Query psy5648
Match_columns 327
No_of_seqs 132 out of 154
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 23:05:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5648.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5648hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3345|consensus 100.0 3.1E-66 6.6E-71 476.0 7.6 228 21-261 4-233 (275)
2 PF07052 Hep_59: Hepatocellula 100.0 4.1E-35 9E-40 241.7 7.3 103 121-226 1-104 (104)
3 KOG4723|consensus 48.4 22 0.00047 34.1 3.7 41 261-301 31-84 (248)
4 smart00193 PTN Pleiotrophin / 39.0 13 0.00028 30.1 0.6 21 286-306 36-57 (80)
5 PF10228 DUF2228: Uncharacteri 25.6 7.3 0.00016 37.6 -3.4 26 247-272 24-55 (253)
6 PF12237 PCIF1_WW: Phosphoryla 24.8 41 0.00088 30.9 1.4 28 284-322 75-102 (176)
7 COG3114 CcmD Heme exporter pro 16.5 28 0.0006 27.5 -1.2 15 287-301 3-17 (67)
8 PF15468 DUF4636: Domain of un 14.9 1.5E+02 0.0032 28.6 2.8 28 259-286 36-64 (243)
9 PF01843 DIL: DIL domain; Int 13.7 1E+02 0.0023 24.8 1.3 24 269-292 6-29 (105)
10 KOG1664|consensus 12.8 1.2E+02 0.0026 28.9 1.6 17 133-149 10-26 (220)
No 1
>KOG3345|consensus
Probab=100.00 E-value=3.1e-66 Score=475.98 Aligned_cols=228 Identities=53% Similarity=0.781 Sum_probs=192.4
Q ss_pred cccCCCCcccccCCCCccc-ccHHHHHHHhhHHHHHHHHHhhcCCCCcccccccccccchhhhhhhccCCcccccCcccc
Q psy5648 21 KFKSRKKNLRTRKDSSEEE-DSEEEMEALKKLEEMKSLQKLRQRPNGVSIISLTVGEKVAEEDELLVKDPFKIKSGGLVN 99 (327)
Q Consensus 21 ~FKkkkKn~RkR~~~~d~e-~~e~eee~~~~LeEikeLQKlRkR~~GI~a~~La~G~~~~~e~e~~~~dpf~~k~GGlV~ 99 (327)
.|+|++..+++|+...+.+ ..+++++.+++|+||++||+||+|++||+.+.|++|++ ....+|||++++||||+
T Consensus 4 ~frk~~~k~~~rk~l~~~~~~~eEeeerrl~leeikelQrlReRknGvs~v~lavgee-----ala~~d~~qm~~Ggmv~ 78 (275)
T KOG3345|consen 4 IFRKVKFKIQKRKNLEDDDVAAEEEEERRLALEEIKELQRLRERKNGVSEVELAVGEE-----ALALEDPFQMKTGGMVD 78 (275)
T ss_pred chhhhHHHHHHhhcchhhhhhhhhHHHHHhhHHHHHHHHHHHhccCCcchhhhhhhhh-----hhhccCchhcccCccee
Confidence 4677766666776555443 34466788999999999999999999999999999933 33458999999999999
Q ss_pred cccccccCcccccccccccccCCcccccCCCchhHHHHHHHHHHHHhhhcCCCCcCCCCCCCCCCCCCChhhhhhhcCCc
Q psy5648 100 MSALKSGQVKKVDDAYDTGIGTQFSAETNKRDEDEEMMKYIEEQLSKRKKGEETKEGGQGEEGGVNYCSPEEAALQAVPD 179 (327)
Q Consensus 100 ~~~~k~~~~~~~~d~~e~gl~~~Ft~qT~~~DeDkHMmkYIEeELakRkg~~~~~~~~~~~~~~~~~~~~~e~~LY~lPe 179 (327)
|+.++.++.++.. ++.+|+++|+++|+.+|+|++||+|||++|++|+|....+.+.. ..+ ....+||||++|+
T Consensus 79 ~kK~k~~~mkeas--~eqdlgtqFs~ET~~rdEdeem~KYIeqeLqkrkg~~~~e~eeq----k~k-~~naED~Ly~lpd 151 (275)
T KOG3345|consen 79 MKKLKERGMKEAS--EEQDLGTQFSAETNRRDEDEEMMKYIEQELQKRKGTSIVEHEEQ----KNK-PKNAEDCLYELPD 151 (275)
T ss_pred hHHhhhhhhhHHH--HhhhhhHHHHHHHhcccccHHHHHHHHHHHHHhhccchhhhhhh----hcc-cCCHHHHHHhhhh
Confidence 9999987754433 34559999999999999999999999999999999443322211 112 3346789999999
Q ss_pred ccccCccccchhhhhhhhhcCCCceeCChHHHHhcHHHHHHHHHHhhhhhhcC-CCCCCCCCCCchhhhhhhccccccCC
Q psy5648 180 HLRQSSTHQSEEMLSNQMLSGIPEVDLGIEAKIRNIEATEEAKLKLLWDRHNK-KDGPSQFVPTNMAVNFVQHNRCKYSD 258 (327)
Q Consensus 180 ~Lr~~s~k~~eE~LS~qmLtGIpEVDLGieaKlkNIE~TE~AKrkLl~e~~~k-k~~~s~fvPtn~avny~qH~R~~~~~ 258 (327)
||+++++++++||||+|||+|||||||||++||+||++||+|| +||++++++ ++|+++|||+||+|||||||||||+.
