Query 030167
Match_columns 182
No_of_seqs 65 out of 67
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 09:34:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030167.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030167hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09366 DUF1997: Protein of u 100.0 1E-28 2.2E-33 196.9 10.9 107 71-180 1-158 (158)
2 PF06240 COXG: Carbon monoxide 90.4 4.2 9.1E-05 31.3 9.5 38 65-103 3-41 (140)
3 cd07823 SRPBCC_5 Ligand-bindin 74.3 28 0.00062 26.3 8.0 40 64-103 4-44 (146)
4 PF11535 Calci_bind_CcbP: Calc 50.4 8.5 0.00019 29.9 1.2 11 168-178 95-105 (106)
5 PHA02135 hypothetical protein 49.9 10 0.00023 30.2 1.6 19 162-180 69-87 (122)
6 COG0694 Thioredoxin-like prote 36.5 12 0.00025 28.7 -0.0 17 3-19 49-65 (93)
7 KOG0385 Chromatin remodeling c 35.7 30 0.00064 36.0 2.6 39 136-178 456-510 (971)
8 PF00806 PUF: Pumilio-family R 29.0 55 0.0012 19.4 2.1 23 148-170 12-34 (35)
9 cd05018 CoxG Carbon monoxide d 27.6 2E+02 0.0043 20.7 5.3 20 152-171 121-140 (144)
10 cd07817 SRPBCC_8 Ligand-bindin 26.3 2E+02 0.0043 20.6 5.1 42 126-172 94-135 (139)
11 PF04456 DUF503: Protein of un 24.6 96 0.0021 23.2 3.2 33 127-166 3-35 (90)
12 PF03364 Polyketide_cyc: Polyk 22.9 2.1E+02 0.0046 20.6 4.7 35 127-162 95-129 (130)
13 cd07824 SRPBCC_6 Ligand-bindin 21.5 2.4E+02 0.0051 21.2 4.9 43 126-172 102-144 (146)
No 1
>PF09366 DUF1997: Protein of unknown function (DUF1997); InterPro: IPR018971 This family of proteins are functionally uncharacterised.
Probab=99.96 E-value=1e-28 Score=196.86 Aligned_cols=107 Identities=37% Similarity=0.550 Sum_probs=94.6
Q ss_pred CcchhhhhcCccchhhc-cCccceeecCccceee----------------------------------------------
Q 030167 71 QRPLIEYMSLPASQYSV-LDAERIERVDDNTFRS---------------------------------------------- 103 (182)
Q Consensus 71 ~rPL~eYLrqPa~~ysv-LD~~riErL~ddtFRa---------------------------------------------- 103 (182)
+.||+|||++|+|++++ +|++++|+|||++||+
T Consensus 1 ~~~l~~YL~~~~r~~~~~~d~~~ie~l~~~~yr~~~~~~~~~~~~v~P~v~l~v~~~~~~~~i~~~~~~l~G~~~~~~~~ 80 (158)
T PF09366_consen 1 QAPLAEYLSDPQRWFSALFDPMRIEPLGDNTYRLKMRPFQFFGFEVEPVVDLRVWPQDDGLTIRSLDCELRGSPLVEQND 80 (158)
T ss_pred CCchHHHHhCchhHHHHhcCHHHcEEcCCCeEEEEEcCccEEEEEEEEEEEEEEEEcCCCeEEEEEEEEEeCCCccccCC
Confidence 36899999999995555 6999999999999992
Q ss_pred ----eeeeeEEecCCCCCCCceeEeeeceEEEEEecCCCcccccHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhhhce
Q 030167 104 ----SMINRISCDSNSSNSEVQQLTSDAFIEVSIEVPFAFRAFPVEAIESTGTQVLDQILKLMLPRFMSQVSRSICYSFI 179 (182)
Q Consensus 104 ----~miNR~s~~~~~~~~~~~~L~gda~LeV~veVP~pF~l~P~~alE~tGN~lLq~VL~~i~prfL~QLl~DY~~w~~ 179 (182)
+|.|.+.|+. .++.+.++|+++|+|.+++|+||+++|.+++|+|||++|++|+++|+|||++||.+||+.|..
