Query 042214
Match_columns 165
No_of_seqs 124 out of 173
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 03:59:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042214.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042214hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2441 mRNA splicing factor/p 100.0 1.4E-35 3E-40 266.8 6.1 110 5-126 395-505 (506)
2 PF09170 STN1_2: CST, Suppress 14.9 54 0.0012 27.4 0.0 12 36-47 20-31 (174)
3 PF11200 DUF2981: Protein of u 13.7 1.2E+02 0.0027 26.9 1.9 29 14-42 165-202 (318)
4 PF06381 DUF1073: Protein of u 12.9 55 0.0012 29.0 -0.6 24 16-40 275-299 (363)
5 PF08837 DUF1810: Protein of u 11.1 1.5E+02 0.0033 24.0 1.5 11 110-120 1-11 (139)
6 PF05586 Ant_C: Anthrax recept 10.0 2.4E+02 0.0052 21.6 2.1 35 114-164 59-93 (95)
7 KOG1777 Putative Zn-finger pro 9.5 2.3E+02 0.0051 27.7 2.3 61 8-78 476-543 (625)
8 KOG3062 RNA polymerase II elon 8.8 1.1E+02 0.0024 27.3 -0.0 33 9-44 125-157 (281)
9 PF05304 DUF728: Protein of un 7.0 1.3E+02 0.0029 23.2 -0.3 17 100-119 86-102 (103)
10 PF03360 Glyco_transf_43: Glyc 7.0 1.1E+02 0.0024 25.9 -0.9 15 29-45 83-97 (207)
No 1
>KOG2441 consensus mRNA splicing factor/probable chromatin binding snw family nuclear protein [RNA processing and modification; Chromatin structure and dynamics]
Probab=100.00 E-value=1.4e-35 Score=266.82 Aligned_cols=110 Identities=57% Similarity=0.986 Sum_probs=97.3
Q ss_pred CCCCCCCccchhhhccccCCCCCCCCCCCccccccccccCCCccccccccCCCCCCccccCCCcHHHHHHHhhc-cccCC
Q 042214 5 GAARGGEVTYDQRLFNQEKGMDSGFATDDQYNVYDKGLFTAQPTLSTLYRPKKDADDDMYGGNADEQMEKIMKT-DRFKP 83 (165)
Q Consensus 5 ~a~~s~E~~yDsRLFNQs~G~dSGFg~Dd~YNVYDKPLF~~~~a~~sIYRP~~~~d~d~~g~~~~~~l~k~~~t-~rF~~ 83 (165)
+...++|+|||||||||++||+|||++|++|||||+|||.+++ +++||||++++++++||.+ +++.++++ +||++
T Consensus 395 ~~~~~~e~qyDqRlFnq~~g~dSg~~~dd~ynvYD~~wr~~q~-~~siYrp~k~ld~e~yg~~---el~~~i~~~~rf~~ 470 (506)
T KOG2441|consen 395 KPSESGEVQYDQRLFNQGKGLDSGFADDDEYNVYDKPWRGAQD-ISSIYRPSKNLDDEVYGVD---ELESIIKGPNRFVA 470 (506)
T ss_pred CCCCCCcchhhHHhhhcccCccccccccccccccccccccCCc-hhhhhCCCccchhhhhcch---hhhhhccCcccccc
Confidence 4456899999999999999999999999999999999999999 7999999999999999942 35555654 99999
Q ss_pred CCcccCCcCCCCCCCCCeeeecccccCCCchhhHHHHHHHhcC
Q 042214 84 DKGFAGSSERSGPRDRPVEFEKEAEEADPFGLDEFLTEVEKGG 126 (165)
Q Consensus 84 ~k~F~Ga~~~~~~R~gPVqFEKd~~~~DpFGld~fL~~aKk~~ 126 (165)
+|+|+|+++.++. +||||||| |||||+ |+++|++.
T Consensus 471 dk~f~gsd~~~~~-~gPV~FEk-----Dpfg~~--l~~~~~~~ 505 (506)
T KOG2441|consen 471 DKSFSGSDERVRS-DGPVQFEK-----DPFGLD--LSDLKKHK 505 (506)
T ss_pred ccccccccccccC-CCCceecc-----CCcccc--hHhhhhcC
Confidence 9999999666555 99999998 699999 99999843
No 2
>PF09170 STN1_2: CST, Suppressor of cdc thirteen homolog, complex subunit STN1; InterPro: IPR015253 STN1 is a component of the CST complex, a complex that binds to single-stranded DNA and is required to protect telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. In addition to telomere protection, the CST complex has probably a more general role in DNA metabolism at non-telomeric sites [, ]. This entry represents a C-terminal uncharacterised domain ; PDB: 1WJ5_A.
Probab=14.93 E-value=54 Score=27.40 Aligned_cols=12 Identities=33% Similarity=0.448 Sum_probs=0.0
Q ss_pred ccccccccCCCc
Q 042214 36 NVYDKGLFTAQP 47 (165)
Q Consensus 36 NVYDKPLF~~~~ 47 (165)
+|||||+-....
