Query 043927
Match_columns 109
No_of_seqs 120 out of 279
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 09:36:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043927.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043927hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0644 Uncharacterized conser 84.5 1.1 2.4E-05 42.6 3.7 63 40-103 872-936 (1113)
2 PF14345 GDYXXLXY: GDYXXLXY pr 44.4 13 0.00029 26.6 1.3 19 43-61 105-123 (144)
3 PF11995 DUF3490: Domain of un 42.3 11 0.00025 29.1 0.7 11 29-39 11-21 (161)
4 PF02470 MCE: mce related prot 38.8 56 0.0012 20.7 3.5 25 81-107 28-52 (81)
5 PF10367 Vps39_2: Vacuolar sor 29.4 23 0.00051 23.1 0.6 16 44-59 89-104 (109)
6 PRK02268 hypothetical protein; 23.6 27 0.00059 26.1 0.0 30 27-56 19-51 (141)
7 cd03475 Rieske_SoxF_SoxL SoxF 19.4 73 0.0016 24.6 1.7 22 84-105 142-163 (171)
8 KOG0060 Long-chain acyl-CoA tr 18.6 56 0.0012 30.3 1.0 38 18-56 469-511 (659)
9 cd04094 selB_III This family r 17.4 2.1E+02 0.0046 18.8 3.4 28 78-105 43-70 (97)
10 PF09348 DUF1990: Domain of un 17.0 1.7E+02 0.0036 22.0 3.1 14 75-88 74-87 (158)
No 1
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=84.54 E-value=1.1 Score=42.61 Aligned_cols=63 Identities=29% Similarity=0.450 Sum_probs=36.0
Q ss_pred CCCCCCCeEEEecCchHHHHhhhhhhh--hhhhCCCCCCCCcceEEEEEeeeeccCCCCeeeeEEE
Q 043927 40 TLPCEGQRVYYFPQGHMEQLEASMHQE--LEQQMPSFNLPSKILCKVVNVQRRAEPETDEVYAQIT 103 (109)
Q Consensus 40 ~lP~vgs~V~YFPQGH~Eq~~as~~~~--~~~~~p~~~lP~~ilCrV~~V~L~AD~~TDEVYAqi~ 103 (109)
-||..|.-|.||-|||-|-+.+..--+ +.... ..++-..=.|.|..+..--=+-+..--.+++
T Consensus 872 yipQmgDEViyfrQghqeyl~~~~~n~~~~~~~~-p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~ 936 (1113)
T KOG0644|consen 872 YIPQMGDEVIYFRQGHQEYLEAVRLNNIELNNKE-PWNKMAVEICKVEKLVYITYPGSGDSCCKMK 936 (1113)
T ss_pred ccccccceeehhhhhhHHHHhhhhhccccccccC-cccccchhhheeeeeeeeeccCCCcchheee
Confidence 489999999999999999988753211 11101 1122222367777766544333333333333
No 2
>PF14345 GDYXXLXY: GDYXXLXY protein
Probab=44.41 E-value=13 Score=26.64 Aligned_cols=19 Identities=32% Similarity=0.614 Sum_probs=15.4
Q ss_pred CCCCeEEEecCchHHHHhh
Q 043927 43 CEGQRVYYFPQGHMEQLEA 61 (109)
Q Consensus 43 ~vgs~V~YFPQGH~Eq~~a 61 (109)
..|..=||||+|+.++.+.
T Consensus 105 ~~g~e~yy~pEg~a~~~e~ 123 (144)
T PF14345_consen 105 DYGIERYYVPEGKAKEYEQ 123 (144)
T ss_pred EEcccceEcCcchHHHHHH
Confidence 4456779999999998876
No 3
>PF11995 DUF3490: Domain of unknown function (DUF3490); InterPro: IPR021881 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 160 amino acids in length. This domain is found associated with PF00225 from PFAM. This domain is found associated with PF00225 from PFAM. This domain has two conserved sequence motifs: EVE and ESA.
Probab=42.31 E-value=11 Score=29.10 Aligned_cols=11 Identities=64% Similarity=1.289 Sum_probs=10.0
Q ss_pred HHHHHhcCCCC
Q 043927 29 ELWHACAGPLA 39 (109)
Q Consensus 29 eLW~ACAGplv 39 (109)
+|||+|.-|+|
T Consensus 11 eLW~~C~VsLv 21 (161)
T PF11995_consen 11 ELWHACNVSLV 21 (161)
T ss_pred HHHHhcCcchh
Confidence 79999999986
No 4
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=38.82 E-value=56 Score=20.75 Aligned_cols=25 Identities=20% Similarity=0.505 Sum_probs=20.1
Q ss_pred eEEEEEeeeeccCCCCeeeeEEEeeeC
Q 043927 81 LCKVVNVQRRAEPETDEVYAQITLLPE 107 (109)
Q Consensus 81 lCrV~~V~L~AD~~TDEVYAqi~L~P~ 107 (109)
-=+|.+|+| +++++.|.+++.+.|.
T Consensus 28 VG~V~~i~l--~~~~~~v~v~~~i~~~ 52 (81)
T PF02470_consen 28 VGKVTSIEL--DPDGNRVRVTLRIDPD 52 (81)
T ss_pred EEEEEEEEE--cCCCCEEEEEEEEcCC
Confidence 457888888 8888889888888764
No 5
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=29.44 E-value=23 Score=23.05 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=12.8
Q ss_pred CCCeEEEecCchHHHH
Q 043927 44 EGQRVYYFPQGHMEQL 59 (109)
Q Consensus 44 vgs~V~YFPQGH~Eq~ 59 (109)
.++.+++||.||.-|.
