Query 031932
Match_columns 150
No_of_seqs 102 out of 112
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 07:20:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031932.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031932hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00994 3a0901s05TIC20 chlor 100.0 2.7E-33 6E-38 236.5 9.3 89 59-147 111-200 (267)
2 PF09685 Tic20: Tic20-like pro 95.4 0.024 5.3E-07 40.1 4.0 23 122-145 24-46 (109)
3 COG4818 Predicted membrane pro 94.1 0.038 8.1E-07 42.0 2.3 17 130-146 25-41 (105)
4 PF04246 RseC_MucC: Positive r 41.0 63 0.0014 24.1 4.6 15 67-81 69-83 (135)
5 PHA02898 virion envelope prote 31.8 70 0.0015 24.0 3.5 26 53-78 32-57 (92)
6 cd01324 cbb3_Oxidase_CcoQ Cyto 31.1 48 0.001 21.6 2.2 14 114-127 14-27 (48)
7 PRK10862 SoxR reducing system 30.1 92 0.002 24.4 4.1 13 68-80 77-89 (154)
8 MTH00169 ATP8 ATP synthase F0 26.1 65 0.0014 22.4 2.3 17 113-129 14-30 (67)
9 PHA01815 hypothetical protein 25.9 1.5E+02 0.0032 20.1 3.9 24 104-127 22-49 (55)
10 PF11947 DUF3464: Protein of u 23.5 79 0.0017 25.4 2.7 26 110-135 70-97 (153)
11 PF05767 Pox_A14: Poxvirus vir 23.5 68 0.0015 24.1 2.1 26 53-78 32-57 (92)
No 1
>TIGR00994 3a0901s05TIC20 chloroplast protein import component, Tic20 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic20 protein.
Probab=100.00 E-value=2.7e-33 Score=236.48 Aligned_cols=89 Identities=15% Similarity=0.190 Sum_probs=84.2
Q ss_pred CCCChhhHHHHHHHhhhhchhhhhhHHHHHhhhhhHHHHHhhhhhHHHHHhhCChhH-HHHHHHHHHHHHhCCCCCCcch
Q 031932 59 DSADYPDRLISAICYFYPFFDGIQYGKYVITQFTPIQLLIQPLIPAIKVFKSFPFNG-FLVFLTLYFVVVRNTNFSQVPR 137 (150)
Q Consensus 59 g~~~~~dRilA~LpYlLPL~D~l~fG~~l~~qfP~l~~l~~Pl~Pl~~iy~siPF~~-livFf~Lyl~VVRN~~is~FIR 137 (150)
..++||||++||+||++||+|+|+||+++++|||+++.+.+|+.|++.+|+++||++ +++||+||++||||+++|||||
T Consensus 111 ~kp~~w~RilA~LpYLLPL~dal~fg~~lf~qfP~L~~l~~pl~Pl~~i~~~lPf~~~lv~Ff~Lyl~VVRN~~iphFIR 190 (267)
T TIGR00994 111 EKPRWWWRTLACVPYLIPLHISWMYADTAYHLHPFLEKFDAITYPFLGAIGRLPTWFLMAYFLLAYMWVVRRKEWPHFFR 190 (267)
T ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcCCCcchhhh
Confidence 357999999999999999999999999999999999999999999999999999998 6777799999999999999999
Q ss_pred hhHhHhhhhh
Q 031932 138 LPIVAEAADR 147 (150)
Q Consensus 138 FN~mQAi~~~ 147 (150)
||+||||+=.
T Consensus 191 FNtMQAILLD 200 (267)
T TIGR00994 191 FHMMMGMLLE 200 (267)
T ss_pred HHHHHHHHHH
Confidence 9999999743
No 2
>PF09685 Tic20: Tic20-like protein; InterPro: IPR019109 This entry represents a group of uncharacterised conserved proteins including a chloroplast protein import component called Tic20. Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. Tic20 is a core member of the Tic complex and is deeply embedded in the inner envelope membrane. It is thought to function as a protein conducting component of the Tic complex [].