T Consensus 20 ~vYDkPF~~p~~ 31 (174)
T PF09170_consen 20 KVYDKPFQLPEL 31 (174)
T ss_dssp ------------
T ss_pred HhcCCCCCCCcc
Confidence 699999876544
No 3
>PF11200 DUF2981: Protein of unknown function (DUF2981); InterPro: IPR021366 This eukaryotic family of proteins has no known function.
Probab=13.72 E-value=1.2e+02 Score=26.89 Aligned_cols=29 Identities=38% Similarity=0.559 Sum_probs=18.4
Q ss_pred chhhhccccCCCCCCC------CCCC---ccccccccc
Q 042214 14 YDQRLFNQEKGMDSGF------ATDD---QYNVYDKGL 42 (165)
Q Consensus 14 yDsRLFNQs~G~dSGF------g~Dd---~YNVYDKPL 42 (165)
.-|||=|..+|-..|= |.-| .||.||.|=
T Consensus 165 lkqrl~~~nsgdttgdt~~~~tg~~dgtanynaydnpd 202 (318)
T PF11200_consen 165 LKQRLQNKNSGDTTGDTTGDTTGNTDGTANYNAYDNPD 202 (318)
T ss_pred HHHHhccCCCCCccccccCCCCCCccCccccccccCCC
Confidence 3478888876644332 2222 699999984
No 4
>PF06381 DUF1073: Protein of unknown function (DUF1073); InterPro: IPR024459 This family consists of several hypothetical bacterial proteins. The function of this family is unknown.
Probab=12.95 E-value=55 Score=28.98 Aligned_cols=24 Identities=33% Similarity=0.617 Sum_probs=17.2
Q ss_pred hhhccc-cCCCCCCCCCCCccccccc
Q 042214 16 QRLFNQ-EKGMDSGFATDDQYNVYDK 40 (165)
Q Consensus 16 sRLFNQ-s~G~dSGFg~Dd~YNVYDK 40 (165)
++||+| .+|+.++ |+.|.-|.||.
T Consensus 275 t~L~G~sp~G~nat-ge~D~~nyyd~ 299 (363)
T PF06381_consen 275 TILFGQSPAGLNAT-GEEDIRNYYDR 299 (363)
T ss_pred hhccCCCCccCCCC-ChhHHHHHHHH
Confidence 689999 6777664 45666677775
No 5
>PF08837 DUF1810: Protein of unknown function (DUF1810); InterPro: IPR014937 This is a family of uncharacterised proteins. The structure of one of the members in this family has been solved and it adopts a mainly alpha helical structure. ; PDB: 2JEK_A.
Probab=11.15 E-value=1.5e+02 Score=24.01 Aligned_cols=11 Identities=45% Similarity=1.005 Sum_probs=6.2
Q ss_pred CCCchhhHHHH
Q 042214 110 ADPFGLDEFLT 120 (165)
Q Consensus 110 ~DpFGld~fL~ 120 (165)
+|||.|..|++
T Consensus 1 dD~~~L~RFv~ 11 (139)
T PF08837_consen 1 DDPFDLQRFVD 11 (139)
T ss_dssp --TT-THHHHH
T ss_pred CCchhHHHHHH
Confidence 38888888854
No 6
>PF05586 Ant_C: Anthrax receptor C-terminus region; InterPro: IPR008399 Anthrax is an acute disease in humans and animals caused by the bacterium Bacillus anthracis, which can be lethal. There are effective vaccines against anthrax, and some forms of the disease respond well to antibiotic treatment. The anthrax bacillus is one of only a few that can form long-lived spores. The anthrax toxin consists of the proteins protective antigen (PA) lethal factor (LF) and oedema factor (EF). The first step of toxin entry into host cells is the recognition by PA of a receptor on the surface of the target cell. The subsequent cleavage of receptor-bound PA enables EF and LF to bind and form a heptameric PA63 pre-pore, which triggers endocytosis. PA has been shown to bind to two cellular receptors: anthrax toxin receptor/tumour endothelial marker 8 and capillary morphogenesis protein 2 (CMG2), which are closely related host cell receptors. Both bind to PA with high affinity and are capable of mediating toxicity [, ], and both are type 1 membrane proteins that include an approximately 200-aa extracellular von Willebrand factor A (VWA) domain with a metal ion-dependent adhesion site (MIDAS) motif []. This region is found in the putatively cytoplasmic C terminus of the anthrax receptor.; GO: 0004872 receptor activity, 0016021 integral to membrane
Probab=10.01 E-value=2.4e+02 Score=21.59 Aligned_cols=35 Identities=29% Similarity=0.444 Sum_probs=23.1
