Query 026549
Match_columns 237
No_of_seqs 145 out of 337
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 09:27:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026549.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026549hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2502 Tub family proteins [G 100.0 1.6E-80 3.4E-85 570.9 17.1 190 1-237 166-355 (355)
2 PF01167 Tub: Tub family; Int 100.0 1.1E-67 2.4E-72 471.0 12.7 190 1-231 57-246 (246)
3 KOG2503 Tubby superfamily prot 99.8 1.9E-21 4.1E-26 186.1 4.5 77 145-231 485-561 (565)
4 PF12043 DUF3527: Domain of un 97.3 0.00033 7.1E-09 66.2 4.9 58 169-232 287-344 (346)
5 TIGR03562 osmo_induc_OsmC pero 23.2 66 0.0014 26.3 2.2 14 217-230 42-55 (135)
6 PF08512 Rtt106: Histone chape 22.7 1E+02 0.0023 23.5 3.2 58 145-209 20-78 (95)
7 PRK15095 FKBP-type peptidyl-pr 21.4 1.4E+02 0.003 24.9 3.9 25 195-219 107-131 (156)
8 TIGR03563 perox_SACOL1771 pero 16.7 1.1E+02 0.0023 24.5 2.2 15 217-231 41-55 (138)
9 TIGR03561 organ_hyd_perox pero 16.2 1.7E+02 0.0037 23.3 3.2 15 217-231 40-54 (134)
10 COG1115 AlsT Na+/alanine sympo 15.8 92 0.002 31.0 1.8 16 214-229 60-75 (452)
No 1
>KOG2502 consensus Tub family proteins [General function prediction only]
Probab=100.00 E-value=1.6e-80 Score=570.93 Aligned_cols=190 Identities=57% Similarity=0.874 Sum_probs=169.3
Q ss_pred CCCccccccCCCceeeCcEEeeeecccEEEEeCCCCCCCCCccccccccccccccccCCCCCCCceeEEEEEeecccccC
Q 026549 1 MCFKVVSRGYNFMLVCFFLARSNFLGTKFIVYDGQPPHAGAKMTRSRSTRLANLKQVSPRIPFGNYSVAHISYELNVLGS 80 (237)
Q Consensus 1 l~~~d~sr~s~~yv~~~GKLRSNflGTkF~iYD~g~~~~~~~~~~~~~~~~~~~~~~spr~~~~~~ela~I~Ye~Nvlg~ 80 (237)
||++||||++++|| ||||||||||||||||+|.++... ++ ++|+++++||+|+||+||||+
T Consensus 166 ~d~~~lSr~~~~yv---GklRSN~lGTKFtVyD~g~~~~r~----------~~------~~~~~~~~la~V~Ye~NVLg~ 226 (355)
T KOG2502|consen 166 LDPTDLSRGSESYV---GKLRSNLLGTKFTVYDNGVNPSRR----------FN------KVPSGRQELAAVIYETNVLGF 226 (355)
T ss_pred ccccccccCcccee---eeeecccccceEEEecCCCCcccc----------cc------cCCcccceeeEEEEeeccccc
Confidence 68999999999999 999999999999999997654221 22 578899999999999999999
Q ss_pred CCCceeEEeecCCCcccccCCCCCCccceeccCCCCCCCCcccccccCcccccccCCccccCCCceeEeeeCCccccccC
Q 026549 81 RGPRRMQCVMDSIPASAIESGGVAPTQTEFLFSNADSFPSIPFFRSKSNRSEKFLSGPLACQKDGALVLRNKAPRWHEQL 160 (237)
Q Consensus 81 rGPRkM~~~i~~ip~s~~~~gg~~p~~~~~~~~~~~~~~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~l~nk~P~w~~~~ 160 (237)
||||||+|+||.||.++ +++++|.|++..+. +++.++++..++++++|+||.|+|||++
T Consensus 227 rGPRrM~~im~~i~~s~--~~~~v~~q~~~~~~-------------------~~l~r~~~k~~e~~lvL~NK~P~wne~~ 285 (355)
T KOG2502|consen 227 RGPRRMTVIMPGISPSA--PGGRVPVQPENDHP-------------------SLLFRSQNKDKEGLLVLKNKTPRWNEET 285 (355)
T ss_pred cCCceeEEeccCCCCCC--CCCccccccccccc-------------------chhhhccccCcccceEeecCCCcccccc
Confidence 99999999999999987 89999888754332 1223334444689999999999999999
Q ss_pred ceEEeccCCceeccccceeEEEeCCCCCCCCCCCCeEEEEeeccCCCeeEEEccCCCCHHHHHHHHHHhCccccccC
Q 026549 161 QCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDTKIACE 237 (237)
