Query psy6025
Match_columns 89
No_of_seqs 101 out of 106
Neff 3.5
Searched_HMMs 46136
Date Sat Aug 17 00:37:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6025hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00075 RNase_H: RNase H; In 99.1 2.1E-11 4.6E-16 79.7 2.3 41 10-52 90-131 (132)
2 PRK08719 ribonuclease H; Revie 99.1 1.2E-10 2.5E-15 82.5 4.6 42 9-53 105-146 (147)
3 PRK00203 rnhA ribonuclease H; 99.1 1.2E-10 2.6E-15 81.1 4.3 43 9-54 100-142 (150)
4 PRK06548 ribonuclease H; Provi 98.9 2.6E-09 5.5E-14 77.6 4.4 44 8-54 99-142 (161)
5 COG0328 RnhA Ribonuclease HI [ 98.7 1.3E-08 2.8E-13 74.3 4.4 48 6-55 99-146 (154)
6 cd06222 RnaseH RNase H (RNase 98.7 3.7E-08 8.1E-13 60.3 4.6 41 10-52 90-130 (130)
7 KOG3752|consensus 98.2 1.3E-06 2.9E-11 71.5 3.6 30 23-52 334-363 (371)
8 PRK13907 rnhA ribonuclease H; 96.4 0.005 1.1E-07 41.0 3.8 38 10-53 89-126 (128)
9 PF13456 RVT_3: Reverse transc 95.3 0.05 1.1E-06 32.6 4.5 39 9-53 48-86 (87)
10 PRK07708 hypothetical protein; 94.6 0.054 1.2E-06 41.0 4.2 30 22-55 180-209 (219)
11 PRK07238 bifunctional RNase H/ 94.2 0.067 1.5E-06 41.8 4.0 31 20-54 102-132 (372)
12 PF15216 TSLP: Thymic stromal 62.9 8.9 0.00019 27.8 2.9 44 31-77 81-124 (124)
13 COG0296 GlgB 1,4-alpha-glucan 43.2 30 0.00065 30.6 3.5 27 19-45 222-248 (628)
14 PRK12419 riboflavin synthase s 39.4 39 0.00084 25.0 3.1 30 10-39 23-58 (158)
15 PF06155 DUF971: Protein of un 37.3 21 0.00045 22.8 1.3 16 24-39 67-83 (89)
16 PRK00061 ribH 6,7-dimethyl-8-r 34.0 56 0.0012 23.7 3.2 30 18-49 36-68 (154)
17 COG2988 Succinylglutamate desu 28.5 17 0.00037 30.0 -0.3 9 36-44 50-58 (324)
18 PLN02404 6,7-dimethyl-8-ribity 24.0 1.1E+02 0.0024 22.1 3.3 38 10-49 20-63 (141)
19 PF00885 DMRL_synthase: 6,7-di 22.5 1.2E+02 0.0027 21.5 3.3 31 18-50 27-60 (144)
20 PRK06455 riboflavin synthase; 20.9 1.2E+02 0.0027 22.4 3.1 33 6-39 11-45 (155)
21 TIGR00114 lumazine-synth 6,7-d 20.4 1.4E+02 0.0031 21.2 3.2 38 10-49 13-56 (138)
No 1
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site. This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....
Probab=99.14 E-value=2.1e-11 Score=79.73 Aligned_cols=41 Identities=29% Similarity=0.546 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhhcCCCceEEEEecCccCC-CccHHHHHhhhhhh
Q psy6025 10 PLVKRVQEEELSSTDSSIEFLLCPSHVGI-AGNEEAKQATNDDV 52 (89)
Q Consensus 10 ~i~~~Iq~~el~~~~~~i~~~WvP~H~GI-~GNE~AD~~Ak~a~ 52 (89)
++...|.+ .+ ..+..|.|.|||||+|+ .|||+||+||++|+
T Consensus 90 ~i~~~i~~-~~-~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 90 PIKNEIWE-LL-SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp BHTHHHHH-HH-HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred cchhheee-cc-ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 57777773 44 44788999999999999 69999999999885
No 2
>PRK08719 ribonuclease H; Reviewed
Probab=99.09 E-value=1.2e-10 Score=82.47 Aligned_cols=42 Identities=29% Similarity=0.389 Sum_probs=34.0
Q ss_pred cHHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhh
Q psy6025 9 NPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVT 53 (89)
Q Consensus 9 n~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~ 53 (89)
.++.+.|. ++.. ...|+|.|||||+|++|||.||+||++|..
