Query 031868
Match_columns 151
No_of_seqs 119 out of 702
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 06:28:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031868.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031868hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00802 3-methyladenine DNA g 100.0 7.4E-72 1.6E-76 450.1 14.7 150 1-150 2-153 (188)
2 TIGR00567 3mg DNA-3-methyladen 100.0 1.7E-71 3.7E-76 449.2 15.0 147 4-150 1-154 (192)
3 PF02245 Pur_DNA_glyco: Methyl 100.0 3.3E-71 7.2E-76 444.8 11.0 144 5-149 1-149 (184)
4 cd00540 AAG Alkyladenine DNA g 100.0 1.8E-69 3.8E-74 433.3 14.7 142 8-150 1-147 (179)
5 COG2094 Mpg 3-methyladenine DN 100.0 8.5E-67 1.8E-71 422.8 13.0 148 2-150 4-157 (200)
6 KOG4486 3-methyladenine DNA gl 100.0 6.9E-59 1.5E-63 380.6 9.4 148 1-150 56-209 (261)
7 PF12006 DUF3500: Protein of u 74.3 0.43 9.4E-06 41.4 -2.3 94 6-99 56-154 (313)
8 PF03451 HELP: HELP motif; In 40.6 23 0.00051 25.0 2.1 25 47-72 43-67 (77)
9 PF05268 GP38: Phage tail fibr 33.0 21 0.00046 30.6 1.0 52 30-90 41-92 (260)
10 PHA02097 hypothetical protein 28.3 33 0.00071 23.2 1.1 17 81-97 11-27 (59)
11 KOG3297 DNA-directed RNA polym 25.6 50 0.0011 27.5 2.0 47 4-50 13-69 (202)
12 PF14549 P22_Cro: DNA-binding 23.9 42 0.00092 22.5 1.0 16 119-134 8-23 (60)
13 PRK04057 30S ribosomal protein 23.5 15 0.00033 30.3 -1.4 35 16-51 20-57 (203)
14 PF09857 DUF2084: Uncharacteri 21.7 57 0.0012 23.8 1.4 30 22-51 18-52 (85)
15 PF01015 Ribosomal_S3Ae: Ribos 21.4 85 0.0019 25.6 2.6 36 16-52 26-64 (194)
16 PF02011 Glyco_hydro_48: Glyco 20.2 38 0.00083 32.5 0.3 10 72-81 140-149 (619)
No 1
>PRK00802 3-methyladenine DNA glycosylase; Reviewed
Probab=100.00 E-value=7.4e-72 Score=450.06 Aligned_cols=150 Identities=43% Similarity=0.659 Sum_probs=141.2
Q ss_pred CCCCCccccCCCHHhHHhhhcCCeEEEc-CeeEEEEeeeccC-CCCCCccCCCCCCCccccccCCCCeEEEEEeccceee
Q 031868 1 MTILPHHFFQIDALDLAPRLLGKFLRRD-DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTM 78 (151)
Q Consensus 1 m~~L~~~ff~~~~~~vA~~LLG~~Lv~~-~~~grIVETEAY~-~~D~AsHa~~grT~R~~~mf~~~G~~YVY~~YGmh~c 78 (151)
+++|+++||++|+++||++||||+|+++ .++|||||||||. ++|||||||+|||+||++||++|||+|||++||||||
T Consensus 2 ~~~l~~~Ff~~~~~~vA~~LLGk~Lv~~~~~~grIvETEAY~G~~D~A~Ha~~grT~Rn~~mf~~~G~~YVY~~YG~h~~ 81 (188)
T PRK00802 2 GMPLPREFFARDALEVARDLLGKVLVHEGGVSGRIVETEAYIGADDPASHSYRGRTPRTEVMFGPPGHAYVYFIYGMHHC 81 (188)
T ss_pred CCccCHHHHCCCHHHHHHHhCCCEEEECCEEEEEEEEEecccCCCCccccccCCCChhhHHHcCCCceEEEEEecCceeE
Confidence 3568999999999999999999999995 6789999999999 8999999999999999999999999999999999999
Q ss_pred eeEEeCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCCceee
Q 031868 79 LNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGELNCH 150 (151)
Q Consensus 79 lNivt~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~l~~~ 150 (151)
|||||+++|+|+||||||+||++|++.|++||+.+...++|||||||||||||||+++||+||+.+++|||+
T Consensus 82 lNvVt~~~g~~~aVLIRA~ep~~g~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~i~ 153 (188)
T PRK00802 82 LNVVCGPEGTGAAVLIRALEPLEGIALMRRRRGGKRPEKNLCNGPGKLCKALGITLADNGADLFDASPLYIE 153 (188)
T ss_pred EEEEECCCCCccEEEEEeccccccHHHHHHhcccCCcccccccCHHHHHHHhCCCHHHCCCcccCCCCEEEe
Confidence 999999999999999999999999999999995444457899999999999999999999999877889985
No 2
>TIGR00567 3mg DNA-3-methyladenine glycosylase (3mg). This families are based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). All proteins in this family for which the function is known are involved in the base excision repair of alkylation damage to DNA. The exact specificty of the type of alkylation damage repaired by each of these varies somewhat between species. Substrates include 3-methyl adenine, 7-methyl-guanaine, and 3-methyl-guanine.
