Query 024616
Match_columns 265
No_of_seqs 187 out of 1032
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 06:05:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024616.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024616hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03008 pepcterm_CAAX CAAX p 98.9 9E-09 2E-13 93.0 8.5 42 207-248 121-173 (222)
2 COG1266 Predicted metal-depend 98.8 1.7E-08 3.6E-13 86.3 9.3 56 203-258 123-181 (226)
3 PF02517 Abi: CAAX protease se 98.7 2.9E-08 6.3E-13 75.3 4.9 47 204-250 5-54 (91)
4 KOG4130 Prenyl protein proteas 95.5 0.0097 2.1E-07 55.3 2.8 39 210-248 135-177 (291)
5 COG4449 Predicted protease of 77.6 1 2.2E-05 46.1 1.0 44 207-250 713-761 (827)
6 PF10329 DUF2417: Region of un 61.9 69 0.0015 29.6 9.2 38 190-227 100-137 (232)
7 PRK11901 hypothetical protein; 48.5 40 0.00087 32.8 5.6 26 105-130 29-54 (327)
8 PF11712 Vma12: Endoplasmic re 45.6 1.5E+02 0.0032 24.8 8.0 15 56-70 25-39 (142)
9 KOG4753 Predicted membrane pro 38.3 1.1E+02 0.0023 26.0 5.9 27 104-130 43-69 (124)
10 PF11947 DUF3464: Protein of u 26.5 3.9E+02 0.0085 23.3 7.7 31 106-136 53-83 (153)
11 PF10086 DUF2324: Putative mem 25.5 2.1E+02 0.0046 26.0 6.2 17 202-218 60-76 (223)
12 COG3146 Uncharacterized protei 21.7 68 0.0015 31.7 2.3 70 15-90 148-228 (387)
No 1
>TIGR03008 pepcterm_CAAX CAAX prenyl protease-related protein. The CAAX prenyl protease, in eukaryotes, catalyzes three covalent modifications, including cleavage and acylation, at the C-terminus of certain proteins in a process connected to protein sorting. This family describes a bacterial protein family homologous to one domain of the CAAX-processing enzyme. Members of this protein family are found in genomes that carry a predicted protein sorting system, PEP-CTERM/exosortase, usually in the vicinity of the EpsH homolog that is the hallmark of the system. The function of this protein is unknown, but it may relate to protein motification.
Probab=98.85 E-value=9e-09 Score=93.00 Aligned_cols=42 Identities=33% Similarity=0.521 Sum_probs=37.3
Q ss_pred hHHhhhhhhhhhHhhHHhhhhhhcc-----------hhHHHHHHHHHHHHhhc
Q 024616 207 LVVAFLPGISEELLFRGALLPLFGM-----------DWRSVLAVATVFGALHL 248 (265)
Q Consensus 207 i~vaiLapI~EELLFRGvLl~~fg~-----------~w~aIivSSlIFGllH~ 248 (265)
+..+++.|++||++|||++++.+.+ .|.++++||++||+.|.
