Query 023225
Match_columns 285
No_of_seqs 105 out of 125
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 02:26:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023225.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023225hhsearch_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 6E-56 1.3E-60 389.9 9.9 135 151-285 1-136 (180)
2 COG4907 Predicted membrane pro 88.7 0.26 5.6E-06 50.6 2.1 9 28-36 551-559 (595)
3 PF02979 NHase_alpha: Nitrile 71.0 3.7 8E-05 37.6 2.8 43 117-161 16-68 (188)
4 PF02957 TT_ORF2: TT viral ORF 67.5 18 0.00039 29.8 6.0 15 89-103 104-118 (122)
5 PF07631 PSD4: Protein of unkn 52.4 30 0.00066 29.3 4.9 33 109-159 17-51 (128)
6 PLN03138 Protein TOC75; Provis 51.2 35 0.00077 37.3 6.2 10 147-156 143-152 (796)
7 PLN02705 beta-amylase 42.9 47 0.001 35.7 5.5 14 248-261 303-316 (681)
8 KOG3074 Transcriptional regula 41.7 16 0.00035 34.9 1.8 19 112-130 92-110 (263)
9 TIGR01323 nitrile_alph nitrile 36.2 30 0.00066 31.7 2.6 42 117-160 10-61 (185)
10 PF10415 FumaraseC_C: Fumarase 28.6 77 0.0017 23.3 3.2 39 94-135 12-50 (55)
11 cd00086 homeodomain Homeodomai 25.2 1.8E+02 0.0039 19.7 4.5 41 93-133 8-49 (59)
12 TIGR02877 spore_yhbH sporulati 24.6 63 0.0014 32.5 2.8 11 92-102 115-125 (371)
13 PRK05325 hypothetical protein; 24.4 63 0.0014 32.7 2.8 14 91-104 102-115 (401)
14 PRK05255 hypothetical protein; 24.0 1.4E+02 0.003 26.9 4.6 68 97-164 26-128 (171)
15 PHA00370 III attachment protei 23.7 64 0.0014 31.4 2.5 7 234-240 244-250 (297)
16 PF07862 Nif11: Nitrogen fixat 23.3 1.3E+02 0.0027 20.9 3.4 23 147-169 17-41 (49)
17 PF12095 DUF3571: Protein of u 23.3 83 0.0018 25.5 2.7 26 92-117 25-50 (83)
18 KOG3973 Uncharacterized conser 22.9 64 0.0014 32.8 2.4 12 25-36 294-305 (465)
19 PF12244 DUF3606: Protein of u 22.4 1.7E+02 0.0037 21.5 4.1 36 98-133 21-56 (57)
20 PRK11511 DNA-binding transcrip 21.5 4.4E+02 0.0096 21.5 6.8 86 90-176 5-93 (127)
21 TIGR03793 TOMM_pelo TOMM prope 21.2 36 0.00079 26.8 0.3 16 145-160 15-30 (77)
22 PRK15204 undecaprenyl-phosphat 21.2 2.5E+02 0.0054 28.4 6.2 52 158-210 51-107 (476)
23 PF04719 TAFII28: hTAFII28-lik 21.0 1.1E+02 0.0024 24.8 3.1 26 94-119 63-88 (90)
24 PF15207 TMEM240: TMEM240 fami 20.6 1.1E+02 0.0025 27.5 3.3 27 184-211 81-108 (180)
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=6e-56 Score=389.89 Aligned_cols=135 Identities=53% Similarity=0.720 Sum_probs=130.9
Q ss_pred hhhhcchhhHHHHHHHhhhhhhhhHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHhhhhcccccccCCCcccccc-hhh
Q 023225 151 ERLLADDLFLAKVAMECGVGVFTKTAAELERRRENFSKELDFVFADVVMAIIADFMLVWLPAPTISLRPPLAMSTG-PIA 229 (285)
Q Consensus 151 ~RlLADP~FlfKl~~E~~I~v~~~~~aE~~~Rge~F~~ElDfV~sdlv~g~i~nfaLV~LLAPt~s~g~~~~~sag-~l~ 229 (285)
|||||||+|||||++||+||++|+++|||++|||+||+|||||+||+++++|+||+||||||||++++++++...| .++