T Consensus 105 ~dl~~~i~--~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 105 RDLWQQVD--ELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHH--HHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 45666665 2433 467999999999999999999999999864
No 3
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.08 E-value=1.2e-10 Score=81.05 Aligned_cols=43 Identities=19% Similarity=0.293 Sum_probs=34.6
Q ss_pred cHHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhhc
Q psy6025 9 NPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVTH 54 (89)
Q Consensus 9 n~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~~ 54 (89)
.++.+.|.. .+ . ...|.|.|||||+|++|||.||+||++|+..
T Consensus 100 ~dl~~~i~~-l~-~-~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~ 142 (150)
T PRK00203 100 VDLWQRLDA-AL-K-RHQIKWHWVKGHAGHPENERCDELARAGAEE 142 (150)
T ss_pred HHHHHHHHH-Hh-c-cCceEEEEecCCCCCHHHHHHHHHHHHHHHH
Confidence 456666662 23 2 3789999999999999999999999999864
No 4
>PRK06548 ribonuclease H; Provisional
Probab=98.87 E-value=2.6e-09 Score=77.58 Aligned_cols=44 Identities=14% Similarity=0.293 Sum_probs=34.9
Q ss_pred CcHHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhhc
Q psy6025 8 ENPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVTH 54 (89)
Q Consensus 8 ~n~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~~ 54 (89)
..++.+.|. .++ . ...|+|.|||||+|.+|||.||+||++|...
T Consensus 99 N~dL~~~l~-~l~-~-~~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~ 142 (161)
T PRK06548 99 NQEIIQEID-SLM-E-NRNIRMSWVNAHTGHPLNEAADSLARQAANN 142 (161)
T ss_pred cHHHHHHHH-HHH-h-cCceEEEEEecCCCCHHHHHHHHHHHHHHHH
Confidence 456677666 233 2 2579999999999999999999999998753
No 5
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=98.73 E-value=1.3e-08 Score=74.33 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=39.3
Q ss_pred CCCcHHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhhcc
Q psy6025 6 FHENPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVTHQ 55 (89)
Q Consensus 6 ~~~n~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~~~ 55 (89)
..+.++.+.+. ++.+....|.+.|||||.|-+|||+||+||++|+...
T Consensus 99 vkn~dl~~~~~--~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 99 VKNKDLWEELD--ELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred cccHHHHHHHH--HHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 34456677666 4666667899999999999999999999999998654
No 6
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=98.68 E-value=3.7e-08 Score=60.30 Aligned_cols=41 Identities=29% Similarity=0.446 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhh
Q psy6025 10 PLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDV 52 (89)
Q Consensus 10 ~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~ 52 (89)
++...++ .+......+.|.|||+|+|+.+|+.||.+|++|.
T Consensus 90 ~~~~~i~--~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 90 DLWQRLL--ALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred HHHHHHH--HHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 3344444 2334567899999999999999999999999873
No 7
>KOG3752|consensus
Probab=98.18 E-value=1.3e-06 Score=71.51 Aligned_cols=30 Identities=23% Similarity=0.340 Sum_probs=27.9
Q ss_pred CCCceEEEEecCccCCCccHHHHHhhhhhh
Q psy6025 23 TDSSIEFLLCPSHVGIAGNEEAKQATNDDV 52 (89)
Q Consensus 23 ~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~ 52 (89)
++.+|++.|||||.||.|||+||.+|+++.
T Consensus 334 ~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs 363 (371)
T KOG3752|consen 334 SNKKVQQEYVGGHSGILGNEMADALARKGS 363 (371)
T ss_pred ccCceEEEEecCcCCcchHHHHHHHHhhhh
Confidence 568899999999999999999999999884
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=96.41 E-value=0.005 Score=41.00 Aligned_cols=38 Identities=16% Similarity=0.187 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhh
Q psy6025 10 PLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVT 53 (89)
Q Consensus 10 ~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~ 53 (89)
++.+.+. .+...-..+.|.|||.+ +|+.||.+|+.|+.
