Query 029132
Match_columns 198
No_of_seqs 153 out of 748
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 08:00:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029132.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029132hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00567 3mg DNA-3-methyladen 100.0 2E-86 4.3E-91 557.3 18.4 185 4-189 1-192 (192)
2 PRK00802 3-methyladenine DNA g 100.0 2.3E-85 4.9E-90 549.4 18.2 185 1-189 2-188 (188)
3 PF02245 Pur_DNA_glyco: Methyl 100.0 1.3E-83 2.9E-88 537.3 14.5 178 5-187 1-184 (184)
4 COG2094 Mpg 3-methyladenine DN 100.0 4.8E-81 1E-85 524.0 17.2 190 2-196 4-199 (200)
5 cd00540 AAG Alkyladenine DNA g 100.0 9.8E-81 2.1E-85 518.1 17.5 173 8-182 1-179 (179)
6 KOG4486 3-methyladenine DNA gl 100.0 1.2E-72 2.6E-77 475.9 11.7 194 1-197 56-257 (261)
7 PF12006 DUF3500: Protein of u 81.0 0.23 4.9E-06 45.1 -2.2 95 5-99 55-154 (313)
8 PF05268 GP38: Phage tail fibr 33.5 19 0.00042 31.8 0.9 53 29-90 40-92 (260)
9 PF03451 HELP: HELP motif; In 27.0 49 0.0011 24.3 2.0 25 47-72 43-67 (77)
10 PHA02097 hypothetical protein 25.8 39 0.00084 23.5 1.1 18 81-98 11-28 (59)
11 KOG3297 DNA-directed RNA polym 24.1 59 0.0013 28.0 2.2 47 4-50 13-69 (202)
12 PF02011 Glyco_hydro_48: Glyco 21.5 32 0.00069 34.2 0.1 10 72-81 140-149 (619)
13 PF14549 P22_Cro: DNA-binding 20.1 57 0.0012 22.7 1.1 16 119-134 8-23 (60)
No 1
>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=2e-86 Score=557.31 Aligned_cols=185 Identities=49% Similarity=0.796 Sum_probs=172.3
Q ss_pred CCcccCCCCHHhHHhhhcCCeEEecC----e-eEEEEEeeccC-CCCCccccCCCC-CCCcccccCCCCeeEEEEecCce
Q 029132 4 LPHHFFQIDALDLAPRLLGKFLRRDD----V-LLQITEVEAYR-PNDSACHGRFGI-TARTAPVFGPGGLAYVYLCYGLH 76 (198)
Q Consensus 4 l~~~Ff~~~~~~vA~~LLG~~Lv~~~----~-~grIVEtEAY~-~~D~AsHa~~gr-T~Rn~~mfg~~G~~YVY~~YGmh 76 (198)
|+++||++|+++||++||||+||++. . +|+|||||||+ ++|||||||+|| |+||++||++|||+|||+|||||
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 68899999999999999999999852 3 69999999999 899999999996 99999999999999999999999
Q ss_pred eEEEEEeCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCceEEcCCCCCC
Q 029132 77 TMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGGLEILDGPKPE 156 (198)
Q Consensus 77 ~clNvvt~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~l~~~~~~~ 156 (198)
|||||||+++|.|+||||||+||++|++.|++||+.....++|||||||||||||||+++||.||++++.|||+++..+.