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 7999999999999999999999999999999999999999999999999999999999999999999998875544 899
Q ss_pred hHhhcCCchhhhcccCCCCCchhhhHHHHhhccceehhhhhhhhhhHHHhhhcccC
Q 023225 230 KFFFNCPDNAFQVAFTGTSYSLIQRIGAIVRNGAKLFAVGTSASLVGWCRHNECFD 285 (285)
Q Consensus 230 k~~~~lP~n~Fq~~~pg~~fsl~qR~~a~v~KGa~l~~VG~~aGlvG~glsN~Lm~ 285 (285)
|++++||+|+||+++||++||++||++||+|||++|++||++||++||++||+||+
T Consensus 81 ~~~~~~P~n~Fq~~~~g~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~ 136 (180)
T PF11891_consen 81 KFLGSLPNNAFQKGYPGRSFSLAQRIGAFVYKGAKLAAVGFIAGLVGTGLSNALIA 136 (180)
T ss_pred HHHHhChHHHhccCCCCCcccHHHHHHHHHHcchHhhhhHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999973
No 2
>COG4907 Predicted membrane protein [Function unknown]
Probab=88.71 E-value=0.26 Score=50.63 Aligned_cols=9 Identities=33% Similarity=0.527 Sum_probs=3.8
Q ss_pred eccccCCCC
Q 023225 28 KNITRQIPN 36 (285)
Q Consensus 28 ~~~~~~~~~ 36 (285)
||-+|--.+
T Consensus 551 ~nysr~~~~ 559 (595)
T COG4907 551 NNYSRSFNN 559 (595)
T ss_pred cchhhhhcc
Confidence 444444333
No 3
>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=70.96 E-value=3.7 Score=37.59 Aligned_cols=43 Identities=35% Similarity=0.450 Sum_probs=31.0
Q ss_pred HHHcCCCCHHHHHHHHhhcc---Cchh-------HHhhhccchhhhhhcchhhHH
Q 023225 117 AIEAGRVPAAIVKRYLELEK---SPVF-------RWLLNFGGFRERLLADDLFLA 161 (285)
Q Consensus 117 A~e~G~Vs~~~L~rfl~L~~---~p~~-------~~L~~f~gfR~RlLADP~Flf 161 (285)
-+|.|.|+++.+.+..+... .|.. +|. -++||+|||+||.=..
T Consensus 16 l~ekg~~~~~~~~~~~~~~~~~~~P~~GarvVArAW~--Dp~FK~rLLaD~~aA~ 68 (188)
T PF02979_consen 16 LIEKGLITPAEVDRIIETYESRVGPRNGARVVARAWT--DPAFKARLLADPTAAI 68 (188)
T ss_dssp HHHTTSS-HHHHHHHHHHHHHTSSHHHHHHHHHHHHH---HHHHHHHHHSHHHHH
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCccccceeehhhhC--CHHHHHHHHHCHHHHH
Confidence 36899999999999888755 3421 244 3999999999997544
No 4
>PF02957 TT_ORF2: TT viral ORF2; InterPro: IPR004118 This entry represents the Gyroviral VP2 protein and TT viral ORF2. Torque teno virus (TTV) is a nonenveloped and single-stranded DNA virus that was initially isolated from a Japanese patient with hepatitis of unknown aetiology, and which has since been found to infect both healthy and diseased individuals []. Numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF2 is a 150 residue protein of unknown function. Gyroviruses are small circular single stranded viruses, such as the Chicken anaemia virus. The VP2 protein contains a set of conserved cysteine and histidine residues suggesting a zinc binding domain. VP2 may act as a scaffold protein in virion assembly and may also play a role in intracellular signaling during viral replication.
