Query psy6666
Match_columns 175
No_of_seqs 59 out of 61
Neff 3.4
Searched_HMMs 46136
Date Sat Aug 17 00:01:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6666hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2478|consensus 100.0 6.6E-32 1.4E-36 246.6 8.0 133 1-133 240-374 (452)
2 PF03985 Paf1: Paf1 ; InterPr 100.0 7.4E-29 1.6E-33 222.3 9.7 132 1-133 234-378 (436)
3 KOG3313|consensus 74.8 1 2.2E-05 38.5 0.1 35 19-53 140-176 (187)
4 PF09816 EAF: RNA polymerase I 45.6 37 0.00081 25.6 4.0 40 46-87 66-107 (109)
5 COG0783 Dps DNA-binding ferrit 26.8 13 0.00028 30.4 -1.2 15 38-52 29-43 (156)
6 PRK11251 DNA-binding transcrip 21.8 66 0.0014 25.0 1.9 33 39-71 57-89 (109)
7 PTZ00415 transmission-blocking 17.1 29 0.00062 39.1 -1.4 15 61-75 63-77 (2849)
8 PF15470 DUF4637: Domain of un 15.3 23 0.00049 29.9 -2.2 8 165-172 65-72 (173)
9 KOG2868|consensus 14.4 1.2E+02 0.0026 28.3 2.0 33 42-74 36-70 (335)
10 PF05623 DUF789: Protein of un 12.9 86 0.0019 28.2 0.7 17 4-20 64-80 (291)
No 1
>KOG2478|consensus
Probab=99.97 E-value=6.6e-32 Score=246.57 Aligned_cols=133 Identities=53% Similarity=0.795 Sum_probs=124.5
Q ss_pred CCCccceEEEEecCChhhhhhhhhhhhcCCCCCccccccceEEEeeeeeccccCCCCccceEEEEEeC-Ceeeeecccce
Q psy6666 1 MDESGEQFVAYFLPTAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLIVRD-DAVYYNELETR 79 (175)
Q Consensus 1 ~de~geqFVAYflPt~etl~Kr~~D~~e~~~yd~d~~yeYk~~REYnW~Vk~kaskgyeenyfF~fRd-dgVyYNeLeTR 79 (175)
||++|++|||||||+++|+.+.+.+.++++++++|++|+|+++|+|+|+||++++++|.+||||+.+. ++||||+|.||
T Consensus 240 ~~~e~e~fvs~~~p~ee~~~~~~~~~e~~~l~~eddv~ey~~~R~y~~~mk~~a~~~~~~~~f~i~~~~~~v~yn~~~~r 319 (452)
T KOG2478|consen 240 MDEEGEQFVSYFLPTEETLKKRLADLEEEMLRDEDDVYEYKIAREYDWNMKGKASKGYTENYFFINDEDNQVYYNELETR 319 (452)
T ss_pred ccccchhhhheecCChhhhhhhhhhhhhcccccccchhhhhhhhcccchhccCCCccccceEEEEEecCCceeechHhhH
Confidence 78999999999999999999999999999999999999999999999999999999999999999998 89999999999
Q ss_pred eeehhhccccCCCC-CCceEEEEecCCChHHHHHHHHHHhhcCCCCCccchhhHH
Q psy6666 80 VRLSKRRQKVGAAP-NNTRLVVTHRPLNATEFRIQRLRERFLEPPNEEEEEEDEE 133 (175)
Q Consensus 80 VrLsKRRak~g~~~-~~s~LtVr~R~~ne~E~~~q~~R~~~L~~~~~~~e~eeee 133 (175)
|+|+|||+|++..+ +++.|+|+||++|..|+.++.++..+|+++..+.+.+|+.
T Consensus 320 vrl~kr~vk~~~~~~~i~~l~vs~r~~n~~e~~~~~~~~~~~e~~~~~~~~~Ee~ 374 (452)
T KOG2478|consen 320 VRLMKRRVKAGVSLNNIDKLEVSLRDLNSKELEAQDKNRRQLEVLGFELELEEEY 374 (452)
T ss_pred HHHhhcccccccCcccccceeEeecCCCchHHHHHHHhhccccccccchhhhhhh
Confidence 99999999999655 6799999999999999999999999999988655444333
No 2
>PF03985 Paf1: Paf1 ; InterPro: IPR007133 Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i [, ].