Probab=100.00 E-value=1.7e-71 Score=449.16 Aligned_cols=147 Identities=50% Similarity=0.761 Sum_probs=138.0
Q ss_pred CCccccCCCHHhHHhhhcCCeEEEcC----e-eEEEEeeeccC-CCCCCccCCCCC-CCccccccCCCCeEEEEEeccce
Q 031868 4 LPHHFFQIDALDLAPRLLGKFLRRDD----V-LLQITEVEAYR-PNDSACHGRFGI-TARTAPVFGPGGLAYVYLCYGLH 76 (151)
Q Consensus 4 L~~~ff~~~~~~vA~~LLG~~Lv~~~----~-~grIVETEAY~-~~D~AsHa~~gr-T~R~~~mf~~~G~~YVY~~YGmh 76 (151)
|+++||++|+++||++||||+|+++. . +|+|||||||. ++|||||||+|| |+||++||++||++|||++||||
T Consensus 1 l~~~Ff~~~~~~vA~~LLGk~Lv~~~~~g~~~~grIvEtEAY~G~~D~A~Ha~~grrT~Rn~~mfg~~G~~YVY~~YGmh 80 (192)
T TIGR00567 1 MPPEFFQQDAVTLAPRLLGQLLVRRLDKGTEVRGRIVETEAYMGPEDSAAHSRGGRQTPRTRGMFGPPGRLYVYIIYGMH 80 (192)
T ss_pred CCHHHhcCCHHHHHHHhCCCEEEEECCCCcEEEEEEEEEecccCCCCccccccCCCCCcchHHHccCCceEEEEEecCCE
Confidence 68899999999999999999999862 3 69999999999 999999999996 99999999999999999999999
Q ss_pred eeeeEEeCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCCceee
Q 031868 77 TMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGELNCH 150 (151)
Q Consensus 77 ~clNivt~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~l~~~ 150 (151)
|||||||+++|.|+||||||+||++|++.|++||+.....++|||||||||||||||+++||+||+++++||++
T Consensus 81 ~~lNvVt~~~g~p~aVLIRA~ep~~G~~~m~~~R~~~~~~~~L~nGPGkL~~ALgI~~~~ng~~l~~~~~l~i~ 154 (192)
T TIGR00567 81 YMLNVVAAPEGVPAAVLIRALEPLEGLELMRERRGRSLKDRELTNGPGKLCQALGITMSFNGRDLIQPSALWLE 154 (192)
T ss_pred EEEEEEECCCCCccEEEEEeccccCchHHHHHhcCCCccccccccCHHHHHHHhCCCHHHCCCcccCCCceEEe
Confidence 99999999999999999999999999999999997654346899999999999999999999999887789985
No 3
>PF02245 Pur_DNA_glyco: Methylpurine-DNA glycosylase (MPG); InterPro: IPR003180 Methylpurine-DNA glycosylase is a base excision-repair protein. It is responsible for the hydrolysis of the deoxyribose N-glycosidic bond, excising 3-methyladenine and 3-methylguanine from damaged DNA []. Its action is induced by alkylating chemotherapeutics, as well as deaminated and lipid peroxidation-induced purine adducts []. MPG without an N-terminal extension excises hypoxanthine with one-third of the efficiency of full-length MPG under similar conditions, suggesting that is function may largely be attributable to the N-terminal extension [].; GO: 0003677 DNA binding, 0003905 alkylbase DNA N-glycosylase activity, 0006284 base-excision repair; PDB: 1BNK_A 1F6O_A 3QI5_A 3UBY_B 1F4R_A 1EWN_A.