T Consensus 121 ~~~~l~vpi~EElfFRG~l~~~l~~~~f~~~~~~~~~~~a~lisSllFal~H~ 173 (222)
T TIGR03008 121 AGATLVVPVMEELFWRSFLLRYLQQSDFESVPGGRFHWPSFLAVTLLFGLEHH 173 (222)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHHHHH
Confidence 5567899999999999999999832 38899999999999998
No 2
>COG1266 Predicted metal-dependent membrane protease [General function prediction only]
Probab=98.84 E-value=1.7e-08 Score=86.26 Aligned_cols=56 Identities=32% Similarity=0.494 Sum_probs=45.8
Q ss_pred cchhhHHhhhhhhhhhHhhHHhhhhhhcc---hhHHHHHHHHHHHHhhcCCCchHHHHH
Q 024616 203 PLDYLVVAFLPGISEELLFRGALLPLFGM---DWRSVLAVATVFGALHLGSGRKYSFAV 258 (265)
Q Consensus 203 ~~~ii~vaiLapI~EELLFRGvLl~~fg~---~w~aIivSSlIFGllH~~~~~~~~yav 258 (265)
...++...+.+|++||++|||++++.+.+ .|.++++||++||+.|..+...+.+++
T Consensus 123 ~~~~~~~~i~~~l~EEl~fRg~l~~~l~~~~~~~~a~iissllFal~H~~~~~~~~~~~ 181 (226)
T COG1266 123 LLFFLVLLILAPLAEELLFRGYLLGALARRFGPLLAIIISSLLFALLHLPNGLLLLYFL 181 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCcHHHHHHHHHHHHHHHhcccchHHHHH
Confidence 34466778899999999999999999876 389999999999999998865333333
No 3
>PF02517 Abi: CAAX protease self-immunity; InterPro: IPR003675 Members of this family are probably proteases (after a isoprenyl group is attached to the Cys residue in the C-terminal CAAX motif of a protein to attach it to the membrane, the AAX tripeptide is removed by one of the CAAX prenyl proteases). The family contains the Q03530 from SWISSPROT CAAX prenyl protease []. The proteins contain a highly conserved Glu-Glu motif at the amino end of the alignment. The alignment also contains two histidine residues that may be involved in zinc binding []. While these proteins are involved in membrane anchoring of proteins in eukaryotes, little is known about their function in prokaryotes. In some known bacteriocin loci, Abi genes have been found downstream of bacteriocin structural genes where they are probably involved in self-immunity. Investigation of the bacteriocin-like loci in the Gram positive bacteria locus from Lactobacillus sakei 23K confirmed that the bacteriocin-like genes (sak23Kalphabeta) exhibited antimicrobial activity when expressed in a heterologous host and that the associated Abi gene (sak23Ki) conferred immunity against the cognate bacteriocin. Interestingly, the immunity genes from three similar systems conferred a high degree of cross-immunity against each other's bacteriocins, suggesting the recognition of a common receptor. Site-directed mutagenesis demonstrated that the conserved motifs constituting the putative proteolytic active site of the Abi proteins are essential for the immunity function of Sak23Ki - thus a new concept in self-immunity []. This family also includes lysostaphin resistance protein A [].; GO: 0016020 membrane
Probab=98.67 E-value=2.9e-08 Score=75.35 Aligned_cols=47 Identities=32% Similarity=0.602 Sum_probs=41.7
Q ss_pred chhhHHhhhhhhhhhHhhHHhhhhhhcc---hhHHHHHHHHHHHHhhcCC
Q 024616 204 LDYLVVAFLPGISEELLFRGALLPLFGM---DWRSVLAVATVFGALHLGS 250 (265)
Q Consensus 204 ~~ii~vaiLapI~EELLFRGvLl~~fg~---~w~aIivSSlIFGllH~~~ 250 (265)
...+...+++|+.||++|||.+++.+.+ ++.++++|+++||+.|...
T Consensus 5 ~~~~~~~~~~~~~EEl~fRg~l~~~l~~~~~~~~a~~is~~~f~~~H~~~ 54 (91)
T PF02517_consen 5 IFFLVMILIAPIAEELFFRGFLFNRLRRRFNPWFAILISSLLFALWHLPN 54 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhh
Confidence 3456678999999999999999998865 3899999999999999988
No 4
>KOG4130 consensus Prenyl protein protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.0097 Score=55.34 Aligned_cols=39 Identities=28% Similarity=0.521 Sum_probs=33.6
Q ss_pred hhhhhhhhhHhhHHhhhhhhcc----hhHHHHHHHHHHHHhhc
Q 024616 210 AFLPGISEELLFRGALLPLFGM----DWRSVLAVATVFGALHL 248 (265)
Q Consensus 210 aiLapI~EELLFRGvLl~~fg~----~w~aIivSSlIFGllH~ 248 (265)
-+++|++||+.||.-+++.+.. ...++....+.||++|.
