Query 037984
Match_columns 201
No_of_seqs 99 out of 123
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 06:21:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037984hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11891 DUF3411: Domain of un 100.0 2.1E-57 4.5E-62 381.2 8.2 133 9-141 1-180 (180)
2 PF07096 DUF1358: Protein of u 36.8 99 0.0022 25.3 5.4 53 77-130 28-93 (124)
3 TIGR03793 TOMM_pelo TOMM prope 32.2 15 0.00033 27.3 0.0 11 6-16 18-28 (77)
4 PF10247 Romo1: Reactive mitoc 31.5 30 0.00064 25.4 1.4 51 83-133 14-66 (67)
5 PF07281 INSIG: Insulin-induce 30.0 1.1E+02 0.0024 26.3 4.9 39 155-200 79-117 (193)
6 PF10653 Phage-A118_gp45: Prot 28.2 54 0.0012 23.4 2.2 27 8-37 22-48 (62)
7 KOG4096 Uncharacterized conser 26.2 23 0.00051 26.6 0.1 22 113-134 50-71 (75)
8 PF14407 Frankia_peptide: Ribo 22.0 32 0.00069 24.9 0.1 13 5-17 13-25 (61)
9 PF06946 Phage_holin_5: Phage 20.3 1.2E+02 0.0027 23.6 3.1 27 66-103 57-83 (93)
10 PF02979 NHase_alpha: Nitrile 18.5 36 0.00078 29.6 -0.2 13 5-17 54-66 (188)
No 1
>PF11891 DUF3411: Domain of unknown function (DUF3411); InterPro: IPR021825 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 168 to 186 amino acids in length. This domain has a conserved RYQ sequence motif.
Probab=100.00 E-value=2.1e-57 Score=381.17 Aligned_cols=133 Identities=44% Similarity=0.754 Sum_probs=125.7
Q ss_pred hhhhcCchhhHHHHHHHhhhhHHHHHHHHhhcCCc---------------eEeeeeec----------------------
Q 037984 9 PRMLADPAFLYKLLVEQAPIIGCTVWWELENRKDR---------------RLINVCSL---------------------- 51 (201)
Q Consensus 9 ~RllADP~Fl~Kl~~E~~i~i~~~~~~E~~~R~~~---------------~i~nf~tv---------------------- 51 (201)
|||+|||+|||||++||+||++|+++|||++|||+ +++||++|
T Consensus 1 ~RllADP~Fl~Kl~~E~~i~i~~~~~~e~~~R~e~f~~E~d~v~~d~v~~~i~n~~lv~llAPt~s~~~~~~~~~~~~~~ 80 (180)
T PF11891_consen 1 ERLLADPSFLFKLAIEEVIGIGCATAAEYAKRGERFWNELDFVFSDVVVGSIVNFALVWLLAPTRSFGSPAASSPGGGLQ 80 (180)
T ss_pred CcccccchHHHHHHHHHHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHHhccchHhhCcccccccchHHH
Confidence 79999999999999999999999999999999999 57888876
Q ss_pred ----cCChhhhhhcCCCCccchhhhHHHHHhhchhhhhhhhhHhhhhHHHHHHHhh--ccC----CCCCCCCchhhhhHH
Q 037984 52 ----SFPNNILERSCPFREFDLQKRIHSLFYKAAELCMVGLTAGAVQGSLSNYLAG--KKD----RLSVTIPSVSTNALG 121 (201)
Q Consensus 52 ----slP~n~Fq~~~pg~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~--kk~----~~s~~~ppv~~ta~~ 121 (201)
+||+|+||+++||++||++||++|++|||++|++||++||++|+++||+|++ ||. ++++|+|||++||++
T Consensus 81 ~~~~~~P~n~Fq~~~~g~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~~rk~~~~~~e~~~~~ppv~~ta~~ 160 (180)
T PF11891_consen 81 KFLGSLPNNAFQKGYPGRSFSLAQRIGAFVYKGAKLAAVGFIAGLVGTGLSNALIAARKKVDPSFEPSVPVPPVLKTALG 160 (180)
T ss_pred HHHHhChHHHhccCCCCCcccHHHHHHHHHHcchHhhhhHHHHHHHHHHHHHHHHHHHHhcCccccCCCCCCCHHHHHHH
Confidence 3999999999999999999999999999999999999999999999999998 444 455679999999999
Q ss_pred HHHHHhhhhhhHHHHHHhHH
Q 037984 122 YGAFLGLCANMRYQLLCGFD 141 (201)
Q Consensus 122 ~g~fmGvSsNlRYQ~l~Gie 141 (201)
||+|||+|||+|||+|||+|
T Consensus 161 ~g~fmGvSsNlRYQil~GiE 180 (180)
T PF11891_consen 161 WGAFMGVSSNLRYQILNGIE 180 (180)
T ss_pred HHHHHhhhHhHHHHHHcCCC
Confidence 99999999999999999987
No 2
>PF07096 DUF1358: Protein of unknown function (DUF1358); InterPro: IPR009792 This family consists of several hypothetical eukaryotic proteins of around 125 residues in length. The function of this family is unknown.
