Query 045722
Match_columns 82
No_of_seqs 125 out of 1013
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:54:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045722.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045722hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1878 Kynurenine formamidase 99.8 2.9E-19 6.2E-24 132.4 5.9 59 7-76 28-86 (218)
2 TIGR03035 trp_arylform arylfor 99.8 2.1E-18 4.6E-23 124.4 7.2 65 7-81 24-89 (206)
3 PF04199 Cyclase: Putative cyc 99.7 1.2E-17 2.6E-22 115.3 1.7 52 16-76 36-88 (171)
4 PF03096 Ndr: Ndr family; Int 27.4 23 0.00049 27.7 0.2 11 32-42 58-68 (283)
5 PF08373 RAP: RAP domain; Int 23.4 30 0.00066 19.5 0.2 12 35-46 3-14 (58)
6 COG0229 Conserved domain frequ 22.6 79 0.0017 22.7 2.2 43 2-47 64-110 (140)
7 KOG2757 Mannose-6-phosphate is 21.7 24 0.00052 29.2 -0.6 22 30-51 45-66 (411)
8 KOG0693 Myo-inositol-1-phospha 18.8 89 0.0019 26.4 2.1 44 23-75 119-162 (512)
9 TIGR02837 spore_II_R stage II 17.7 63 0.0014 23.7 0.9 17 61-77 147-164 (168)
10 COG0050 TufB GTPases - transla 17.1 51 0.0011 27.1 0.3 13 29-41 74-86 (394)
No 1
>COG1878 Kynurenine formamidase [Amino acid transport and metabolism]
Probab=99.78 E-value=2.9e-19 Score=132.43 Aligned_cols=59 Identities=27% Similarity=0.528 Sum_probs=57.1
Q ss_pred eEEEEEeecCCceeEEeeEEeeccccccccCCccccCCCCCccCCChHHHHhhcccceecCCEEEEEccC
Q 045722 7 LWLVESMNKNNAIANMSETKLSMHAGPHVDAPDHMFDHYFDVDSLDLEQFQHCFNWICYICPELLVNFTK 76 (82)
Q Consensus 7 ~~~~~~~~~~g~~~~~~~i~l~~H~GTHvDAP~H~~~~g~~id~lple~f~~~~~~~~~~gp~~vvd~~~ 76 (82)
+++..+++++| |+++.+++++|+|||||||.||.++|.+||++|+++|+ ||++|||+++
T Consensus 28 ie~~~~~~~~g--~~~~~i~~~~HtGTHiDAP~Hf~~~G~~id~ipl~~~i---------g~~~Vid~~~ 86 (218)
T COG1878 28 IERIATLAKDG--FNVSIITLGEHTGTHIDAPLHFIEGGLSIDEIPLESFI---------GPGVVIDISG 86 (218)
T ss_pred EEEeEEecCCc--EEEEEEEecCccccccccHHhhcCCCCccccCCHHHhE---------eeeEEEEecC
Confidence 88999998888 99999999999999999999999999999999999999 9999999996
No 2
>TIGR03035 trp_arylform arylformamidase. One of several pathways of tryptophan degradation is as follows: tryptophan 2,3-dioxygenase (1.13.11.11) uses 02 to convert Trp to L-formylkynurenine. Arylformamidase (3.5.1.9) hydrolyzes the product to L-kynurenine and formate. Kynureninase (3.7.1.3) hydrolyzes L-kynurenine to anthranilate plus alanine. Members of the seed alignment for this model are bacterial predicted metal-dependent hydrolases. All are supported as arylformamidase (3.5.1.9) by an operon structure in which kynureninase and/or tryptophan 2,3-dioxygenase genes are adjacent. The members from Bacillus cereus, Pseudomonas aeruginosa and Ralstonia metallidurans were characterized. An example from Pseudomonas fluorescens is given the gene symbol qbsH instead of kynB because of its role in quinolobactin biosynthesis, which begins with tryptophan. All members of this family should be arylformamidase (3.5.1.9).