Probab=100.00 E-value=3.3e-71 Score=444.81 Aligned_cols=144 Identities=44% Similarity=0.683 Sum_probs=122.7
Q ss_pred CccccCCCHHhHHhhhcCCeEEEc----CeeEEEEeeeccC-CCCCCccCCCCCCCccccccCCCCeEEEEEeccceeee
Q 031868 5 PHHFFQIDALDLAPRLLGKFLRRD----DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTML 79 (151)
Q Consensus 5 ~~~ff~~~~~~vA~~LLG~~Lv~~----~~~grIVETEAY~-~~D~AsHa~~grT~R~~~mf~~~G~~YVY~~YGmh~cl 79 (151)
|++||++|+++||++||||.||++ .++|||||||||. ++|||||||+|+|+||++||++|||+|||++|||||||
T Consensus 1 p~~Ff~r~~~~vA~~LLG~~Lv~~~~~~~~~grIvEtEAY~g~~D~AsHa~~g~T~Rn~~mf~~~G~~YVY~~YGmh~cl 80 (184)
T PF02245_consen 1 PRDFFDRDTVEVARDLLGKVLVRRIPGGELSGRIVETEAYLGPEDPASHAYRGRTPRNEVMFGPPGHAYVYLIYGMHHCL 80 (184)
T ss_dssp --HHHSSBHHHHHHHCTT-EEEEE-TTS-EEEEEEEEEEE-STT-TTSTTGGG--STTGGGGSSTTBEEEEEETTTEEEE
T ss_pred CcchhccCHHHHHHHhCCCEEEEEeCCCeEEEEEEEEeeccCCCCCcccccCCCCcccHHHcCCCCEEEEEEecCCeeEE
Confidence 689999999999999999999995 4899999999999 89999999999999999999999999999999999999
Q ss_pred eEEeCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCCcee
Q 031868 80 NVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGELNC 149 (151)
Q Consensus 80 Nivt~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~l~~ 149 (151)
||||+++|.|+||||||+||++|++.|++||+.++ .++|||||||||||||||+++||+||++++.|||
T Consensus 81 Nivt~~~g~~~aVLIRAieP~~G~~~m~~~R~~~~-~~~L~~GPGkL~~ALgI~~~~~g~~l~~~~~l~i 149 (184)
T PF02245_consen 81 NIVTGPEGVPEAVLIRAIEPLEGIELMRARRGGKR-DKNLTNGPGKLCQALGIDRELNGLDLCGDPSLWI 149 (184)
T ss_dssp EEE-BSTT---EEEEEEEEEEE-HHHHHHHHHHHH-GGGSSSSHHHHHHHTT--GGGTT-BTTT-SSEEE
T ss_pred eEEecCCCceEEEEEEeccccCCHHHHHHhcCCCC-ccccccCHHHHHHHhCCCHHHCCcccCCCCceEE
Confidence 99999999999999999999999999999998754 5789999999999999999999999999988998
No 4
>cd00540 AAG Alkyladenine DNA glycosylase (AAG), also known as 3-methyladenine DNA glycosylase, catalyzes the first step in base excision repair (BER) by cleaving damaged DNA bases within double-stranded DNA to produce an abasic site. AAG bends DNA by intercalating between the base pairs, causing the damaged base to flip out of the double helix and into the enzyme active site for cleavage. Although AAG represents one of six DNA glycosylase classes, it lacks the helix-hairpin-helix active site motif associated with the other BER glycosylases and is structurally quite distinct from them.