T Consensus 152 hlk~ssskks~EmlS~qml~GIpEVdLgI~~kikNI~eTE~aK-rlLqe~~~~~~~g~~~~ipt~~a~ny~qr~rf~~e~ 230 (275)
T KOG3345|consen 152 HLKVSSSKKSEEMLSNQMLSGIPEVDLGIDAKIKNIEETEDAK-RLLQEQQNKKKDGETSFIPTNMAVNYVQRNRFYHEE 230 (275)
T ss_pred hhccccccchHHHHHHHHHcCCcccccchhhhhhhHHhhHHHH-HHHHHHHhccCCCCCCCCccchhhhHHHhhhhhHHH
Confidence 9999999999999999999999999999999999999999999 788888887 59999999999999999999999998
Q ss_pred CCc
Q psy5648 259 PQL 261 (327)
Q Consensus 259 ~~~ 261 (327)
.+.
T Consensus 231 ~~~ 233 (275)
T KOG3345|consen 231 LNR 233 (275)
T ss_pred hcc
Confidence 765
No 2
>PF07052 Hep_59: Hepatocellular carcinoma-associated antigen 59; InterPro: IPR010756 This family represents a conserved region approximately 100 residues long within mammalian hepatocellular carcinoma-associated antigen 59 and similar proteins. Family members are found in a variety of eukaryotes, mainly as hypothetical proteins.
Probab=100.00 E-value=4.1e-35 Score=241.70 Aligned_cols=103 Identities=54% Similarity=0.826 Sum_probs=85.3
Q ss_pred CCcccccCCCchhHHHHHHHHHHHHhhhcCCCCcCCC-CCCCCCCCCCChhhhhhhcCCcccccCccccchhhhhhhhhc
Q psy5648 121 TQFSAETNKRDEDEEMMKYIEEQLSKRKKGEETKEGG-QGEEGGVNYCSPEEAALQAVPDHLRQSSTHQSEEMLSNQMLS 199 (327)
Q Consensus 121 ~~Ft~qT~~~DeDkHMmkYIEeELakRkg~~~~~~~~-~~~~~~~~~~~~~e~~LY~lPe~Lr~~s~k~~eE~LS~qmLt 199 (327)
++|++|||.+|||+|||+|||++|++|++........ ..........++..++||.+|++|+ .+++++++|++|||
T Consensus 1 ~~F~~qT~~~d~DkhM~~YIE~eL~kr~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~p~~l~---~~~~~~~~s~~ml~ 77 (104)
T PF07052_consen 1 DRFTAQTGQRDVDKHMMKYIEEELAKRKGRAAESDAEQSDSESSANNSDPPEDELYRLPEHLK---AKRSEEMLSNQMLG 77 (104)
T ss_pred CcccccccchhHHHHHHHHHHHHHHHhhccCcccccccccccccccccCcHHHHHHhCcHHhh---cccccccccHHHhc
Confidence 5899999999999999999999999999987322211 1111222344455679999999998 46789999999999
Q ss_pred CCCceeCChHHHHhcHHHHHHHHHHhh
Q psy5648 200 GIPEVDLGIEAKIRNIEATEEAKLKLL 226 (327)
Q Consensus 200 GIpEVDLGieaKlkNIE~TE~AKrkLl 226 (327)
|||||||||++||||||+||+|||+||
T Consensus 78 gI~EVdLg~eaklkNIe~TE~Akr~ll 104 (104)
T PF07052_consen 78 GIPEVDLGIEAKLKNIERTEKAKRRLL 104 (104)
T ss_pred CCceecCcHHHHHhhHHHHHHHHHhcC
Confidence 999999999999999999999999986
No 3
>KOG4723|consensus
Probab=48.40 E-value=22 Score=34.05 Aligned_cols=41 Identities=32% Similarity=0.516 Sum_probs=28.0
Q ss_pred ccchhhHHHHHHHHH------------hhhHHHHHHHhh-cCccccccCcceEE