T Consensus 81 ~f~l~~~~~l~~~~---~~~~t~l~~~~~l~V~v~~P~~~~~~P~~~l~~~G~~vl~~il~~i~~r~~~~l~~Dy~~w~~ 157 (158)
T PF09366_consen 81 GFSLDLQASLYPEE---PPGRTRLEGDADLSVSVELPPPFRLLPESLLESTGNAVLQQILRQIKPRFLQQLQADYHRWAR 157 (158)
T ss_pred cEEEEEEEEEEEec---CCCceEEEEEEEEEEEEEcChhHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3334444443 566789999999999999999999999999999999999999999999999999999999987
Q ss_pred e
Q 030167 180 E 180 (182)
Q Consensus 180 ~ 180 (182)
|
T Consensus 158 ~ 158 (158)
T PF09366_consen 158 E 158 (158)
T ss_pred C
Confidence 6
No 2
>PF06240 COXG: Carbon monoxide dehydrogenase subunit G (CoxG); InterPro: IPR010419 The CO dehydrogenase structural genes coxMSL are flanked by nine accessory genes arranged as the cox gene cluster. The cox genes are specifically and coordinately transcribed under chemolithoautotrophic conditions in the presence of CO as carbon and energy source [].; PDB: 2NS9_A 2PCS_A.
Probab=90.35 E-value=4.2 Score=31.31 Aligned_cols=38 Identities=18% Similarity=0.363 Sum_probs=26.9
Q ss_pred eeeccCCcchhhhhcCccchhhcc-CccceeecCccceee
Q 030167 65 VRVRQLQRPLIEYMSLPASQYSVL-DAERIERVDDNTFRS 103 (182)
Q Consensus 65 i~V~e~~rPL~eYLrqPa~~ysvL-D~~riErL~ddtFRa 103 (182)
..|+-+.--+-+||..|..+-+.+ +.+.+|.++ +.|++
T Consensus 3 ~~v~a~~~~vw~~l~D~~~l~~ciPG~~~~e~~~-~~~~~ 41 (140)
T PF06240_consen 3 FEVPAPPEKVWAFLSDPENLARCIPGVESIEKVG-DEYKG 41 (140)
T ss_dssp EEECS-HHHHHHHHT-HHHHHHHSTTEEEEEEEC-TEEEE
T ss_pred EEecCCHHHHHHHhcCHHHHHhhCCCcEEeeecC-cEEEE
Confidence 445544455788999999966664 458999999 99984
No 3
>cd07823 SRPBCC_5 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=74.34 E-value=28 Score=26.28 Aligned_cols=40 Identities=13% Similarity=0.062 Sum_probs=28.7
Q ss_pred EeeeccCCcchhhhhcCccchhhccC-ccceeecCccceee
Q 030167 64 SVRVRQLQRPLIEYMSLPASQYSVLD-AERIERVDDNTFRS 103 (182)
Q Consensus 64 ~i~V~e~~rPL~eYLrqPa~~ysvLD-~~riErL~ddtFRa 103 (182)
++.|+-.+--+-++|..|...-+-+. -+.+|.+++++|+.
T Consensus 4 ~~~v~a~pe~vw~~l~D~~~~~~~~pg~~~~~~~~~~~~~~ 44 (146)
T cd07823 4 EFTVPAPPDRVWALLLDIERVAPCLPGASLTEVEGDDEYKG 44 (146)
T ss_pred eEEecCCHHHHHHHhcCHHHHHhcCCCceeccccCCCeEEE
Confidence 34455555567888888888666654 56888889899974
No 4
>PF11535 Calci_bind_CcbP: Calcium binding; InterPro: IPR020994 CcbP is a Ca(2+) binding protein found in bacteria which is thought to bind Ca(2+) by protein surface charge. When bound to Ca(2+), the protein becomes more compact and the level of free calcium decreases. Within the bacteria, Ca(2+) has a role in the early stages of heterocyst differentiation. The free Ca(2+) concentration which is regulated by CcbP is critical for the differentiation process []. Calcium signalling is widespread in bacterial species, and prokaryotic cells like eukaryotes are equipped with all the elements to maintain Ca2+ homeostasis [].; PDB: 2P0P_A 2K2V_A 2P0Q_A.