Probab=100.00 E-value=1.8e-69 Score=433.33 Aligned_cols=142 Identities=44% Similarity=0.648 Sum_probs=134.9
Q ss_pred ccCCCHHhHHhhhcCCeEEEc----CeeEEEEeeeccC-CCCCCccCCCCCCCccccccCCCCeEEEEEeccceeeeeEE
Q 031868 8 FFQIDALDLAPRLLGKFLRRD----DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTMLNVV 82 (151)
Q Consensus 8 ff~~~~~~vA~~LLG~~Lv~~----~~~grIVETEAY~-~~D~AsHa~~grT~R~~~mf~~~G~~YVY~~YGmh~clNiv 82 (151)
||++|+++||++||||+|+++ .++|||||||||. ++|||||||+|||+||.+||++|||+|||++||||||||||
T Consensus 1 f~~~~~~~vA~~LLGk~Lv~~~~~~~~~grIvEtEAY~G~~D~A~Ha~~gr~~~~~~mfg~~G~~YVY~~YG~h~~lNvV 80 (179)
T cd00540 1 FFNRDTVEVARDLLGKVLVRRLPGGILSGRIVETEAYLGPEDPASHAYRGRTTRRTVMFGPPGHAYVYLIYGMHWCLNVV 80 (179)
T ss_pred CCCCCHHHHHHHhCCCEEEEECCCCEEEEEEEEEeccCCCCCccccccCCCCccchhhccCCceEEEEeecCCEEEEEEE
Confidence 899999999999999999997 3789999999999 89999999999988888999999999999999999999999
Q ss_pred eCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCCceee
Q 031868 83 ADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGELNCH 150 (151)
Q Consensus 83 t~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~l~~~ 150 (151)
|+++|+|+||||||+||++|++.|++||+.++. ++|||||||||||||||+++||.||++++.|||+
T Consensus 81 t~~~g~~~aVLIRAiEp~~G~~~m~~~R~~~~~-~~L~nGPGkL~~AlgI~~~~ng~~l~~~~~l~i~ 147 (179)
T cd00540 81 TGPEGEPAAVLIRALEPLEGLELMRERRGGKRK-RDLTNGPGKLCQALGIDKSLNGADLTDSSPLWLE 147 (179)
T ss_pred ECCCCCccEEEEEeeccccchhhHHhccCCCcc-CeeccChHHHHHHhCCcHHHCCCccCCCCcEEEe
Confidence 999999999999999999999999999976643 7899999999999999999999999887789985
No 5
>COG2094 Mpg 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.5e-67 Score=422.83 Aligned_cols=148 Identities=46% Similarity=0.687 Sum_probs=140.2
Q ss_pred CCCCccccCCCHHhHHhhhcCCeEEEc--C--eeEEEEeeeccC-CCCCCccCCCCCCCccccccCCCCeEEEEEeccce
Q 031868 2 TILPHHFFQIDALDLAPRLLGKFLRRD--D--VLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLH 76 (151)
Q Consensus 2 ~~L~~~ff~~~~~~vA~~LLG~~Lv~~--~--~~grIVETEAY~-~~D~AsHa~~grT~R~~~mf~~~G~~YVY~~YGmh 76 (151)
+.+|++||.+|+++||++||||.|+|+ + ++|+|||||||. ++|||||||+|||+||++||++|||+|||++||||
T Consensus 4 ~~~p~~F~~rd~~~vAr~LLG~~lv~~~~g~~~~g~IVEtEAY~G~~D~A~Ha~~GrT~R~~aMf~~~G~~YvY~~~G~h 83 (200)
T COG2094 4 MPLPRSFFARDTLVVARELLGKTLVRRIGGLTTSGRIVETEAYLGPDDPACHAYRGRTKRNRAMFGPPGHAYVYRIYGMH 83 (200)
T ss_pred ccCCHhhhccCHHHHHHHhcCcEEEEecCCcEEEEEEEEEeEecCCCchhhhhccCcCcccHhhccCCceEEEEEEeccE
Confidence 358999999999999999999999986 3 789999999999 99999999999999999999999999999999999
Q ss_pred eeeeEEeCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCC-ceee
Q 031868 77 TMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGE-LNCH 150 (151)
Q Consensus 77 ~clNivt~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~-l~~~ 150 (151)
|||||||.+||.|+||||||+||++|++.|++||+.+. .++|||||||||||||||+++||.|+.+++. ||+.