T Consensus 89 ~l~~~~~--~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 89 PLLEEAL--QYIKSFDLFFIKWIPSS----QNKVADELARKAIL 126 (128)
T ss_pred HHHHHHH--HHHhcCCceEEEEcCch----hchhHHHHHHHHHh
Confidence 3444444 24455566778999994 99999999999874
No 9
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=95.26 E-value=0.05 Score=32.65 Aligned_cols=39 Identities=15% Similarity=0.220 Sum_probs=28.3
Q ss_pred cHHHHHHHHHHhhcCCCceEEEEecCccCCCccHHHHHhhhhhhh
Q psy6025 9 NPLVKRVQEEELSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVT 53 (89)
Q Consensus 9 n~i~~~Iq~~el~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~ 53 (89)
..+...|+ .+.+.-..+.|.|||- .+|..||.||+.|.+
T Consensus 48 ~~~~~~i~--~~~~~~~~~~~~~i~r----~~N~~A~~LA~~a~~ 86 (87)
T PF13456_consen 48 RPLIQDIR--SLLDRFWNVSVSHIPR----EQNKVADALAKFALS 86 (87)
T ss_dssp HHHHHHHH--HHHCCCSCEEEEE--G----GGSHHHHHHHHHHHH
T ss_pred cccchhhh--hhhccccceEEEEECh----HHhHHHHHHHHHHhh
Confidence 34555566 4556678899999997 689999999998864
No 10
>PRK07708 hypothetical protein; Validated
Probab=94.64 E-value=0.054 Score=40.96 Aligned_cols=30 Identities=13% Similarity=0.091 Sum_probs=22.9
Q ss_pred cCCCceEEEEecCccCCCccHHHHHhhhhhhhcc
Q psy6025 22 STDSSIEFLLCPSHVGIAGNEEAKQATNDDVTHQ 55 (89)
Q Consensus 22 ~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~~~ 55 (89)
.-.-.+.|.|||-. -|+.||+||+.|++..
T Consensus 180 ~~~l~~~~~~VpR~----~N~~AD~LAk~Al~~~ 209 (219)
T PRK07708 180 QLKLTPVYEPISRK----QNKEADQLATQALEGT 209 (219)
T ss_pred hCCceEEEEECCch----hhhHHHHHHHHHHhcC
Confidence 33334777888774 5999999999999754
No 11
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=94.22 E-value=0.067 Score=41.78 Aligned_cols=31 Identities=23% Similarity=0.343 Sum_probs=25.9
Q ss_pred hhcCCCceEEEEecCccCCCccHHHHHhhhhhhhc
Q psy6025 20 LSSTDSSIEFLLCPSHVGIAGNEEAKQATNDDVTH 54 (89)
Q Consensus 20 l~~~~~~i~~~WvP~H~GI~GNE~AD~~Ak~a~~~ 54 (89)
+.+.-..++|.|||. .+|+.||.||+.|+..
T Consensus 102 l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~~ 132 (372)
T PRK07238 102 LASQFGRVTYTWIPR----ARNAHADRLANEAMDA 132 (372)
T ss_pred HHhcCCceEEEECCc----hhhhHHHHHHHHHHHh
Confidence 445557899999998 6899999999998754
No 12
>PF15216 TSLP: Thymic stromal lymphopoietin
Probab=62.90 E-value=8.9 Score=27.84 Aligned_cols=44 Identities=18% Similarity=0.092 Sum_probs=24.0
Q ss_pred EecCccCCCccHHHHHhhhhhhhccccchHHHHHHHHHHHHHHhhcc
Q psy6025 31 LCPSHVGIAGNEEAKQATNDDVTHQELFFDEIKINIEKKYLEEWNIQ 77 (89)
Q Consensus 31 WvP~H~GI~GNE~AD~~Ak~a~~~~~~~~~~ik~~I~~kw~~~W~~~ 77 (89)
|+||++|+.-| ......|+-+.. ..--+.-..+-..|++-|+.|
T Consensus 81 ~CPGyse~QiN-~tQ~m~k~~v~~--n~Cleq~s~ll~lWr~f~r~~ 124 (124)
T PF15216_consen 81 YCPGYSETQIN-NTQAMKKRKVTT--NKCLEQVSQLLELWRRFSRIQ 124 (124)
