Query 027025
Match_columns 229
No_of_seqs 142 out of 336
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 03:53:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027025hhsearch_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 1.4E-79 3E-84 560.6 17.0 185 1-229 171-355 (355)
2 PF01167 Tub: Tub family; Int 100.0 2.5E-67 5.4E-72 465.9 13.7 185 1-223 62-246 (246)
3 KOG2503 Tubby superfamily prot 99.8 4.4E-21 9.4E-26 182.3 5.0 78 136-223 484-561 (565)
4 PF12043 DUF3527: Domain of un 97.2 0.00041 8.9E-09 65.0 5.1 58 161-224 287-344 (346)
5 TIGR03562 osmo_induc_OsmC pero 25.6 59 0.0013 26.4 2.4 14 209-222 42-55 (135)
6 PF08512 Rtt106: Histone chape 24.5 96 0.0021 23.5 3.3 58 137-201 20-78 (95)
7 PRK15095 FKBP-type peptidyl-pr 21.9 1.5E+02 0.0032 24.6 4.1 25 187-211 107-131 (156)
8 TIGR03563 perox_SACOL1771 pero 20.6 83 0.0018 25.0 2.3 15 209-223 41-55 (138)
9 TIGR03561 organ_hyd_perox pero 19.3 1.4E+02 0.003 23.6 3.4 15 209-223 40-54 (134)
10 PF03803 Scramblase: Scramblas 18.0 1.2E+02 0.0025 25.9 2.8 25 4-28 113-139 (221)
No 1
>KOG2502 consensus Tub family proteins [General function prediction only]
Probab=100.00 E-value=1.4e-79 Score=560.61 Aligned_cols=185 Identities=61% Similarity=0.977 Sum_probs=163.9
Q ss_pred CCCCCCceEEEeccccccceEEEecCCCCCCCCccccccccccccccccCCCCCCCceeeEEEEeeecccCCCCCceeEE
Q 027025 1 MSKGSSTYLGKLRSNFLGTKFIVYDGQPPHAGAKMTRSRSTRLANLKQVSPRIPFGNYSVAHISYELNVLGSRGPRRMQC 80 (229)
Q Consensus 1 ~Sr~s~~yvGKLRSNflGTkF~iYD~g~~~~~~~~~~~~~~~~~~~~~~sp~~~~~~~ela~I~Ye~NvLg~rGPRkM~v 80 (229)
|||++++||||||||||||||||||+|.++... ++ ++|.+++|||+|+||+||||+||||||+|
T Consensus 171 lSr~~~~yvGklRSN~lGTKFtVyD~g~~~~r~----------~~------~~~~~~~~la~V~Ye~NVLg~rGPRrM~~ 234 (355)
T KOG2502|consen 171 LSRGSESYVGKLRSNLLGTKFTVYDNGVNPSRR----------FN------KVPSGRQELAAVIYETNVLGFRGPRRMTV 234 (355)
T ss_pred cccCccceeeeeecccccceEEEecCCCCcccc----------cc------cCCcccceeeEEEEeeccccccCCceeEE
Confidence 699999999999999999999999998665322 22 57889999999999999999999999999
Q ss_pred eeccCCcccccCCCCCCccceeecCCCCCCCCcccccccCcccccccCCccccCCCceEEEeeCCCccccCCceEEeccC
Q 027025 81 VMDSIPASAIESGGVAPTQTEFLFSNADSFPSIPFFRSKSNRSEKFLSGPLACQKDGALVLRNKAPRWHEQLQCWCLNFH 160 (229)
Q Consensus 81 iip~ip~~~~~~gg~~p~~~~~~~~~~~~~~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~l~nk~P~w~~~~~~y~LnF~ 160 (229)
+||.||.++ ++|++|.|++..+. +++.++++..++++++|+||.|+|||++||||||||
T Consensus 235 im~~i~~s~--~~~~v~~q~~~~~~-------------------~~l~r~~~k~~e~~lvL~NK~P~wne~~q~~~LNF~ 293 (355)
T KOG2502|consen 235 IMPGISPSA--PGGRVPVQPENDHP-------------------SLLFRSQNKDKEGLLVLKNKTPRWNEETQSYCLNFH 293 (355)