Probab=99.95 E-value=7.4e-29 Score=222.34 Aligned_cols=132 Identities=43% Similarity=0.717 Sum_probs=113.0
Q ss_pred CCCccceEEEEecC-------ChhhhhhhhhhhhcCCCCCccccccceEEEeeeeeccccCCCCccceEEEE-EeCCeee
Q psy6666 1 MDESGEQFVAYFLP-------TAETLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENYFLI-VRDDAVY 72 (175)
Q Consensus 1 ~de~geqFVAYflP-------t~etl~Kr~~D~~e~~~yd~d~~yeYk~~REYnW~Vk~kaskgyeenyfF~-fRddgVy 72 (175)
|+.+|++||||||| ...+|.+.+.|.. ..+++++..|.|+|+|+|+|+|++.++++|+.++||+ +++++||
T Consensus 234 ~~~~~~~fvsy~lP~~~~~~~~~~~l~~~~~d~~-~~~~~~~~~~~y~~vReY~~~~~~~~~~~~e~~i~f~~~~~k~ay 312 (436)
T PF03985_consen 234 MDSEGDQFVSYYLPDKEDAKELKEKLEKNSPDRD-EEDDDDDEEYEYKRVREYEWSVQNEASKGYEENIFFVDFKQKAAY 312 (436)
T ss_pred CCCCCcceeeEEecChhhhhHhHHhhhccccccc-ccccCCCceeeccceecccceeeccCCCCccceEEEEecCCCceE
Confidence 46789999999999 6667777777666 6678999999999999999999998899999999999 7889999
Q ss_pred eecccceeeehhhcc-----ccCCCCCCceEEEEecCCChHHHHHHHHHHhhcCCCCCccchhhHH
Q psy6666 73 YNELETRVRLSKRRQ-----KVGAAPNNTRLVVTHRPLNATEFRIQRLRERFLEPPNEEEEEEDEE 133 (175)
Q Consensus 73 YNeLeTRVrLsKRRa-----k~g~~~~~s~LtVr~R~~ne~E~~~q~~R~~~L~~~~~~~e~eeee 133 (175)
|++|.|||+|+|||. +.++..++++|+|+||++|++|+++|..+..++.|...+.++++++
T Consensus 313 Y~pI~~Rv~LrkrR~~~~~~~~~~~~~~d~i~V~~R~p~e~E~~~~~~~r~~~dp~~~~~~ee~ee 378 (436)
T PF03985_consen 313 YYPIETRVRLRKRRTNSKIRPKVREQRPDQITVKHRDPTEEEEAERDKRRAQLDPIEYEEEEEEEE 378 (436)
T ss_pred EeeccccceeeeeccccccccccccCCCceEEEEeCCCCHHHHHHHHHHHhhccCCCccccCcccc
Confidence 999999999999992 2224678999999999999999999999999999986654443333
No 3
>KOG3313|consensus
Probab=74.76 E-value=1 Score=38.50 Aligned_cols=35 Identities=31% Similarity=0.448 Sum_probs=24.5
Q ss_pred hhhhhhhhhcCCCC--CccccccceEEEeeeeecccc
Q psy6666 19 LDKRKLDQLSNLEY--TDEQEYEYKMAREYNWNVKSK 53 (175)
Q Consensus 19 l~Kr~~D~~e~~~y--d~d~~yeYk~~REYnW~Vk~k 53 (175)
+.|...-..++++| |--...+-.|+|.|||+|+..
T Consensus 140 a~k~l~~~~~DldfLrdQvTTtEVN~ArvYNw~V~~R 176 (187)
T KOG3313|consen 140 AVKSLDVLEEDLDFLRDQVTTTEVNMARVYNWDVKKR 176 (187)
T ss_pred HHHHHHHHHHHHHHHHhhceeeeeeeeeeeechHHHH
Confidence 34445556667777 333455889999999999864
No 4
>PF09816 EAF: RNA polymerase II transcription elongation factor; InterPro: IPR019194 This entry represents the N-terminal domain of ELL-associated factor (Eaf) proteins, which act as transcriptional transactivators of ELL and ELL2 RNA Polymerase II (Pol II) transcriptional elongation factors [, , , ]. Eaf proteins form a stable heterodimer complex with ELL proteins to facilitate the binding of RNA polymerase II to activate transcription elongation. ELL and EAF1 are components of Cajal bodies, which have a role in leukemogenesis []. EAF1 also has the capacity to interact with ELL1 and ELL2. The N terminus of approx 120 of EAF1 has a region of high serine, aspartic acid, and glutamic acid residues [, ].