Probab=67.47 E-value=18 Score=29.77 Aligned_cols=15 Identities=13% Similarity=-0.206 Sum_probs=8.4
Q ss_pred CCCCHHHHHHHHHHh
Q 023225 89 GFHNCTEAIFALAKA 103 (285)
Q Consensus 89 ~~~nr~ei~~Vl~e~ 103 (285)
++-+-+++++++++.
T Consensus 104 ed~~~~dld~L~aa~ 118 (122)
T PF02957_consen 104 EDYDEEDLDELFAAA 118 (122)
T ss_pred cCCChHHHHHHhhhh
Confidence 344556666666554
No 5
>PF07631 PSD4: Protein of unknown function (DUF1592); InterPro: IPR013042 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013043 from INTERPRO.
Probab=52.36 E-value=30 Score=29.26 Aligned_cols=33 Identities=30% Similarity=0.405 Sum_probs=24.2
Q ss_pred Cch-HHHHHHHHcCCC-CHHHHHHHHhhccCchhHHhhhccchhhhhhcchhh
Q 023225 109 DLP-KDLAGAIEAGRV-PAAIVKRYLELEKSPVFRWLLNFGGFRERLLADDLF 159 (285)
Q Consensus 109 sLP-aDl~~A~e~G~V-s~~~L~rfl~L~~~p~~~~L~~f~gfR~RlLADP~F 159 (285)
+.| +.|.+|++.|.+ +++++.+ -.+|||+||.+
T Consensus 17 s~PD~~L~~aA~~g~L~~~~~l~~------------------q~~RML~dpr~ 51 (128)
T PF07631_consen 17 SPPDAELLDAAAAGELRTPEQLRA------------------QAERMLADPRA 51 (128)
T ss_pred CCCCHHHHHHHHhCCCCCHHHHHH------------------HHHHHHcCccH
Confidence 556 678899999987 4455443 35799999987
No 6
>PLN03138 Protein TOC75; Provisional
Probab=51.24 E-value=35 Score=37.30 Aligned_cols=10 Identities=20% Similarity=0.627 Sum_probs=3.8
Q ss_pred cchhhhhhcc
Q 023225 147 GGFRERLLAD 156 (285)
Q Consensus 147 ~gfR~RlLAD 156 (285)
.|+++=...|
T Consensus 143 ~~~~~~~vs~ 152 (796)
T PLN03138 143 SGFKRYKVSE 152 (796)
T ss_pred CCcceEEEEE
Confidence 3444333333
No 7
>PLN02705 beta-amylase
Probab=42.91 E-value=47 Score=35.73 Aligned_cols=14 Identities=21% Similarity=0.290 Sum_probs=8.6
Q ss_pred CCchhhhHHHHhhc
Q 023225 248 SYSLIQRIGAIVRN 261 (285)
Q Consensus 248 ~fsl~qR~~a~v~K 261 (285)
+|+--+++..++.+
T Consensus 303 dWsgY~~L~~mvr~ 316 (681)
T PLN02705 303 VWSGYRELFNIIRE 316 (681)
T ss_pred CcHHHHHHHHHHHH
Confidence 45666666666654
No 8
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=41.72 E-value=16 Score=34.92 Aligned_cols=19 Identities=21% Similarity=0.312 Sum_probs=8.7
Q ss_pred HHHHHHHHcCCCCHHHHHH
Q 023225 112 KDLAGAIEAGRVPAAIVKR 130 (285)
Q Consensus 112 aDl~~A~e~G~Vs~~~L~r 130 (285)
.++....|...+-++.|++
T Consensus 92 ~~~~~~~ee~~lkSe~L~~ 110 (263)
T KOG3074|consen 92 PELAAPSEEHELKSEELQR 110 (263)
T ss_pred cccccchhhhhHHHHHHhh
Confidence 3444444554444444443
No 9
>TIGR01323 nitrile_alph nitrile hydratase, alpha subunit. This model describes both iron- and cobalt-containing nitrile hydratase alpha chains. It excludes the thiocyanate hydrolase gamma subunit of Thiobacillus thioparus, a sequence that appears to have evolved from within the family of nitrile hydratase alpha subunits but which differs by several indels and a more rapid accumulation of point mutations.
