Query 041078
Match_columns 297
No_of_seqs 129 out of 164
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:35:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041078hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08610 Pex16: Peroxisomal me 100.0 1.2E-57 2.6E-62 435.7 18.5 221 32-268 1-272 (335)
2 KOG4546 Peroxisomal biogenesis 100.0 1.1E-52 2.4E-57 386.2 10.4 212 49-275 1-255 (320)
3 PF12783 Sec7_N: Guanine nucle 38.1 1.5E+02 0.0033 25.3 7.2 99 24-132 42-146 (168)
4 COG5122 TRS23 Transport protei 33.8 38 0.00082 29.0 2.6 25 21-45 88-112 (134)
5 cd02643 R3H_NF-X1 R3H domain o 25.1 43 0.00094 25.7 1.4 27 36-62 1-27 (74)
6 PF06363 Picorna_P3A: Picornav 24.6 1.5E+02 0.0033 24.4 4.5 29 17-45 27-71 (100)
7 KOG3369 Transport protein part 24.2 61 0.0013 29.6 2.4 22 24-45 155-176 (199)
8 PF05620 DUF788: Protein of un 17.7 3.1E+02 0.0067 24.0 5.5 30 244-273 47-76 (170)
9 PF03791 KNOX2: KNOX2 domain ; 17.0 2.8E+02 0.0061 20.3 4.1 41 17-57 7-51 (52)
10 PF10112 Halogen_Hydrol: 5-bro 16.6 1.5E+02 0.0033 26.2 3.3 45 15-62 93-137 (199)
No 1
>PF08610 Pex16: Peroxisomal membrane protein (Pex16); InterPro: IPR013919 Pex16 is a peripheral protein located at the matrix face of the peroxisomal membrane [].
Probab=100.00 E-value=1.2e-57 Score=435.66 Aligned_cols=221 Identities=33% Similarity=0.553 Sum_probs=169.8
Q ss_pred HHHHHHHHhhcchhhHhHHHHHhhhhhhccccCCCCcchhhHHHHHHHHHHHhhccccccCCCCC---------------
Q 041078 32 MDAYKRWVRRNRDYVHSLESLANGLTWLLPEWFSESEIGPEAVTTFLGIITAINEHIIETTPSQK--------------- 96 (297)
Q Consensus 32 ~~~Y~~~V~~Np~~v~~lEs~lr~lsyllpgrf~~se~~sE~vys~~nLl~l~nD~Il~~~p~s~--------------- 96 (297)
|++|++||++||+.|++||+++|++|||+||||+|||++||++||++||+++|||+||+++..+.
T Consensus 1 l~~Y~~~V~~N~~~vs~iEs~lr~lty~lpgRf~~se~~sE~vys~~nLl~l~nD~Il~~~~~~~t~~~~~~~~~~~~i~ 80 (335)
T PF08610_consen 1 LEAYEDWVRRNPSLVSQIESTLRSLTYFLPGRFRDSEIASEAVYSLSNLLSLYNDSILSKAIRSLTRYWTKKSPSYRRIA 80 (335)
T ss_pred ChHHHHHHHHCHHHHHHHHHHHHHhHHhcCCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCcccccccccccchHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999884322
Q ss_pred -----CchhhHHHhhHHhHhcCCCcceehhHHHHHHHHHHhh--------hhCCCCCCCCCCCcc----------cC---
Q 041078 97 -----GSDLEILVEVVAQHYYGDKKKWNFIAITEATNLTLEA--------VQSGKPGRNQRHDYL----------QN--- 150 (297)
Q Consensus 97 -----~e~~Evl~Em~a~r~~G~~~rW~~I~lie~~Ka~lR~--------~i~~~p~~~~~~~~~----------~~--- 150 (297)
.+|+|||+||+|+|+||++|||++|++||++||+||. +++.+|+.+..+..+ ++