T Consensus 81 ~~lNvVt~~~g~p~aVLIRA~ep~~G~~~m~~~R~~~~~~~~L~nGPGkL~~ALgI~~~~ng~~l~~~~~l~i~~~~~~~ 160 (192)
T TIGR00567 81 YMLNVVAAPEGVPAAVLIRALEPLEGLELMRERRGRSLKDRELTNGPGKLCQALGITMSFNGRDLIQPSALWLERGPLEH 160 (192)
T ss_pred EEEEEEECCCCCccEEEEEeccccCchHHHHHhcCCCccccccccCHHHHHHHhCCCHHHCCCcccCCCceEEecCCCCC
Confidence 99999999999999999999999999999999997644346899999999999999999999999876579998765556
Q ss_pred ceeecceeeecCCCccccCceeeEEECCCCeec
Q 029132 157 KILIGPRVGIEYALPEHVNALWRFAIAGTPWIS 189 (198)
Q Consensus 157 ~I~~t~RIGI~~a~~e~~~~pwRf~i~gnp~VS 189 (198)
+|.+||||||++++ ||+++|||||++||||||
T Consensus 161 ~i~~t~RIGI~~a~-~~~~~pwRf~v~~n~~VS 192 (192)
T TIGR00567 161 SAPAGPRVGIDYAG-EWDIKPWRFYVTGNPWVS 192 (192)
T ss_pred ceeeeCcccccCcc-ccccCCcEEEECCCcccC
Confidence 79999999999996 799999999999999998
No 2
>PRK00802 3-methyladenine DNA glycosylase; Reviewed
Probab=100.00 E-value=2.3e-85 Score=549.36 Aligned_cols=185 Identities=44% Similarity=0.719 Sum_probs=171.8
Q ss_pred CCCCCcccCCCCHHhHHhhhcCCeEEec-CeeEEEEEeeccC-CCCCccccCCCCCCCcccccCCCCeeEEEEecCceeE
Q 029132 1 MTILPHHFFQIDALDLAPRLLGKFLRRD-DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTM 78 (198)
Q Consensus 1 m~~l~~~Ff~~~~~~vA~~LLG~~Lv~~-~~~grIVEtEAY~-~~D~AsHa~~grT~Rn~~mfg~~G~~YVY~~YGmh~c 78 (198)
+++|+++||++|+++||++||||+||++ .++|||||||||+ ++|||||||+|||+||++||++|||+|||+|||||||
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 3578999999999999999999999995 5789999999999 8999999999999999999999999999999999999
Q ss_pred EEEEeCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCceEEcCCCCCCce
Q 029132 79 LNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGGLEILDGPKPEKI 158 (198)
Q Consensus 79 lNvvt~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~l~~~~~~~~I 158 (198)
|||||+++|.|+||||||+||++|++.|++||+.+...++|||||||||||||||+++||++|++++.|||++...+.+|
T Consensus 82 lNvVt~~~g~~~aVLIRA~ep~~g~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~i~~~~~~~~i 161 (188)
T PRK00802 82 LNVVCGPEGTGAAVLIRALEPLEGIALMRRRRGGKRPEKNLCNGPGKLCKALGITLADNGADLFDASPLYIEDGKEPPEI 161 (188)
T ss_pred EEEEECCCCCccEEEEEeccccccHHHHHHhcccCCcccccccCHHHHHHHhCCCHHHCCCcccCCCCEEEecCCCCCcE
Confidence 99999999999999999999999999999999544444689999999999999999999999986557999965456689
Q ss_pred eecceeeecCCCccccCceeeEEECCCCeec
Q 029132 159 LIGPRVGIEYALPEHVNALWRFAIAGTPWIS 189 (198)
Q Consensus 159 ~~t~RIGI~~a~~e~~~~pwRf~i~gnp~VS 189 (198)
++||||||++ |+|+||||||+||||||
T Consensus 162 ~~t~RIGI~~----~~~~pwRf~i~~~~~VS 188 (188)
T PRK00802 162 VAGPRIGISK----ARDLPWRFWIPGSPFVS 188 (188)
T ss_pred EEeCccccCc----cccCCeEEEECCCcccC
Confidence 9999999994 68999999999999998
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=1.3e-83 Score=537.34 Aligned_cols=178 Identities=44% Similarity=0.737 Sum_probs=148.4
Q ss_pred CcccCCCCHHhHHhhhcCCeEEec----CeeEEEEEeeccC-CCCCccccCCCCCCCcccccCCCCeeEEEEecCceeEE
Q 029132 5 PHHFFQIDALDLAPRLLGKFLRRD----DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTML 79 (198)
Q Consensus 5 ~~~Ff~~~~~~vA~~LLG~~Lv~~----~~~grIVEtEAY~-~~D~AsHa~~grT~Rn~~mfg~~G~~YVY~~YGmh~cl 79 (198)