T Consensus 135 ~iiaPLtEElvfracmlp~~l~~~~s~l~avF~~PLfFGvAH~ 177 (291)
T KOG4130|consen 135 FIIAPLTEELVFRACMLPTYLNLIQSSLQAVFWQPLFFGVAHA 177 (291)
T ss_pred hhhccchHHHHHHHHHHHHHHHhhhcchhhHHHhhHHHhHHHH
Confidence 3799999999999999988754 35688888899999996
No 5
>COG4449 Predicted protease of the Abi (CAAX) family [General function prediction only]
Probab=77.63 E-value=1 Score=46.10 Aligned_cols=44 Identities=36% Similarity=0.554 Sum_probs=34.1
Q ss_pred hHHhhhhhhhhhHhhHHhhhhhhcc---hhHHHHHHHH--HHHHhhcCC
Q 024616 207 LVVAFLPGISEELLFRGALLPLFGM---DWRSVLAVAT--VFGALHLGS 250 (265)
Q Consensus 207 i~vaiLapI~EELLFRGvLl~~fg~---~w~aIivSSl--IFGllH~~~ 250 (265)
+-+-+.|+++||+.||-++++.=+. +|.-+.+... +|-+.|.-+
T Consensus 713 L~vIl~PAl~EElvFRvvLlP~P~E~r~~W~tl~a~~~l~LfvLyHpln 761 (827)
T COG4449 713 LTVILIPALGEELVFRVVLLPGPGEGRRPWVTLGAATGLVLFVLYHPLN 761 (827)
T ss_pred hhheehhhccccceeEEEecCCCCccccchHhHHHHHHHHHHHHhhhhh
Confidence 4456789999999999999987543 6876666555 899999654
No 6
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=61.94 E-value=69 Score=29.64 Aligned_cols=38 Identities=21% Similarity=0.156 Sum_probs=30.3
Q ss_pred chHHHHHHHHccCcchhhHHhhhhhhhhhHhhHHhhhh
Q 024616 190 SEAANQQVLTSLEPLDYLVVAFLPGISEELLFRGALLP 227 (265)
Q Consensus 190 ~~~~nq~vl~~l~~~~ii~vaiLapI~EELLFRGvLl~ 227 (265)
.+...+-++..+...+++.+..++.+=+|.=|.|+..-
T Consensus 100 ~~r~l~~vl~~Lllvdlilil~V~~~R~~eG~vGi~s~ 137 (232)
T PF10329_consen 100 LERILNIVLAGLLLVDLILILAVPYTRHEEGWVGIASV 137 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHHhHhhHhhHHHH
Confidence 35566666676778888999999999999999998764
No 7
>PRK11901 hypothetical protein; Reviewed
Probab=48.48 E-value=40 Score=32.78 Aligned_cols=26 Identities=12% Similarity=0.126 Sum_probs=23.2
Q ss_pred CcCchhHHHHHHHHHHHHHHHHHHHH
Q 024616 105 LVTIPSRSNVLQACTVTCGLITALGV 130 (265)
Q Consensus 105 ~~~~~~R~~vL~a~~lT~iLLLiia~ 130 (265)
...+..|+.+...+|+-.+||||+|+
T Consensus 29 pk~~vSRQh~MiGiGilVLlLLIi~I 54 (327)
T PRK11901 29 PKLAVSRQHMMIGIGILVLLLLIIAI 54 (327)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677999999999999999999998
No 8
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=45.60 E-value=1.5e+02 Score=24.77 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=9.4
Q ss_pred hhhHHHHHHHHHhhh
Q 024616 56 KKSVKKLKRDRQLRL 70 (265)
Q Consensus 56 ~~~~~~~~~~~~~~~ 70 (265)
.+...|||++.++++
T Consensus 25 ~a~le~Lr~~~ee~e 39 (142)
T PF11712_consen 25 KARLERLRAEQEERE 39 (142)
T ss_pred HHHHHHHHHHHHHHH
Confidence 346667777766654
No 9
>KOG4753 consensus Predicted membrane protein [Function unknown]
Probab=38.30 E-value=1.1e+02 Score=25.95 Aligned_cols=27 Identities=15% Similarity=-0.004 Sum_probs=13.5
Q ss_pred CCcCchhHHHHHHHHHHHHHHHHHHHH
Q 024616 104 TLVTIPSRSNVLQACTVTCGLITALGV 130 (265)
Q Consensus 104 ~~~~~~~R~~vL~a~~lT~iLLLiia~ 130 (265)
++-.+-.+.++-+.+..-..+++.++.