T ss_pred eccCCCCCC--CCCccccccccccc-------------------chhhhccccCcccceEeecCCCccccccceEEEecC
Confidence 999999987 88898888664432 112223334468999999999999999999999999
Q ss_pred CcccccccceeEEEeCCCCCCCCCCCCeEEEEeeecCCCeeEEEccCCCCHHHHHHHHHHhCccccccC
Q 027025 161 GRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDTKIACE 229 (229)
Q Consensus 161 GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~~PlS~~QAFaiaLssfd~K~~Ce 229 (229)
||||+||||||||||.. ++++|||||||||||+|||||+||||+||||||||||||+|||||
T Consensus 294 GRVT~ASVKNFQLv~~~-------~p~~iiLQFGrV~kD~FTmDYrYPlSa~QAFaIcLSSFdtKlaCe 355 (355)
T KOG2502|consen 294 GRVTQASVKNFQLVHAL-------DPEYIILQFGRVGKDVFTMDYRYPLSAFQAFAICLSSFDTKLACE 355 (355)
T ss_pred CeEEEeeecceEEeccC-------CCCEEEEEeeeeccceeeecccCccHHHHHHHHHHHhccccccCC
Confidence 99999999999999975 579999999999999999999999999999999999999999998
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=2.5e-67 Score=465.89 Aligned_cols=185 Identities=57% Similarity=0.923 Sum_probs=136.4
Q ss_pred CCCCCCceEEEeccccccceEEEecCCCCCCCCccccccccccccccccCCCCCCCceeeEEEEeeecccCCCCCceeEE
Q 027025 1 MSKGSSTYLGKLRSNFLGTKFIVYDGQPPHAGAKMTRSRSTRLANLKQVSPRIPFGNYSVAHISYELNVLGSRGPRRMQC 80 (229)
Q Consensus 1 ~Sr~s~~yvGKLRSNflGTkF~iYD~g~~~~~~~~~~~~~~~~~~~~~~sp~~~~~~~ela~I~Ye~NvLg~rGPRkM~v 80 (229)
+||+|++|||||||||+||+|+|||+|.+++.+.. .+|..+..|+|||+|.||+||||++|||||+|
T Consensus 62 lsr~s~~yvGKLrsNf~GT~F~iyD~g~~~~~~~~-------------~~~~~~~~r~eLa~V~Ye~nvlg~rGPRkM~v 128 (246)
T PF01167_consen 62 LSRSSNNYVGKLRSNFLGTEFTIYDNGPNPKKSKS-------------ISPREPQIRRELAAVSYETNVLGSRGPRKMTV 128 (246)
T ss_dssp HCTT---ESEEEEE-TTSSEEEEEESSB-CCCSTC-------------CTSCCSSB--EEEEEEEEE-SSSTTSSEEEEE
T ss_pred cccCCCceeeeeccccceeEEEEECCCCCCccccc-------------cCcCcCcCcceEEEEEEEeccccccCCcEEEE
Confidence 58999999999999999999999999998866531 24667778999999999999999999999999
Q ss_pred eeccCCcccccCCCCCCccceeecCCCCCCCCcccccccCcccccccCCccccCCCceEEEeeCCCccccCCceEEeccC
Q 027025 81 VMDSIPASAIESGGVAPTQTEFLFSNADSFPSIPFFRSKSNRSEKFLSGPLACQKDGALVLRNKAPRWHEQLQCWCLNFH 160 (229)
Q Consensus 81 iip~ip~~~~~~gg~~p~~~~~~~~~~~~~~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~l~nk~P~w~~~~~~y~LnF~ 160 (229)
+||+|+....++++..|.++. . ...++++........+++++|+||+|+||+++++|+|||+
T Consensus 129 ~ip~i~~~~~~~~~~~~~~p~-----~-------------~~~~~~~~~~~~~~~~~~~~l~~k~P~w~~~~~~~~l~F~ 190 (246)
T PF01167_consen 129 VIPSIPSSGQESGGRVPFQPL-----N-------------QEKDSLLSRFQNKKKDELIVLKNKPPRWNEELQSYVLNFN 190 (246)
T ss_dssp EEE-B-TTS-----B-----S-----S--------------CCCSHHHHHHCT-TTSEEEEEE---EEETTTTEEEEEET