T Consensus 84 ~~lNvv~~~eG~p~aVLIRAieP~eg~~~m~~rR~~~~-~~~l~nGPgkLc~ALgI~~~~~g~~l~~~~~~l~l~ 157 (200)
T COG2094 84 YCLNVVTGPEGIPAAVLIRAIEPEEGIEPMRQRRGVRV-LRLLTNGPGKLCKALGITREDNGADLINPSEPLWLE 157 (200)
T ss_pred EEEEEEecCCCCcceEEEEeeccccccchhhhccCccc-cchhccCchHHHHHhCCCHHHcCCcccCCCCceEEe
Confidence 99999999999999999999999999999999998774 4689999999999999999999999888766 8875
No 6
>KOG4486 consensus 3-methyladenine DNA glycosylase [Replication, recombination and repair]
Probab=100.00 E-value=6.9e-59 Score=380.63 Aligned_cols=148 Identities=40% Similarity=0.581 Sum_probs=141.8
Q ss_pred CCCCCccccCCCHHhHHhhhcCCeEEEcC----eeEEEEeeeccC-CCCCCccCCCC-CCCccccccCCCCeEEEEEecc
Q 031868 1 MTILPHHFFQIDALDLAPRLLGKFLRRDD----VLLQITEVEAYR-PNDSACHGRFG-ITARTAPVFGPGGLAYVYLCYG 74 (151)
Q Consensus 1 m~~L~~~ff~~~~~~vA~~LLG~~Lv~~~----~~grIVETEAY~-~~D~AsHa~~g-rT~R~~~mf~~~G~~YVY~~YG 74 (151)
|+.++.+||+.|++++|+.|||+.|+|+. +.|||||||||+ |+|+|||+.+| +||||+.||++|||+|||+|||
T Consensus 56 m~~mgpEFFqipA~~LArrlLG~~l~RR~~g~~~~gRIvEtEAYlgPeD~AcHsRgGr~TPRn~~mFmk~Gt~YVY~iYG 135 (261)
T KOG4486|consen 56 MMDMGPEFFQIPASQLARRLLGKMLCRRIEGRTTKGRIVETEAYLGPEDKACHSRGGRRTPRNSAMFMKAGTCYVYRIYG 135 (261)
T ss_pred HhhcChhhhcCchHHHHHHHHHHHHhhhcCCceeeeeEEeeeeecCcchhhhhhcCCccCCCcccccccCceEEEEEeee
Confidence 56789999999999999999999999973 679999999999 99999999998 6999999999999999999999
Q ss_pred ceeeeeEEeCCCCCccEEEecccccCCCHHHHHHHhcCCCCCCccCCChhHHHHHhCCCcccCCCCCCCCCCceee
Q 031868 75 LHTMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGELNCH 150 (151)
Q Consensus 75 mh~clNivt~~~g~~~aVLIRA~eP~~G~~~m~~rR~~~~~~~~L~~GPgkL~~ALgI~~~~~g~~l~~~~~l~~~ 150 (151)
||+|||||+ +|.+++|||||+||++|+|+|+.||+.+.+++.|+|||+||||||||+++|+.++|..++++|++
T Consensus 136 ~y~c~NIss--~G~GA~VLiRalePl~G~ETmreRrG~~~kdr~L~nGPsKlcQALgi~~e~d~~~La~~e~~wLe 209 (261)
T KOG4486|consen 136 RYECFNISS--VGAGAGVLVRALEPLCGVETMRERRGGRVKDRDLANGPSKLCQALGITREIDKEWLAGSEKIWLE 209 (261)
T ss_pred ehheeeeec--cccceEEeeeccCcccchHHHHHhcCCCcCChhhhcCcHHHHHHhccccccccccccCCCcEeee
Confidence 999999999 78999999999999999999999999988889999999999999999999999999999999985
No 7
>PF12006 DUF3500: Protein of unknown function (DUF3500); InterPro: IPR021889 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 335 to 438 amino acids in length. This protein has a conserved GHH sequence motif. This protein has two completely conserved G residues that may be functionally important.
