Query 037046
Match_columns 91
No_of_seqs 35 out of 37
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 08:04:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037046hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10669 Phage_Gp23: Protein g 52.5 19 0.00041 26.4 3.1 21 5-25 11-31 (121)
2 COG3344 Retron-type reverse tr 46.8 34 0.00074 26.1 3.9 47 14-68 130-176 (328)
3 PF09838 DUF2065: Uncharacteri 43.6 61 0.0013 20.2 4.1 34 8-66 3-36 (57)
4 PF09125 COX2-transmemb: Cytoc 38.6 43 0.00094 20.3 2.7 16 9-24 15-30 (38)
5 PF05546 She9_MDM33: She9 / Md 35.0 40 0.00086 26.4 2.7 18 3-20 156-173 (207)
6 KOG3268 Predicted E3 ubiquitin 33.1 22 0.00047 28.4 1.0 15 44-58 77-91 (234)
7 TIGR02901 QoxD cytochrome aa3 26.3 1.1E+02 0.0024 20.8 3.4 21 4-24 35-55 (94)
8 COG3766 Predicted membrane pro 23.9 1.3E+02 0.0028 22.4 3.6 24 2-25 72-95 (133)
9 cd01651 RT_G2_intron RT_G2_int 21.6 1.3E+02 0.0029 20.4 3.1 38 3-51 17-54 (226)
10 PF14019 DUF4235: Protein of u 21.3 1.4E+02 0.003 19.3 3.0 21 5-25 41-61 (78)
11 PF13061 DUF3923: Protein of u 20.5 1.1E+02 0.0024 19.7 2.4 17 10-26 50-66 (66)
No 1
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=52.54 E-value=19 Score=26.36 Aligned_cols=21 Identities=33% Similarity=0.645 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 037046 5 DALIKVAMFVLVQVLVYLILS 25 (91)
Q Consensus 5 d~L~Kva~FvlVQaLVYLILs 25 (91)
-+|+|...|+..-..||+||-
T Consensus 11 yal~K~~~FA~L~i~~FiILL 31 (121)
T PF10669_consen 11 YALTKIMFFAFLFIVVFIILL 31 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 478999999988888888874
No 2
>COG3344 Retron-type reverse transcriptase [DNA replication, recombination, and repair]
Probab=46.79 E-value=34 Score=26.09 Aligned_cols=47 Identities=28% Similarity=0.240 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhcCCccccchhhhhccccCCccchhhhhHHHHHHHHhcCCCCCC
Q 037046 14 VLVQVLVYLILSNSSDIFSENKKKKMMKSSSFKTARSVSIRRMLAAISDLPSEAE 68 (91)
Q Consensus 14 vlVQaLVYLILs~SS~VFS~~~~~~~~rs~sFrpaRS~SiRR~lA~LsD~P~g~e 68 (91)
.+||...-+++.. +|-.... .+|.||||.|+.+ -..+..-+.|.+..
T Consensus 130 ~~vq~~~~~~l~~---~~~~~f~---~~s~Gf~~~~~~~--~a~~~~~~~~~~~~ 176 (328)
T COG3344 130 RIVQSAFPIILEP---IIENIFS---PLSYGFRPGPSAS--NAIAYAFDLPQGKI 176 (328)
T ss_pred HHHHHHHHHHHHH---HHHhccc---cCCCCCCCChhHH--HHHHHHHhhhccCC
Confidence 3577777777777 4444322 5799999999988 66777777766654
No 3
>PF09838 DUF2065: Uncharacterized protein conserved in bacteria (DUF2065); InterPro: IPR019201 This entry represents a protein found in various prokaryotic proteins, and has no known function.