T ss_pred EecCCCccccccceeeeeecc-----c-------------cccccccccccccCCcceEEEecCCCcEeccCCeEEeccC
Confidence 999998877666655543311 0 0111111222234567999999999999999999999999
Q ss_pred CcccccccceeEEEeCCCCCCCCCCCCeEEEEeeecCCCeeEEEccCCCCHHHHHHHHHHhCc
Q 027025 161 GRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFD 223 (229)
Q Consensus 161 GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~~PlS~~QAFaiaLssfd 223 (229)
|||++|||||||||+++ +++++|||||||++|+|+|||+|||||+|||||||||||
T Consensus 191 gRv~~~SvKNFql~~~~-------~~~~~~lqfGk~~~~~f~~d~~~Pls~~qAF~i~lssfd 246 (246)
T PF01167_consen 191 GRVTVASVKNFQLVHPS-------DPDRIVLQFGKVGKDVFTMDFRYPLSPLQAFAIALSSFD 246 (246)
T ss_dssp TSECC-BTTEEEEEBTT-------BTTSESEEEEEEETTEEEEEEETT-BHHHHHHHHHHHHH
T ss_pred CeEeccccceeEEEccC-------CCCeEEEEEEEecCCEEEEEecCCCCHHHHHHHHHhcCC
Confidence 99999999999999974 678999999999999999999999999999999999997
No 3
>KOG2503 consensus Tubby superfamily protein TULP4 [General function prediction only]
Probab=99.82 E-value=4.4e-21 Score=182.31 Aligned_cols=78 Identities=42% Similarity=0.730 Sum_probs=72.9
Q ss_pred CceEEEeeCCCccccCCceEEeccCCcccccccceeEEEeCCCCCCCCCCCCeEEEEeeecCCCeeEEEccCCCCHHHHH
Q 027025 136 DGALVLRNKAPRWHEQLQCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAF 215 (229)
Q Consensus 136 ~~~~~l~nk~P~w~~~~~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~~PlS~~QAF 215 (229)
.++.++.||+|-|||..|-|+|||.||||+.|.||||+-.. .+.|||||+|+.+.|++||+||+|+.|||
T Consensus 484 ~R~~vmtnK~p~wne~tqVyqlDfgGrVtqesakNfQIel~----------gkQvmqFgRidg~aytldfqypfSa~QaF 553 (565)
T KOG2503|consen 484 ARCEVMTNKPPAWNEHTQVYQLDFGGRVTQESAKNFQIELF----------GKQVMQFGRIDGPAYTLDFQYPFSAGQAF 553 (565)
T ss_pred ceEEEeecCCccccccceEEEeccCCccchhhhccceEeec----------chhhheeccccCCcccCCCCCchHHHHHH
Confidence 35679999999999999999999999999999999999763 57899999999999999999999999999
Q ss_pred HHHHHhCc
Q 027025 216 AICLSSFD 223 (229)
Q Consensus 216 aiaLssfd 223 (229)
|.||++.-
T Consensus 554 avalanvt 561 (565)
T KOG2503|consen 554 AVALANVT 561 (565)
T ss_pred HHHHhhhh
Confidence 99999754
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=97.24 E-value=0.00041 Score=65.02 Aligned_cols=58 Identities=21% Similarity=0.452 Sum_probs=47.1
Q ss_pred CcccccccceeEEEeCCCCCCCCCCCCeEEEEeeecCCCeeEEEccCCCCHHHHHHHHHHhCcc
Q 027025 161 GRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLFTMDYRYPISAFQAFAICLSSFDT 224 (229)
Q Consensus 161 GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F~lD~~~PlS~~QAFaiaLssfd~ 224 (229)
.+...+.-+=|.|.... ..++..+|-+--+.++.|.+||+..||++|||+||+|-.+.