Probab=50.41 E-value=8.5 Score=29.89 Aligned_cols=11 Identities=27% Similarity=0.289 Sum_probs=9.6
Q ss_pred HHHHHHhhhhc
Q 030167 168 SQVSRSICYSF 178 (182)
Q Consensus 168 ~QLl~DY~~w~ 178 (182)
.|++.||++|+
T Consensus 95 ~qaI~Dy~yW~ 105 (106)
T PF11535_consen 95 YQAIEDYHYWF 105 (106)
T ss_dssp HHHHHHHHHHH
T ss_pred hHHHHHHHHhh
Confidence 46999999997
No 5
>PHA02135 hypothetical protein
Probab=49.86 E-value=10 Score=30.21 Aligned_cols=19 Identities=11% Similarity=0.116 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHhhhhcee
Q 030167 162 MLPRFMSQVSRSICYSFIE 180 (182)
Q Consensus 162 i~prfL~QLl~DY~~w~~~ 180 (182)
+++|.-..+..||++|+.|
T Consensus 69 ~~~ry~~e~~~d~r~wc~~ 87 (122)
T PHA02135 69 FIQRYNKENNKDWRKWCRE 87 (122)
T ss_pred HHHHhhhhhhhHHHHHHhc
Confidence 6788899999999999875
No 6
>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]
Probab=36.53 E-value=12 Score=28.73 Aligned_cols=17 Identities=18% Similarity=0.333 Sum_probs=13.4
Q ss_pred cccccCCCcccceeccc
Q 030167 3 MALNCSSSTCITFSYNK 19 (182)
Q Consensus 3 ~~~~~~~~~~~~~~~~~ 19 (182)
+--+|++|+.|++++..
T Consensus 49 l~GaC~gC~sS~~TLk~ 65 (93)
T COG0694 49 LGGACSGCPSSTVTLKN 65 (93)
T ss_pred eCCcCCCCcccHHHHHH
Confidence 34589999999988754
No 7
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=35.70 E-value=30 Score=36.01 Aligned_cols=39 Identities=15% Similarity=0.416 Sum_probs=28.3
Q ss_pred C-CCcccccHHHHHhhhHHHHHHHHHHHHHHHHH---------------HHHHHhhhhc
Q 030167 136 P-FAFRAFPVEAIESTGTQVLDQILKLMLPRFMS---------------QVSRSICYSF 178 (182)
Q Consensus 136 P-~pF~l~P~~alE~tGN~lLq~VL~~i~prfL~---------------QLl~DY~~w~ 178 (182)
| +|| .+---+++..|..+ |||+++|+|-+ -++.|||.|-
T Consensus 456 Pg~py-ttdehLv~nSGKm~---vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R 510 (971)
T KOG0385|consen 456 PGPPY-TTDEHLVTNSGKML---VLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLR 510 (971)
T ss_pred CCCCC-CcchHHHhcCccee---hHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhc
Confidence 5 676 45577888888874 57777777743 2689999983
No 8
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=28.96 E-value=55 Score=19.42 Aligned_cols=23 Identities=17% Similarity=0.274 Sum_probs=17.0
Q ss_pred HhhhHHHHHHHHHHHHHHHHHHH
Q 030167 148 ESTGTQVLDQILKLMLPRFMSQV 170 (182)
Q Consensus 148 E~tGN~lLq~VL~~i~prfL~QL 170 (182)
-.-||-|+|.+++...+....++
T Consensus 12 d~~Gn~VvQk~le~~~~~~~~~i 34 (35)
T PF00806_consen 12 DQYGNYVVQKCLEHASPEQRQLI 34 (35)
T ss_dssp STTHHHHHHHHHHHSSHHHHHHH
T ss_pred ccccCHHHHHHHHHCCHHHHHhh
Confidence 34699999999998666655554
No 9
>cd05018 CoxG Carbon monoxide dehydrogenase subunit G (CoxG). CoxG has been shown, in Oligotropha carboxidovorans, to anchor the carbon monoxide (CO) dehydrogenase to the cytoplasmic membrane. The gene encoding CoxG is part of the Cox cluster (coxBCMSLDEFGHIK) located on a low-copy-number, circular, megaplasmid pHCG3. This cluster includes genes encoding subunits of CO dehydrogenase and several accessory components involved in the utilization of CO. This family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands.
Probab=27.60 E-value=2e+02 Score=20.68 Aligned_cols=20 Identities=10% Similarity=0.476 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030167 152 TQVLDQILKLMLPRFMSQVS 171 (182)
Q Consensus 152 N~lLq~VL~~i~prfL~QLl 171 (182)
+.+++....+++..|++.|.