Q ss_pred hhhHHHHHHHhcCcccccccCCCcccccCCCCCccCCCCCCCccccccccC
Q 042214 114 GLDEFLTEVEKGGKKALDKVGTGGTMRASAGSSMRDDYGGSGRSRIGFERG 164 (165)
Q Consensus 114 Gld~fL~~aKk~~kr~~~~~~~~g~~~~~~~~~~~~~~~~~~r~r~~~~~~ 164 (165)
-||.++.-+.+ ++|.. ..|||+.|+ +-+||+|.+-
T Consensus 59 rlDALwaLlRr----~YDrV---SlMRPq~gD---------kgrCinftrv 93 (95)
T PF05586_consen 59 RLDALWALLRR----QYDRV---SLMRPQPGD---------KGRCINFTRV 93 (95)
T ss_pred hHHHHHHHHHh----cccee---eeecCCCCC---------cceEEEeEec
Confidence 46777776665 56554 478887643 3359999864
No 7
>KOG1777 consensus Putative Zn-finger protein [General function prediction only]
Probab=9.49 E-value=2.3e+02 Score=27.68 Aligned_cols=61 Identities=25% Similarity=0.452 Sum_probs=37.9
Q ss_pred CCCCccchhh-----hccccCCCCCCCCCCCccccccccccCCCccccccccCCCC--CCccccCCCcHHHHHHHhhc
Q 042214 8 RGGEVTYDQR-----LFNQEKGMDSGFATDDQYNVYDKGLFTAQPTLSTLYRPKKD--ADDDMYGGNADEQMEKIMKT 78 (165)
Q Consensus 8 ~s~E~~yDsR-----LFNQs~G~dSGFg~Dd~YNVYDKPLF~~~~a~~sIYRP~~~--~d~d~~g~~~~~~l~k~~~t 78 (165)
..-.-+||.| +||-.+|+= ++ ..|++.||+..+. -+|-|-+-. .+..+|. ..+.++|++++
T Consensus 476 lrRNKI~dgRdgGicifngGkGll----e~--neif~Nalit~S~--psLr~Nri~~~~~N~iyd--N~D~vekAik~ 543 (625)
T KOG1777|consen 476 LRRNKIYDGRDGGICIFNGGKGLL----EH--NEIFRNALITDSA--PSLRRNRIHDERGNQIYD--NLDHVEKAIKK 543 (625)
T ss_pred eeecceecCCCCcEEEecCCceee----ec--hhhhhccccccCC--hhhhcccccccccccccc--chHHHHHHhhc
Confidence 3445679988 799888772 32 4589999995543 243332221 2234454 56788998866
No 8
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=8.76 E-value=1.1e+02 Score=27.33 Aligned_cols=33 Identities=30% Similarity=0.523 Sum_probs=26.2
Q ss_pred CCCccchhhhccccCCCCCCCCCCCccccccccccC
Q 042214 9 GGEVTYDQRLFNQEKGMDSGFATDDQYNVYDKGLFT 44 (165)
Q Consensus 9 s~E~~yDsRLFNQs~G~dSGFg~Dd~YNVYDKPLF~ 44 (165)
-+|.-|+--||+| +---|-+.++-|=+|.|||.
T Consensus 125 p~e~gy~~e~le~---L~~RyEeP~s~NRWDsPLf~ 157 (281)
T KOG3062|consen 125 PGEDGYDDELLEA---LVQRYEEPNSRNRWDSPLFT 157 (281)
T ss_pred CCCCCCCHHHHHH---HHHHhhCCCccccccCcceE
Confidence 3455599999998 44567888899999999994
No 9
>PF05304 DUF728: Protein of unknown function (DUF728); InterPro: IPR007968 This entry is represented by the Tobacco rattle virus, 16kDa protein; it is a family of uncharacterised viral proteins.
Probab=7.01 E-value=1.3e+02 Score=23.15 Aligned_cols=17 Identities=29% Similarity=0.647 Sum_probs=13.9
Q ss_pred CeeeecccccCCCchhhHHH
Q 042214 100 PVEFEKEAEEADPFGLDEFL 119 (165)
Q Consensus 100 PVqFEKd~~~~DpFGld~fL 119 (165)
|-.|-+| +-||||+++.
T Consensus 86 PKR~~RD---Di~fGl~~LF 102 (103)
T PF05304_consen 86 PKRLFRD---DIDFGLDQLF 102 (103)
T ss_pred hhhhhhc---cCccchhhhc
Confidence 7778887 5799999985
No 10
>PF03360 Glyco_transf_43: Glycosyltransferase family 43; InterPro: IPR005027 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 43 GT43 from CAZY comprises enzymes with only one known activities; beta-glucuronyltransferase(2.4.1 from EC);.; GO: 0015018 galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity, 0016020 membrane; PDB: 2D0J_B 3CU0_A 1FGG_B 1KWS_B 1V84_B 1V83_B 1V82_A.
Probab=7.00 E-value=1.1e+02 Score=25.90 Aligned_cols=15 Identities=60% Similarity=0.955 Sum_probs=9.3
Q ss_pred CCCCCccccccccccCC
Q 042214 29 FATDDQYNVYDKGLFTA 45 (165)
Q Consensus 29 Fg~Dd~YNVYDKPLF~~ 45 (165)
|+||| |+||--||..
T Consensus 83 FaDDd--NtYdl~LF~e 97 (207)
T PF03360_consen 83 FADDD--NTYDLRLFDE 97 (207)
T ss_dssp E--TT--SEE-HHHHHH
T ss_pred ECCCC--CeeeHHHHHH
Confidence 57775 7999999954
Done!