|++||++|+++||++||||.||++ .++|||||||||. .+|||||||+|+|+||++||++|||+|||++|||||||
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 689999999999999999999994 4889999999999 79999999999999999999999999999999999999
Q ss_pred EEEeCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCceEE-cCCCCCCce
Q 029132 80 NVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGGLEI-LDGPKPEKI 158 (198)
Q Consensus 80 Nvvt~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~l-~~~~~~~~I 158 (198)
||||+++|.|+||||||+||++|+|.|++||+.++ ..+|||||||||||||||+++||.||++++.||| .+...+.+|
T Consensus 81 Nivt~~~g~~~aVLIRAieP~~G~~~m~~~R~~~~-~~~L~~GPGkL~~ALgI~~~~~g~~l~~~~~l~i~~~~~~~~~I 159 (184)
T PF02245_consen 81 NIVTGPEGVPEAVLIRAIEPLEGIELMRARRGGKR-DKNLTNGPGKLCQALGIDRELNGLDLCGDPSLWIEGDGVPPEEI 159 (184)
T ss_dssp EEE-BSTT---EEEEEEEEEEE-HHHHHHHHHHHH-GGGSSSSHHHHHHHTT--GGGTT-BTTT-SSEEEEE-SB-CSGE
T ss_pred eEEecCCCceEEEEEEeccccCCHHHHHHhcCCCC-ccccccCHHHHHHHhCCCHHHCCcccCCCCceEEccCCCCCCCE
Confidence 99999999999999999999999999999998753 4699999999999999999999999999877999 344457789
Q ss_pred eecceeeecCCCccccCceeeEEECCCCe
Q 029132 159 LIGPRVGIEYALPEHVNALWRFAIAGTPW 187 (198)
Q Consensus 159 ~~t~RIGI~~a~~e~~~~pwRf~i~gnp~ 187 (198)
++||||||+ ||+|+|||||++||||
T Consensus 160 ~~t~RIGI~----~~~~~pwRF~v~gnp~ 184 (184)
T PF02245_consen 160 VATPRIGIS----EWADKPWRFYVKGNPF 184 (184)
T ss_dssp EEEE-STSG----CTTCSCEEEEETT-T-
T ss_pred EEcCCcccC----ccccCCceeEeCCCCC
Confidence 999999999 6899999999999997
No 4
>COG2094 Mpg 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.8e-81 Score=524.03 Aligned_cols=190 Identities=43% Similarity=0.675 Sum_probs=179.2
Q ss_pred CCCCcccCCCCHHhHHhhhcCCeEEec--C--eeEEEEEeeccC-CCCCccccCCCCCCCcccccCCCCeeEEEEecCce
Q 029132 2 TILPHHFFQIDALDLAPRLLGKFLRRD--D--VLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLH 76 (198)
Q Consensus 2 ~~l~~~Ff~~~~~~vA~~LLG~~Lv~~--~--~~grIVEtEAY~-~~D~AsHa~~grT~Rn~~mfg~~G~~YVY~~YGmh 76 (198)
+.||++||++|+++||++||||.|+|+ + ++|+|||||||. ++|+|||||+|+|+||++||++|||+|||++||||
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 458999999999999999999999976 3 789999999999 99999999999999999999999999999999999
Q ss_pred eEEEEEeCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCc-eEEcCCCCC
Q 029132 77 TMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGG-LEILDGPKP 155 (198)
Q Consensus 77 ~clNvvt~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~-l~l~~~~~~ 155 (198)
|||||||.+||.|+||||||+||++|++.|.+||+.+. .++|||||||||||||||+++||.|+.++++ ||++.++.+
T Consensus 84 ~~lNvv~~~eG~p~aVLIRAieP~eg~~~m~~rR~~~~-~~~l~nGPgkLc~ALgI~~~~~g~~l~~~~~~l~l~~~~~~ 162 (200)
T COG2094 84 YCLNVVTGPEGIPAAVLIRAIEPEEGIEPMRQRRGVRV-LRLLTNGPGKLCKALGITREDNGADLINPSEPLWLELGKTP 162 (200)
T ss_pred EEEEEEecCCCCcceEEEEeeccccccchhhhccCccc-cchhccCchHHHHHhCCCHHHcCCcccCCCCceEEecCCCC
Confidence 99999999999999999999999999999999998764 4689999999999999999999999988775 999988888
Q ss_pred CceeecceeeecCCCccccCceeeEEECCCCeecCCCCCCC
Q 029132 156 EKILIGPRVGIEYALPEHVNALWRFAIAGTPWISAPKNTLM 196 (198)
Q Consensus 156 ~~I~~t~RIGI~~a~~e~~~~pwRf~i~gnp~VS~~r~~~~ 196 (198)
..|.+|+||||+++ +|+|||||++||||||+.+++-.
