Query psy4344
Match_columns 70
No_of_seqs 102 out of 268
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 23:11:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4344.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4344hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03917 GSH_synth_ATP: Eukary 99.9 1.6E-27 3.5E-32 177.4 5.1 67 3-70 265-331 (370)
2 cd00228 eu-GS Eukaryotic Gluta 99.9 1.1E-26 2.3E-31 177.4 5.5 67 3-70 364-431 (471)
3 TIGR01986 glut_syn_euk glutath 99.9 1.3E-26 2.7E-31 176.9 5.1 66 3-70 368-433 (472)
4 PLN02977 glutathione synthetas 99.9 3.4E-26 7.4E-31 174.8 4.8 67 3-70 370-438 (478)
5 PTZ00055 glutathione synthetas 99.9 4E-24 8.8E-29 167.2 4.2 68 3-70 506-579 (619)
6 KOG0021|consensus 99.9 2.4E-24 5.1E-29 163.2 2.2 66 3-70 363-428 (468)
7 PF08587 UBA_2: Ubiquitin asso 53.9 3.2 6.9E-05 23.1 -0.5 24 12-35 17-44 (46)
8 COG1669 Predicted nucleotidylt 47.6 9.9 0.00021 24.1 0.9 15 56-70 21-35 (97)
9 PF09469 Cobl: Cordon-bleu ubi 37.6 14 0.00031 22.7 0.5 27 41-67 11-40 (79)
10 PHA02086 hypothetical protein 35.0 15 0.00033 22.7 0.3 16 8-23 64-79 (88)
11 KOG0983|consensus 27.5 23 0.00049 27.3 0.2 34 28-62 254-287 (391)
12 PF13533 Biotin_lipoyl_2: Biot 23.7 88 0.0019 16.6 2.1 21 42-62 13-33 (50)
13 PRK00756 acyltransferase NodA; 21.9 51 0.0011 23.3 1.1 13 55-67 81-93 (196)
14 PF00240 ubiquitin: Ubiquitin 20.8 32 0.0007 18.7 -0.0 25 40-64 32-56 (69)
No 1
>PF03917 GSH_synth_ATP: Eukaryotic glutathione synthase, ATP binding domain; InterPro: IPR005615 This entry represents eukaryotic glutathione synthetase (6.3.2.3 from EC) (GSS), a homodimeric enzyme that catalyses the conversion of gamma-L-glutamyl-L-cysteine and glycine to phosphate and glutathione in the presence of ATP. This is the second step in glutathione biosynthesis, the first step being catalysed by gamma-glutamylcysteine synthetase []. In humans, defects in GSS are inherited in an autosomal recessive way and are the cause of severe metabolic acidosis, 5-oxoprolinuria, and increased rate of haemolysis and defective function of the central nervous system. ; GO: 0004363 glutathione synthase activity, 0005524 ATP binding, 0006750 glutathione biosynthetic process; PDB: 3KAJ_A 3KAL_A 3KAK_A 2WYO_A 2HGS_A 1M0W_B 1M0T_A.
Probab=99.94 E-value=1.6e-27 Score=177.41 Aligned_cols=67 Identities=42% Similarity=0.647 Sum_probs=56.6
Q ss_pred ccCCCCCcchhHHHHHHhhccCCccccceeeecCCCCCCcceeEEecCcccccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMAGNKERSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~~~~er~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSELGIfG~~l~ 70 (70)
|.-||||+||+||+++|+++++++||++||||+||+||+++|++||++ ++...++||||||||++++
T Consensus 265 REGGGNNiyg~~i~~~L~~l~~~~e~~ayILM~rI~P~~~~n~~vr~~-~~~~~~~vSELGifg~~l~ 331 (370)
T PF03917_consen 265 REGGGNNIYGEDIPEFLKKLSESEERSAYILMERIHPPPVPNYIVRNG-EVEVGDVVSELGIFGTILF 331 (370)
T ss_dssp S-SSSSCBEHHHHHHHHHTCTCTGGGGGEEEEE---B--EEEEEEETT-EEEEEEEEEEEEEEEEEEE
T ss_pred ccCCcccccHHHHHHHHHhcCChhhhhheeeeccccCCCcceEEEeCC-CccccCeeeeccceEEEEe
Confidence 567999999999999999999845999999999999999999999976 7889999999999999984
No 2
>cd00228 eu-GS Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily.