Probab=36.19 E-value=30 Score=31.71 Aligned_cols=42 Identities=26% Similarity=0.373 Sum_probs=30.9
Q ss_pred HHHcCCCCHHHHHHHHhhccC---chh-------HHhhhccchhhhhhcchhhH
Q 023225 117 AIEAGRVPAAIVKRYLELEKS---PVF-------RWLLNFGGFRERLLADDLFL 160 (285)
Q Consensus 117 A~e~G~Vs~~~L~rfl~L~~~---p~~-------~~L~~f~gfR~RlLADP~Fl 160 (285)
-+|.|.|+++.+.+.++.... |.. .|. -|.||.|||+|..=-
T Consensus 10 l~eKGli~~~~id~~i~~~~~~~gP~nGA~vVArAW~--Dp~fk~~Ll~d~~aa 61 (185)
T TIGR01323 10 LKSKGLIPEGAVDQLTSLYENEWGPENGAKVVAKAWV--DPEFRALLLKDATAA 61 (185)
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCCcchhhhhhHHhc--CHHHHHHHHhChHHH
Confidence 368899999999888876544 422 244 399999999998643
No 10
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=28.64 E-value=77 Score=23.27 Aligned_cols=39 Identities=15% Similarity=0.088 Sum_probs=28.9
Q ss_pred HHHHHHHHHhccccCCchHHHHHHHHcCCCCHHHHHHHHhhc
Q 023225 94 TEAIFALAKAGRTLGDLPKDLAGAIEAGRVPAAIVKRYLELE 135 (285)
Q Consensus 94 ~ei~~Vl~e~~r~~~sLPaDl~~A~e~G~Vs~~~L~rfl~L~ 135 (285)
+.+.++-+++.++..++-.- +.+.|.++++++.+.|+.+
T Consensus 12 e~aa~iAk~A~~~g~svre~---v~~~g~lt~ee~d~ll~p~ 50 (55)
T PF10415_consen 12 EKAAEIAKEALAEGRSVREV---VLEEGLLTEEELDELLDPE 50 (55)
T ss_dssp HHHHHHHHHHHHHT--HHHH---HHHTTSS-HHHHHHHTSHH
T ss_pred HHHHHHHHHHHHcCCCHHHH---HHHcCCCCHHHHHHHcCHH
Confidence 56778888999888887643 4478999999999998854
No 11
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=25.22 E-value=1.8e+02 Score=19.67 Aligned_cols=41 Identities=12% Similarity=0.012 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhccccCCch-HHHHHHHHcCCCCHHHHHHHHh
Q 023225 93 CTEAIFALAKAGRTLGDLP-KDLAGAIEAGRVPAAIVKRYLE 133 (285)
Q Consensus 93 r~ei~~Vl~e~~r~~~sLP-aDl~~A~e~G~Vs~~~L~rfl~ 133 (285)
-++...+|.+|+..-.... .++.+-++.-+++..++..||.
