Query 045192
Match_columns 162
No_of_seqs 105 out of 172
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 10:43:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045192.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045192hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05028 PARG_cat: Poly (ADP-r 100.0 1.2E-60 2.6E-65 415.8 7.5 152 7-158 129-282 (340)
2 KOG2064 Poly(ADP-ribose) glyco 100.0 1.1E-43 2.4E-48 319.1 2.5 150 9-158 233-397 (517)
3 PF10021 DUF2263: Uncharacteri 82.0 0.83 1.8E-05 35.9 1.6 31 36-66 76-107 (148)
4 TIGR02452 conserved hypothetic 54.1 8.5 0.00018 33.3 1.9 47 21-67 56-111 (266)
5 PF07683 CobW_C: Cobalamin syn 26.6 1.2E+02 0.0027 20.6 3.9 76 66-152 12-93 (94)
6 PF15357 SEEK1: Psoriasis susc 24.5 38 0.00082 26.5 1.0 37 54-93 76-113 (149)
7 cd04489 ExoVII_LU_OBF ExoVII_L 24.1 1.2E+02 0.0026 19.9 3.4 36 60-97 28-63 (78)
8 KOG1754 40S ribosomal protein 18.8 50 0.0011 26.0 0.6 44 5-55 81-128 (130)
9 PF08256 Antimicrobial20: Aure 16.2 19 0.00042 17.8 -1.4 10 41-50 3-12 (13)
10 COG3755 Uncharacterized protei 15.2 1E+02 0.0022 24.1 1.6 13 143-155 47-59 (127)
No 1
>PF05028 PARG_cat: Poly (ADP-ribose) glycohydrolase (PARG); InterPro: IPR007724 Poly(ADP-ribose) glycohydrolase (PARG) is a ubiquitously expressed exo- and endoglycohydrolase which mediates oxidative and excitotoxic neuronal death [].; GO: 0004649 poly(ADP-ribose) glycohydrolase activity, 0005975 carbohydrate metabolic process; PDB: 4FC2_D 3UEL_C 3UEK_A.
Probab=100.00 E-value=1.2e-60 Score=415.85 Aligned_cols=152 Identities=52% Similarity=0.814 Sum_probs=111.2
Q ss_pred CCChhchhhcCCCccceEEEecCcccccCCCceEEEccccccCCcccCCCcccceeeeeeChhHHHhhhhcccCCCccEE
Q 045192 7 YPEADFWSKSVLPLCAFEVRSVGFIEDQSADALEVDFANKYIGRGALHRGCVHEEIRFMINPELIAGMLFLASMGDNEAI 86 (162)
Q Consensus 7 ~~~~~~W~~s~~~L~~~~v~~~g~IEd~~~~~lqVDFANk~iGGGvL~~G~vQEEI~F~i~PEllvs~Lf~e~L~dnEai 86 (162)
.++.++|++++.||++++|.++|+|||.+.+++|||||||+||||||++|||||||||++||||||+|||||+|+|||||
T Consensus 129 ~~~~~~w~~~~~~l~~~~v~~~g~IEd~~~~~lqVDFANk~IGGGvL~~g~vQEEI~F~~~PEllvs~Lf~e~L~dnEai 208 (340)
T PF05028_consen 129 WLSIPDWSNSTKPLCPVEVFHDGRIEDSGSGCLQVDFANKYIGGGVLGSGCVQEEIRFMICPELLVSMLFCEKLEDNEAI 208 (340)
T ss_dssp -SSB--CCC---B---EEEESSS-HHHHTTTSEEEEEE-SSTTTTTTTT--SHHHHHHHHSGGGGGHHHHB----TTEEE
T ss_pred ccchhhHHhcccccCCceeecCCccccCCCCcEEEEEeccccCCccccCCcchhheeeeeCHHHHhHHHcCccCCCCcEE
Confidence 46778899999999999999999999998899999999999999999999999999999999999999999999999999
Q ss_pred EEeCceeeeeeccccceeeEcCCCCCCccccccCccceEEEEEecCCC--CCcccCchhhhHHHHHHHHccccc
Q 045192 87 EIVGAERFCDYKGYTSSFRFAGDPADKKHFDSFGRRKTRIIAIDALCW--PGMKQYALKYLLRCVKFALEHLEN 158 (162)
Q Consensus 87 ~I~Gae~~s~y~GY~~sf~~~g~~~d~~~~d~~~~~~~~ivaiDAl~~--~~~~Qf~~~~i~REL~KAy~gF~~ 158 (162)
+|+|++|||+|+||++||+|+|++.|++++|.++|++++||||||+.| ++..||++++|+|||+|||+||+.