Probab=36.80 E-value=99 Score=25.27 Aligned_cols=53 Identities=25% Similarity=0.242 Sum_probs=33.6
Q ss_pred HhhchhhhhhhhhHhhhhHHHHHHHhhccCCCC-----------CCC--CchhhhhHHHHHHHhhhh
Q 037984 77 FYKAAELCMVGLTAGAVQGSLSNYLAGKKDRLS-----------VTI--PSVSTNALGYGAFLGLCA 130 (201)
Q Consensus 77 ~~kg~~l~~VG~~ag~vg~~lsn~L~~kk~~~s-----------~~~--ppv~~ta~~~g~fmGvSs 130 (201)
++.|+.++.|+.++-++|-+.+-++.+|| +|+ ++. ..+-.-|++||..+.+..
T Consensus 28 ~~~~~FL~~Va~~s~~aGF~~tl~~aKKk-~p~~F~kg~~~~~~l~esGasLAlRALgWGTlyA~~G 93 (124)
T PF07096_consen 28 IKGGAFLGGVAGASALAGFGTTLALAKKK-SPKWFSKGISQTKALHESGASLALRALGWGTLYAVCG 93 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcHHHhccCcCcccCCcchHHHHHHHHhHHHHHHHHh
Confidence 34556677788888777777776666543 322 111 224667899998877653
No 3
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=32.17 E-value=15 Score=27.26 Aligned_cols=11 Identities=18% Similarity=0.392 Sum_probs=7.9
Q ss_pred cchhhhhcCch
Q 037984 6 CCCPRMLADPA 16 (201)
Q Consensus 6 ~~r~RllADP~ 16 (201)
+||.||++||.
T Consensus 18 ~Fr~~Ll~DPr 28 (77)
T TIGR03793 18 AFKQALLTNPK 28 (77)
T ss_pred HHHHHHHHCHH
Confidence 47777777775
No 4
>PF10247 Romo1: Reactive mitochondrial oxygen species modulator 1; InterPro: IPR018450 The majority of endogenous reactive oxygen species (ROS) in cells are produced by the mitochondrial respiratory chain. An increase or imbalance in ROS alters the intracellular redox homeostasis, triggers DNA damage, and may contribute to cancer development and progression. This entry contains the mitochondrial protein, reactive oxygen species modulator 1 (Romo1), that is responsible for increasing the level of ROS in cells. In various cancer cell lines with elevated levels of ROS there is also an increased abundance of Romo1 []. Increased Romo1 expression can have a number of other affects including: inducing premature senescence of cultured human fibroblasts [, ] and increased resistance to 5-fluorouracil [].