T Consensus 121 ~~~~~~~~~~~~~~~~~~l~ 140 (144)
T cd05018 121 SRLIDGAARKLINQFFENLA 140 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555553
No 10
>cd07817 SRPBCC_8 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=26.28 E-value=2e+02 Score=20.62 Aligned_cols=42 Identities=12% Similarity=0.000 Sum_probs=25.6
Q ss_pred eceEEEEEecCCCcccccHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 030167 126 DAFIEVSIEVPFAFRAFPVEAIESTGTQVLDQILKLMLPRFMSQVSR 172 (182)
Q Consensus 126 da~LeV~veVP~pF~l~P~~alE~tGN~lLq~VL~~i~prfL~QLl~ 172 (182)
.+.++.+++..++.. +....-+.+++..+.++++..|++|.+
T Consensus 94 ~T~vt~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~l~~lk~ 135 (139)
T cd07817 94 GTRVTLTIEYEPPGG-----AEGAAVAGLLGGEPERQLREDLRRFKQ 135 (139)
T ss_pred CeEEEEEEEEECCcc-----hhhhhHHHHhhhhHHHHHHHHHHHHHH
Confidence 455666665554431 122233467888888888888888753
No 11
>PF04456 DUF503: Protein of unknown function (DUF503); InterPro: IPR007546 This is a family of conserved hypothetical bacterial proteins, including TT1725 from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), which has a ferredoxin-like alpha+beta-sandwich fold [].; PDB: 1J27_A.
Probab=24.64 E-value=96 Score=23.15 Aligned_cols=33 Identities=18% Similarity=0.329 Sum_probs=19.5
Q ss_pred ceEEEEEecCCCcccccHHHHHhhhHHHHHHHHHHHHHHH
Q 030167 127 AFIEVSIEVPFAFRAFPVEAIESTGTQVLDQILKLMLPRF 166 (182)
Q Consensus 127 a~LeV~veVP~pF~l~P~~alE~tGN~lLq~VL~~i~prf 166 (182)
+.+++++.+|...++-=+ ..+++++++++..+|
T Consensus 3 g~l~l~l~lp~~~SLKeK-------R~vvksl~~klr~rf 35 (90)
T PF04456_consen 3 GVLRLELRLPGAHSLKEK-------RQVVKSLIDKLRNRF 35 (90)
T ss_dssp EEEEEEEE----SSHHHH-------HHHHHHHHHHHHHHS
T ss_pred EEEEEEEEeccccchhHh-------HHHHHHHHHHHHhhC
Confidence 357889999988766433 347777777776665
No 12
>PF03364 Polyketide_cyc: Polyketide cyclase / dehydrase and lipid transport; InterPro: IPR005031 Members of this family of enzymes from Streptomyces spp. are involved in polyketide (linear poly-beta-ketones) synthesis.; PDB: 1T17_A 3GGN_B 2KCZ_A 2D4R_B 2REZ_A 2RES_A 3TVQ_A 2RER_A 2KF2_A 3TL1_A ....
Probab=22.94 E-value=2.1e+02 Score=20.56 Aligned_cols=35 Identities=17% Similarity=0.076 Sum_probs=16.5
Q ss_pred ceEEEEEecCCCcccccHHHHHhhhHHHHHHHHHHH
Q 030167 127 AFIEVSIEVPFAFRAFPVEAIESTGTQVLDQILKLM 162 (182)
Q Consensus 127 a~LeV~veVP~pF~l~P~~alE~tGN~lLq~VL~~i 162 (182)
+.+.+.+++-++ ...|-.++...++.+++.++..+
T Consensus 95 ~~v~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 129 (130)
T PF03364_consen 95 TRVTYDYEVDPP-GPLPGFLARQFFRRDLRQMLEAF 129 (130)
T ss_dssp EEEEEEEEEETS-SSSHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEEEEEecC-cHhHHHHHHHHHHHHHHHHHHhh
Confidence 344444444222 24456655555555555555443
No 13
>cd07824 SRPBCC_6 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=21.49 E-value=2.4e+02 Score=21.19 Aligned_cols=43 Identities=5% Similarity=0.016 Sum_probs=25.3
Q ss_pred eceEEEEEecCCCcccccHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 030167 126 DAFIEVSIEVPFAFRAFPVEAIESTGTQVLDQILKLMLPRFMSQVSR 172 (182)
Q Consensus 126 da~LeV~veVP~pF~l~P~~alE~tGN~lLq~VL~~i~prfL~QLl~ 172 (182)
...+...++++.|. ..++-.....+++...+++++..++.|.+
T Consensus 102 ~vt~~~~~~~~~~~----~~~l~~l~~~l~~~~~~~~~~~~~~~L~~ 144 (146)
T cd07824 102 VVRYDWEVRTTKPW----MNLLAPLARPVFRWNHRRVMRAGEKGLAR 144 (146)
T ss_pred EEEEEEEEEcCHHH----HHhhhHhhhhHHHHhHHHHHHhHHHHHHh
Confidence 34566666777543 11233345566777777777777777754
Done!