Probab=99.75 E-value=2.1e-18 Score=124.36 Aligned_cols=65 Identities=23% Similarity=0.240 Sum_probs=53.4
Q ss_pred eEEEEEeecCCceeEEeeEEeeccccccccCCccccCCCCCccCCChHHHHhhcccceecCCEEEEEcc-CCCCCC
Q 045722 7 LWLVESMNKNNAIANMSETKLSMHAGPHVDAPDHMFDHYFDVDSLDLEQFQHCFNWICYICPELLVNFT-KDKNIL 81 (82)
Q Consensus 7 ~~~~~~~~~~g~~~~~~~i~l~~H~GTHvDAP~H~~~~g~~id~lple~f~~~~~~~~~~gp~~vvd~~-~~~~i~ 81 (82)
++...+..+ ++.++.+.+++++|+|||+|||+||.++|.+|+++|+++|+ ||++|||+. ....|+
T Consensus 24 ~~~~~~~~~-~~~~~~~~i~~~~H~GTHiDAP~Hf~~~g~~id~~pl~~~~---------g~~~vid~~~~~~~it 89 (206)
T TIGR03035 24 QEWVWSKEE-TCPVNVGRITLSPHTGAHADAPLHYDNDGAPIGDVPLDVYL---------GPCRVIHCLGAGELID 89 (206)
T ss_pred EEEEEEecC-CCcEEEEEEEECCccccccccchhhCCCCCCccccchHHhe---------ecEEEEEEeCCCCccC
Confidence 444555533 33399999999999999999999999999999999999999 999999954 334443
No 3
>PF04199 Cyclase: Putative cyclase; InterPro: IPR007325 Proteins in this family are thought to be cyclase enzymes. They are found in proteins involved in antibiotic synthesis. However they are also found in organisms that do not make antibiotics pointing to a wider role for these proteins. The proteins contain a conserved motif HXGTHXDXPXH that is likely to form a part of the active site.; PDB: 2B0A_A 3KRV_A 1R61_A.
Probab=99.67 E-value=1.2e-17 Score=115.26 Aligned_cols=52 Identities=27% Similarity=0.539 Sum_probs=46.1
Q ss_pred CCceeEEeeEEeeccccccccCCcc-ccCCCCCccCCChHHHHhhcccceecCCEEEEEccC
Q 045722 16 NNAIANMSETKLSMHAGPHVDAPDH-MFDHYFDVDSLDLEQFQHCFNWICYICPELLVNFTK 76 (82)
Q Consensus 16 ~g~~~~~~~i~l~~H~GTHvDAP~H-~~~~g~~id~lple~f~~~~~~~~~~gp~~vvd~~~ 76 (82)
+|..++.+.++|++|+|||+|||.| |.++|.+|+++|+++|+ ||++|||+++
T Consensus 36 ~~~~~~~~~i~~~~H~GTHiDap~H~~~~~g~~i~~~pl~~~~---------g~~vviD~~~ 88 (171)
T PF04199_consen 36 EGDGFNVDSITMSTHTGTHIDAPAHYFIPDGATIDEIPLERFI---------GPAVVIDVSH 88 (171)
T ss_dssp EECTCEEEEEEEETTSSSEEE-GGGC-STTT-TGGGSSCCCCE---------EEEEEEETTT
T ss_pred ccceEEEEEEEeCCCccCCCcccccccCCCCCCHHHhhhhhcc---------CcEEEEeccc
Confidence 3444999999999999999999999 89999999999999999 9999999998
No 4
>PF03096 Ndr: Ndr family; InterPro: IPR004142 This family consists of proteins from different gene families: Ndr1/RTP/Drg1, Ndr2, and Ndr3. Their similarity was previously noted []. The precise molecular and cellular function of members of this family is still unknown, yet they are known to be involved in cellular differentiation events. The Ndr1 group was the first to be discovered. Their expression is repressed by the proto-oncogenes N-myc and c-myc, and in line with this observation, Ndr1 protein expression is down-regulated in neoplastic cells, and is reactivated when differentiation is induced by chemicals such as retinoic acid. Ndr2 and Ndr3 expression is not under the control of N-myc or c-myc. Ndr1 expression is also activated by several chemicals: tunicamycin and homocysteine induce Ndr1 in human umbilical endothelial cells; nickel induces Ndr1 in several cell types. Members of this family are found in wide variety of multicellular eukaryotes, including an Ndr1 type protein in Helianthus annuus (Common sunflower), known as Sf21. Interestingly, the highest scoring matches in the noise are all alpha/beta hydrolases (IPR000073 from INTERPRO), suggesting that this family may have an enzymatic function.; PDB: 2QMQ_A 2XMR_B 2XMQ_B 2XMS_A.
Probab=27.45 E-value=23 Score=27.70 Aligned_cols=11 Identities=36% Similarity=0.353 Sum_probs=7.9
Q ss_pred cccccCCcccc
Q 045722 32 GPHVDAPDHMF 42 (82)
Q Consensus 32 GTHvDAP~H~~ 42 (82)
--|||||+|=.
T Consensus 58 i~Hi~aPGqe~ 68 (283)
T PF03096_consen 58 IYHIDAPGQEE 68 (283)
T ss_dssp EEEEE-TTTST
T ss_pred EEEEeCCCCCC
Confidence 35999999965
No 5
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=23.38 E-value=30 Score=19.51 Aligned_cols=12 Identities=33% Similarity=0.653 Sum_probs=9.8
Q ss_pred ccCCccccCCCC
Q 045722 35 VDAPDHMFDHYF 46 (82)
Q Consensus 35 vDAP~H~~~~g~ 46 (82)
||.|.||..+..
