
Q ss_pred HHHHHHhhcCCCCCCcccCCCCCCCCCcCCCCCCCCCCCCCCCChHHhhcCCCcceEEEeecCCccHHHHHHHHHHhccC
Q psy4909 224 QLVDQAYHHLPTPADSERLRHYITRTPCTTPSYYPQVPLPHSDTLDFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQS 303 (361)
Q Consensus 224 ~mLEaS~~~~P~p~DsErpR~Y~PrnP~ptP~~YPQ~Ppp~~dspe~fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkRg 303 (361)
..+.-++-+.|...|.++ .|.|+.|+++|.+||+.|++.+++.++|.+||.||||||||+.+||||||+||+||++|+
T Consensus 413 E~~NiSlV~~Pn~~D~~K--kY~P~~P~~~Ps~~P~~PL~~F~S~~if~k~D~DTLFfiFY~~~GTyQQY~Aa~eLKk~S 490 (548)
T COG5665 413 EPYNVSLVLTPNENDTDK--KYKPGKPSKAPSKKPDDPLSRFSSARIFMKFDLDTLFFIFYHYQGTYQQYLAARELKKRS 490 (548)
T ss_pred eccccceeecCCcchhhh--ccCCCCCCCCCCCCCCCccccccHHHHHHhcCccceEEEeeeccchHHHHHHHHHHHhhh
Confidence 345567889999999998 799999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeccceeeeeccCCCcccCCceeeeeEEEEccc-ccccccccceeEecccccccC
Q psy4909 304 WRFHTKYMMWFQRHEEPKLINEDYEQGTYIYFDNE-KWSQRKKEGFTFEYKYLEDRD 359 (361)
Q Consensus 304 WRYHKkyktWFqR~~ePk~ite~~EqGtY~YFDye-~W~~r~KedFtFeY~~LEd~~ 359 (361)
|||||+|.+||||+.+||.||+++|.|+|.||||+ +|..|+|.||+|+|.|||+.+
T Consensus 491 WRFHkKY~TWFQR~~EPK~IT~~~E~Gs~ryFDy~~~W~~rKK~DF~F~Y~YLE~~e 547 (548)
T COG5665 491 WRFHKKYRTWFQREIEPKPITGKSEEGSWRYFDYKKSWLARKKNDFVFNYEYLEKLE 547 (548)
T ss_pred hhhhcchhhhhhhhcccccccCccccCceeEeeccchHHHhhcccceeehhhhhhcc
Confidence 99999999999999999999999999999999999 599999999999999999864
No 4
>COG5601 CDC36 General negative regulator of transcription subunit [Transcription]
Probab=99.92 E-value=5e-26 Score=201.79 Aligned_cols=107 Identities=29% Similarity=0.554 Sum_probs=93.7
Q ss_pred CCcCCCCCCCCCCCCCCCC----hHHhhcCCCcceEEEeecCCccHHHHHHHHHHhccCceeeccceeeeeccC--CCcc
Q psy4909 249 TPCTTPSYYPQVPLPHSDT----LDFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQSWRFHTKYMMWFQRHE--EPKL 322 (361)
Q Consensus 249 nP~ptP~~YPQ~Ppp~~ds----pe~fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkRgWRYHKkyktWFqR~~--ePk~ 322 (361)
+.+-+|.|||+.|.+..-+ ...+..|++||||||||.+|+|.+|..|+.||-+|+|||||.+++|++.+. +|.+
T Consensus 60 p~f~lP~cy~n~p~pp~f~~~~~~~k~~~f~dETLFyiFY~~P~dvlQe~ay~el~krnwrfhK~lk~wlT~~p~m~P~~ 139 (172)
T COG5601 60 PMFMLPNCYPNAPNPPIFKVNIEDMKMDNFHDETLFYIFYSFPNDVLQEKAYDELLKRNWRFHKMLKCWLTFNPGMSPAT 139 (172)
T ss_pred chhcCccccCCCCCCCceecchHHHHHHhhccceeEEEEeeCCcHHHHHHHHHHHHHhchhhhhhheeeeccCCCCCccc
Confidence 4466899999998653222 234678999999999999999999999999999999999999999999984 6778
Q ss_pred cCCceeeeeEEEEcccccccccccceeEeccccc
Q psy4909 323 INEDYEQGTYIYFDNEKWSQRKKEGFTFEYKYLE 356 (361)
Q Consensus 323 ite~~EqGtY~YFDye~W~~r~KedFtFeY~~LE 356 (361)
.++..|+|.|++||+..|+++.+ ||.|+|+.++