Probab=74.27 E-value=0.43 Score=41.44 Aligned_cols=94 Identities=14% Similarity=0.052 Sum_probs=64.6
Q ss_pred ccccCCCHHhHHhhhcCCeEEEcC--eeEEEEeeeccC-CCCCCccCCCCCCCccccccCCCCe--EEEEEeccceeeee
Q 031868 6 HHFFQIDALDLAPRLLGKFLRRDD--VLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGL--AYVYLCYGLHTMLN 80 (151)
Q Consensus 6 ~~ff~~~~~~vA~~LLG~~Lv~~~--~~grIVETEAY~-~~D~AsHa~~grT~R~~~mf~~~G~--~YVY~~YGmh~clN 80 (151)
.+.+..+..+.|..||=..|--++ ..-.|.+.|.|+ .-....=..++.-.-+-++||.|+. -+-+.++|-|-|+|
T Consensus 56 l~~lt~~Qr~~a~~lL~~~LS~~Gy~k~~~im~~d~~L~~~~~~~~~~~~~~~Y~~~ifG~Ps~~~~Wg~~f~GHHlsln 135 (313)
T PF12006_consen 56 LDDLTDEQRKAALALLKAALSPEGYEKARGIMRLDDVLGELEGGSPTIRDPESYYFAIFGTPSTTGPWGWQFEGHHLSLN 135 (313)
T ss_pred hHhCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhhcCCcccCCCCceEEEEecCCCCCCCeeEEecccEEEEE
Confidence 345556666788888877776443 234577888887 3332222224456778899999998 78899999999999
Q ss_pred EEeCCCCCccEEEeccccc
Q 031868 81 VVADKEGVGAAVLIRSCAP 99 (151)
Q Consensus 81 ivt~~~g~~~aVLIRA~eP 99 (151)
++........+=..-|.||
T Consensus 136 ~~~~~~~v~~tP~F~Ga~P 154 (313)
T PF12006_consen 136 CTFVGGQVSITPTFFGAEP 154 (313)
T ss_pred EEEeCCCEEECceeeCCCC
Confidence 9996655544456677777
No 8
>PF03451 HELP: HELP motif; InterPro: IPR005108 The HELP (Hydrophobic ELP) domain is found in EMAP and EMAP-like proteins (ELPs) [, ]. Although called a domain it contains a predicted transmembrane helix and may not form a globular domain. It is also not clear if these proteins localize to membranes.
Probab=40.59 E-value=23 Score=25.05 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=21.9
Q ss_pred ccCCCCCCCccccccCCCCeEEEEEe
Q 031868 47 CHGRFGITARTAPVFGPGGLAYVYLC 72 (151)
Q Consensus 47 sHa~~grT~R~~~mf~~~G~~YVY~~ 72 (151)
.|+|+|+.-||-..|-+.|-+ ||++
T Consensus 43 VyGYrg~d~R~Nl~y~~~gei-vY~~ 67 (77)
T PF03451_consen 43 VYGYRGHDCRNNLFYNATGEI-VYFT 67 (77)
T ss_pred EeccCCccccccEEECCCCCE-EEEe
Confidence 499999989999999999987 7776
No 9
>PF05268 GP38: Phage tail fibre adhesin Gp38; InterPro: IPR007932 This entry is represented by Bacteriophage T2, Gp38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains several Gp38 proteins from T-even-like phages. Gp38, together with a second phage protein, Gp57, catalyses the organisation of Gp37 but is absent from the phage particle. Gp37 is responsible for receptor recognition [].
Probab=32.99 E-value=21 Score=30.55 Aligned_cols=52 Identities=23% Similarity=0.219 Sum_probs=39.2
Q ss_pred eeEEEEeeeccCCCCCCccCCCCCCCccccccCCCCeEEEEEeccceeeeeEEeCCCCCcc
Q 031868 30 VLLQITEVEAYRPNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTMLNVVADKEGVGA 90 (151)
Q Consensus 30 ~~grIVETEAY~~~D~AsHa~~grT~R~~~mf~~~G~~YVY~~YGmh~clNivt~~~g~~~ 90 (151)
+.||=+|. |. .=-|.|.|++.|-|+. ||..++.--|+-|-| |+|+...++|.
