Query 032413
Match_columns 141
No_of_seqs 111 out of 207
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 13:46:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032413.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032413hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05348 UMP1: Proteasome matu 100.0 1.3E-50 2.7E-55 303.2 11.0 122 7-131 9-130 (130)
2 KOG3061 Proteasome maturation 100.0 8.9E-44 1.9E-48 266.8 9.2 133 1-133 5-137 (137)
3 PF14646 MYCBPAP: MYCBP-associ 36.8 34 0.00073 29.9 2.9 17 36-52 5-21 (426)
4 PRK06249 2-dehydropantoate 2-r 31.5 61 0.0013 26.7 3.5 47 53-103 233-279 (313)
5 KOG4404 Tandem pore domain K+ 23.2 1.3E+02 0.0027 26.4 4.0 47 33-79 27-73 (350)
6 KOG0891 DNA-dependent protein 21.9 50 0.0011 35.6 1.5 51 55-110 2121-2171(2341)
7 PF06041 DUF924: Bacterial pro 20.0 16 0.00035 28.7 -1.9 34 69-110 153-186 (188)
8 PF05924 SAMP: SAMP Motif; In 18.6 69 0.0015 16.7 0.9 15 53-67 4-18 (20)
9 PF11570 E2R135: Coiled-coil r 18.0 60 0.0013 24.7 0.9 18 34-51 1-18 (136)
10 PF08546 ApbA_C: Ketopantoate 13.3 1.9E+02 0.0041 20.1 2.5 48 53-103 48-95 (125)
No 1
>PF05348 UMP1: Proteasome maturation factor UMP1; InterPro: IPR008012 UMP1 is a short-lived chaperone present in the precursor form of the 20S proteasome and absent in the mature complex. UMP1 is required for the correct assembly and enzymatic activation of the proteasome. UMP1 seems to be degraded by the proteasome upon its formation.
Probab=100.00 E-value=1.3e-50 Score=303.19 Aligned_cols=122 Identities=39% Similarity=0.659 Sum_probs=116.8
Q ss_pred CCCCCCCCCccccccCCccccccccCCCchHHHHHhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHhhCCCCCCCCCC
Q 032413 7 ISHQVGEFQNDVFRFDIHGVKSDIVGSHPLETLCQSAKQREEEIKRRILVNTYGTAFPMKMDFDRQILSRFQRPTGAIPS 86 (141)
Q Consensus 7 ~~~~~~g~~~DtLR~G~~~~~~~l~~~HPLe~~~~n~~~~q~~~k~~~lr~~yG~~~PlR~~MEr~i~s~~~rlPg~l~S 86 (141)
+|+.. ++| |++|+|+.+++++++++||||++++||++||+++||+++||+||+|+|+|+.||++||++++|+|+.++|
T Consensus 9 ~~~~~-~~~-d~~r~G~~~~~~~l~~~HPLE~~~~n~~~~q~~~km~~lr~~~G~~~plr~~ME~~i~~~~~r~P~~l~s 86 (130)
T PF05348_consen 9 APSLP-DTH-DALRHGLSSAKSDLNSSHPLESRLKNWEKTQEELKMEMLRNTYGLAAPLRLQMERKIVSQSQRLPGGLPS 86 (130)
T ss_pred CCccc-chh-hhhccCCcchhhccCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHccCCCCCCCCc
Confidence 55666 788 9999999999999999999999999999999999999999999999999999999999999999955999
Q ss_pred ChhhHHhhcCCCCccccccccCCCCCCCCCCCCCcHHHHHHHhCC
Q 032413 87 SMLGLEAVTGSLEDFGFEHYLNDPRESESFRPADLHHGMEVRIGL 131 (141)
Q Consensus 87 S~l~lDiL~Grd~~i~feD~ln~p~~se~~~~~d~H~~mE~rlgi 131 (141)
||||+|||+|+|++|+||||||+|+.++.+++ |+|++||+||||
T Consensus 87 S~l~ldiL~G~d~~i~~eD~l~~p~~~e~~~~-d~H~~mE~klGi 130 (130)