Probab=45.58 E-value=37 Score=25.57 Aligned_cols=40 Identities=23% Similarity=0.419 Sum_probs=28.5
Q ss_pred eeeeccccCCCCccceEEEEEeCC--eeeeecccceeeehhhcc
Q psy6666 46 YNWNVKSKSCKGYEENYFLIVRDD--AVYYNELETRVRLSKRRQ 87 (175)
Q Consensus 46 YnW~Vk~kaskgyeenyfF~fRdd--gVyYNeLeTRVrLsKRRa 87 (175)
|.|.-...+++ +..|+++|+.+ .+.=-.|.+.++|++.|+
T Consensus 66 ~~f~G~~~~~~--~~ecVLifD~~~~~f~LErl~s~~~~n~~R~ 107 (109)
T PF09816_consen 66 YVFKGSQRPSK--EKECVLIFDPETGEFVLERLSSTINLNKTRA 107 (109)
T ss_pred EEEEeccCCCC--CcEEEEEEECCCCEEEEEEcceEEEEEeecc
Confidence 44443334443 47999999873 367888999999999985
No 5
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=26.75 E-value=13 Score=30.44 Aligned_cols=15 Identities=40% Similarity=0.811 Sum_probs=12.4
Q ss_pred ccceEEEeeeeeccc
Q psy6666 38 YEYKMAREYNWNVKS 52 (175)
Q Consensus 38 yeYk~~REYnW~Vk~ 52 (175)
.=|...+.|||||++
T Consensus 29 ~Ly~k~~~~HWnV~G 43 (156)
T COG0783 29 VLYLKTHNYHWNVKG 43 (156)
T ss_pred HHHHHHhhcccceeC
Confidence 368889999999964
No 6
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=21.80 E-value=66 Score=25.03 Aligned_cols=33 Identities=18% Similarity=0.146 Sum_probs=19.4
Q ss_pred cceEEEeeeeeccccCCCCccceEEEEEeCCee
Q psy6666 39 EYKMAREYNWNVKSKSCKGYEENYFLIVRDDAV 71 (175)
Q Consensus 39 eYk~~REYnW~Vk~kaskgyeenyfF~fRddgV 71 (175)
.|.+.|+-.|+..-....|-+.+|+++|+++|.
T Consensus 57 ~~~~~~~t~w~Yv~~~~~g~~~~~tV~Fd~~G~ 89 (109)
T PRK11251 57 SMIHARGTCQTYILGNRDGKAQTYFVSFDDTGH 89 (109)
T ss_pred eeecCCCcceeEEEecCCCceEEEEEEECCCCC
Confidence 456666444443332223337899999997653
No 7
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=17.07 E-value=29 Score=39.11 Aligned_cols=15 Identities=20% Similarity=0.053 Sum_probs=8.4
Q ss_pred eEEEEEeCCeeeeec
Q psy6666 61 NYFLIVRDDAVYYNE 75 (175)
Q Consensus 61 nyfF~fRddgVyYNe 75 (175)
|+-=+|..+|--||.
T Consensus 63 ~~~~~~~~~g~~y~~ 77 (2849)
T PTZ00415 63 NKKECFDKNGGIYNL 77 (2849)
T ss_pred CcccccccCCCEEec
Confidence 444456666666664
No 8
>PF15470 DUF4637: Domain of unknown function (DUF4637)
Probab=15.27 E-value=23 Score=29.92 Aligned_cols=8 Identities=38% Similarity=0.904 Sum_probs=4.6
Q ss_pred cccccccc
Q psy6666 165 EGEISECS 172 (175)
Q Consensus 165 ~~~~~~~~ 172 (175)
-|.+|-|.
T Consensus 65 rgSVSY~P 72 (173)
T PF15470_consen 65 RGSVSYCP 72 (173)
T ss_pred CCceeccc
Confidence 45666663
No 9
>KOG2868|consensus
Probab=14.43 E-value=1.2e+02 Score=28.27 Aligned_cols=33 Identities=15% Similarity=0.273 Sum_probs=23.3
Q ss_pred EEEeeeeeccccC--CCCccceEEEEEeCCeeeee
Q psy6666 42 MAREYNWNVKSKS--CKGYEENYFLIVRDDAVYYN 74 (175)
Q Consensus 42 ~~REYnW~Vk~ka--skgyeenyfF~fRddgVyYN 74 (175)
.+=-|+|+++.+. ..++|.+||+|-|+..-+.+
T Consensus 36 hva~Y~fd~~~~eWnKtdiEGtffvY~R~~~p~~g 70 (335)
T KOG2868|consen 36 HVALYTFDFGANEWNKTDIEGTFFVYKRDASPRHG 70 (335)
T ss_pred ceeEEEeccccchhhhccceeEEEEEEccCCCccc
Confidence 4566999987322 12678899999998766644
No 10
>PF05623 DUF789: Protein of unknown function (DUF789); InterPro: IPR008507 This family consists of several plant proteins of unknown function.
Probab=12.94 E-value=86 Score=28.20 Aligned_cols=17 Identities=24% Similarity=0.724 Sum_probs=14.1
Q ss_pred ccceEEEEecCChhhhh
Q psy6666 4 SGEQFVAYFLPTAETLD 20 (175)
Q Consensus 4 ~geqFVAYflPt~etl~ 20 (175)
.++.|++||||-+-.|+
T Consensus 64 ~~~~v~qYYVPyLSAIQ 80 (291)
T PF05623_consen 64 GGDSVVQYYVPYLSAIQ 80 (291)
T ss_pred CCCcEEEEEeceeeeEE
Confidence 56899999999987663
Done!