Q psy5648 261 LGTFLFYHYVYFLLL------------QYSEAILVMRKY-CNWSKFFADGTYFF 301 (327)
Q Consensus 261 ~~~~~~~~~~~~~~~------------~~~~~~~~~~~~-~~~~~~~~~~~~~~ 301 (327)
-|+|||-||.|+.|- -+|+--.+|||. |+..---..|..||
T Consensus 31 ~gsFl~H~~l~~~Lkan~~~cFlaf~k~fshy~i~~rKlG~~l~t~k~rgqlvF 84 (248)
T KOG4723|consen 31 PGSFLFHYYLYHALKANESTCFLAFSKTFSHYAISMRKLGMDLKTKKNRGQLVF 84 (248)
T ss_pred CceeeHHHHHHHHHhcCCcEEEEEeecchhHHHHHHHHhCCceeecccCCcEEE
Confidence 589999999999874 356777899997 55443333344444
No 4
>smart00193 PTN Pleiotrophin / midkine family. Heparin-binding domain family.
Probab=38.97 E-value=13 Score=30.07 Aligned_cols=21 Identities=52% Similarity=0.885 Sum_probs=18.0
Q ss_pred hhcCccccc-cCcceEEEeccC
Q psy5648 286 KYCNWSKFF-ADGTYFFASVGN 306 (327)
Q Consensus 286 ~~~~~~~~~-~~~~~~~~~~~~ 306 (327)
--|||.|-| ||=.|=|++.|.
T Consensus 36 iPCNwKK~fGadCKYkf~~Wge 57 (80)
T smart00193 36 IPCNWKKQFGADCKYKFESWGE 57 (80)
T ss_pred ccccchhhcCcccceeccCccc
Confidence 359999988 799999998874
No 5
>PF10228 DUF2228: Uncharacterised conserved protein (DUF2228); InterPro: IPR019361 This entry contains proteins that have no known function.
Probab=25.61 E-value=7.3 Score=37.61 Aligned_cols=26 Identities=38% Similarity=0.862 Sum_probs=22.8
Q ss_pred hhhhccccccCCCCccchhh------HHHHHH
Q psy5648 247 NFVQHNRCKYSDPQLGTFLF------YHYVYF 272 (327)
Q Consensus 247 ny~qH~R~~~~~~~~~~~~~------~~~~~~ 272 (327)
||..|-|||.+-+..-|++. |||.||
T Consensus 24 ~~~lhwRfyyDPPEfqTi~~~~~~~~~H~gY~ 55 (253)
T PF10228_consen 24 NYLLHWRFYYDPPEFQTIIVGDRGTGYHYGYW 55 (253)
T ss_pred cceeecccccCCcceEEEEEecCCCceEEEEE
Confidence 89999999999999999887 677776
No 6
>PF12237 PCIF1_WW: Phosphorylated CTD interacting factor 1 WW domain; InterPro: IPR022035 This domain is found in bacteria and eukaryotes, and is approximately 180 amino acids in length. It is the WW domain of PCIF1. PCIF1 interacts with phosphorylated RNA polymerase II carboxy-terminal domain (CTD). The WW domain of PCIF1 can directly and preferentially bind to the phosphorylated CTD compared to the unphosphorylated CTD. PCIF1 binds to the hyperphosphorylated RNAP II (RNAP IIO) in vitro and in vivo. Double immunofluorescence labeling in HeLa cells demonstrated that PCIF1 and endogenous RNAP IIO are co-localized in the cell nucleus. Thus, PCIF1 may play a role in mRNA synthesis by modulating RNAP IIO activity.