Probab=95.40 E-value=0.024 Score=40.13 Aligned_cols=23 Identities=17% Similarity=0.195 Sum_probs=18.4
Q ss_pred HHHHHHhCCCCCCcchhhHhHhhh
Q 031932 122 LYFVVVRNTNFSQVPRLPIVAEAA 145 (150)
Q Consensus 122 Lyl~VVRN~~is~FIRFN~mQAi~ 145 (150)
+.+.++++++ +.|+|+|+.||+.
T Consensus 24 li~~~~~k~~-~~~vr~ha~qal~ 46 (109)
T PF09685_consen 24 LIVWIVKKDK-SPFVRFHAKQALN 46 (109)
T ss_pred HHHHHHcCCC-CHHHHHHHHHHHH
Confidence 3444677777 9999999999974
No 3
>COG4818 Predicted membrane protein [Function unknown]
Probab=94.11 E-value=0.038 Score=41.98 Aligned_cols=17 Identities=12% Similarity=0.026 Sum_probs=13.8
Q ss_pred CCCCCcchhhHhHhhhh
Q 031932 130 TNFSQVPRLPIVAEAAD 146 (150)
Q Consensus 130 ~~is~FIRFN~mQAi~~ 146 (150)
++=++||||||||+.+.
T Consensus 25 Ere~~FVrFHAmQS~lt 41 (105)
T COG4818 25 ERESKFVRFHAMQSFLT 41 (105)
T ss_pred hccCcceeehhHHHHHH
Confidence 45578999999999763
No 4
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=41.04 E-value=63 Score=24.09 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=11.5
Q ss_pred HHHHHHhhhhchhhh
Q 031932 67 LISAICYFYPFFDGI 81 (150)
Q Consensus 67 ilA~LpYlLPL~D~l 81 (150)
--+.+.|++|++--+
T Consensus 69 ~aa~l~Y~lPll~li 83 (135)
T PF04246_consen 69 KAAFLVYLLPLLALI 83 (135)
T ss_pred HHHHHHHHHHHHHHH
Confidence 368899999998433
No 5
>PHA02898 virion envelope protein; Provisional
Probab=31.78 E-value=70 Score=23.99 Aligned_cols=26 Identities=31% Similarity=0.340 Sum_probs=20.6
Q ss_pred ecCCCCCCCChhhHHHHHHHhhhhch
Q 031932 53 TKSKKSDSADYPDRLISAICYFYPFF 78 (150)
Q Consensus 53 ~~~~~~g~~~~~dRilA~LpYlLPL~ 78 (150)
|=++++.+.+..||.+|.+++++-..
T Consensus 32 dfSK~~~~~~~~wRalSii~FIlgiv 57 (92)
T PHA02898 32 ELSKSEKPADSALRSISIISFILAII 57 (92)
T ss_pred hhhcCCCcchhHHHHHHHHHHHHHHH
Confidence 44567777789999999999988654
No 6
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=31.12 E-value=48 Score=21.56 Aligned_cols=14 Identities=29% Similarity=0.477 Sum_probs=9.9
Q ss_pred hHHHHHHHHHHHHH
Q 031932 114 NGFLVFLTLYFVVV 127 (150)
Q Consensus 114 ~~livFf~Lyl~VV 127 (150)
.++++|+++|+|||
T Consensus 14 ~~l~~~~~~Figiv 27 (48)
T cd01324 14 WGLLYLALFFLGVV 27 (48)
T ss_pred HHHHHHHHHHHHHH
Confidence 46767777777776
No 7
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=30.10 E-value=92 Score=24.42 Aligned_cols=13 Identities=15% Similarity=0.355 Sum_probs=10.5
Q ss_pred HHHHHhhhhchhh
Q 031932 68 ISAICYFYPFFDG 80 (150)
Q Consensus 68 lA~LpYlLPL~D~ 80 (150)
-|.+.|++||+--
T Consensus 77 aa~lvYllPLl~l 89 (154)
T PRK10862 77 SALLVYMTPLVGL 89 (154)
T ss_pred HHHHHHHHHHHHH
Confidence 4788999999933
No 8
>MTH00169 ATP8 ATP synthase F0 subunit 8; Provisional
Probab=26.05 E-value=65 Score=22.40 Aligned_cols=17 Identities=12% Similarity=0.358 Sum_probs=13.6
Q ss_pred hhHHHHHHHHHHHHHhC
Q 031932 113 FNGFLVFLTLYFVVVRN 129 (150)
Q Consensus 113 F~~livFf~Lyl~VVRN 129 (150)
+.++++|+++|+.++|.