Q Consensus 161 ~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~yPlS~~QAFaiaLssfd~K~aCe 237 (237)
||||||||||||+|||||||||+.. ++++|||||||||||+|||||+||||+||||||||||||+|||||
T Consensus 286 q~~~LNF~GRVT~ASVKNFQLv~~~-------~p~~iiLQFGrV~kD~FTmDYrYPlSa~QAFaIcLSSFdtKlaCe 355 (355)
T KOG2502|consen 286 QSYCLNFHGRVTQASVKNFQLVHAL-------DPEYIILQFGRVGKDVFTMDYRYPLSAFQAFAICLSSFDTKLACE 355 (355)
T ss_pred ceEEEecCCeEEEeeecceEEeccC-------CCCEEEEEeeeeccceeeecccCccHHHHHHHHHHHhccccccCC
Confidence 9999999999999999999999975 569999999999999999999999999999999999999999998
No 2
>PF01167 Tub: Tub family; InterPro: IPR000007 Tubby, an autosomal recessive mutation, mapping to mouse chromosome 7, was recently found to be the result of a splicing defect in a novel gene with unknown function. This mutation maps to the tub gene [, ]. The mouse tubby mutation is the cause of maturity-onset obesity, insulin resistance and sensory deficits. By contrast with the rapid juvenile-onset weight gain seen in diabetes (db) and obese (ob) mice, obesity in tubby mice develops gradually, and strongly resembles the late-onset obesity observed in the human population. Excessive deposition of adipose tissue culminates in a two-fold increase of body weight. Tubby mice also suffer retinal degeneration and neurosensory hearing loss. The tripartite character of the tubby phenotype is highly similar to human obesity syndromes, such as Alstrom and Bardet-Biedl. Although these phenotypes indicate a vital role for tubby proteins, no biochemical function has yet been ascribed to any family member [], although it has been suggested that the phenotypic features of tubby mice may be the result of cellular apoptosis triggered by expression of the mutated tub gene. TUB is the founding-member of the tubby-like proteins, the TULPs. TULPs are found in multicellular organisms from both the plant and animal kingdoms. Ablation of members of this protein family cause disease phenotypes that are indicative of their importance in nervous-system function and development []. Mammalian TUB is a hydrophilic protein of ~500 residues. The N-terminal (IPR005398 from INTERPRO) portion of the protein is conserved neither in length nor sequence, but, in TUB, contains the nuclear localisation signal and may have transcriptional-activation activity. The C-terminal 250 residues are highly conserved. The C-terminal extremity contains a cysteine residue that might play an important role in the normal functioning of these proteins. The crystal structure of the C-terminal core domain from mouse tubby has been determined to 1.9A resolution. This domain is arranged as a 12-stranded, all anti-parallel, closed beta-barrel that surrounds a central alpha helix, (which is at the extreme carboxyl terminus of the protein) that forms most of the hydrophobic core. Structural analyses suggest that TULPs constitute a unique family of bipartite transcription factors [].; PDB: 3C5N_B 2FIM_A 1I7E_A 1C8Z_A 1S31_A.