Probab=24.83 E-value=41 Score=30.95 Aligned_cols=28 Identities=39% Similarity=1.029 Sum_probs=20.5
Q ss_pred HHhhcCccccccCcceEEEeccCCCcccccccccccCCC
Q psy5648 284 MRKYCNWSKFFADGTYFFASVGNSGENHFAGFLEFKPAP 322 (327)
Q Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 322 (327)
++.||. .|.|--.+|+|+|+ |+.|.|.+
T Consensus 75 ~~~ycS---aFpDtD~~FGS~Gs--------Ff~f~p~~ 102 (176)
T PF12237_consen 75 FRQYCS---AFPDTDAYFGSLGS--------FFDFEPVS 102 (176)
T ss_pred HHHhcC---cCcCccccccCCcc--------hhcccCCC
Confidence 366774 48999999999997 55566643
No 7
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=16.53 E-value=28 Score=27.46 Aligned_cols=15 Identities=53% Similarity=1.216 Sum_probs=12.3
Q ss_pred hcCccccccCcceEE
Q psy5648 287 YCNWSKFFADGTYFF 301 (327)
Q Consensus 287 ~~~~~~~~~~~~~~~ 301 (327)
+..||.|||=|.|-|
T Consensus 3 F~Sw~dFfaMGgyaf 17 (67)
T COG3114 3 FASWSDFFAMGGYAF 17 (67)
T ss_pred hhhHHHHHHccCchH
Confidence 467999999998854
No 8
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=14.90 E-value=1.5e+02 Score=28.62 Aligned_cols=28 Identities=32% Similarity=0.629 Sum_probs=19.8
Q ss_pred CCccchhhHHHHHHHHH-hhhHHHHHHHh
Q psy5648 259 PQLGTFLFYHYVYFLLL-QYSEAILVMRK 286 (327)
Q Consensus 259 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 286 (327)
...|+|||+.+|..|+| -++-|++-|-.
T Consensus 36 ~~iG~fLlWyfviilvLm~~~ras~Wmse 64 (243)
T PF15468_consen 36 GAIGSFLLWYFVIILVLMFFSRASVWMSE 64 (243)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35789999988876655 45677777754
No 9
>PF01843 DIL: DIL domain; InterPro: IPR018444 Dilute encodes a novel type of myosin heavy chain, with a tail, or C-terminal, region that has elements of both type II (alpha-helical coiled-coil) and type I (non-coiled-coil) myosin heavy chains. The DIL non alpha-helical domain is found in dilute myosin heavy chain proteins and other myosins. In mouse the dilute protein may play a role in the elaboration, maintenance, or function of cellular processes of melanocytes and neurons []. The MYO2 protein of Saccharomyces cerevisiae is implicated in vectorial vesicle transport and is homologous to the dilute protein over practically its entire length [].; PDB: 3MMI_B 2F6H_X.
Probab=13.68 E-value=1e+02 Score=24.84 Aligned_cols=24 Identities=33% Similarity=0.772 Sum_probs=12.9
Q ss_pred HHHHHHHhhhHHHHHHHhhcCccc
Q psy5648 269 YVYFLLLQYSEAILVMRKYCNWSK 292 (327)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~~~~~~~ 292 (327)
.+||+-...-..++.=++||+|++
T Consensus 6 lf~~i~~~~fN~ll~~~~~~~~~~ 29 (105)
T PF01843_consen 6 LFHYINASLFNSLLLRRKYCSWSK 29 (105)
T ss_dssp HHHHHHHHHHHHHHCHSS-B-HHH
T ss_pred HHHHHHHHHHHHHHCCCCcccccc
Confidence 333443334456666788999986
No 10
>KOG1664|consensus
Probab=12.79 E-value=1.2e+02 Score=28.90 Aligned_cols=17 Identities=18% Similarity=0.431 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHHHhhhc
Q psy5648 133 DEEMMKYIEEQLSKRKK 149 (327)
Q Consensus 133 DkHMmkYIEeELakRkg 149 (327)
=+|||+||+.|-..+-.
T Consensus 10 i~~M~aFI~qEA~EKA~ 26 (220)
T KOG1664|consen 10 IKHMVAFIRQEAEEKAK 26 (220)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 36899999988766443
Done!