T PF05348_consen 87 SNLHLDILTGRDETIDFEDYLNGPEDSEVMGP-DPHSEMERKLGI 130 (130)
T ss_pred chHHHHHHcCCcccccHHHhcCCcccccccCC-ChHHHHHHHcCC
Confidence 99999999999999999999999999998876 999999999998
No 2
>KOG3061 consensus Proteasome maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.9e-44 Score=266.75 Aligned_cols=133 Identities=42% Similarity=0.685 Sum_probs=124.5
Q ss_pred CCccCCCCCCCCCCCccccccCCccccccccCCCchHHHHHhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHhhCCCC
Q 032413 1 MAAQNKISHQVGEFQNDVFRFDIHGVKSDIVGSHPLETLCQSAKQREEEIKRRILVNTYGTAFPMKMDFDRQILSRFQRP 80 (141)
Q Consensus 1 ~~~~~~~~~~~~g~~~DtLR~G~~~~~~~l~~~HPLe~~~~n~~~~q~~~k~~~lr~~yG~~~PlR~~MEr~i~s~~~rl 80 (141)
|++.+.+...++|..+|.+|.|..++++++..+||||++++||+++|+++++.++|++||+++|+|+.||++|++|++|+
T Consensus 5 ~~s~~~~a~~~~g~~~d~~~~g~~~v~t~l~~~HPLess~kn~~~tQ~q~n~~~~R~~~Gl~~Plk~~Me~~~~~q~~rp 84 (137)
T KOG3061|consen 5 IESVKEIAVEVLGATNDALREGLHNVSTQLILSHPLESSLKNWETTQEQLNMVVLRNIYGLAEPLKMDMERKIASQFQRP 84 (137)
T ss_pred ccchhhhhhhccccchhhhccccccccchhcccCcchhhhhhHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHhcCC
Confidence 45555666666677779999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCChhhHHhhcCCCCccccccccCCCCCCCCCCCCCcHHHHHHHhCCCC
Q 032413 81 TGAIPSSMLGLEAVTGSLEDFGFEHYLNDPRESESFRPADLHHGMEVRIGLSK 133 (141)
Q Consensus 81 Pg~l~SS~l~lDiL~Grd~~i~feD~ln~p~~se~~~~~d~H~~mE~rlgi~~ 133 (141)
|++++|||+|+|||+|++++|+||||||||..+++....|+|..||++|||+|
T Consensus 85 p~~~~Ssn~~ldvL~g~~~~ig~ED~~ndp~~sst~~~~d~h~~~ek~lGi~~ 137 (137)
T KOG3061|consen 85 PAPLPSSNLGLDVLTGREDNIGFEDILNDPRLSSTEVEVDPHHGMEKRLGISK 137 (137)
T ss_pred CCCCCccchhhHHHhcccccCCchhccCCccccccccccccccchhhhhcccC
Confidence 98899999999999999999999999999999888877899999999999986
No 3
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=36.82 E-value=34 Score=29.91 Aligned_cols=17 Identities=12% Similarity=0.126 Sum_probs=12.5
Q ss_pred hHHHHHhHHHHHHHHHH
Q 032413 36 LETLCQSAKQREEEIKR 52 (141)
Q Consensus 36 Le~~~~n~~~~q~~~k~ 52 (141)
.+.+++||.++....|.
T Consensus 5 ~d~~L~~W~~~l~~r~~ 21 (426)
T PF14646_consen 5 QDNRLKNWKRTLQDRKK 21 (426)
T ss_pred hhhHHHHHHHHHHHHHH
Confidence 46789999998665443
No 4
>PRK06249 2-dehydropantoate 2-reductase; Provisional
Probab=31.48 E-value=61 Score=26.67 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=33.5
Q ss_pred HHHHHhhcCcchhHHHHHHHHHhhCCCCCCCCCCChhhHHhhcCCCCcccc
Q 032413 53 RILVNTYGTAFPMKMDFDRQILSRFQRPTGAIPSSMLGLEAVTGSLEDFGF 103 (141)
Q Consensus 53 ~~lr~~yG~~~PlR~~MEr~i~s~~~rlPg~l~SS~l~lDiL~Grd~~i~f 103 (141)
..+.+..|..+|-... .+++....+.|. -.|||+ .|+..||-.+||+
T Consensus 233 ~~va~a~Gi~~~~~~~--~~~~~~~~~~~~-~~sSM~-qD~~~gr~tEid~ 279 (313)
T PRK06249 233 IQGAAACGHTLPEGYA--DHMLAVTERMPD-YRPSMY-HDFEEGRPLELEA 279 (313)