Probab=43.59 E-value=61 Score=20.19 Aligned_cols=34 Identities=21% Similarity=0.490 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCccccchhhhhccccCCccchhhhhHHHHHHHHhcCCCC
Q 037046 8 IKVAMFVLVQVLVYLILSNSSDIFSENKKKKMMKSSSFKTARSVSIRRMLAAISDLPSE 66 (91)
Q Consensus 8 ~Kva~FvlVQaLVYLILs~SS~VFS~~~~~~~~rs~sFrpaRS~SiRR~lA~LsD~P~g 66 (91)
.=+++..++++|.|.+..+ ..||+++.++++|.+
T Consensus 3 ~algLvliiEGl~~~l~P~-------------------------~~r~~l~~l~~~p~~ 36 (57)
T PF09838_consen 3 AALGLVLIIEGLLPFLAPE-------------------------RWRRMLRQLAQLPDR 36 (57)
T ss_pred HHHHHHHHHHhhHHHhCHH-------------------------HHHHHHHHHHhCCHH
Confidence 3467788899999986421 257888888888753
No 4
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=38.61 E-value=43 Score=20.35 Aligned_cols=16 Identities=31% Similarity=0.555 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 037046 9 KVAMFVLVQVLVYLIL 24 (91)
Q Consensus 9 Kva~FvlVQaLVYLIL 24 (91)
+..+|.|+-.+||+||
T Consensus 15 ~Wi~F~l~mi~vFi~l 30 (38)
T PF09125_consen 15 GWIAFALAMILVFIAL 30 (38)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHH
Confidence 4568999999999987
No 5
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=35.04 E-value=40 Score=26.42 Aligned_cols=18 Identities=28% Similarity=0.412 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 037046 3 LADALIKVAMFVLVQVLV 20 (91)
Q Consensus 3 l~d~L~Kva~FvlVQaLV 20 (91)
++=|-++|.+|+++|.+|
T Consensus 156 ~~lmgvNvllFl~~~~~~ 173 (207)
T PF05546_consen 156 WGLMGVNVLLFLVAQLLV 173 (207)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 455778999999999876
No 6
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.06 E-value=22 Score=28.45 Aligned_cols=15 Identities=40% Similarity=0.423 Sum_probs=13.4
Q ss_pred CccchhhhhHHHHHH
Q 037046 44 SFKTARSVSIRRMLA 58 (91)
Q Consensus 44 sFrpaRS~SiRR~lA 58 (91)
=|+|+|+..+||+.|
T Consensus 77 ~ekP~RaaaaRRIa~ 91 (234)
T KOG3268|consen 77 LEKPARAAAARRIAA 91 (234)
T ss_pred ccCCchHHHHHHhhc
Confidence 589999999999975
No 7
>TIGR02901 QoxD cytochrome aa3 quinol oxidase, subunit IV. This family (QoxD) encodes subunit IV of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site.
Probab=26.26 E-value=1.1e+02 Score=20.83 Aligned_cols=21 Identities=29% Similarity=0.437 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 037046 4 ADALIKVAMFVLVQVLVYLIL 24 (91)
Q Consensus 4 ~d~L~Kva~FvlVQaLVYLIL 24 (91)
+..+.=+.+++++|++|.|+.
T Consensus 35 ~~~~~~i~~lA~iQi~VqL~~ 55 (94)
T TIGR02901 35 AMGLTIIIIFAFIQAGLQLIM 55 (94)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 345556778899999998875
No 8
>COG3766 Predicted membrane protein [Function unknown]
Probab=23.88 E-value=1.3e+02 Score=22.43 Aligned_cols=24 Identities=42% Similarity=0.551 Sum_probs=19.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHh
Q 037046 2 SLADALIKVAMFVLVQVLVYLILS 25 (91)
Q Consensus 2 sl~d~L~Kva~FvlVQaLVYLILs 25 (91)
||-|++.=-++=.+||-|||.|..
T Consensus 72 sl~~~~~Wg~~~~vvqLl~f~i~~ 95 (133)
T COG3766 72 SLPDYLAWGAIALVVQLLVFFIVR 95 (133)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777899999999864
No 9
>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).
Probab=21.55 E-value=1.3e+02 Score=20.40 Aligned_cols=38 Identities=24% Similarity=0.252 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCccccchhhhhccccCCccchhhh
Q 037046 3 LADALIKVAMFVLVQVLVYLILSNSSDIFSENKKKKMMKSSSFKTARSV 51 (91)
Q Consensus 3 l~d~L~Kva~FvlVQaLVYLILs~SS~VFS~~~~~~~~rs~sFrpaRS~ 51 (91)
+...+.|+.--++.+.|-..+-.. |.. .+++|||.||.
T Consensus 17 ~~~~~~ki~~~~i~~~L~~~~~~~----~~~-------~~~g~~~~rs~ 54 (226)
T cd01651 17 IPTVRDRIVQEALKLVLEPIYEPR----FSD-------CSYGFRPGRSA 54 (226)
T ss_pred CCchHHHHHHHHHHHHHHHHHhhc----ccc-------CCCCCCCCCCH
Confidence 445778888889999887766543 211 35667776653
No 10
>PF14019 DUF4235: Protein of unknown function (DUF4235)
Probab=21.33 E-value=1.4e+02 Score=19.31 Aligned_cols=21 Identities=14% Similarity=0.295 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 037046 5 DALIKVAMFVLVQVLVYLILS 25 (91)
Q Consensus 5 d~L~Kva~FvlVQaLVYLILs 25 (91)
.-+..+.+|+++|+.++-+.+
T Consensus 41 ~~~~e~l~~Aaisgav~avv~ 61 (78)
T PF14019_consen 41 RSLREALAFAAISGAVFAVVR 61 (78)
T ss_pred ccHHHHHHHHHHHHHHHHHHH
Confidence 346778899999999886654
No 11
>PF13061 DUF3923: Protein of unknown function (DUF3923)
Probab=20.49 E-value=1.1e+02 Score=19.67 Aligned_cols=17 Identities=18% Similarity=0.518 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHhc
Q 037046 10 VAMFVLVQVLVYLILSN 26 (91)
Q Consensus 10 va~FvlVQaLVYLILs~ 26 (91)
++.++++|...|+|+.+
T Consensus 50 ~~~i~i~q~Iw~~i~k~ 66 (66)
T PF13061_consen 50 FIIILIIQLIWLIILKR 66 (66)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 45677889999998864
Done!