T Consensus 89 ~~~~f~~~p~~~v~H~ 104 (109)
T PF10367_consen 89 GNSVFVVFPCGHVVHY 104 (109)
T ss_pred CCceEEEeCCCeEEec
Confidence 3488999999998654
No 6
>PRK02268 hypothetical protein; Provisional
Probab=23.58 E-value=27 Score=26.13 Aligned_cols=30 Identities=23% Similarity=0.462 Sum_probs=22.0
Q ss_pred cHHHHHHh---cCCCCCCCCCCCeEEEecCchH
Q 043927 27 YRELWHAC---AGPLATLPCEGQRVYYFPQGHM 56 (109)
Q Consensus 27 ~~eLW~AC---AGplv~lP~vgs~V~YFPQGH~ 56 (109)
..-+|+.| ++||-+|=+---.|||-|+=++
T Consensus 19 ~~gf~qv~hgK~apl~RmkpGD~ivyYsp~~~~ 51 (141)
T PRK02268 19 EGGFMQVCHGKAAPLRRMKPGDWIIYYSPKTTF 51 (141)
T ss_pred hCCEEEeCCCccchhhcCCCCCEEEEEeceEec
Confidence 34578999 7788888775555678888764
No 7
>cd03475 Rieske_SoxF_SoxL SoxF and SoxL family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of Sulfolobus acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome. The Rieske domain of SoxF has a 12 residue insertion which is not found in eukaryotic and bacterial Rieske proteins and is thought to influence the redox properties of the iron-sulfur cluster. SoxL is a Rieske protein which may be part of an archaeal bc-complex homologue whose physiological function is still unknown. SoxL has two features not seen in other Rieske proteins; (i) a significantly greater distance between the two cluster-binding sites and (ii) an unexpected Pro - Asp substitution at one of the cluster binding sites. SoxF and SoxL are found in archaea and in bacteria.
Probab=19.42 E-value=73 Score=24.56 Aligned_cols=22 Identities=32% Similarity=0.282 Sum_probs=16.0
Q ss_pred EEEeeeeccCCCCeeeeEEEee
Q 043927 84 VVNVQRRAEPETDEVYAQITLL 105 (109)
Q Consensus 84 V~~V~L~AD~~TDEVYAqi~L~ 105 (109)
+..+.|..|..||++||-=++-
T Consensus 142 Lp~~~L~~d~~~d~iyAvG~~g 163 (171)
T cd03475 142 LPAVILEYDSSTDDLYAVGTLG 163 (171)
T ss_pred cCEeEEEEeCCCCcEEEEeccC
Confidence 3456778899999999964443
No 8
>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]
Probab=18.64 E-value=56 Score=30.30 Aligned_cols=38 Identities=34% Similarity=0.808 Sum_probs=24.5
Q ss_pred CCCCCCCcccH---HHHHHhcCCCCCCCCCC--CeEEEecCchH
Q 043927 18 PTGGSNDALYR---ELWHACAGPLATLPCEG--QRVYYFPQGHM 56 (109)
Q Consensus 18 ~~~~~~~~v~~---eLW~ACAGplv~lP~vg--s~V~YFPQGH~ 56 (109)
++|+++.++-+ +||+.=-|.+ +.|.+| .-|||.||==.
T Consensus 469 ~sG~GKtSLlRvlggLWp~~~G~l-~k~~~~~~~~lfflPQrPY 511 (659)
T KOG0060|consen 469 PSGCGKTSLLRVLGGLWPSTGGKL-TKPTDGGPKDLFFLPQRPY 511 (659)
T ss_pred CCCCchhHHHHHHhcccccCCCeE-EecccCCCCceEEecCCCC
Confidence 34666666544 7998666655 555556 55999998433
No 9
>cd04094 selB_III This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=17.42 E-value=2.1e+02 Score=18.78 Aligned_cols=28 Identities=32% Similarity=0.427 Sum_probs=16.3
Q ss_pred CcceEEEEEeeeeccCCCCeeeeEEEee
Q 043927 78 SKILCKVVNVQRRAEPETDEVYAQITLL 105 (109)
Q Consensus 78 ~~ilCrV~~V~L~AD~~TDEVYAqi~L~ 105 (109)
..+.|||.-.+-.-=...|+.||||.|.
T Consensus 43 ~~v~~ri~ll~~~~~~pg~~~~a~l~l~ 70 (97)
T cd04094 43 SEVLARVVLLDRDELAPGEEALAQLRLE 70 (97)
T ss_pred ceEEEEEEeCCccccCCCCEEEEEEEEC
Confidence 4567777732200001278899999974
No 10
>PF09348 DUF1990: Domain of unknown function (DUF1990); InterPro: IPR018960 This entry represents proteins that are functionally uncharacterised.
Probab=16.97 E-value=1.7e+02 Score=22.00 Aligned_cols=14 Identities=36% Similarity=0.415 Sum_probs=11.0
Q ss_pred CCCCcceEEEEEee
Q 043927 75 NLPSKILCKVVNVQ 88 (109)
Q Consensus 75 ~lP~~ilCrV~~V~ 88 (109)
.++...+|||+.|.
T Consensus 74 ~~~~~~p~RVv~v~ 87 (158)
T PF09348_consen 74 PLWIRAPCRVVYVV 87 (158)
T ss_pred ceEEEeeEEEEEEE
Confidence 45667899999886
Done!