T Consensus 8 ~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~ 49 (59)
T cd00086 8 TPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQ 49 (59)
T ss_pred CHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence 3567788999998854433 6677777888899999999886
No 12
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=24.62 E-value=63 Score=32.49 Aligned_cols=11 Identities=18% Similarity=0.005 Sum_probs=7.0
Q ss_pred CHHHHHHHHHH
Q 023225 92 NCTEAIFALAK 102 (285)
Q Consensus 92 nr~ei~~Vl~e 102 (285)
.++|...+|=|
T Consensus 115 s~eE~~~~lfE 125 (371)
T TIGR02877 115 TLEELFELLFE 125 (371)
T ss_pred cHHHHHHHHHh
Confidence 56777766654
No 13
>PRK05325 hypothetical protein; Provisional
Probab=24.38 E-value=63 Score=32.70 Aligned_cols=14 Identities=14% Similarity=-0.121 Sum_probs=8.6
Q ss_pred CCHHHHHHHHHHhc
Q 023225 91 HNCTEAIFALAKAG 104 (285)
Q Consensus 91 ~nr~ei~~Vl~e~~ 104 (285)
-.++|...+|=|--
T Consensus 102 ls~eE~~~~lfEdL 115 (401)
T PRK05325 102 ISLEELLDLLFEDL 115 (401)
T ss_pred ecHHHHHHHHHhhc
Confidence 45677777665543
No 14
>PRK05255 hypothetical protein; Provisional
Probab=24.03 E-value=1.4e+02 Score=26.88 Aligned_cols=68 Identities=26% Similarity=0.304 Sum_probs=38.5
Q ss_pred HHHHHHhccccCCc----------hHHHHHHHHcCC-CC-H-------------------HHHHHHHhhccCc---hhHH
Q 023225 97 IFALAKAGRTLGDL----------PKDLAGAIEAGR-VP-A-------------------AIVKRYLELEKSP---VFRW 142 (285)
Q Consensus 97 ~~Vl~e~~r~~~sL----------PaDl~~A~e~G~-Vs-~-------------------~~L~rfl~L~~~p---~~~~ 142 (285)
...|++.|..+..| |.+|++|+.... |+ - +.+..+++....+ -...
T Consensus 26 ~~alq~LG~~L~~Ls~~ql~~lpL~e~L~~Ai~ea~ri~~~eA~RRqlqyIGKLmR~~d~e~I~~al~~~~~~~~~~~~~ 105 (171)
T PRK05255 26 AEALQDLGEELVELSKDQLAKLPLDEDLRDAILEAQRITSHEARRRQLQYIGKLMRNEDVEPIRAALDKLKNKHNQETAR 105 (171)
T ss_pred HHHHHHHHHHHHhCCHHHHhcCCCCHHHHHHHHHHhhhccchHHHHHHHHHHHHHhhCCHHHHHHHHHHHhchhHHHHHH
Confidence 35667777776655 456777765433 52 2 3333333333332 1234
Q ss_pred hhhccchhhhhhc-chhhHHHHH
Q 023225 143 LLNFGGFRERLLA-DDLFLAKVA 164 (285)
Q Consensus 143 L~~f~gfR~RlLA-DP~FlfKl~ 164 (285)
+++.-.||+||++ |+.-+..+.
T Consensus 106 ~h~lE~wRdrLi~~~d~al~e~~ 128 (171)
T PRK05255 106 FHKLERWRDRLLAEGDDALTEFL 128 (171)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHH
Confidence 5556799999999 665554443
No 15
>PHA00370 III attachment protein
Probab=23.74 E-value=64 Score=31.42 Aligned_cols=7 Identities=29% Similarity=0.729 Sum_probs=3.0
Q ss_pred cCCchhh
Q 023225 234 NCPDNAF 240 (285)
Q Consensus 234 ~lP~n~F 240 (285)
.||+-+|
T Consensus 244 ~C~~FV~ 250 (297)
T PHA00370 244 GCTPFVF 250 (297)
T ss_pred CCCccee
Confidence 4444443
No 16
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=23.34 E-value=1.3e+02 Score=20.90 Aligned_cols=23 Identities=30% Similarity=0.322 Sum_probs=9.9
Q ss_pred cchhhhhhc--chhhHHHHHHHhhh
Q 023225 147 GGFRERLLA--DDLFLAKVAMECGV 169 (285)
Q Consensus 147 ~gfR~RlLA--DP~FlfKl~~E~~I 169 (285)
+.||+++-+ ||.=+.|++-|.+.