Probab=99.93 E-value=1.1e-26 Score=177.39 Aligned_cols=67 Identities=42% Similarity=0.626 Sum_probs=61.7
Q ss_pred ccCCCCCcchhHHHHHHhhcc-CCccccceeeecCCCCCCcceeEEecCcccccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMA-GNKERSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~-~~~er~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSELGIfG~~l~ 70 (70)
|.-|||||||+||+++|++|+ ++ ||+||||||||+||+++|++||+|..+...++||||||||++|+
T Consensus 364 rEGGGNNiYg~dI~~~L~~l~~~~-e~~ayILMerI~P~~~~~~~vR~g~~~~~~~~iSELGIfG~~l~ 431 (471)
T cd00228 364 REGGGNNIYGEEMREALLKLQGSE-ERAAYILMEKIFPEPSENYLLRAGGPSHKEQAISELGIYGTYLR 431 (471)
T ss_pred CcCcccccchHHHHHHHHhcCChh-hhceeeeeeccCCCCCceEEEEcCCccccCCceeeccceEEEEe
Confidence 566899999999999999998 55 99999999999999999999999656788999999999999985
No 3
>TIGR01986 glut_syn_euk glutathione synthetase, eukaryotic. This model represents the eukaryotic glutathione synthetase, which shows little resemblance to the analogous enzyme of Gram-negative bacteria (TIGR01380). In the Kinetoplastida, trypanothione replaces glutathione, but can be made from glutathione; a sequence from Leishmania is not included in the seed, is highly divergent, and therefore scores between the trusted and noise cutoffs.
Probab=99.93 E-value=1.3e-26 Score=176.95 Aligned_cols=66 Identities=32% Similarity=0.447 Sum_probs=61.8
Q ss_pred ccCCCCCcchhHHHHHHhhccCCccccceeeecCCCCCCcceeEEecCcccccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMAGNKERSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~~~~er~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSELGIfG~~l~ 70 (70)
|.-|||||||+||+++|++++++ ||++|||||||+||+++|+++|+| .+...++||||||||++|+
T Consensus 368 rEGGGNNiyg~dI~~~L~~l~~~-e~~ayILMerI~P~~~~~~~vR~g-~~~~~~~iSELGIfG~~l~ 433 (472)
T TIGR01986 368 REGGGNNVYGEDIPNFLKGLEEE-EWDSYILMELIEPEPSENIILRDG-KSYKEQIISELGIYGCYVR 433 (472)
T ss_pred CcCcccccchHHHHHHHHhCCHH-hhhheeeeeeccCCCcceEEEeCC-ccccCCeeecccceEEEEe
Confidence 55689999999999999999886 999999999999999999999999 6888999999999999985
No 4
>PLN02977 glutathione synthetase
Probab=99.92 E-value=3.4e-26 Score=174.84 Aligned_cols=67 Identities=33% Similarity=0.562 Sum_probs=61.1
Q ss_pred ccCCCCCcchhHHHHHHhhccCC--ccccceeeecCCCCCCcceeEEecCcccccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMAGN--KERSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~~~--~er~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSELGIfG~~l~ 70 (70)
|.-|||||||+||+++|++++++ +||+||||||||+||+++|++||+| .+...++||||||||++|+
T Consensus 370 rEGGGNNiYg~dI~~~L~~l~~~~~~e~~ayILMerI~P~~~~~~~vR~g-~~~~~~~iSELGIfG~~l~ 438 (478)
T PLN02977 370 REGGGNNIYGDDLRETLERLQKEGGEDLAAYILMQRIFPPVSRTYLVRNG-VCEEGETISELGIYGAYLR 438 (478)
T ss_pred CccchhhcchHHHHHHHHHcccCChhhhhheehhhccCCCCCCeEEEECC-ceeeCCeeeeccceEEEEE
Confidence 55689999999999999999632 4899999999999999999999999 5778999999999999984
No 5
>PTZ00055 glutathione synthetase; Provisional