T Consensus 81 ~~L~vi~~~E~l~Em~A~r~~G~~~rW~vI~~iE~iKa~lRL~Ll~~~~~~~l~~pp~p~~~~~~~~~~~~~~~~~~~~~ 160 (335)
T PF08610_consen 81 IWLSVIEYVEVLVEMAARRKWGEKGRWRVIVLIEAIKAILRLLLLRITKSRMLLSPPIPPRERDPQTLEAENNDQSNSSP 160 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCcceehhHHHHHHHHHHHHHHHHHHhcCCCccCCCCcccccccccccccccccccccc
Confidence 1999999999999999999999999999999999993 245555521111100 00
Q ss_pred ------CC-CCCCcc--ccccccccccccccCCCCCCCccchhhhhhhccccCCCCCCCCCC-ccccccccccccchhHH
Q 041078 151 ------NY-GHNSWN--LEGRALSALNRFGENARTASEPVWLQRIQHQQAIMEPPAPMVERP-TLSKLLSAKGTIGALFV 220 (297)
Q Consensus 151 ------~~-~~~~~~--rsgr~vr~l~~~~~~~~~~s~~~~~r~~~~~~~~~~p~~~~~~~~-tl~~~~~~~g~~g~~~~ 220 (297)
.. +...|. |+|+++++++ .+|+...+.+.+.. ...+..+.+++ .+.+++ +.+++
T Consensus 161 ~~~~~~~~~~~~~~~~~Rsg~~~~~l~--------~~p~~~~r~~~~l~--~~~~~~~~~~~~~~~~~l------~~~~~ 224 (335)
T PF08610_consen 161 GSGNSNSPPQSSSWTGPRSGRVIRSLP--------SSPSIHSRWWSLLS--KVLTEDDVKPPSSLPTPL------GGLGL 224 (335)
T ss_pred ccccccccccccccCCCCCCCcccccc--------CCCCccccchhhcc--ccccccccccccccCCcc------chHHH
Confidence 00 112333 8999999997 44555554222221 11122333332 222222 23468
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhhHHHhhcc
Q 041078 221 MGEVLFITRPLIYVLFIRKYGIRSWIPWFLSLAVDFTGLGFLSLATRS 268 (297)
Q Consensus 221 lAE~LyIlRPLIYll~l~~~G~rSWkPWLlSl~lEl~S~~L~~~~~~~ 268 (297)
+||+|||+|||||+++|++||+|||+||++||++|++|++|++++.+.
T Consensus 225 ~aE~L~IlRPLiy~~~l~~~g~kSW~Pwlisl~id~~s~~l~~~~~~~ 272 (335)
T PF08610_consen 225 LAEVLYILRPLIYLLALRRFGKKSWKPWLISLAIDLLSRQLRSRCKKS 272 (335)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHhccccC
Confidence 999999999999999999999999999999999999999999986554
No 2
>KOG4546 consensus Peroxisomal biogenesis protein (peroxin 16) [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-52 Score=386.24 Aligned_cols=212 Identities=28% Similarity=0.419 Sum_probs=171.4
Q ss_pred HHHHHhhhhhhccccCCCCcchhhHHHHHHHHHHHhhccccccCCC-----CCC---------------chhhHHHhhHH
Q 041078 49 LESLANGLTWLLPEWFSESEIGPEAVTTFLGIITAINEHIIETTPS-----QKG---------------SDLEILVEVVA 108 (297)
Q Consensus 49 lEs~lr~lsyllpgrf~~se~~sE~vys~~nLl~l~nD~Il~~~p~-----s~~---------------e~~Evl~Em~a 108 (297)
+|+++|++|||+||||++|++.||+|||++|+++++||+||+++|+ +.| ||+|||+||+|
T Consensus 1 ~et~~~g~syllagrfs~S~~~sElVys~sn~lv~~Nd~Iieka~~~~~~v~~s~qdpsl~l~~~lsvLe~~Evf~E~~A 80 (320)
T KOG4546|consen 1 LETAVRGFSYLLAGRFSDSHELSELVYSASNLLVLLNDGIIEKALRKKLPVSLSQQDPSLKLLTWLSVLECVEVFMEMGA 80 (320)
T ss_pred ChhHhhhHHHHccccccccchhHHHHHHHHhHHHHHhhHHHhccCCCCCCcccccCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999999999999953 111 99999999999