Probab=100.00 E-value=1.1e-67 Score=470.99 Aligned_cols=190 Identities=54% Similarity=0.827 Sum_probs=141.4
Q ss_pred CCCccccccCCCceeeCcEEeeeecccEEEEeCCCCCCCCCccccccccccccccccCCCCCCCceeEEEEEeecccccC
Q 026549 1 MCFKVVSRGYNFMLVCFFLARSNFLGTKFIVYDGQPPHAGAKMTRSRSTRLANLKQVSPRIPFGNYSVAHISYELNVLGS 80 (237)
Q Consensus 1 l~~~d~sr~s~~yv~~~GKLRSNflGTkF~iYD~g~~~~~~~~~~~~~~~~~~~~~~spr~~~~~~ela~I~Ye~Nvlg~ 80 (237)
||++||||++++|| |||||||+||+|+|||+|.+++.+.. .+|+.+..|+|||+|.|++||||+
T Consensus 57 ~~~~dlsr~s~~yv---GKLrsNf~GT~F~iyD~g~~~~~~~~-------------~~~~~~~~r~eLa~V~Ye~nvlg~ 120 (246)
T PF01167_consen 57 LDPDDLSRSSNNYV---GKLRSNFLGTEFTIYDNGPNPKKSKS-------------ISPREPQIRRELAAVSYETNVLGS 120 (246)
T ss_dssp SSHHHHCTT---ES---EEEEE-TTSSEEEEEESSB-CCCSTC-------------CTSCCSSB--EEEEEEEEE-SSST
T ss_pred cCCCccccCCCcee---eeeccccceeEEEEECCCCCCccccc-------------cCcCcCcCcceEEEEEEEeccccc
Confidence 68899999999999 99999999999999999998876532 246677789999999999999999
Q ss_pred CCCceeEEeecCCCcccccCCCCCCccceeccCCCCCCCCcccccccCcccccccCCccccCCCceeEeeeCCccccccC
Q 026549 81 RGPRRMQCVMDSIPASAIESGGVAPTQTEFLFSNADSFPSIPFFRSKSNRSEKFLSGPLACQKDGALVLRNKAPRWHEQL 160 (237)
Q Consensus 81 rGPRkM~~~i~~ip~s~~~~gg~~p~~~~~~~~~~~~~~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~l~nk~P~w~~~~ 160 (237)
||||||+|+||+|+.+..++++..|.++. . ...+++.........+++++|+||+|+||+++
T Consensus 121 rGPRkM~v~ip~i~~~~~~~~~~~~~~p~-----~-------------~~~~~~~~~~~~~~~~~~~~l~~k~P~w~~~~ 182 (246)
T PF01167_consen 121 RGPRKMTVVIPSIPSSGQESGGRVPFQPL-----N-------------QEKDSLLSRFQNKKKDELIVLKNKPPRWNEEL 182 (246)
T ss_dssp TSSEEEEEEEE-B-TTS-----B-----S-----S--------------CCCSHHHHHHCT-TTSEEEEEE---EEETTT
T ss_pred cCCcEEEEEecCCCccccccceeeeeecc-----c-------------cccccccccccccCCcceEEEecCCCcEeccC
Confidence 99999999999998877766665543311 0 01111122222345679999999999999999
Q ss_pred ceEEeccCCceeccccceeEEEeCCCCCCCCCCCCeEEEEeeccCCCeeEEEccCCCCHHHHHHHHHHhCc
Q 026549 161 QCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFD 231 (237)
Q Consensus 161 ~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~yPlS~~QAFaiaLssfd 231 (237)
++|+|||+|||++|||||||||+++ +++++||||||+++|.|+|||+|||||+|||||||||||
T Consensus 183 ~~~~l~F~gRv~~~SvKNFql~~~~-------~~~~~~lqfGk~~~~~f~~d~~~Pls~~qAF~i~lssfd 246 (246)
T PF01167_consen 183 QSYVLNFNGRVTVASVKNFQLVHPS-------DPDRIVLQFGKVGKDVFTMDFRYPLSPLQAFAIALSSFD 246 (246)
T ss_dssp TEEEEEETTSECC-BTTEEEEEBTT-------BTTSESEEEEEEETTEEEEEEETT-BHHHHHHHHHHHHH
T ss_pred CeEEeccCCeEeccccceeEEEccC-------CCCeEEEEEEEecCCEEEEEecCCCCHHHHHHHHHhcCC
Confidence 9999999999999999999999974 678999999999999999999999999999999999997