Probab=31.46 E-value=30 Score=25.38 Aligned_cols=51 Identities=22% Similarity=0.277 Sum_probs=30.9
Q ss_pred hhhhhhhHhhhhHHHHHHHhhccCCCCC--CCCchhhhhHHHHHHHhhhhhhH
Q 037984 83 LCMVGLTAGAVQGSLSNYLAGKKDRLSV--TIPSVSTNALGYGAFLGLCANMR 133 (201)
Q Consensus 83 l~~VG~~ag~vg~~lsn~L~~kk~~~s~--~~ppv~~ta~~~g~fmGvSsNlR 133 (201)
=++||.+.|.+-...+-.=...+...-+ ....++.++.+.|.||++=|=+|
T Consensus 14 G~~VG~~~G~l~G~~~~~r~g~~~~~~~~~lg~~~l~sg~tFG~Fm~iGs~IR 66 (67)
T PF10247_consen 14 GGAVGGAFGALFGTFSAFRYGARGRGLMRTLGKYMLGSGATFGFFMSIGSVIR 66 (67)
T ss_pred hhHHHhhhhhhhhhHHHhccCCCCcchHhHHhHHHhcchhHHHHHHhhhcccc
Confidence 3567777777666554332221111111 24568999999999999877655
No 5
>PF07281 INSIG: Insulin-induced protein (INSIG)
Probab=30.02 E-value=1.1e+02 Score=26.31 Aligned_cols=39 Identities=26% Similarity=0.257 Sum_probs=25.2
Q ss_pred HHHHHHhhhcccchhhHHHHHHhcccccccccccchHHhhHhhhhc
Q 037984 155 LFLSTALRSLPLSLLRICLLIYISIYIDRLFWSNQITIVLMFCLLN 200 (201)
Q Consensus 155 ~~~s~a~R~~Nn~lG~~~~v~~~G~~~~~~~~~~~~~~~~~~~~~~ 200 (201)
.-.+.++|..|-++|=. .++.+-| +++++-..+.++++|
T Consensus 79 ~~w~~v~R~i~~FvGi~-----~airkl~--w~s~~Q~s~~lalln 117 (193)
T PF07281_consen 79 PDWSSVLRSIGAFVGIS-----FAIRKLP--WSSSLQASITLALLN 117 (193)
T ss_pred ccHHHHHHHHHHHHHHH-----HHHhhCC--CCcHHHHHHHHHHHH
Confidence 33567799999988754 3344444 455666666777766
No 6
>PF10653 Phage-A118_gp45: Protein gp45 of Bacteriophage A118; InterPro: IPR018915 The proteins in this entry represents Gp45 in Listeria phage A118 (Bacteriophage A118) and related proteins; Gp45 is thought to have a function in the phage tail-fibre system.
Probab=28.19 E-value=54 Score=23.41 Aligned_cols=27 Identities=30% Similarity=0.496 Sum_probs=18.2
Q ss_pred hhhhhcCchhhHHHHHHHhhhhHHHHHHHH
Q 037984 8 CPRMLADPAFLYKLLVEQAPIIGCTVWWEL 37 (201)
Q Consensus 8 r~RllADP~Fl~Kl~~E~~i~i~~~~~~E~ 37 (201)
|..|.|+|+|-+|+.. |-.||--+++|
T Consensus 22 rtkmianpaf~qkipl---ietgcekm~dy 48 (62)
T PF10653_consen 22 RTKMIANPAFQQKIPL---IETGCEKMTDY 48 (62)
T ss_pred hHHHhcCHHHHhccch---hhhhhHHHHHH
Confidence 6689999999999853 23344444443
No 7
>KOG4096 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.24 E-value=23 Score=26.55 Aligned_cols=22 Identities=23% Similarity=0.517 Sum_probs=19.6
Q ss_pred CchhhhhHHHHHHHhhhhhhHH
Q 037984 113 PSVSTNALGYGAFLGLCANMRY 134 (201)
Q Consensus 113 ppv~~ta~~~g~fmGvSsNlRY 134 (201)
..++.+|.++|.|||+-|-+||
T Consensus 50 kt~~~SagtFG~FM~igs~Ir~ 71 (75)
T KOG4096|consen 50 KTMLQSAGTFGLFMGIGSGIRC 71 (75)
T ss_pred HHHHhccchhhhhhhhhhheec
Confidence 4588999999999999998887
No 8
>PF14407 Frankia_peptide: Ribosomally synthesized peptide prototyped by Frankia Franean1_4349.