Q ss_pred hHhcCCCcceehhHHHHHHHHHHh--------hhhCCCCC--CCCCCC-----------cccCCCCCCCcc--ccccccc
Q 041078 109 QHYYGDKKKWNFIAITEATNLTLE--------AVQSGKPG--RNQRHD-----------YLQNNYGHNSWN--LEGRALS 165 (297)
Q Consensus 109 ~r~~G~~~rW~~I~lie~~Ka~lR--------~~i~~~p~--~~~~~~-----------~~~~~~~~~~~~--rsgr~vr 165 (297)
+|+||+.|||++|++||++||++| .+++++|| +..+.. .+.|++.+++|+ ++||++|
T Consensus 81 ~~~~G~~gkWlvIaLiqa~KAv~R~~ll~~s~~~~~tspPi~~ldr~t~~q~~~Gdsghs~gNqnH~~~~~lkrsgrv~R 160 (320)
T KOG4546|consen 81 AKVWGEVGKWLVIALIQAAKAVLRMLLLLWSKAGLQTSPPIVPLDRETQAQPPDGDSGHSPGNQNHEQSYVLKRSGRVVR 160 (320)
T ss_pred HHHhcccccchHHHHHHHHHHHHHHHHHHhccCCceeCCCCcccchhhhcCCCCCCCCCCCCccccccceeecccceeee
Confidence 999999999999999999999999 23666665 211110 112322336777 8999999
Q ss_pred cccccccCCCCCCCccchhhhhhhccccCCCCCCCCCCccccccccccccchhHHHHHHHHHHHHHHHHHHHHHhcCCCh
Q 041078 166 ALNRFGENARTASEPVWLQRIQHQQAIMEPPAPMVERPTLSKLLSAKGTIGALFVMGEVLFITRPLIYVLFIRKYGIRSW 245 (297)
Q Consensus 166 ~l~~~~~~~~~~s~~~~~r~~~~~~~~~~p~~~~~~~~tl~~~~~~~g~~g~~~~lAE~LyIlRPLIYll~l~~~G~rSW 245 (297)
.+. ++||.|.|+...++.-.+|+...+ +...++|++++ +.+||+|||.|||||+++|++||+|||
T Consensus 161 t~~--------~tppl~sr~~~qqr~~~~~~~~~E----~~~T~~pl~l~---~~iaE~LYI~rPLihll~~gl~G~RSW 225 (320)
T KOG4546|consen 161 TLQ--------NTPPLHSRHAPQQREGRQQQHHEE----LSATPTPLGLQ---ETIAEFLYIARPLIHLLSLGLWGQRSW 225 (320)
T ss_pred ecc--------CCCCcccccchhhHhhhcCcchHH----HhcCCchhhhh---hhhhhheeehhHHHHHHHHHhhhhcch
Confidence 997 888999888655544444443333 22344566654 679999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhHHHhhcccccCccc
Q 041078 246 IPWFLSLAVDFTGLGFLSLATRSRHVGKEQ 275 (297)
Q Consensus 246 kPWLlSl~lEl~S~~L~~~~~~~~~~~~~~ 275 (297)
|||++|+++|++|++|+++..+.+++.+.+
T Consensus 226 kpw~~alsvD~~s~~Ll~~sr~~~S~~ek~ 255 (320)
T KOG4546|consen 226 KPWLLALSVDVTSLSLLSDSRKGLSRREKR 255 (320)
T ss_pred hhhhhheeehhhhhhHHHhhhhhccchhHH
Confidence 999999999999999999987777766543
No 3
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=38.08 E-value=1.5e+02 Score=25.26 Aligned_cols=99 Identities=15% Similarity=0.223 Sum_probs=67.5
Q ss_pred hHHHHHHHHHHHHHHHh---hcchhhHhH-HHHHhhhhhhccccCCCCcchhhHHHHHHHHHHHhhccccccCCCCCCch
Q 041078 24 CLDRVCKAMDAYKRWVR---RNRDYVHSL-ESLANGLTWLLPEWFSESEIGPEAVTTFLGIITAINEHIIETTPSQKGSD 99 (297)
Q Consensus 24 ~l~~~~~~~~~Y~~~V~---~Np~~v~~l-Es~lr~lsyllpgrf~~se~~sE~vys~~nLl~l~nD~Il~~~p~s~~e~ 99 (297)
+|..+..+++.+-+... +||..+.-+ +.....+...+.. .+..+..-++-.+.+++.-+..++- ..