T Consensus 209 ~I~Ga~~ys~y~Gy~~~f~~~~~~~d~~~~d~~~~~~~~ivaiDAl~f~~~~~~Q~~~~~i~REl~Kay~gF~~ 282 (340)
T PF05028_consen 209 IITGAERYSNYTGYGRSFRFAGDYNDPTPRDSWGRRKTNIVAIDALDFSENGSRQYKPENIDRELNKAYSGFSS 282 (340)
T ss_dssp EEE-----EEEESSGGG-EEEEE------B-TTS-BS-EEEEEE-----SSCCGGGSHHHHHHHHHHHHHHH--
T ss_pred EEeCceeEEeecCcccceeeccccCCcchhhhhhhhcceEEEEeChhhccChhhhhCHHHHHHHHHHHHhhhhc
Confidence 999999999999999999999999999999999999999999999998 478899999999999999999994
No 2
>KOG2064 consensus Poly(ADP-ribose) glycohydrolase [Signal transduction mechanisms]
Probab=100.00 E-value=1.1e-43 Score=319.14 Aligned_cols=150 Identities=47% Similarity=0.682 Sum_probs=140.6
Q ss_pred ChhchhhcCCCccceEEEecCcccccCCCceEEEccccccCCcccCCCcccceeeeeeChhHHHhhhhcccCCCccEEEE
Q 045192 9 EADFWSKSVLPLCAFEVRSVGFIEDQSADALEVDFANKYIGRGALHRGCVHEEIRFMINPELIAGMLFLASMGDNEAIEI 88 (162)
Q Consensus 9 ~~~~W~~s~~~L~~~~v~~~g~IEd~~~~~lqVDFANk~iGGGvL~~G~vQEEI~F~i~PEllvs~Lf~e~L~dnEai~I 88 (162)
|.++|++++..+++++++-+|.||+++..++|||||||++|||||++|||||||||+|||||+++|||+|+|+|+|||.|
T Consensus 233 d~efwk~~~~~~~pv~~~~~~~~~e~~~~~tqvDFANk~LGGGvL~~GcVQEEIRFmi~PEl~vgmLflp~med~EAi~i 312 (517)
T KOG2064|consen 233 DIEFWKKSSTNLLPVVVHFDGMIEEEGALATQVDFANKYLGGGVLSHGCVQEEIRFMICPELIVGMLFLPKMEDLEAIEI 312 (517)
T ss_pred hhhhhhhcccCCCceEEecccceecccccccccchhhhhcCCCcccCccchhhhhhccCHHHHHHHHhccccchhhhHHh
Confidence 68899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCceeeeeecc-ccceeeEcCC-----CCC-CccccccCc--cceEEEEEecCCCCC------cccCchhhhHHHHHHHH
Q 045192 89 VGAERFCDYKG-YTSSFRFAGD-----PAD-KKHFDSFGR--RKTRIIAIDALCWPG------MKQYALKYLLRCVKFAL 153 (162)
Q Consensus 89 ~Gae~~s~y~G-Y~~sf~~~g~-----~~d-~~~~d~~~~--~~~~ivaiDAl~~~~------~~Qf~~~~i~REL~KAy 153 (162)
.||+|||.|+| |+.+++|.|. ..+ ...||+++| +.+..+||||+.|.+ ..|+....+.||++||+
T Consensus 313 vGAerfS~YTG~y~~~~kw~~~i~~~~~~~~~~~Rd~~lrs~lqt~ti~iDal~~~g~~~~~h~~ql~d~~~~rE~~ka~ 392 (517)
T KOG2064|consen 313 VGAERFSSYTGHYSPTKKWIGAIDALRRPNSNGFRDPSLRSALQTVTIAIDALLFVGSPLPCHYKQLNDVKMVREPCKAS 392 (517)
T ss_pred hhheeccccccccCccchhhhccHhhhCCCCccccchhhhhhhhhhhhhhhhHhhcCCcchhhhhhhhhhHHhhhhhhhh
Confidence 99999999999 9999999997 222 367899999 999999999999942 46899999999999999