T Consensus 163 ~~i~~~~RIGI~~~----~~~pwRF~i~g~~~vS~~r~~~~ 199 (200)
T COG2094 163 FAISAGARIGISKA----TDKPWRFYITGNPFVSRRRRSQR 199 (200)
T ss_pred cceeeecccccccc----ccCceEEEecCCceeeecccCCC
Confidence 89999999999987 79999999999999999988743
No 5
>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=9.8e-81 Score=518.12 Aligned_cols=173 Identities=45% Similarity=0.700 Sum_probs=162.1
Q ss_pred cCCCCHHhHHhhhcCCeEEec----CeeEEEEEeeccC-CCCCccccCCCCCCCcccccCCCCeeEEEEecCceeEEEEE
Q 029132 8 FFQIDALDLAPRLLGKFLRRD----DVLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTMLNVV 82 (198)
Q Consensus 8 Ff~~~~~~vA~~LLG~~Lv~~----~~~grIVEtEAY~-~~D~AsHa~~grT~Rn~~mfg~~G~~YVY~~YGmh~clNvv 82 (198)
||++|+++||++||||+||++ .++|||||||||. ++|||||||+|||+||.+||++|||+|||+|||||||||||
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 88999999999988888999999999999999999999999
Q ss_pred eCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCceEEcCCCC-CCceeec
Q 029132 83 ADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGGLEILDGPK-PEKILIG 161 (198)
Q Consensus 83 t~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~l~~~~~-~~~I~~t 161 (198)
|+++|.|+||||||+||++|++.|++||+.+.. ++|||||||||||||||+++||.||++++.|||+++.. +.+|++|
T Consensus 81 t~~~g~~~aVLIRAiEp~~G~~~m~~~R~~~~~-~~L~nGPGkL~~AlgI~~~~ng~~l~~~~~l~i~~~~~~~~~i~~~ 159 (179)
T cd00540 81 TGPEGEPAAVLIRALEPLEGLELMRERRGGKRK-RDLTNGPGKLCQALGIDKSLNGADLTDSSPLWLEDGGPPPEEIVAT 159 (179)
T ss_pred ECCCCCccEEEEEeeccccchhhHHhccCCCcc-CeeccChHHHHHHhCCcHHHCCCccCCCCcEEEecCCCCCCCEEEe
Confidence 999999999999999999999999999976543 68999999999999999999999998755799997653 6689999
Q ss_pred ceeeecCCCccccCceeeEEE
Q 029132 162 PRVGIEYALPEHVNALWRFAI 182 (198)
Q Consensus 162 ~RIGI~~a~~e~~~~pwRf~i 182 (198)
|||||++++ ||+|+||||||
T Consensus 160 ~RIGI~~a~-e~~~~pwRf~i 179 (179)
T cd00540 160 PRIGIDYAG-EWADLPWRFYV 179 (179)
T ss_pred CccccCCCC-ccccCCceeeC
Confidence 999999997 89999999996
No 6
>KOG4486 consensus 3-methyladenine DNA glycosylase [Replication, recombination and repair]
Probab=100.00 E-value=1.2e-72 Score=475.90 Aligned_cols=194 Identities=37% Similarity=0.562 Sum_probs=183.2
Q ss_pred CCCCCcccCCCCHHhHHhhhcCCeEEecC----eeEEEEEeeccC-CCCCccccCCC-CCCCcccccCCCCeeEEEEecC
Q 029132 1 MTILPHHFFQIDALDLAPRLLGKFLRRDD----VLLQITEVEAYR-PNDSACHGRFG-ITARTAPVFGPGGLAYVYLCYG 74 (198)
Q Consensus 1 m~~l~~~Ff~~~~~~vA~~LLG~~Lv~~~----~~grIVEtEAY~-~~D~AsHa~~g-rT~Rn~~mfg~~G~~YVY~~YG 74 (198)
|+.|+.+||+.|++++|+.|||+.|+|+. +.|||||||||+ ++|+|||+..| +||||+.||++|||+|||+|||
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 56789999999999999999999999872 679999999999 99999999998 7999999999999999999999
Q ss_pred ceeEEEEEeCCCCCccEEEeeeccccCCHHHHHHHhcccCCCCcccCChhHHHHHhcCCcccCCCCCCCCCceEEcCCC-
Q 029132 75 LHTMLNVVADKEGVGAAVLIRSCAPVSGLKTIQQRRAQLTEKPVLLTGPGKVGQALGISTEWSNHPLYMPGGLEILDGP- 153 (198)
Q Consensus 75 mh~clNvvt~~~g~~~aVLIRA~eP~~G~~~m~~~R~~~~~~~~L~nGPGkL~~AlgI~~~~~g~~l~~~~~l~l~~~~- 153 (198)
||+||||++ +|.+++|||||+||++|+|.|+.||+.+.++++|||||+||||||||+++++..+|.++..+|++++.