T Consensus 42 ~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~--~~~~i~~~slri~~~l~~~~~~~Lk--------~e 111 (168)
T PF12783_consen 42 SLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSS--SDFPIFSRSLRIFLTLLSRFRSHLK--------LE 111 (168)
T ss_pred HHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHHHHHHHHHH--------HH
Confidence 45677778888888888 455887777 4445555554443 2445555555556666655554433 46
Q ss_pred hhHHHhhHHhHhcCCCc--ceehhHHHHHHHHHHh
Q 041078 100 LEILVEVVAQHYYGDKK--KWNFIAITEATNLTLE 132 (297)
Q Consensus 100 ~Evl~Em~a~r~~G~~~--rW~~I~lie~~Ka~lR 132 (297)
+|+|+.....+.-..++ -|.-.+++|+++.+|+
T Consensus 112 le~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~~ 146 (168)
T PF12783_consen 112 LEVFLSHIILRILESDNSSLWQKELALEILRELCK 146 (168)
T ss_pred HHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHh
Confidence 89999999987764443 5888899999999998
No 4
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=33.75 E-value=38 Score=28.96 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=20.5
Q ss_pred chhhHHHHHHHHHHHHHHHhhcchh
Q 041078 21 LFLCLDRVCKAMDAYKRWVRRNRDY 45 (297)
Q Consensus 21 ~~~~l~~~~~~~~~Y~~~V~~Np~~ 45 (297)
..-.+-.+++++.-|.+||.+||..
T Consensus 88 t~na~~ql~kiY~lYsdYV~knPfy 112 (134)
T COG5122 88 TVNALFQLQKIYSLYSDYVTKNPFY 112 (134)
T ss_pred chhHHHHHHHHHHHHHHHhhcCCCC
Confidence 3445567999999999999999964
No 5
>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=25.06 E-value=43 Score=25.65 Aligned_cols=27 Identities=15% Similarity=0.197 Sum_probs=22.4
Q ss_pred HHHHhhcchhhHhHHHHHhhhhhhccc
Q 041078 36 KRWVRRNRDYVHSLESLANGLTWLLPE 62 (297)
Q Consensus 36 ~~~V~~Np~~v~~lEs~lr~lsyllpg 62 (297)
++|.++||+.+..+|..|+.+.-=...
T Consensus 1 ~~~~~~~~~~~~~vE~~l~~la~~~~~ 27 (74)
T cd02643 1 KNMAKKDPKFVKDVEKDLIELVESVNK 27 (74)
T ss_pred CchHHHCHHHHHHHHHHHHHHHHHHHh
Confidence 368899999999999999988765543
No 6
>PF06363 Picorna_P3A: Picornaviridae P3A protein; InterPro: IPR009419 The viral polyprotein of parechoviruses contains: coat protein VP0 (P1AB); coat protein VP3 (P1C); coat protein VP1 (P1D); picornain 2A (3.4.22.29 from EC, core protein P2A); core protein P2B; core protein P2C; core protein P3A; genome-linked protein VPg (P3B); picornain 3C (3.4.22.28 from EC, MEROPS peptidase subfamily 3CF: parechovirus picornain 3C (P3C))[]. This entry consists of the parechovirus P3A protein. P3A has been identified as a genome-linked protein (VPg), which is involved in replication [].; GO: 0019012 virion
Probab=24.59 E-value=1.5e+02 Score=24.37 Aligned_cols=29 Identities=31% Similarity=0.652 Sum_probs=19.1
Q ss_pred ecCcchhhHH----------------HHHHHHHHHHHHHhhcchh
Q 041078 17 RKPSLFLCLD----------------RVCKAMDAYKRWVRRNRDY 45 (297)
Q Consensus 17 ~~~~~~~~l~----------------~~~~~~~~Y~~~V~~Np~~ 45 (297)
-+||+|.|.. ....-+.+.-+||.||-+.