T Consensus 140 ~~~~~ergsyvfFDP~~W~k~~~-dfll~y~av~ 172 (172)
T COG5601 140 ADHVKERGSYVFFDPFSWSKVSL-DFLLDYKAVR 172 (172)
T ss_pred cccccccceEEEEcchhHHHHhH-HHHHHHHhhC
Confidence 88889999999999999999997 5999998774
No 5
>KOG2151|consensus
Probab=98.48 E-value=9e-08 Score=93.81 Aligned_cols=71 Identities=25% Similarity=0.414 Sum_probs=54.6
Q ss_pred HhhcCCCCCCcccCCCCCCCCCcCCCCCCCCCCCCCCCChHHhhcCCCcceEEEeecCCccHHHHHHHHHHhccCc
Q psy4909 229 AYHHLPTPADSERLRHYITRTPCTTPSYYPQVPLPHSDTLDFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQSW 304 (361)
Q Consensus 229 S~~~~P~p~DsErpR~Y~PrnP~ptP~~YPQ~Ppp~~dspe~fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkRgW 304 (361)
.+.++-.||-...++ -+..+..|.||....+... .....+|++|||||+||.++||..|..||.||.+|+|
T Consensus 242 i~~~F~~P~~~~P~~---~~~~~~lp~~y~~v~~~~~--~~~~~~~~dE~lff~fyt~~~d~~Q~~aa~el~~r~w 312 (312)
T KOG2151|consen 242 IIPTFQGPWGEVPTS---QEASFNLPNCYLNVNPKLQ--FSKIDQFQDETLFYIFYTFPGDVMQELAAAELLKRNW 312 (312)
T ss_pred ccccccCCcccCCcc---cchhhhcchhhhccCCccc--hHHHhhhcccceeeeeccCCcchhhhhHHHHhhccCC
Confidence 444555565555444 3445668899988655442 3347899999999999999999999999999999999
No 6
>KOG2151|consensus
Probab=98.27 E-value=3.6e-07 Score=89.64 Aligned_cols=78 Identities=31% Similarity=0.712 Sum_probs=71.2
Q ss_pred hhcCCCcceEEEeecCCccHHHHHHHHHHhccCceeeccceeeeecc--CCCcccCCceeeeeEEEEcccccccccccce
Q psy4909 271 FQRLSTESLFFIFYYMEGTKAQYLAAKALKKQSWRFHTKYMMWFQRH--EEPKLINEDYEQGTYIYFDNEKWSQRKKEGF 348 (361)
Q Consensus 271 fqKfd~ETLFYIFYy~PGd~qQ~lAAkELkkRgWRYHKkyktWFqR~--~ePk~ite~~EqGtY~YFDye~W~~r~KedF 348 (361)
..++...-|||+||+.| |.||..|.||||++.+.|+.+. +.++..+++++.|.|..||...|+...|+ -
T Consensus 96 ~~kv~~~~l~~~~~~~P--------a~e~~~r~~~~~~~~~~~l~~s~yg~~~~~~~~~~~g~~~~~~q~s~~~~~ke-~ 166 (312)
T KOG2151|consen 96 LNKVGERVLFYLFYNLP--------AGELQAREWRFHKSEQVWLTRSQYGGVKELPGNYMKGHFNVFDQMSWRKIPKE-L 166 (312)
T ss_pred ccccccccceeeeccCC--------CcccccccccccccccccccccccCCccccccchhhchhccccchhhhhcccc-h
Confidence 67899999999999999 9999999999999999999996 46777888999999999999999999986 7
Q ss_pred eEecccccc
Q psy4909 349 TFEYKYLED 357 (361)
Q Consensus 349 tFeY~~LEd 357 (361)
.+.|..+|+
T Consensus 167 ~l~~~~~~~ 175 (312)
T KOG2151|consen 167 KLAYSDLED 175 (312)
T ss_pred hhccccccc
Confidence 788888876
No 7
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=25.37 E-value=51 Score=28.51 Aligned_cols=32 Identities=22% Similarity=0.570 Sum_probs=18.1
Q ss_pred CCcceEEEeecCCccHHHHHHHHHHhccCceeeccceeeeecc
Q psy4909 275 STESLFFIFYYMEGTKAQYLAAKALKKQSWRFHTKYMMWFQRH 317 (361)
Q Consensus 275 d~ETLFYIFYy~PGd~qQ~lAAkELkkRgWRYHKkyktWFqR~ 317 (361)
+....||||-..+| . .|||.+|++...||...