T ss_pred hCCCcchhhcc-hhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhcC
Confidence 99999999888 333334432211 011123344556777777654
No 13
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=43.18 E-value=30 Score=30.63 Aligned_cols=27 Identities=19% Similarity=0.198 Sum_probs=22.5
Q ss_pred HhhcCCCceEEEEecCccCCCccHHHH
Q psy6025 19 ELSSTDSSIEFLLCPSHVGIAGNEEAK 45 (89)
Q Consensus 19 el~~~~~~i~~~WvP~H~GI~GNE~AD 45 (89)
.....+-.|-+=|||+|-|..||=+|-
T Consensus 222 ~aH~~GIgViLD~V~~HF~~d~~~L~~ 248 (628)
T COG0296 222 AAHQAGIGVILDWVPNHFPPDGNYLAR 248 (628)
T ss_pred HHHHcCCEEEEEecCCcCCCCcchhhh
Confidence 567777778888999999999997763
No 14
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=39.44 E-value=39 Score=24.98 Aligned_cols=30 Identities=17% Similarity=0.410 Sum_probs=19.5
Q ss_pred HHHHHHHH---HHhhcCC---CceEEEEecCccCCC
Q psy6025 10 PLVKRVQE---EELSSTD---SSIEFLLCPSHVGIA 39 (89)
Q Consensus 10 ~i~~~Iq~---~el~~~~---~~i~~~WvP~H~GI~ 39 (89)
+|+.+..+ ..|...+ ..|.+.||||=--||
T Consensus 23 ~It~~Ll~gA~~~l~~~G~~~~~i~v~~VPGA~EiP 58 (158)
T PRK12419 23 DIVDQARKGFVAEIAARGGAASQVDIFDVPGAFEIP 58 (158)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEECCcHHHHH
Confidence 45555543 3555555 679999999965554
No 15
>PF06155 DUF971: Protein of unknown function (DUF971); InterPro: IPR010376 This domain is found in gamma-butyrobetaine dioxygenase and trimethyllysine dioxygenase proteins.; PDB: 2L6N_A 3LUU_A 2L6P_A 3MS5_A 3O2G_A 3N6W_A.
Probab=37.30 E-value=21 Score=22.82 Aligned_cols=16 Identities=19% Similarity=0.351 Sum_probs=11.7
Q ss_pred CCceEEEEecCc-cCCC
Q psy6025 24 DSSIEFLLCPSH-VGIA 39 (89)
Q Consensus 24 ~~~i~~~WvP~H-~GI~ 39 (89)
+..|.|.|--|| +||.
T Consensus 67 ~y~l~i~WsDGH~sgiY 83 (89)
T PF06155_consen 67 NYALRITWSDGHDSGIY 83 (89)
T ss_dssp TTEEEEEETTSB---EE
T ss_pred CCEEEEEECCCCceeEe
Confidence 367999999999 5674
No 16
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=33.97 E-value=56 Score=23.70 Aligned_cols=30 Identities=20% Similarity=0.309 Sum_probs=20.0
Q ss_pred HHhhcCC---CceEEEEecCccCCCccHHHHHhhh
Q psy6025 18 EELSSTD---SSIEFLLCPSHVGIAGNEEAKQATN 49 (89)
Q Consensus 18 ~el~~~~---~~i~~~WvP~H~GI~GNE~AD~~Ak 49 (89)
++|...+ ..|.+.||||=--||- .|.++++
T Consensus 36 ~~l~~~gv~~~~i~v~~VPGa~EiP~--a~~~l~~ 68 (154)
T PRK00061 36 DALKRHGVSEENIDVVRVPGAFEIPL--AAKKLAE 68 (154)
T ss_pred HHHHHcCCCccceEEEECCCHHHHHH--HHHHHHH
Confidence 4566655 6799999999776663 3444443
No 17
>COG2988 Succinylglutamate desuccinylase [Amino acid transport and metabolism]
Probab=28.47 E-value=17 Score=30.04 Aligned_cols=9 Identities=67% Similarity=0.970 Sum_probs=7.9
Q ss_pred cCCCccHHH
Q psy6025 36 VGIAGNEEA 44 (89)