T Consensus 27 P~~S~F~CFa~~~~~~~~~a~~kv~~W~~~k~k~~~~FV~RNk~W 71 (100)
T PF06363_consen 27 PRPSVFKCFASKVPTKIKTACDKVKSWVKNKMKSMLSFVERNKAW 71 (100)
T ss_pred CCCChHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHcchH
Confidence 4688888875 2333466677788888753
No 7
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.15 E-value=61 Score=29.64 Aligned_cols=22 Identities=23% Similarity=0.303 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHhhcchh
Q 041078 24 CLDRVCKAMDAYKRWVRRNRDY 45 (297)
Q Consensus 24 ~l~~~~~~~~~Y~~~V~~Np~~ 45 (297)
.=+.++++++-|.|||.+||-.
T Consensus 155 aD~lLrKiYelYsDyvlKNPfY 176 (199)
T KOG3369|consen 155 ADSLLRKIYELYSDYVLKNPFY 176 (199)
T ss_pred HHHHHHHHHHHHHHHhhcCCcc
Confidence 3457899999999999999964
No 8
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=17.71 E-value=3.1e+02 Score=24.02 Aligned_cols=30 Identities=20% Similarity=0.241 Sum_probs=24.7
Q ss_pred ChHHHHHHHHHHHHHhhhHHHhhcccccCc
Q 041078 244 SWIPWFLSLAVDFTGLGFLSLATRSRHVGK 273 (297)
Q Consensus 244 SWkPWLlSl~lEl~S~~L~~~~~~~~~~~~ 273 (297)
+|.+|++..+..+.+...+...-++.-.+.
T Consensus 47 ~~~~~~~~~~~~~~~~~~l~~~~rp~~~~~ 76 (170)
T PF05620_consen 47 SWFGYLLFSLPAIFCYYFLEKMARPKYDET 76 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCcCCC
Confidence 699999999999999999988777664433
No 9
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=16.99 E-value=2.8e+02 Score=20.31 Aligned_cols=41 Identities=22% Similarity=0.413 Sum_probs=29.7
Q ss_pred ecCcchhhHHHHHHHHHHHHHHHhhcc----hhhHhHHHHHhhhh
Q 041078 17 RKPSLFLCLDRVCKAMDAYKRWVRRNR----DYVHSLESLANGLT 57 (297)
Q Consensus 17 ~~~~~~~~l~~~~~~~~~Y~~~V~~Np----~~v~~lEs~lr~ls 57 (297)
..|.++++......++..|++=+.+.- .....||+-|..||
T Consensus 7 ~dpELDqFMeaYc~~L~kykeeL~~p~~EA~~f~~~ie~qL~~Lt 51 (52)
T PF03791_consen 7 ADPELDQFMEAYCDMLVKYKEELQRPFQEAMEFCREIEQQLSSLT 51 (52)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 357777888888888888887766654 55677888777765
No 10
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=16.56 E-value=1.5e+02 Score=26.24 Aligned_cols=45 Identities=16% Similarity=0.312 Sum_probs=37.5
Q ss_pred eeecCcchhhHHHHHHHHHHHHHHHhhcchhhHhHHHHHhhhhhhccc
Q 041078 15 RFRKPSLFLCLDRVCKAMDAYKRWVRRNRDYVHSLESLANGLTWLLPE 62 (297)
Q Consensus 15 ~~~~~~~~~~l~~~~~~~~~Y~~~V~~Np~~v~~lEs~lr~lsyllpg 62 (297)
+.+.+....-+..+.+...++=+.|.+||....+++..+ .|-||+
T Consensus 93 ~i~~~~~~~~~~~~~~~~~~I~~~v~~~P~~l~~a~~Fl---~~yLp~ 137 (199)
T PF10112_consen 93 RIRDLEMIEKVSRIEKIARRIFKYVEKDPERLTQARKFL---YYYLPT 137 (199)
T ss_pred HcCCHHHHHHHHHHHHHHHHHHHHHHHCHHhHHHHHHHH---HHHhhH
Confidence 455666777888899999999999999999999998765 678885
Done!