T Consensus 136 ~y~c~NIss--~G~GA~VLiRalePl~G~ETmreRrG~~~kdr~L~nGPsKlcQALgi~~e~d~~~La~~e~~wLe~G~e 213 (261)
T KOG4486|consen 136 RYECFNISS--VGAGAGVLVRALEPLCGVETMRERRGGRVKDRDLANGPSKLCQALGITREIDKEWLAGSEKIWLEEGRE 213 (261)
T ss_pred ehheeeeec--cccceEEeeeccCcccchHHHHHhcCCCcCChhhhcCcHHHHHHhccccccccccccCCCcEeeecCCC
Confidence 999999999 88899999999999999999999999988889999999999999999999999999998899999974
Q ss_pred -CCCceeecceeeecCCCccccCceeeEEECCCCeecCCCCCCCC
Q 029132 154 -KPEKILIGPRVGIEYALPEHVNALWRFAIAGTPWISAPKNTLMP 197 (198)
Q Consensus 154 -~~~~I~~t~RIGI~~a~~e~~~~pwRf~i~gnp~VS~~r~~~~~ 197 (198)
..+++++++|+||++|+ ||.++|||||+.||||||..++.+.|
T Consensus 214 ~~~p~Vvag~RVGi~~Ag-Ew~~k~lRFyVrd~PWvS~~~r~~~~ 257 (261)
T KOG4486|consen 214 VADPEVVAGRRVGIRNAG-EWEEKKLRFYVRDNPWVSCIRRRELG 257 (261)
T ss_pred CCchhheeccccccchhh-hhhhhceEEEEcCCcceecchhhhcc
Confidence 34579999999999998 89999999999999999999998765
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=80.96 E-value=0.23 Score=45.06 Aligned_cols=95 Identities=14% Similarity=0.048 Sum_probs=65.5
Q ss_pred CcccCCCCHHhHHhhhcCCeEEecC--eeEEEEEeeccC-CCCCccccCCCCCCCcccccCCCCe--eEEEEecCceeEE
Q 029132 5 PHHFFQIDALDLAPRLLGKFLRRDD--VLLQITEVEAYR-PNDSACHGRFGITARTAPVFGPGGL--AYVYLCYGLHTML 79 (198)
Q Consensus 5 ~~~Ff~~~~~~vA~~LLG~~Lv~~~--~~grIVEtEAY~-~~D~AsHa~~grT~Rn~~mfg~~G~--~YVY~~YGmh~cl 79 (198)
..+.+..+..++|..||=..|--++ ..-.|.+.|.|+ .-....=..++.-.-+-.+||.|+. -+-+.++|-|.|+
T Consensus 55 ~l~~lt~~Qr~~a~~lL~~~LS~~Gy~k~~~im~~d~~L~~~~~~~~~~~~~~~Y~~~ifG~Ps~~~~Wg~~f~GHHlsl 134 (313)
T PF12006_consen 55 RLDDLTDEQRKAALALLKAALSPEGYEKARGIMRLDDVLGELEGGSPTIRDPESYYFAIFGTPSTTGPWGWQFEGHHLSL 134 (313)
T ss_pred chHhCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhhcCCcccCCCCceEEEEecCCCCCCCeeEEecccEEEE
Confidence 3445666667788888877776543 334677888887 3222222223456678899999998 7889999999999
Q ss_pred EEEeCCCCCccEEEeeeccc
Q 029132 80 NVVADKEGVGAAVLIRSCAP 99 (198)
Q Consensus 80 Nvvt~~~g~~~aVLIRA~eP 99 (198)
|++........+=..-|.||
T Consensus 135 n~~~~~~~v~~tP~F~Ga~P 154 (313)
T PF12006_consen 135 NCTFVGGQVSITPTFFGAEP 154 (313)
T ss_pred EEEEeCCCEEECceeeCCCC
Confidence 99986555544556677777
No 8
>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=33.50 E-value=19 Score=31.83 Aligned_cols=53 Identities=23% Similarity=0.220 Sum_probs=40.7
Q ss_pred CeeEEEEEeeccCCCCCccccCCCCCCCcccccCCCCeeEEEEecCceeEEEEEeCCCCCcc
Q 029132 29 DVLLQITEVEAYRPNDSACHGRFGITARTAPVFGPGGLAYVYLCYGLHTMLNVVADKEGVGA 90 (198)
Q Consensus 29 ~~~grIVEtEAY~~~D~AsHa~~grT~Rn~~mfg~~G~~YVY~~YGmh~clNvvt~~~g~~~ 90 (198)
.++||=+|. |. .=-|.|.|++.|-||. ||..+++--|+.|-| |+|+...|+|.