No 3
>KOG2503 consensus Tubby superfamily protein TULP4 [General function prediction only]
Probab=99.83 E-value=1.9e-21 Score=186.14 Aligned_cols=77 Identities=43% Similarity=0.740 Sum_probs=72.2
Q ss_pred ceeEeeeCCccccccCceEEeccCCceeccccceeEEEeCCCCCCCCCCCCeEEEEeeccCCCeeEEEccCCCCHHHHHH
Q 026549 145 GALVLRNKAPRWHEQLQCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFA 224 (237)
Q Consensus 145 ~~~~l~nk~P~w~~~~~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~yPlS~~QAFa 224 (237)
++.++.||+|.|||++|-|+|||.||||+.|.||||+-.. .+.|||||+|+.+.|++||+||+|+.||||
T Consensus 485 R~~vmtnK~p~wne~tqVyqlDfgGrVtqesakNfQIel~----------gkQvmqFgRidg~aytldfqypfSa~QaFa 554 (565)
T KOG2503|consen 485 RCEVMTNKPPAWNEHTQVYQLDFGGRVTQESAKNFQIELF----------GKQVMQFGRIDGPAYTLDFQYPFSAGQAFA 554 (565)
T ss_pred eEEEeecCCccccccceEEEeccCCccchhhhccceEeec----------chhhheeccccCCcccCCCCCchHHHHHHH
Confidence 5669999999999999999999999999999999999764 578999999999999999999999999999
Q ss_pred HHHHhCc
Q 026549 225 ICLSSFD 231 (237)
Q Consensus 225 iaLssfd 231 (237)
+||++.-
T Consensus 555 valanvt 561 (565)
T KOG2503|consen 555 VALANVT 561 (565)
T ss_pred HHHhhhh
Confidence 9999753
No 4
>PF12043 DUF3527: Domain of unknown function (DUF3527); InterPro: IPR021916 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 120 amino acids in length. This domain has a conserved CDCGGWD sequence motif.
Probab=97.28 E-value=0.00033 Score=66.15 Aligned_cols=58 Identities=21% Similarity=0.452 Sum_probs=47.2
Q ss_pred CceeccccceeEEEeCCCCCCCCCCCCeEEEEeeccCCCeeEEEccCCCCHHHHHHHHHHhCcc
Q 026549 169 GRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDT 232 (237)
Q Consensus 169 GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~yPlS~~QAFaiaLssfd~ 232 (237)
.+...+.-+=|.|.... ..++..+|-+--+.++.|.+||+..||+||||+||++-.+.
T Consensus 287 ~~~~~~~~~~feLf~QG------~~~~~P~~sm~~v~~G~Y~V~F~s~lS~LQAFSiciA~lh~ 344 (346)
T PF12043_consen 287 SSSSKESSHPFELFVQG------SKEEDPAFSMVNVKEGLYSVEFHSSLSPLQAFSICIAVLHS 344 (346)
T ss_pred cccccccCCceeeeecc------cccCCCceEEEEccCCeEEEEecCcchHHHHHHHhheeeec
Confidence 45555677778887753 23344899999999999999999999999999999987664
No 5
>TIGR03562 osmo_induc_OsmC peroxiredoxin, OsmC subfamily. Pfam model pfam02566, OsmC-like protein, contains several deeply split clades of homologous proteins. The clade modeled here includes the protein OsmC, or osmotically induced protein C. The member from Thermus thermophilus was shown to have hydroperoxide peroxidase activity. In many species, this protein is induced by stress and helps resist oxidative stress.