T Consensus 17 ~~l~~~l~~~~~~~e~~~lA~~~Gy 41 (49)
T PF07862_consen 17 PELREQLKACQNPEEVVALAREAGY 41 (49)
T ss_pred HHHHHHHHhcCCHHHHHHHHHHcCC
Confidence 444444444 44444444444333
No 17
>PF12095 DUF3571: Protein of unknown function (DUF3571); InterPro: IPR021954 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 85 to 97 amino acids in length. ; PDB: 2KRX_A.
Probab=23.29 E-value=83 Score=25.50 Aligned_cols=26 Identities=31% Similarity=0.244 Sum_probs=21.2
Q ss_pred CHHHHHHHHHHhccccCCchHHHHHH
Q 023225 92 NCTEAIFALAKAGRTLGDLPKDLAGA 117 (285)
Q Consensus 92 nr~ei~~Vl~e~~r~~~sLPaDl~~A 117 (285)
..+|..+-|++|-.+.++||.|++.-
T Consensus 25 t~~Ell~~Lk~~L~~~~~LP~dL~~~ 50 (83)
T PF12095_consen 25 TPEELLEKLKEWLQNQDDLPPDLAKF 50 (83)
T ss_dssp -HHHHHHHHHHHHHHTTTS-HHHHH-
T ss_pred CHHHHHHHHHHHHHcCCCCCHHHHhC
Confidence 46899999999999999999999753
No 18
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=22.86 E-value=64 Score=32.82 Aligned_cols=12 Identities=17% Similarity=-0.031 Sum_probs=6.7
Q ss_pred ceeeccccCCCC
Q 023225 25 FVIKNITRQIPN 36 (285)
Q Consensus 25 ~~~~~~~~~~~~ 36 (285)
.|-+.|.|.|..
T Consensus 294 i~k~~igrvPDR 305 (465)
T KOG3973|consen 294 IHKLSIGRVPDR 305 (465)
T ss_pred hcccccccCCCC
Confidence 344566666653
No 19
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=22.38 E-value=1.7e+02 Score=21.52 Aligned_cols=36 Identities=22% Similarity=0.297 Sum_probs=30.0
Q ss_pred HHHHHhccccCCchHHHHHHHHcCCCCHHHHHHHHh
Q 023225 98 FALAKAGRTLGDLPKDLAGAIEAGRVPAAIVKRYLE 133 (285)
Q Consensus 98 ~Vl~e~~r~~~sLPaDl~~A~e~G~Vs~~~L~rfl~ 133 (285)
.-++-|.+++.-=++.|++|++.-+-+.+.+.+||.
T Consensus 21 ~ev~ywa~~~gvt~~~L~~AV~~vG~~~~~V~~~L~ 56 (57)
T PF12244_consen 21 YEVRYWAKRFGVTEEQLREAVRAVGNSRAAVRAYLG 56 (57)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHCcCHHHHHHHHc
Confidence 345667777777789999999999999999999984
No 20
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=21.50 E-value=4.4e+02 Score=21.46 Aligned_cols=86 Identities=12% Similarity=0.044 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHHhccccCCchHHHHHHHHcCCCCHHHHHHHHhhc-cCchhHHhhhccc--hhhhhhcchhhHHHHHHH
Q 023225 90 FHNCTEAIFALAKAGRTLGDLPKDLAGAIEAGRVPAAIVKRYLELE-KSPVFRWLLNFGG--FRERLLADDLFLAKVAME 166 (285)
Q Consensus 90 ~~nr~ei~~Vl~e~~r~~~sLPaDl~~A~e~G~Vs~~~L~rfl~L~-~~p~~~~L~~f~g--fR~RlLADP~FlfKl~~E 166 (285)
+++...+.++++--.....+ |-.+.+.++.-++++..|.|.|.-. +-++..|+...+- -.+.|+.-..=+.-++.|
T Consensus 5 ~~~~~~i~~~~~~I~~~~~~-~~sl~~lA~~~g~S~~~l~r~Fk~~~G~s~~~~l~~~Rl~~A~~~L~~t~~~i~eIA~~ 83 (127)
T PRK11511 5 NTDAITIHSILDWIEDNLES-PLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAER 83 (127)
T ss_pred cccHHHHHHHHHHHHHhcCC-CCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence 34455556666655555544 6778888899999999999999876 4456677754332 234444322235566666
Q ss_pred hhhhhhhhHH
Q 023225 167 CGVGVFTKTA 176 (285)
Q Consensus 167 ~~I~v~~~~~ 176 (285)
++..-.....