T Consensus 41 m~GrS~ei--~~-tiGA~hn~n~~~~~~~-~~~~GsaPiV~~ITG-----~lVS~S~~vp~ 92 (260)
T PF05268_consen 41 MAGRSKEI--IH-TIGADHNFNGQWFRDR-CFEAGSAPIVFNITG-----NLVSYSKDVPC 92 (260)
T ss_pred hhccceeE--EE-ecccCcccchhHHHHH-HHHcCCCCEEEEecc-----ceeeccCCcee
Confidence 55666663 22 2347899999999886 899999999988876 78888777764
No 10
>PHA02097 hypothetical protein
Probab=28.34 E-value=33 Score=23.16 Aligned_cols=17 Identities=29% Similarity=0.372 Sum_probs=13.6
Q ss_pred EEeCCCCCccEEEeccc
Q 031868 81 VVADKEGVGAAVLIRSC 97 (151)
Q Consensus 81 ivt~~~g~~~aVLIRA~ 97 (151)
+||..-..|.+||||-.
T Consensus 11 ~vt~amntp~gv~iri~ 27 (59)
T PHA02097 11 VVTSAMNTPGGVIIRIA 27 (59)
T ss_pred eEEEEeeCCCcEEEEEE
Confidence 56666778999999964
No 11
>KOG3297 consensus DNA-directed RNA polymerase subunit E' [Transcription]
Probab=25.65 E-value=50 Score=27.51 Aligned_cols=47 Identities=30% Similarity=0.382 Sum_probs=32.5
Q ss_pred CCccccCCCHH-----hHHhhhcCCeEEEcCe---eEEEEeeeccC--CCCCCccCC
Q 031868 4 LPHHFFQIDAL-----DLAPRLLGKFLRRDDV---LLQITEVEAYR--PNDSACHGR 50 (151)
Q Consensus 4 L~~~ff~~~~~-----~vA~~LLG~~Lv~~~~---~grIVETEAY~--~~D~AsHa~ 50 (151)
+|++-|.++.. ++-+.|.+|+|---++ .-.|.|.|-+. +.|-|||+-
T Consensus 13 I~P~qf~~~~~~ai~~eL~~k~anKvl~nvGLCI~vyDi~~v~e~~v~pGDGas~~~ 69 (202)
T KOG3297|consen 13 IPPSQFEKPLEDAIKEELNRKLANKVLPNVGLCICVYDILEVEEGIVLPGDGASYAR 69 (202)
T ss_pred cChHHhCchHHHHHHHHHHHHHHhhhcccccEEEEEeEeeeecceEEecCCCceEEE
Confidence 56667777643 4556677777754432 34799998875 899999974
No 12
>PF14549 P22_Cro: DNA-binding transcriptional regulator Cro; PDB: 1RZS_A 3BD1_A 3QWS_A 2HIN_B.
Probab=23.89 E-value=42 Score=22.47 Aligned_cols=16 Identities=38% Similarity=0.690 Sum_probs=12.8
Q ss_pred cCCChhHHHHHhCCCc
Q 031868 119 LLTGPGKVGQALGIST 134 (151)
Q Consensus 119 L~~GPgkL~~ALgI~~ 134 (151)
...|..+|+++|||+.
T Consensus 8 ~~G~~~~lAkalGVs~ 23 (60)
T PF14549_consen 8 YFGGQSKLAKALGVSP 23 (60)
T ss_dssp HHSSHHHHHHHHTS-H
T ss_pred HHCCHHHHHHHHCCCH
Confidence 3568899999999986
No 13
>PRK04057 30S ribosomal protein S3Ae; Validated
Probab=23.48 E-value=15 Score=30.35 Aligned_cols=35 Identities=11% Similarity=0.115 Sum_probs=26.4
Q ss_pred HHhhhcCCeEEEc--CeeEEEEeeeccC-CCCCCccCCC
Q 031868 16 LAPRLLGKFLRRD--DVLLQITEVEAYR-PNDSACHGRF 51 (151)
Q Consensus 16 vA~~LLG~~Lv~~--~~~grIVETEAY~-~~D~AsHa~~ 51 (151)
.-..-+|++++.. .+.||++|+=.+. .+|. +|++.
T Consensus 20 F~~~~iG~T~a~~~~~l~GRv~EvsL~DL~~d~-~~~~~ 57 (203)
T PRK04057 20 FGGVEIGETPADDPEKLIGRVVETTLGDLTGDF-SKQNV 57 (203)
T ss_pred cCCceEEEEEccChhhcCCcEEEEEHHHhcCCh-hhceE
Confidence 3344578888865 4889999999998 7786 66664
No 14
>PF09857 DUF2084: Uncharacterized protein conserved in bacteria (DUF2084); InterPro: IPR018654 This domain is found in various hypothetical bacterial proteins that have no known function.