Probab=23.16 E-value=66 Score=26.28 Aligned_cols=14 Identities=7% Similarity=-0.019 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHhC
Q 026549 217 ISAFQAFAICLSSF 230 (237)
Q Consensus 217 lS~~QAFaiaLssf 230 (237)
.+|.|.|+.||++|
T Consensus 42 ~nPeeLLlaAlaaC 55 (135)
T TIGR03562 42 TNPEELIAAAHAGC 55 (135)
T ss_pred CCHHHHHHHHHHHH
Confidence 59999999999986
No 6
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=22.68 E-value=1e+02 Score=23.51 Aligned_cols=58 Identities=22% Similarity=0.253 Sum_probs=35.6
Q ss_pred ceeEe-eeCCccccccCceEEeccCCceeccccceeEEEeCCCCCCCCCCCCeEEEEeeccCCCee
Q 026549 145 GALVL-RNKAPRWHEQLQCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLF 209 (237)
Q Consensus 145 ~~~~l-~nk~P~w~~~~~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F 209 (237)
+.+.+ ..|||.+=.-..--.++| .||...+.|+|.|+-.- .+......+|.-|.++.|
T Consensus 20 ~~l~f~~~kP~~~i~~~dI~~v~f-eRv~~~~~ktFDl~v~~------k~~~~~~~~fs~I~~~e~ 78 (95)
T PF08512_consen 20 KCLLFGLEKPPFVIPLDDIESVEF-ERVSSFSSKTFDLVVIL------KDYEGPPHEFSSIDREEY 78 (95)
T ss_dssp SEEEEECSSS-EEEEGGGEEEEEE-E--ESSSSSEEEEEEEE------TT-TS-EEEEEEEEGGGH
T ss_pred ceEEEecCCCeEEEEhhHeeEEEE-EecccCcceEEEEEEEE------ecCCCCcEEEeeECHHHH
Confidence 34555 778877665555555555 46688999999998763 123467788888776654
No 7
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=21.39 E-value=1.4e+02 Score=24.94 Aligned_cols=25 Identities=16% Similarity=0.356 Sum_probs=20.0
Q ss_pred CeEEEEeeccCCCeeEEEccCCCCH
Q 026549 195 EKIILQFGKVGKDLFTMDYRYPISA 219 (237)
Q Consensus 195 ~~ivlqfGKv~~~~F~lD~~yPlS~ 219 (237)
+.+....-+++++..++||.|||..
T Consensus 107 ~~~~~~V~~i~~~~v~vD~NHPLAG 131 (156)
T PRK15095 107 SEMPGVIREINGDSITVDFNHPLAG 131 (156)
T ss_pred CEEEEEEEEEcCCEEEEECCCcCCC
Confidence 3455556788999999999999963
No 8
>TIGR03563 perox_SACOL1771 peroxiredoxin, SACOL1771 subfamily. This protein family belongs to the OsmC/Ohr family (pfam02566, OsmC-like protein) of peroxiredoxins.
Probab=16.68 E-value=1.1e+02 Score=24.49 Aligned_cols=15 Identities=0% Similarity=-0.181 Sum_probs=13.0
Q ss_pred CCHHHHHHHHHHhCc
Q 026549 217 ISAFQAFAICLSSFD 231 (237)
Q Consensus 217 lS~~QAFaiaLssfd 231 (237)
.+|.|.|+.||++|-
T Consensus 41 ~nP~elllaAla~C~ 55 (138)
T TIGR03563 41 TNPDEMLLGAAATCY 55 (138)
T ss_pred CCHHHHHHHHHHHHH
Confidence 599999999999863
No 9
>TIGR03561 organ_hyd_perox peroxiredoxin, Ohr subfamily. Pfam model pfam02566, OsmC-like protein, contains several deeply split clades of homologous proteins. The clade modeled here includes the protein Ohr, or organic hydroperoxide resistance protein.
Probab=16.17 E-value=1.7e+02 Score=23.29 Aligned_cols=15 Identities=20% Similarity=0.040 Sum_probs=13.0
Q ss_pred CCHHHHHHHHHHhCc
Q 026549 217 ISAFQAFAICLSSFD 231 (237)
Q Consensus 217 lS~~QAFaiaLssfd 231 (237)
.+|.|.|+.||++|-
T Consensus 40 ~nP~ell~aAlasC~ 54 (134)
T TIGR03561 40 TNPEQLFAAGYAACF 54 (134)
T ss_pred CCHHHHHHHHHHHHH
Confidence 599999999999863
No 10
>COG1115 AlsT Na+/alanine symporter [Amino acid transport and metabolism]
Probab=15.79 E-value=92 Score=30.99 Aligned_cols=16 Identities=31% Similarity=0.472 Sum_probs=13.4
Q ss_pred cCCCCHHHHHHHHHHh
Q 026549 214 RYPISAFQAFAICLSS 229 (237)
Q Consensus 214 ~yPlS~~QAFaiaLss 229 (237)
.--+|+||||+++|++
T Consensus 60 ~~~vS~FqAl~~sla~ 75 (452)
T COG1115 60 KGGVSSFQALMTSLAA 75 (452)
T ss_pred CCCcChHHHHHHHHHh
Confidence 3456899999999986
Done!