T ss_pred HHHHHhcCCCCChhHH--HHHHHHhhcCCC-CCChHH-HHHHCCCcccHHH
Confidence 3455667888775432 566666777775 667777 7999999998876
No 5
>KOG4404 consensus Tandem pore domain K+ channel TASK3/THIK-1 [Inorganic ion transport and metabolism]
Probab=23.20 E-value=1.3e+02 Score=26.42 Aligned_cols=47 Identities=17% Similarity=0.130 Sum_probs=40.7
Q ss_pred CCchHHHHHhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHhhCCC
Q 032413 33 SHPLETLCQSAKQREEEIKRRILVNTYGTAFPMKMDFDRQILSRFQR 79 (141)
Q Consensus 33 ~HPLe~~~~n~~~~q~~~k~~~lr~~yG~~~PlR~~MEr~i~s~~~r 79 (141)
-|-||+--+.|+....+.++..+++.|+...+==+.||+-|++...+
T Consensus 27 FdaLEse~E~~~r~~l~~~~~~~~~kyn~s~~d~r~~er~i~~s~ph 73 (350)
T KOG4404|consen 27 FDALESENEARERERLERRLANLKRKYNLSEEDYRELERVILKSEPH 73 (350)
T ss_pred HHHhcCcchHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhcCcc
Confidence 45677777888888888999999999999999999999999987654
No 6
>KOG0891 consensus DNA-dependent protein kinase [Replication, recombination and repair]
Probab=21.93 E-value=50 Score=35.56 Aligned_cols=51 Identities=24% Similarity=0.112 Sum_probs=43.3
Q ss_pred HHHhhcCcchhHHHHHHHHHhhCCCCCCCCCCChhhHHhhcCCCCccccccccCCC
Q 032413 55 LVNTYGTAFPMKMDFDRQILSRFQRPTGAIPSSMLGLEAVTGSLEDFGFEHYLNDP 110 (141)
Q Consensus 55 lr~~yG~~~PlR~~MEr~i~s~~~rlPg~l~SS~l~lDiL~Grd~~i~feD~ln~p 110 (141)
.|++-+...+-.+.|.-.|....+|.| ||+.+|.++|+...|||.|-|--+
T Consensus 2121 ~rrt~yt~S~A~msmvgyilGlGdrhp-----sNlmldr~tgkvihidfgdcfevA 2171 (2341)
T KOG0891|consen 2121 DRRTNYTRSLAVMSMVGYILGLGDRHP-----SNLMLDRLTGKVIHIDFGDCFEVA 2171 (2341)
T ss_pred HHhhhhHHHHHHHHHHHHHhhccccch-----hhhhhhhcccceEEechHHHHHHH
Confidence 344555566778999999999999999 699999999999999999988543
No 7
>PF06041 DUF924: Bacterial protein of unknown function (DUF924); InterPro: IPR010323 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2I6H_B.
Probab=19.95 E-value=16 Score=28.69 Aligned_cols=34 Identities=26% Similarity=0.222 Sum_probs=22.4
Q ss_pred HHHHHHhhCCCCCCCCCCChhhHHhhcCCCCccccccccCCC
Q 032413 69 FDRQILSRFQRPTGAIPSSMLGLEAVTGSLEDFGFEHYLNDP 110 (141)
Q Consensus 69 MEr~i~s~~~rlPg~l~SS~l~lDiL~Grd~~i~feD~ln~p 110 (141)
.=++|+++++|.| |...++||..|=+...||.+|
T Consensus 153 ~H~~iI~rFGRfP--------hRN~~LGR~sT~eE~~~L~~~ 186 (188)
T PF06041_consen 153 RHRDIIERFGRFP--------HRNAALGRESTPEELAYLAQG 186 (188)
T ss_dssp HHHHHHHHHSS-G--------GGCCCCT----HHHHHHHHT-
T ss_pred HHHHHHHHhCCCc--------ccccccCCCCCHHHHHHHHcC
Confidence 4578999999999 566678999888888888754
No 8
>PF05924 SAMP: SAMP Motif; InterPro: IPR009224 This short region is found repeated in the mid region of the adenomatous polyposis proteins (APCs). This motif binds axin [].; GO: 0008013 beta-catenin binding, 0016055 Wnt receptor signaling pathway; PDB: 1EMU_B 2RQU_B.