T Consensus 84 ~Gf~s~s~F~ 93 (127)
T PRK11511 84 YGFESQQTLT 93 (127)
T ss_pred hCCCCHHHHH
Confidence 6655444333
No 21
>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=21.24 E-value=36 Score=26.77 Aligned_cols=16 Identities=19% Similarity=0.206 Sum_probs=13.0
Q ss_pred hccchhhhhhcchhhH
Q 023225 145 NFGGFRERLLADDLFL 160 (285)
Q Consensus 145 ~f~gfR~RlLADP~Fl 160 (285)
.-+.||.||++||.=.
T Consensus 15 ~Dp~Fr~~Ll~DPraa 30 (77)
T TIGR03793 15 EDEAFKQALLTNPKEA 30 (77)
T ss_pred cCHHHHHHHHHCHHHH
Confidence 3589999999999743
No 22
>PRK15204 undecaprenyl-phosphate galactose phosphotransferase; Provisional
Probab=21.16 E-value=2.5e+02 Score=28.40 Aligned_cols=52 Identities=21% Similarity=0.199 Sum_probs=32.5
Q ss_pred hhHHHHHHHhhhhhhhhHHHHH-----hhcccchhhHHHHHHHHHHHHHHHHHHhhhh
Q 023225 158 LFLAKVAMECGVGVFTKTAAEL-----ERRRENFSKELDFVFADVVMAIIADFMLVWL 210 (285)
Q Consensus 158 ~FlfKl~~E~~I~v~~~~~aE~-----~~Rge~F~~ElDfV~sdlv~g~i~nfaLV~L 210 (285)
++......-..+.+.|-.|.-+ ..|+ +||.|+--++..++..+++.++++++
T Consensus 51 ~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~-~~~~e~k~~~~~~~~~~~~~~a~~~~ 107 (476)
T PRK15204 51 QLDTRVITHFILSVVCVGWFWIRLRHYTYRK-PFWYELKEIFRTIVIFAIFDLALIAF 107 (476)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHcCCceecC-chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444455555544443 4554 49999987777777778777777755
No 23
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=20.99 E-value=1.1e+02 Score=24.85 Aligned_cols=26 Identities=27% Similarity=0.082 Sum_probs=19.5
Q ss_pred HHHHHHHHHhccccCCchHHHHHHHH
Q 023225 94 TEAIFALAKAGRTLGDLPKDLAGAIE 119 (285)
Q Consensus 94 ~ei~~Vl~e~~r~~~sLPaDl~~A~e 119 (285)
|++..|+.||+.+.-=.|..+++|+.
T Consensus 63 E~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 63 EEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 67779999999999999999999975
No 24
>PF15207 TMEM240: TMEM240 family
Probab=20.59 E-value=1.1e+02 Score=27.50 Aligned_cols=27 Identities=22% Similarity=0.746 Sum_probs=21.6
Q ss_pred cch-hhHHHHHHHHHHHHHHHHHHhhhhc
Q 023225 184 ENF-SKELDFVFADVVMAIIADFMLVWLP 211 (285)
Q Consensus 184 e~F-~~ElDfV~sdlv~g~i~nfaLV~LL 211 (285)
++- ++|+|+++ -++.|.+.--+||||=
T Consensus 81 d~vtkqeidlml-glllgfcisw~l~wmd 108 (180)
T PF15207_consen 81 DNVTKQEIDLML-GLLLGFCISWFLVWMD 108 (180)
T ss_pred CcchHHHHHHHH-HHHHHHHHHHHHHHHh
Confidence 444 78999987 5788888899999973
Done!