T Consensus 30 ~i~rvy~i~~~~~~-~----------~RG~H~Hk~~~~~~~~l 61 (131)
T PF05523_consen 30 EIKRVYYIYNVPPG-V----------IRGWHAHKKTTQWFIVL 61 (131)
T ss_dssp ---EEEEEES--SS-------------EEEEEESS--EEEEEE
T ss_pred CccEEEEEEcCCCC-C----------cccccccccccEEEEEE
Confidence 44455666555444 2 59999999999999875
No 8
>COG3109 ProQ Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]
Probab=23.20 E-value=79 Score=30.29 Aligned_cols=46 Identities=24% Similarity=0.362 Sum_probs=32.0
Q ss_pred CCCCCCCCCCCCCChHHhhcC----CCcceEEEeecCCccHHHHHHHHHHhccCceee
Q psy4909 254 PSYYPQVPLPHSDTLDFFQRL----STESLFFIFYYMEGTKAQYLAAKALKKQSWRFH 307 (361)
Q Consensus 254 P~~YPQ~Ppp~~dspe~fqKf----d~ETLFYIFYy~PGd~qQ~lAAkELkkRgWRYH 307 (361)
|.||+.++-.......+|+.+ .+|- -=+.-|+-.|-.+|-.+|||-
T Consensus 22 PlcF~~egeAKPLKiGifQDl~e~lq~d~--------~vSktQLrqAlr~yts~wRYl 71 (208)
T COG3109 22 PLCFSLEGEAKPLKIGIFQDLAERLQDDE--------NVSKTQLRQALRLYTSSWRYL 71 (208)
T ss_pred ccccccCccccchhhhHHHHHHHHHhccc--------cccHHHHHHHHHHHhccccee
Confidence 778888775543344566543 3332 126789999999999999994
No 9
>PF10180 DUF2373: Uncharacterised conserved protein (DUF2373); InterPro: IPR019327 This is a conserved family of proteins found from fungi to humans. The function is not known.
Probab=21.83 E-value=23 Score=27.93 Aligned_cols=18 Identities=22% Similarity=0.894 Sum_probs=15.9
Q ss_pred hccCceeeccceeeeecc
Q psy4909 300 KKQSWRFHTKYMMWFQRH 317 (361)
Q Consensus 300 kkRgWRYHKkyktWFqR~ 317 (361)
-+.+|+|.|..+.|+.++
T Consensus 10 ~r~~WKF~K~kQ~wLlk~ 27 (65)
T PF10180_consen 10 DRSNWKFNKNKQNWLLKH 27 (65)
T ss_pred CCccCeechHHHHHHHHH
Confidence 356799999999999997
No 10
>KOG3705|consensus
Probab=10.22 E-value=1e+02 Score=33.13 Aligned_cols=13 Identities=31% Similarity=0.718 Sum_probs=11.3
Q ss_pred HHhccCceeeccc
Q psy4909 298 ALKKQSWRFHTKY 310 (361)
Q Consensus 298 ELkkRgWRYHKky 310 (361)
-|+.+|||||+.-
T Consensus 248 iLks~gWrY~~gG 260 (580)
T KOG3705|consen 248 ILKSDGWRYSSGG 260 (580)
T ss_pred EEecCCceecCCC
Confidence 5899999999874
Done!