Probab=21.99 E-value=32 Score=24.92 Aligned_cols=13 Identities=31% Similarity=0.445 Sum_probs=9.0
Q ss_pred ccchhhhhcCchh
Q 037984 5 NCCCPRMLADPAF 17 (201)
Q Consensus 5 ~~~r~RllADP~F 17 (201)
.+||.|+++||.=
T Consensus 13 ~~FRqqllad~~~ 25 (61)
T PF14407_consen 13 EAFRQQLLADPEE 25 (61)
T ss_pred HHHHHHHhcCHHH
Confidence 3577777777764
No 9
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=20.29 E-value=1.2e+02 Score=23.59 Aligned_cols=27 Identities=19% Similarity=0.132 Sum_probs=21.4
Q ss_pred ccchhhhHHHHHhhchhhhhhhhhHhhhhHHHHHHHhh
Q 037984 66 EFDLQKRIHSLFYKAAELCMVGLTAGAVQGSLSNYLAG 103 (201)
Q Consensus 66 ~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~ 103 (201)
++++.+|+.+ |.+||+.++++-...-+
T Consensus 57 ~~~l~~~~~a-----------G~laGlAaTGL~e~~t~ 83 (93)
T PF06946_consen 57 DGNLALMAWA-----------GGLAGLAATGLFEQFTN 83 (93)
T ss_pred CccHHHHHHH-----------HHHhhhhhhhHHHHHHh
Confidence 4677777654 88999999999888776
No 10
>PF02979 NHase_alpha: Nitrile hydratase, alpha chain; InterPro: IPR004232 Nitrile hydratases (4.2.1.84 from EC) are bacterial enzymes that catalyse the hydration of nitrile compounds to the corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and are normally active as a tetramer, alpha(2)beta(2). Nitrile hydratases contain either a non-haem iron or a non-corrinoid cobalt centre, both types sharing a highly conserved peptide sequence in the alpha subunit (CXLCSC) that provides all the residues involved in coordinating the metal ion. Each type of nitrile hydratase specifically incorporated its metal with the help of activator proteins encoded by flanking regions of the nitrile hydratase genes that are necessary for metal insertion. The Fe-containing enzyme is photo-regulated: in the dark the enzyme is inactivated due to the association of nitric oxide (NO) to the iron, while in the light the enzyme is active by photo-dissociation of NO. The NO is held in place by a claw setting formed through specific oxygen atoms in two modified cysteines and a serine residue in the active site [, ]. The cobalt-containing enzyme is unaffected by NO, but was shown to undergo a similar effect with carbon monoxide [, ]. Fe- and cobalt-containing enzymes also display different inhibition patterns with nitrophenols. Thiocyanate hydrolase (SCNase) is a cobalt-containing metalloenzyme with a cysteine-sulphinic acid ligand that hydrolyses thiocyanate to carbonyl sulphide and ammonia []. The two enzymes, nitrile hydratase and SCNase, are homologous over regions corresponding to almost the entire coding regions of the genes: the beta and alpha subunits of thiocyanate hydrolase were homologous to the amino- and carboxyl-terminal halves of the beta subunit of nitrile hydratase, and the gamma subunit of thiocyanate hydrolase was homologous to the alpha subunit of nitrile hydratase []. This entry represents the structural domain of the alpha subunit of both iron- and cobalt-containing nitrile hydratases; the alpha subunit is a duplication of two structural repeats, each consisting of 4 layers, alpha/beta/beta/alpha []. This structure is also found in the related protein, the gamma subunit of thiocyanate hydrolase (SCNase).; GO: 0003824 catalytic activity, 0046914 transition metal ion binding, 0006807 nitrogen compound metabolic process; PDB: 2DPP_A 3HHT_A 1V29_A 2ZZD_I 2DXC_F 2DXB_F 2DD5_C 2DD4_C 2ZPH_A 2CYZ_A ....
Probab=18.55 E-value=36 Score=29.61 Aligned_cols=13 Identities=38% Similarity=0.534 Sum_probs=9.0
Q ss_pred ccchhhhhcCchh
Q 037984 5 NCCCPRMLADPAF 17 (201)
Q Consensus 5 ~~~r~RllADP~F 17 (201)
++||+|||+||.=
T Consensus 54 p~FK~rLLaD~~a 66 (188)
T PF02979_consen 54 PAFKARLLADPTA 66 (188)
T ss_dssp HHHHHHHHHSHHH
T ss_pred HHHHHHHHHCHHH
Confidence 3577888888753
Done!