T Consensus 14 ~Wl~i~f~~ly~l~s~~ 30 (67)
T MTH00169 14 IWTLIILFFLFSLLVNY 30 (67)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 67888999999987663
No 9
>PHA01815 hypothetical protein
Probab=25.87 E-value=1.5e+02 Score=20.06 Aligned_cols=24 Identities=13% Similarity=0.556 Sum_probs=16.4
Q ss_pred HHHHHhhCC----hhHHHHHHHHHHHHH
Q 031932 104 AIKVFKSFP----FNGFLVFLTLYFVVV 127 (150)
Q Consensus 104 l~~iy~siP----F~~livFf~Lyl~VV 127 (150)
++.+|-++. |-.+++|.+.|+.||
T Consensus 22 lmt~~irvsfgvlftt~iifyiifl~vi 49 (55)
T PHA01815 22 LMTLHIRVSFGVLFTTLIIFYIIFLMVI 49 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444554544 557788999988876
No 10
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=23.50 E-value=79 Score=25.41 Aligned_cols=26 Identities=23% Similarity=0.515 Sum_probs=15.0
Q ss_pred hCC-hhHHHHHHHHHHHHHhCC-CCCCc
Q 031932 110 SFP-FNGFLVFLTLYFVVVRNT-NFSQV 135 (150)
Q Consensus 110 siP-F~~livFf~Lyl~VVRN~-~is~F 135 (150)
++| +.|+.+|.+.|++++++. ++|-.
T Consensus 70 GiP~~lG~~~f~~~y~l~~~~~~dvP~~ 97 (153)
T PF11947_consen 70 GIPTALGVAVFVVFYYLKSRQIVDVPPW 97 (153)
T ss_pred chHHHHHHHHHHHHHHHHhccccccCch
Confidence 344 556666777676666653 34443
No 11
>PF05767 Pox_A14: Poxvirus virion envelope protein A14; InterPro: IPR008785 This family consists of several Poxvirus virion envelope protein A14-like sequences. A14 is a component of the virion membrane and has been found to be an H1 phosphatase substrate in vivo and in vitro. A14 is hyperphosphorylated on serine residues in the absence of H1 expression [].; GO: 0019031 viral envelope
Probab=23.48 E-value=68 Score=24.06 Aligned_cols=26 Identities=31% Similarity=0.552 Sum_probs=21.0
Q ss_pred ecCCCCCCCChhhHHHHHHHhhhhch
Q 031932 53 TKSKKSDSADYPDRLISAICYFYPFF 78 (150)
Q Consensus 53 ~~~~~~g~~~~~dRilA~LpYlLPL~ 78 (150)
|=++++.+.+..||.+|.+++.+-..
T Consensus 32 dfsK~~~~~~~~wRalSii~FI~gii 57 (92)
T PF05767_consen 32 DFSKNTKPTDYTWRALSIICFILGII 57 (92)
T ss_pred hhccCCCCchhHHHHHHHHHHHHHHH
Confidence 44677778888999999999987654
Done!