Q ss_pred ccccc
Q 045192 154 EHLEN 158 (162)
Q Consensus 154 ~gF~~ 158 (162)
.||-+
T Consensus 393 i~f~~ 397 (517)
T KOG2064|consen 393 IGFPS 397 (517)
T ss_pred cCccc
Confidence 99965
No 3
>PF10021 DUF2263: Uncharacterized protein conserved in bacteria (DUF2263); InterPro: IPR019261 This domain, found in various hypothetical bacterial and eukaryotic proteins, has no known function. ; PDB: 3SIJ_A 3SIG_A 3SII_A 3SIH_A.
Probab=81.95 E-value=0.83 Score=35.89 Aligned_cols=31 Identities=23% Similarity=0.216 Sum_probs=20.4
Q ss_pred CCceEEEcccc-ccCCcccCCCcccceeeeee
Q 045192 36 ADALEVDFANK-YIGRGALHRGCVHEEIRFMI 66 (162)
Q Consensus 36 ~~~lqVDFANk-~iGGGvL~~G~vQEEI~F~i 66 (162)
.....+.|||. ..|||++.+...|||-++--
T Consensus 76 ~~v~VLNfAs~~~PGGG~~~Ga~AQEE~Lcr~ 107 (148)
T PF10021_consen 76 GKVAVLNFASAKNPGGGFLNGARAQEESLCRR 107 (148)
T ss_dssp S--EEEEE--SSSTTTTGGGT--SHHHHHHHH
T ss_pred CCeEEEeccCcCCCCCCcccCcchhHHHHHhh
Confidence 34688999995 68999999989999987643
No 4
>TIGR02452 conserved hypothetical protein TIGR02452. Members of this uncharacterized protein family are found in Streptomyces, Nostoc sp. PCC 7120, Clostridium acetobutylicum, Lactobacillus johnsonii NCC 533, Deinococcus radiodurans, and Pirellula sp. for a broad but sparse phylogenetic distibution that at least suggests lateral gene transfer.
Probab=54.13 E-value=8.5 Score=33.33 Aligned_cols=47 Identities=19% Similarity=0.215 Sum_probs=32.7
Q ss_pred cceEEEecCccccc--------CCCceEEEccc-cccCCcccCCCcccceeeeeeC
Q 045192 21 CAFEVRSVGFIEDQ--------SADALEVDFAN-KYIGRGALHRGCVHEEIRFMIN 67 (162)
Q Consensus 21 ~~~~v~~~g~IEd~--------~~~~lqVDFAN-k~iGGGvL~~G~vQEEI~F~i~ 67 (162)
..++|....+++-. ........||| |.-|||.|.+...|||-++--+
T Consensus 56 t~i~V~~~dtl~aA~~L~~~~~~~~v~vLNfASa~~PGGG~l~Ga~AQEE~Lcr~S 111 (266)
T TIGR02452 56 TELKVVNESTLHAAVRLKESYFAGKVALLNFASAKNPGGGFLNGAQAQEESLCRAS 111 (266)
T ss_pred ceEEEEcCCHHHHHHHHHhhccCCCeEEEeccCcCCCCCCcccCccchHHHHHHhc
Confidence 46777765543321 12357889998 5789999998888999876443
No 5
>PF07683 CobW_C: Cobalamin synthesis protein cobW C-terminal domain; InterPro: IPR011629 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [].; PDB: 1NIJ_A.