Probab=99.89 E-value=4e-24 Score=167.24 Aligned_cols=68 Identities=25% Similarity=0.331 Sum_probs=60.3
Q ss_pred ccCCCCCcchhHHHHHHhhcc--CCccccceeeecCCCCCCcceeEEecCcc----cccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMA--GNKERSAWILMEKIIPPVQSNYLIRAGAE----VKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~--~~~er~aYILM~rI~Pp~~~n~lvR~g~~----~~~~~~vSELGIfG~~l~ 70 (70)
|.-|||||||+||+++|+++. +.+||+|||||+||+||+++|++||+|+. +...++||||||||++|+
T Consensus 506 REGGGNNiyG~dI~~~L~~l~~~~~~e~~aYILMerI~Pp~~~~~~vR~~~~g~~~~~~~~~ISELGIfg~~l~ 579 (619)
T PTZ00055 506 REGGKNNLHGNEISEKLRLGYKNNKEKLSQYVLMQKIFPPSQPAVFVRNLKSGSFEFSPENSLTELGLYHNFIF 579 (619)
T ss_pred ccCCccccchhHHHHHHHHhccCChhhhhhhhHHhhccCCCCCcEEEEcCCCCccccccCCeeecccccEEEEE
Confidence 567999999999999999995 33489999999999999999999999641 567899999999999974
No 6
>KOG0021|consensus
Probab=99.89 E-value=2.4e-24 Score=163.21 Aligned_cols=66 Identities=44% Similarity=0.660 Sum_probs=62.2
Q ss_pred ccCCCCCcchhHHHHHHhhccCCccccceeeecCCCCCCcceeEEecCcccccCCeeeeecceeeeeC
Q psy4344 3 RSKASTANEGGVAGGALLSMAGNKERSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSELGIYGVVIG 70 (70)
Q Consensus 3 ~~~~~nNiyG~dI~~~L~~l~~~~er~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSELGIfG~~l~ 70 (70)
|.-|+||+||++|++.|++++.+ ||+||||||+|+|++..||+||+|. ....++||||||||+++|
T Consensus 363 rEgGGnN~yg~~~~~~L~kl~~e-er~AyILMe~I~P~~~enylvr~g~-~~~~~~VSELGIyG~~v~ 428 (468)
T KOG0021|consen 363 REGGGNNTYGDDIPQLLKKLPEE-ERDAYILMEKIEPEPSENYLLRPGK-PEKVDAVSELGIYGVYVG 428 (468)
T ss_pred ccCCCCcccccccHHHHHhchhh-hhhhhHHHHhhCCccccceEecCCC-ceehhhhhhhceeEEEec
Confidence 56799999999999999999887 9999999999999999999999995 888899999999999986
No 7
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=53.93 E-value=3.2 Score=23.13 Aligned_cols=24 Identities=29% Similarity=0.260 Sum_probs=17.0
Q ss_pred hhHHHHHHhhccC----Cccccceeeec
Q psy4344 12 GGVAGGALLSMAG----NKERSAWILME 35 (70)
Q Consensus 12 G~dI~~~L~~l~~----~~er~aYILM~ 35 (70)
.++|.++|++-.+ ++-+.||.||.
T Consensus 17 kdeI~eaL~~~~~~~~~neIkDAY~L~k 44 (46)
T PF08587_consen 17 KDEIYEALESSEPSPQSNEIKDAYLLMK 44 (46)
T ss_dssp HHHHHHHCCSSS------SSCCHHHHHH
T ss_pred HHHHHHHHHcCCCcchHHHHHHHHHHHh
Confidence 5788888887655 45688998874
No 8
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=47.60 E-value=9.9 Score=24.08 Aligned_cols=15 Identities=13% Similarity=0.173 Sum_probs=12.0
Q ss_pred CCeeeeecceeeeeC
Q psy4344 56 LDIVSELGIYGVVIG 70 (70)
Q Consensus 56 ~~~vSELGIfG~~l~ 70 (70)
..-|++++|||.+.+
T Consensus 21 k~gv~~~~vFGS~aR 35 (97)
T COG1669 21 KYGVKRVAVFGSYAR 35 (97)
T ss_pred HhCCceEEEeeeeec
Confidence 445899999999874
No 9
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=37.60 E-value=14 Score=22.70 Aligned_cols=27 Identities=22% Similarity=0.326 Sum_probs=16.5
Q ss_pred CcceeEEecCc---ccccCCeeeeecceee
Q psy4344 41 VQSNYLIRAGA---EVKCLDIVSELGIYGV 67 (70)
Q Consensus 41 ~~~n~lvR~g~---~~~~~~~vSELGIfG~ 67 (70)
+.+.+++|+.. ++.....+.||||==.