T Consensus 43 ~tr~P~k~i~lavvL~~fg~Lli~lg~ 69 (124)
T KOG4753|consen 43 NTRHPVKEIALAVVLLVFGLLLIGLGF 69 (124)
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555555555444444555554
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=26.47 E-value=3.9e+02 Score=23.26 Aligned_cols=31 Identities=26% Similarity=0.252 Sum_probs=16.4
Q ss_pred cCchhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024616 106 VTIPSRSNVLQACTVTCGLITALGVIIRQGS 136 (265)
Q Consensus 106 ~~~~~R~~vL~a~~lT~iLLLiia~~irlw~ 136 (265)
++...=+.++.=|.++.++=+++|.......
T Consensus 53 IP~~Vs~RM~rRm~~~~GiP~~lG~~~f~~~ 83 (153)
T PF11947_consen 53 IPEVVSNRMLRRMAVFVGIPTALGVAVFVVF 83 (153)
T ss_pred cCHHHHHHHHHHHHHHhchHHHHHHHHHHHH
Confidence 3433334456666666666666665433333
No 11
>PF10086 DUF2324: Putative membrane peptidase family (DUF2324); InterPro: IPR011397 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins (with several transmembrane segments).
Probab=25.49 E-value=2.1e+02 Score=25.95 Aligned_cols=17 Identities=35% Similarity=0.317 Sum_probs=13.8
Q ss_pred CcchhhHHhhhhhhhhh
Q 024616 202 EPLDYLVVAFLPGISEE 218 (265)
Q Consensus 202 ~~~~ii~vaiLapI~EE 218 (265)
.+...+..++.+++.||
T Consensus 60 ~~l~~ly~~l~AGiFEE 76 (223)
T PF10086_consen 60 PILYALYGGLMAGIFEE 76 (223)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34456788999999999
No 12
>COG3146 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.71 E-value=68 Score=31.70 Aligned_cols=70 Identities=20% Similarity=0.238 Sum_probs=36.7
Q ss_pred eccCCCCCCCChhhhhhh-hhhcccccccccccceeeeec----------cchhhHHHHHHHHHhhhhhccCCccCCCCC
Q 024616 15 RASNRHPLCPDSASMRAK-FIGLHNAGKSHNVLKFRMRTF----------ASKKSVKKLKRDRQLRLAEKGNGVADRSGT 83 (265)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (265)
-.|..|..||+.--+..- -.|. .+..+..++++-+-| ++ |..|.+|||+++ -.+.||.....+
T Consensus 148 glSS~Hv~F~~~~~~~~l~~~Gf--l~r~d~qfhw~N~Gf~~fDdfL~~l~s-~kRK~irrERr~---v~~~Gi~i~~l~ 221 (387)
T COG3146 148 GLSSAHVTFVDEDEQPALEKAGF--LHRLDQQFHWCNSGFQDFDDFLAALSS-RKRKNIRRERRA---VHKEGIEIQWLT 221 (387)
T ss_pred CCCceeEecCCHHHHHHHHhccc--hhhcCceEEEecCCcccHHHHHHHHHH-hHHHHHHHHHHH---HHhcCcEEEEee
Confidence 358899999987633211 1143 223444555555544 32 223444444333 334788776666
Q ss_pred Ccccccc
Q 024616 84 EDDYVKD 90 (265)
Q Consensus 84 ~~~~~~~ 90 (265)
-++..|+
T Consensus 222 G~~lte~ 228 (387)
T COG3146 222 GDDLTEA 228 (387)
T ss_pred CCcCCHH
Confidence 6666655
Done!