Probab=21.74 E-value=57 Score=23.79 Aligned_cols=30 Identities=27% Similarity=0.235 Sum_probs=20.8
Q ss_pred CCeEEEcCeeEEEEeeeccC-C----CCCCccCCC
Q 031868 22 GKFLRRDDVLLQITEVEAYR-P----NDSACHGRF 51 (151)
Q Consensus 22 G~~Lv~~~~~grIVETEAY~-~----~D~AsHa~~ 51 (151)
|.++..++-.|+|+++|.|. . .|=.-.-|+
T Consensus 18 G~I~~~rd~~gri~~v~C~TReG~~l~dctl~vF~ 52 (85)
T PF09857_consen 18 GRIRHERDDSGRITAVECYTREGWLLSDCTLAVFR 52 (85)
T ss_pred CeEEEEECCCCCEEEEEEEccCCeeeCCCCHHHHH
Confidence 56666667899999999997 3 354444454
No 15
>PF01015 Ribosomal_S3Ae: Ribosomal S3Ae family; InterPro: IPR001593 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of proteins that have from 220 to 250 amino acids and represents Rps1 (eukaryotic) and Rps3Ae (archaeal and eukaryotic).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_4 2XZM_4 3U5C_B 3U5G_B.
Probab=21.44 E-value=85 Score=25.61 Aligned_cols=36 Identities=19% Similarity=0.143 Sum_probs=24.8
Q ss_pred HHhhhcCCeEEEc--CeeEEEEeeeccC-CCCCCccCCCC
Q 031868 16 LAPRLLGKFLRRD--DVLLQITEVEAYR-PNDSACHGRFG 52 (151)
Q Consensus 16 vA~~LLG~~Lv~~--~~~grIVETEAY~-~~D~AsHa~~g 52 (151)
.-..-+|++++-+ .+.||++|+=.+. .+|.. |+|+.
T Consensus 26 F~~~~iG~T~~~~~~~l~gRv~Evsl~DL~~d~~-~~~~K 64 (194)
T PF01015_consen 26 FGNRNIGKTPANKPEKLKGRVFEVSLADLTNDFS-KAYRK 64 (194)
T ss_dssp SSSSEECEEEEE-CCCCCC-EEEEECHCCCSTTT-TSS-E
T ss_pred hCcceeeEEEcCCcccccCeEEEEEHHHhcCchh-hhcEE
Confidence 3444589999876 5889999999998 66644 77764
No 16
>PF02011 Glyco_hydro_48: Glycosyl hydrolase family 48; InterPro: IPR000556 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 48 GH48 from CAZY comprises enzymes with several known activities; endoglucanase (3.2.1.4 from EC); cellobiohydrolase (3.2.1.91 from EC). The largest cellulase gene sequenced to date is one of the cellulases (celA) from the genome of the thermophilic anaerobic bacterium Caldocellum saccharolyticum. The celA gene product is a polypeptide of 1751 amino acids; this has a multidomain structure comprising two catalytic domains and two cellulose-binding domains, linked by Pro-Thr-rich regions. The N-terminal domain encodes an endoglucanase activity on carboxymethylcellulose, consistent with its similarity to several endo-1, 4-beta-D-glucanase sequences. The C-terminal domain shows similarity to a cellulase from Clostridium thermocellum (CelS), which acts synergistically with a second component to hydrolyse crystalline cellulose [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1FAE_A 1FBO_A 1FBW_A 1FCE_A 1F9D_A 1F9O_A 1G9G_A 1G9J_A 2QNO_A 1L1Y_E ....
Probab=20.17 E-value=38 Score=32.48 Aligned_cols=10 Identities=50% Similarity=1.032 Sum_probs=6.4
Q ss_pred eccceeeeeE
Q 031868 72 CYGLHTMLNV 81 (151)
Q Consensus 72 ~YGmh~clNi 81 (151)
+|+|||++.|
T Consensus 140 ~Y~MHWL~DV 149 (619)
T PF02011_consen 140 IYGMHWLLDV 149 (619)
T ss_dssp --S-BSEEET
T ss_pred ceeeeeeeec
Confidence 7999999987
Done!