T Consensus 11 p~htvLLrD~~s~e~LdLsKSLndlGirEL 40 (79)
T PF09469_consen 11 PEHTVLLRDYQSGEELDLSKSLNDLGIREL 40 (79)
T ss_dssp TTSEEEES-SS---B--TTS-HHHHT-SEE
T ss_pred cceEEEeecCCCCCcccccccHHHhhHHHH
Confidence 45778889764 6788899999998443
No 10
>PHA02086 hypothetical protein
Probab=34.97 E-value=15 Score=22.70 Aligned_cols=16 Identities=13% Similarity=-0.020 Sum_probs=13.5
Q ss_pred CCcchhHHHHHHhhcc
Q psy4344 8 TANEGGVAGGALLSMA 23 (70)
Q Consensus 8 nNiyG~dI~~~L~~l~ 23 (70)
-|+||.|++....+|.
T Consensus 64 anl~g~~~~~ii~~m~ 79 (88)
T PHA02086 64 ANLFGANIPNVIDEMI 79 (88)
T ss_pred hhhcccchhHHHHHHH
Confidence 4899999999888774
No 11
>KOG0983|consensus
Probab=27.46 E-value=23 Score=27.27 Aligned_cols=34 Identities=32% Similarity=0.340 Sum_probs=26.7
Q ss_pred ccceeeecCCCCCCcceeEEecCcccccCCeeeee
Q psy4344 28 RSAWILMEKIIPPVQSNYLIRAGAEVKCLDIVSEL 62 (70)
Q Consensus 28 r~aYILM~rI~Pp~~~n~lvR~g~~~~~~~~vSEL 62 (70)
=.+|.-=|||.|+..+.|.||+. .+..+=++-||
T Consensus 254 C~~YMaPERidp~~~~kYDiRaD-VWSlGITlveL 287 (391)
T KOG0983|consen 254 CAAYMAPERIDPPDKPKYDIRAD-VWSLGITLVEL 287 (391)
T ss_pred CccccCccccCCCCCCccchhhh-hhhhccchhhh
Confidence 35899999999999999999987 55555555454
No 12
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=23.69 E-value=88 Score=16.60 Aligned_cols=21 Identities=24% Similarity=0.341 Sum_probs=16.6
Q ss_pred cceeEEecCcccccCCeeeee
Q psy4344 42 QSNYLIRAGAEVKCLDIVSEL 62 (70)
Q Consensus 42 ~~n~lvR~g~~~~~~~~vSEL 62 (70)
...+.|+.|..+..++++-+|
T Consensus 13 V~~v~V~~G~~VkkGd~L~~l 33 (50)
T PF13533_consen 13 VESVYVKEGQQVKKGDVLLVL 33 (50)
T ss_pred EEEEEecCCCEEcCCCEEEEE
Confidence 577888999888888887665
No 13
>PRK00756 acyltransferase NodA; Provisional
Probab=21.93 E-value=51 Score=23.31 Aligned_cols=13 Identities=54% Similarity=0.874 Sum_probs=10.8
Q ss_pred cCCeeeeecceee
Q psy4344 55 CLDIVSELGIYGV 67 (70)
Q Consensus 55 ~~~~vSELGIfG~ 67 (70)
.+-.|.|||.||+
T Consensus 81 vDlLVaElGLygV 93 (196)
T PRK00756 81 VDLLVAELGLYGV 93 (196)
T ss_pred cceeEEEeeeeee
Confidence 4457999999997
No 14
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=20.83 E-value=32 Score=18.73 Aligned_cols=25 Identities=32% Similarity=0.462 Sum_probs=16.5
Q ss_pred CCcceeEEecCcccccCCeeeeecc
Q psy4344 40 PVQSNYLIRAGAEVKCLDIVSELGI 64 (70)
Q Consensus 40 p~~~n~lvR~g~~~~~~~~vSELGI 64 (70)
|+..-.++-+|..+.-..+++|+||
T Consensus 32 ~~~~~~L~~~G~~L~d~~tL~~~~i 56 (69)
T PF00240_consen 32 PPEQQRLIYNGKELDDDKTLSDYGI 56 (69)
T ss_dssp TGGGEEEEETTEEESTTSBTGGGTT
T ss_pred ccccceeeeeeecccCcCcHHHcCC
Confidence 3444445556766777788888887
Done!