Q Consensus 36 ~GI~GNE~A 44 (89)
+||+|||.|
T Consensus 50 aGiHGNEta 58 (324)
T COG2988 50 AGIHGNETA 58 (324)
T ss_pred ecccCCccC
Confidence 699999976
No 18
>PLN02404 6,7-dimethyl-8-ribityllumazine synthase
Probab=23.99 E-value=1.1e+02 Score=22.06 Aligned_cols=38 Identities=18% Similarity=0.297 Sum_probs=23.0
Q ss_pred HHHHHHHH---HHhhcCC---CceEEEEecCccCCCccHHHHHhhh
Q psy6025 10 PLVKRVQE---EELSSTD---SSIEFLLCPSHVGIAGNEEAKQATN 49 (89)
Q Consensus 10 ~i~~~Iq~---~el~~~~---~~i~~~WvP~H~GI~GNE~AD~~Ak 49 (89)
+|+.+..+ ..|...+ ..|.+.||||=--|| =.|+++++
T Consensus 20 ~I~~~Ll~ga~~~l~~~gv~~~~i~v~~VPGa~EiP--~a~~~l~~ 63 (141)
T PLN02404 20 IITKNLLEGALETFKRYSVKEENIDVVWVPGSFEIP--VVAQRLAK 63 (141)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEEcCcHHHHH--HHHHHHHh
Confidence 55555443 3454444 458999999976666 24455554
No 19
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=22.52 E-value=1.2e+02 Score=21.48 Aligned_cols=31 Identities=26% Similarity=0.360 Sum_probs=20.1
Q ss_pred HHhhcCC---CceEEEEecCccCCCccHHHHHhhhh
Q psy6025 18 EELSSTD---SSIEFLLCPSHVGIAGNEEAKQATND 50 (89)
Q Consensus 18 ~el~~~~---~~i~~~WvP~H~GI~GNE~AD~~Ak~ 50 (89)
..|...+ .+|...||||=--+|- .|.++++.
T Consensus 27 ~~l~~~g~~~~~i~~~~VPGa~ElP~--a~~~l~~~ 60 (144)
T PF00885_consen 27 EELKRHGVAEENIEVIRVPGAFELPL--AAKRLAES 60 (144)
T ss_dssp HHHHHTTTTGGCEEEEEESSGGGHHH--HHHHHHHC
T ss_pred HHHHHcCCCccceEEEEcCCHHHHHH--HHHHHhcc
Confidence 3555555 3799999999766652 45555543
No 20
>PRK06455 riboflavin synthase; Provisional
Probab=20.89 E-value=1.2e+02 Score=22.42 Aligned_cols=33 Identities=15% Similarity=0.174 Sum_probs=19.3
Q ss_pred CCCcHHHHHHHHHHhhc--CCCceEEEEecCccCCC
Q psy6025 6 FHENPLVKRVQEEELSS--TDSSIEFLLCPSHVGIA 39 (89)
Q Consensus 6 ~~~n~i~~~Iq~~el~~--~~~~i~~~WvP~H~GI~ 39 (89)
|+...+..-.+ +.|.. .+-.|.+.||||=--||
T Consensus 11 fn~~~L~~gAi-~~L~~~g~~~~I~v~~VPGa~ELP 45 (155)
T PRK06455 11 FARVDMGSAAI-DELRKLDPSAKIIRYTVPGIKDLP 45 (155)
T ss_pred cchHHHHHHHH-HHHHhcCCCCceEEEECCCHHHHH
Confidence 44444444444 35555 34568899999955444
No 21
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=20.37 E-value=1.4e+02 Score=21.22 Aligned_cols=38 Identities=11% Similarity=0.250 Sum_probs=22.7
Q ss_pred HHHHHHHH---HHhhcCC---CceEEEEecCccCCCccHHHHHhhh
Q psy6025 10 PLVKRVQE---EELSSTD---SSIEFLLCPSHVGIAGNEEAKQATN 49 (89)
Q Consensus 10 ~i~~~Iq~---~el~~~~---~~i~~~WvP~H~GI~GNE~AD~~Ak 49 (89)
+|+....+ +.|...+ .+|.+.||||=--||- .|.++++
T Consensus 13 ~i~~~L~~ga~~~l~~~g~~~~~i~v~~VPGa~EiP~--a~~~l~~ 56 (138)
T TIGR00114 13 DITDMLLKGAIDALKRLGAEVDNIDVIWVPGAFELPL--AVKKLAE 56 (138)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEECCcHHHHHH--HHHHHHh
Confidence 45555442 3455544 3588999999766653 4455554
Done!