T Consensus 40 qm~GrS~ei--~~-tiGA~hn~n~~~~~~~-~~~~GsaPiV~~ITG-----~lVS~S~~vp~ 92 (260)
T PF05268_consen 40 QMAGRSKEI--IH-TIGADHNFNGQWFRDR-CFEAGSAPIVFNITG-----NLVSYSKDVPC 92 (260)
T ss_pred HhhccceeE--EE-ecccCcccchhHHHHH-HHHcCCCCEEEEecc-----ceeeccCCcee
Confidence 356777773 22 2247799999999986 899999999999877 78888887764
No 9
>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=27.02 E-value=49 Score=24.27 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=21.5
Q ss_pred cccCCCCCCCcccccCCCCeeEEEEe
Q 029132 47 CHGRFGITARTAPVFGPGGLAYVYLC 72 (198)
Q Consensus 47 sHa~~grT~Rn~~mfg~~G~~YVY~~ 72 (198)
.|.|+|+.-||-..|-+.|-+ ||++
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 489999988999999999986 7765
No 10
>PHA02097 hypothetical protein
Probab=25.81 E-value=39 Score=23.46 Aligned_cols=18 Identities=28% Similarity=0.337 Sum_probs=13.7
Q ss_pred EEeCCCCCccEEEeeecc
Q 029132 81 VVADKEGVGAAVLIRSCA 98 (198)
Q Consensus 81 vvt~~~g~~~aVLIRA~e 98 (198)
+||..-..|.+||||-..
T Consensus 11 ~vt~amntp~gv~iri~~ 28 (59)
T PHA02097 11 VVTSAMNTPGGVIIRIAH 28 (59)
T ss_pred eEEEEeeCCCcEEEEEEe
Confidence 566667789999999543
No 11
>KOG3297 consensus DNA-directed RNA polymerase subunit E' [Transcription]
Probab=24.07 E-value=59 Score=28.05 Aligned_cols=47 Identities=30% Similarity=0.369 Sum_probs=32.3
Q ss_pred CCcccCCCCHH-----hHHhhhcCCeEEecC---eeEEEEEeeccC--CCCCccccC
Q 029132 4 LPHHFFQIDAL-----DLAPRLLGKFLRRDD---VLLQITEVEAYR--PNDSACHGR 50 (198)
Q Consensus 4 l~~~Ff~~~~~-----~vA~~LLG~~Lv~~~---~~grIVEtEAY~--~~D~AsHa~ 50 (198)
.|++-|.+++. ++-+.|.+|+|---+ ..-.|+|+|-+. +.|-|||+-
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 56677777643 455566777664333 235899998875 899999975
No 12
>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=21.55 E-value=32 Score=34.18 Aligned_cols=10 Identities=50% Similarity=1.032 Sum_probs=6.4
Q ss_pred ecCceeEEEE
Q 029132 72 CYGLHTMLNV 81 (198)
Q Consensus 72 ~YGmh~clNv 81 (198)
||||||++.|
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 8999999987
No 13
>PF14549 P22_Cro: DNA-binding transcriptional regulator Cro; PDB: 1RZS_A 3BD1_A 3QWS_A 2HIN_B.
Probab=20.14 E-value=57 Score=22.68 Aligned_cols=16 Identities=38% Similarity=0.690 Sum_probs=13.0
Q ss_pred ccCChhHHHHHhcCCc
Q 029132 119 LLTGPGKVGQALGIST 134 (198)
Q Consensus 119 L~nGPGkL~~AlgI~~ 134 (198)
...|..+|+++|||+.
T Consensus 8 ~~G~~~~lAkalGVs~ 23 (60)
T PF14549_consen 8 YFGGQSKLAKALGVSP 23 (60)
T ss_dssp HHSSHHHHHHHHTS-H
T ss_pred HHCCHHHHHHHHCCCH
Confidence 3568899999999987
Done!