T Consensus 3 vdGp~hy~~~~~ 14 (58)
T PF08373_consen 3 VDGPSHYYRNSN 14 (58)
T ss_pred ECCcHHhhCCCC
Confidence 689999988763
No 6
>COG0229 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=22.64 E-value=79 Score=22.69 Aligned_cols=43 Identities=19% Similarity=0.346 Sum_probs=28.2
Q ss_pred CCCceeEEEEE--e-ecCCceeEEeeEEe-eccccccccCCccccCCCCC
Q 045722 2 KWGQFLWLVES--M-NKNNAIANMSETKL-SMHAGPHVDAPDHMFDHYFD 47 (82)
Q Consensus 2 ~~~~~~~~~~~--~-~~~g~~~~~~~i~l-~~H~GTHvDAP~H~~~~g~~ 47 (82)
-|+.|..++.. + .....++.|.++.+ +..++.|+ +|.|++|+.
T Consensus 64 GWPSF~~pi~~~~I~~~~D~S~gM~RtEVrc~~c~sHL---GHVF~DGP~ 110 (140)
T COG0229 64 GWPSFTKPISPDAITYKEDRSHGMVRTEVRCANCDSHL---GHVFPDGPP 110 (140)
T ss_pred CCccccccCCcccceEeeccCCCcEEEEEEecCCCCcc---ccccCCCCC
Confidence 37777665532 1 12333467777774 77888898 799999873
No 7
>KOG2757 consensus Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=21.74 E-value=24 Score=29.21 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=18.1
Q ss_pred cccccccCCccccCCCCCccCC
Q 045722 30 HAGPHVDAPDHMFDHYFDVDSL 51 (82)
Q Consensus 30 H~GTHvDAP~H~~~~g~~id~l 51 (82)
=.|||.+.|+|..+.+.+++++
T Consensus 45 WMGTH~~Gps~v~~~~~tL~~~ 66 (411)
T KOG2757|consen 45 WMGTHPSGPSHVKETGETLSQW 66 (411)
T ss_pred hcccCCCccHhhhhccccHHHH
Confidence 4699999999999998865544
No 8
>KOG0693 consensus Myo-inositol-1-phosphate synthase [Lipid transport and metabolism]
Probab=18.76 E-value=89 Score=26.36 Aligned_cols=44 Identities=9% Similarity=0.190 Sum_probs=34.1
Q ss_pred eeEEeeccccccccCCccccCCCCCccCCChHHHHhhcccceecCCEEEEEcc
Q 045722 23 SETKLSMHAGPHVDAPDHMFDHYFDVDSLDLEQFQHCFNWICYICPELLVNFT 75 (82)
Q Consensus 23 ~~i~l~~H~GTHvDAP~H~~~~g~~id~lple~f~~~~~~~~~~gp~~vvd~~ 75 (82)
.++..+.-.---|=+|.-+.-+|.+|.++.|-.-+ +.+.|+|+.
T Consensus 119 ~eiy~Pfk~llPmv~Pnd~v~~GWDIs~~nL~eAM---------~RakVld~~ 162 (512)
T KOG0693|consen 119 NEIYAPFKSLLPMVSPNDLVFSGWDISDMNLAEAM---------ARAKVLDID 162 (512)
T ss_pred CEEEeEHHHhCCccCccceEEccccCCCCcHHHHH---------hhhhccCHH
Confidence 44444444444566788888899999999999999 999999864
No 9
>TIGR02837 spore_II_R stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage II sporulation protein R.
Probab=17.70 E-value=63 Score=23.68 Aligned_cols=17 Identities=35% Similarity=0.755 Sum_probs=13.7
Q ss_pred ccceecCCEEEE-EccCC
Q 045722 61 NWICYICPELLV-NFTKD 77 (82)
Q Consensus 61 ~~~~~~gp~~vv-d~~~~ 77 (82)
||-|-+-|++++ |.++.
T Consensus 147 NWWCVlfPpLCf~D~~~~ 164 (168)
T TIGR02837 147 NWWCVVFPPLCFTDRTVG 164 (168)
T ss_pred ceEEEecCcceeeccccC
Confidence 999999998884 77653
No 10
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=17.12 E-value=51 Score=27.08 Aligned_cols=13 Identities=38% Similarity=0.552 Sum_probs=9.8
Q ss_pred ccccccccCCccc
Q 045722 29 MHAGPHVDAPDHM 41 (82)
Q Consensus 29 ~H~GTHvDAP~H~ 41 (82)
.-.-.|||+|+|-
T Consensus 74 ~rhyahVDcPGHa 86 (394)
T COG0050 74 NRHYAHVDCPGHA 86 (394)
T ss_pred CceEEeccCCChH
Confidence 3345799999994
Done!