Probab=26.57 E-value=1.2e+02 Score=20.62 Aligned_cols=76 Identities=17% Similarity=0.137 Sum_probs=39.4
Q ss_pred eChhHHHhhhhcccCCCccEEEEeCceeeeeeccccceeeEcCCCCCCccccc------cCccceEEEEEecCCCCCccc
Q 045192 66 INPELIAGMLFLASMGDNEAIEIVGAERFCDYKGYTSSFRFAGDPADKKHFDS------FGRRKTRIIAIDALCWPGMKQ 139 (162)
Q Consensus 66 i~PEllvs~Lf~e~L~dnEai~I~Gae~~s~y~GY~~sf~~~g~~~d~~~~d~------~~~~~~~ivaiDAl~~~~~~Q 139 (162)
+.||-+...|-- ...+++.++|.-+...-.+ .-.|...+...+..|... ...+.+.+|+| -..
T Consensus 12 ~~~~~l~~~l~~---~~~~vlR~KG~v~~~~~~~-~~~~q~v~~~~~~~~~~~~~~~~~~~~~~~~lV~I-------G~~ 80 (94)
T PF07683_consen 12 FDPERLEAWLQE---LPGDVLRAKGIVWVADGPR-RLVFQGVGGRYDIEPAGRWWPPMLGEDRDSRLVFI-------GKN 80 (94)
T ss_dssp B-HHHHHHHHHH---TTTTEEEEEEEE-BTT-SE-EEEEEEETTEEEEE-EEEE-TT---S---EEEEEE-------EES
T ss_pred CCHHHHHHHHHh---CCCCEEEEEEEEEeCCcCe-EEEEEeeCCEEEecccccccccccCCCCCeEEEEE-------ECC
Confidence 456666666655 6778999999877775432 445555555444333221 23467888888 124
Q ss_pred CchhhhHHHHHHH
Q 045192 140 YALKYLLRCVKFA 152 (162)
Q Consensus 140 f~~~~i~REL~KA 152 (162)
.+.+.|.+.|..|
T Consensus 81 ld~~~l~~~l~~c 93 (94)
T PF07683_consen 81 LDKEALREALDAC 93 (94)
T ss_dssp --HHHHHHHHHT-
T ss_pred CCHHHHHHHHHcc
Confidence 4566666655544
No 6
>PF15357 SEEK1: Psoriasis susceptibility 1 candidate 1
Probab=24.52 E-value=38 Score=26.54 Aligned_cols=37 Identities=30% Similarity=0.461 Sum_probs=27.5
Q ss_pred CCCcccceeeee-eChhHHHhhhhcccCCCccEEEEeCcee
Q 045192 54 HRGCVHEEIRFM-INPELIAGMLFLASMGDNEAIEIVGAER 93 (162)
Q Consensus 54 ~~G~vQEEI~F~-i~PEllvs~Lf~e~L~dnEai~I~Gae~ 93 (162)
+.|-+||.|+.- ..|||+.|.| .|.+.||.-..-.+-
T Consensus 76 rk~rtqedilvpsshpelfas~~---p~apeeaa~lq~~qp 113 (149)
T PF15357_consen 76 RKGRTQEDILVPSSHPELFASVL---PMAPEEAARLQQPQP 113 (149)
T ss_pred hccccccceeccCCcHHHHhccC---CCChHHHhcccCCCC
Confidence 357789999875 5699999875 688888876654433
No 7
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=24.13 E-value=1.2e+02 Score=19.89 Aligned_cols=36 Identities=11% Similarity=0.122 Sum_probs=28.1
Q ss_pred ceeeeeeChhHHHhhhhcccCCCccEEEEeCceeeeee
Q 045192 60 EEIRFMINPELIAGMLFLASMGDNEAIEIVGAERFCDY 97 (162)
Q Consensus 60 EEI~F~i~PEllvs~Lf~e~L~dnEai~I~Gae~~s~y 97 (162)
-+|.+++.|+.+.. +-+.|+++..++|+|.-.+..+
T Consensus 28 ~~i~~~~f~~~~~~--~~~~l~~g~~v~v~g~v~~~~~ 63 (78)