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 45555577778888763 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=25.60 E-value=59 Score=26.36 Aligned_cols=14 Identities=7% Similarity=-0.019 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHhC
Q 027025 209 ISAFQAFAICLSSF 222 (229)
Q Consensus 209 lS~~QAFaiaLssf 222 (229)
.+|.|.|+.||++|
T Consensus 42 ~nPeeLLlaAlaaC 55 (135)
T TIGR03562 42 TNPEELIAAAHAGC 55 (135)
T ss_pred CCHHHHHHHHHHHH
Confidence 59999999999987
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=24.48 E-value=96 Score=23.51 Aligned_cols=58 Identities=22% Similarity=0.253 Sum_probs=35.8
Q ss_pred ceEEE-eeCCCccccCCceEEeccCCcccccccceeEEEeCCCCCCCCCCCCeEEEEeeecCCCee
Q 027025 137 GALVL-RNKAPRWHEQLQCWCLNFHGRVTVASVKNFQLVASPENGPAGLEHEKIILQFGKVGKDLF 201 (229)
Q Consensus 137 ~~~~l-~nk~P~w~~~~~~y~LnF~GRv~~aSvKNFQLv~~~~~~~~~~~~~~ivlqfGKv~~~~F 201 (229)
+.+.+ ..|||.+=.-..--.++| .||...+.|+|.|+-.- .+......+|.-|.++.+
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 778876655444555555 46688999999999763 123467888888877654
No 7
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=21.87 E-value=1.5e+02 Score=24.61 Aligned_cols=25 Identities=16% Similarity=0.356 Sum_probs=20.5
Q ss_pred CeEEEEeeecCCCeeEEEccCCCCH
Q 027025 187 EKIILQFGKVGKDLFTMDYRYPISA 211 (229)
Q Consensus 187 ~~ivlqfGKv~~~~F~lD~~~PlS~ 211 (229)
+.+....-+++++..++||.|||..
T Consensus 107 ~~~~~~V~~i~~~~v~vD~NHPLAG 131 (156)
T PRK15095 107 SEMPGVIREINGDSITVDFNHPLAG 131 (156)
T ss_pred CEEEEEEEEEcCCEEEEECCCcCCC
Confidence 4456667789999999999999964
No 8
>TIGR03563 perox_SACOL1771 peroxiredoxin, SACOL1771 subfamily. This protein family belongs to the OsmC/Ohr family (pfam02566, OsmC-like protein) of peroxiredoxins.
Probab=20.61 E-value=83 Score=24.97 Aligned_cols=15 Identities=0% Similarity=-0.181 Sum_probs=13.1
Q ss_pred CCHHHHHHHHHHhCc
Q 027025 209 ISAFQAFAICLSSFD 223 (229)
Q Consensus 209 lS~~QAFaiaLssfd 223 (229)
.+|.|.|+.||++|-
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=19.27 E-value=1.4e+02 Score=23.62 Aligned_cols=15 Identities=20% Similarity=0.040 Sum_probs=13.1
Q ss_pred CCHHHHHHHHHHhCc
Q 027025 209 ISAFQAFAICLSSFD 223 (229)
Q Consensus 209 lS~~QAFaiaLssfd 223 (229)
.+|.|.|+.||++|-
T Consensus 40 ~nP~ell~aAlasC~ 54 (134)
T TIGR03561 40 TNPEQLFAAGYAACF 54 (134)
T ss_pred CCHHHHHHHHHHHHH
Confidence 699999999999874
No 10
>PF03803 Scramblase: Scramblase ; InterPro: IPR005552 Scramblase is palmitoylated and contains a potential protein kinase C phosphorylation site. Scramblase exhibits Ca2+-activated phospholipid scrambling activity in vitro. There are also possible SH3 and WW binding motifs. Scramblase is involved in the redistribution of phospholipids after cell activation or injury [].
Probab=17.95 E-value=1.2e+02 Score=25.90 Aligned_cols=25 Identities=16% Similarity=0.416 Sum_probs=20.9
Q ss_pred CCCceEEEecc--ccccceEEEecCCC
Q 027025 4 GSSTYLGKLRS--NFLGTKFIVYDGQP 28 (229)
Q Consensus 4 ~s~~yvGKLRS--NflGTkF~iYD~g~ 28 (229)
....+||++|- ++++.+|.|+|...
T Consensus 113 p~g~~iG~I~q~~~~~~~~f~I~d~~~ 139 (221)
T PF03803_consen 113 PPGNLIGSIRQPFSCCRPNFDIFDANG 139 (221)
T ss_pred CCCcEEEEEEEcCcccceEEEEEECCC
Confidence 45789999987 56799999999864
Done!