Probab=18.59 E-value=69 Score=16.72 Aligned_cols=15 Identities=33% Similarity=0.576 Sum_probs=10.1
Q ss_pred HHHHHhhcCcchhHH
Q 032413 53 RILVNTYGTAFPMKM 67 (141)
Q Consensus 53 ~~lr~~yG~~~PlR~ 67 (141)
++|+.+-|+|+|-|+
T Consensus 4 eiL~~CI~sAmPk~~ 18 (20)
T PF05924_consen 4 EILQECIGSAMPKRR 18 (20)
T ss_dssp HHHHHHHHCTS----
T ss_pred HHHHHHHHHhccccc
Confidence 789999999999765
No 9
>PF11570 E2R135: Coiled-coil receptor-binding R-domain of colicin E2; InterPro: IPR024566 Bacteriocins are protein antibiotics that kill bacteria closely related to the producing species. Colicins are a subgroup of bacteriocins that are produced by and target Escherichia coli. The lethal action of most colicins is exerted either by formation of a pore in the cytoplasmic membrane of the target cell, or by an enzymatic nuclease digestion mechanism. Most colicins are able to translocate the outer membrane by a two-receptor system, where one receptor is used for the initial binding and the second for translocation. The initial binding is to cell surface receptors such as the porins OmpF, FepA, BtuB, Cir and FhuA. The presence of specific periplasmic proteins, such as TolA, TolB, TolC, or TonB, are required for translocation across the membrane []. Colicins are composed of domains with distinct functional roles. In general they contain a central R (receptor) domain that mediates receptor binding, an N-terminal T (translocation) domain that mediates translocation of the protein from the outer membrane receptor to the colicin's target within the cell, and a C-terminal C (catalytic) domain that performs the catalytic cleavage []. This entry represents the central R domain found in colicin-E2 and other colicins.; PDB: 2YSU_B 1UJW_B 2B5U_C 1JCH_A.
Probab=18.04 E-value=60 Score=24.72 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=13.9
Q ss_pred CchHHHHHhHHHHHHHHH
Q 032413 34 HPLETLCQSAKQREEEIK 51 (141)
Q Consensus 34 HPLe~~~~n~~~~q~~~k 51 (141)
||+|..++||++.+.++.
T Consensus 1 hpve~a~rny~~a~aeL~ 18 (136)
T PF11570_consen 1 HPVEVAERNYEAARAELD 18 (136)
T ss_dssp -HHHHHHHHCCHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHH
Confidence 999999999988766543
No 10
>PF08546 ApbA_C: Ketopantoate reductase PanE/ApbA C terminal; InterPro: IPR013752 This is the C-terminal domain of 2-dehydropantoate 2-reductases also known as ketopantoate reductases, 1.1.1.169 from EC. The reaction catalysed by this enzyme is: (R)-pantoate + NADP(+) = 2-dehydropantoate + NADPH. AbpA catalyses the NADPH reduction of ketopantoic acid to pantoic acid in the alternative pyrimidine biosynthetic (APB) pathway []. ApbA and PanE are allelic []. ApbA, the ketopantoate reductase enzyme is required for the synthesis of thiamine via the APB biosynthetic pathway []. ; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 1YJQ_A 1KS9_A 2OFP_A 1YON_A 2EW2_B 3EGO_B 3HN2_D 3GHY_B 3G17_E 3HWR_B ....
Probab=13.26 E-value=1.9e+02 Score=20.13 Aligned_cols=48 Identities=10% Similarity=0.171 Sum_probs=27.5
Q ss_pred HHHHHhhcCcchhHHHHHHHHHhhCCCCCCCCCCChhhHHhhcCCCCcccc
Q 032413 53 RILVNTYGTAFPMKMDFDRQILSRFQRPTGAIPSSMLGLEAVTGSLEDFGF 103 (141)
Q Consensus 53 ~~lr~~yG~~~PlR~~MEr~i~s~~~rlPg~l~SS~l~lDiL~Grd~~i~f 103 (141)
-.+.+..|..++-. ..+..+..-....|. . .+.+..|+..||..+||+
T Consensus 48 ~~va~a~G~~l~~~-~~~~~~~~~~~~~~~-~-~~SM~~D~~~gr~tEid~ 95 (125)
T PF08546_consen 48 IAVARALGIPLDPD-DLEEAIERLIRSTPD-N-RSSMLQDIEAGRPTEIDY 95 (125)
T ss_dssp HHHHHHTTSS--HH-HHHHHHHHHHHCTTT-T---HHHHHHHTTB--SHHH
T ss_pred HHHHHHhhccCcHH-HHHHHHHHHHHhcCC-c-cccHHHHHHHcccccHHH
Confidence 34556778664433 255555555555664 4 456778999999888874
Done!