T cd04489 28 ASIRCVMWRSNARR--LGFPLEEGMEVLVRGKVSFYEP 63 (78)
T ss_pred eEEEEEEEcchhhh--CCCCCCCCCEEEEEEEEEEECC
Confidence 46888888887644 5588999999999998776443
No 8
>KOG1754 consensus 40S ribosomal protein S15/S22 [Translation, ribosomal structure and biogenesis]
Probab=18.77 E-value=50 Score=26.02 Aligned_cols=44 Identities=25% Similarity=0.442 Sum_probs=29.3
Q ss_pred CCCCChhchhhcCCCccceEEE----ecCcccccCCCceEEEccccccCCcccCC
Q 045192 5 TSYPEADFWSKSVLPLCAFEVR----SVGFIEDQSADALEVDFANKYIGRGALHR 55 (162)
Q Consensus 5 ~~~~~~~~W~~s~~~L~~~~v~----~~g~IEd~~~~~lqVDFANk~iGGGvL~~ 55 (162)
++-+|++.|.++.+|=+++-+. +.|.+.+.+ + --|.+||.+|+.
T Consensus 81 V~lkdlek~~n~llpsrqfg~ivltts~Gimdh~e--a-----r~k~~gg~ilg~ 128 (130)
T KOG1754|consen 81 VKLKDLEKWTNSLLPSRQFGYIVLTTSAGIMDHEE--A-----RRKNVGGKILGF 128 (130)
T ss_pred cccchHHHHHhccCccceeeEEEEecccccccHHH--H-----hHhhcCccccee
Confidence 3458999999999999887554 344443332 1 137788888763
No 9
>PF08256 Antimicrobial20: Aurein-like antibiotic peptide; InterPro: IPR013157 This family of antibacterial peptides are secreted from the granular dorsal glands of Litoria aurea (Green and golden bell frog), Litoria raniformis (Southern bell frog), Litoria citropa (Australian blue mountains tree frog) and frogs from genus Uperoleia. They are a part of the FSAP peptide family. Amongst the more active of these are aurein 1.2, aurein 2.2 and aurein 3.1; caerin 1.1, maculatin 1.1, uperin 3.6 []; citropin 1.1, citropin 1.2, citropin 1.3 and a minor peptide are wide-spectrum antibacterial peptides [].; GO: 0006952 defense response
Probab=16.17 E-value=19 Score=17.77 Aligned_cols=10 Identities=40% Similarity=0.660 Sum_probs=7.7
Q ss_pred EEccccccCC
Q 045192 41 VDFANKYIGR 50 (162)
Q Consensus 41 VDFANk~iGG 50 (162)
+|||.|.+||
T Consensus 3 ~Di~Kkv~g~ 12 (13)
T PF08256_consen 3 FDIAKKVVGG 12 (13)
T ss_pred HHHHHHHhcc
Confidence 5788888775
No 10
>COG3755 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=15.16 E-value=1e+02 Score=24.12 Aligned_cols=13 Identities=8% Similarity=-0.187 Sum_probs=10.1
Q ss_pred hhhHHHHHHHHcc
Q 045192 143 KYLLRCVKFALEH 155 (162)
Q Consensus 143 ~~i~REL~KAy~g 155 (162)
+..++||||||-.
T Consensus 47 ~~aDa~LN~AY~~ 59 (127)
T COG3755 47 QAADAELNKAYKA 59 (127)
T ss_pred HHHHHHHHHHHHH
Confidence 3478999999953
Done!