Query 029777
Match_columns 188
No_of_seqs 119 out of 1980
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 03:30:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029777.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029777hhsearch_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 99.9 5.7E-20 1.2E-24 142.2 20.6 137 43-185 67-213 (222)
2 PF02517 Abi: CAAX protease se 99.8 2.8E-20 6E-25 125.4 11.6 88 93-180 3-91 (91)
3 COG1266 Predicted metal-depend 99.8 1E-16 2.2E-21 124.2 20.5 88 92-179 121-212 (226)
4 KOG4130 Prenyl protein proteas 99.1 3.8E-10 8.3E-15 86.8 8.4 86 97-182 131-237 (291)
5 COG4449 Predicted protease of 96.6 0.0012 2.6E-08 56.3 2.3 81 97-177 712-809 (827)
6 PF10086 DUF2324: Putative mem 95.3 1 2.2E-05 35.2 16.7 46 93-142 60-105 (223)
7 PF13367 PrsW-protease: Protea 91.9 4.4 9.4E-05 30.6 15.1 37 147-183 129-174 (191)
8 COG4377 Predicted membrane pro 91.3 5.5 0.00012 30.7 12.2 71 94-169 77-149 (258)
9 PHA02758 hypothetical protein; 67.8 14 0.00031 28.8 5.0 49 133-181 221-288 (321)
10 PF02028 BCCT: BCCT family tra 42.3 1.9E+02 0.0042 25.4 8.4 69 96-164 79-153 (485)
11 PF07185 DUF1404: Protein of u 32.3 2.2E+02 0.0047 21.4 8.8 68 97-165 5-100 (169)
12 COG2839 Uncharacterized protei 32.2 2.1E+02 0.0045 21.1 8.5 40 97-136 103-142 (160)
13 PF08114 PMP1_2: ATPase proteo 31.2 43 0.00094 18.7 1.7 27 4-30 13-39 (43)
14 COG2339 prsW Membrane proteina 29.5 3.1E+02 0.0067 22.3 17.1 16 96-111 106-121 (274)
15 PF09512 ThiW: Thiamine-precur 29.5 2.3E+02 0.0049 20.8 5.7 17 158-174 80-96 (150)
16 PRK09400 secE preprotein trans 28.4 1.5E+02 0.0032 18.2 4.5 22 47-68 36-57 (61)
17 PF05437 AzlD: Branched-chain 26.1 2E+02 0.0043 18.9 5.9 26 150-175 67-92 (99)
18 PF04835 Pox_A9: A9 protein co 25.3 1.6E+02 0.0034 17.5 4.6 44 111-161 4-47 (54)
19 PF05545 FixQ: Cbb3-type cytoc 23.8 78 0.0017 18.1 2.1 17 5-21 14-30 (49)
20 TIGR00842 bcct choline/carniti 23.6 4.1E+02 0.0089 23.2 7.2 68 98-165 43-117 (453)
21 PF04854 DUF624: Protein of un 23.5 1.9E+02 0.0042 17.9 5.7 17 42-58 52-68 (77)
22 TIGR02185 Trep_Strep conserved 21.9 3.5E+02 0.0077 20.3 6.3 60 119-178 52-117 (189)
23 TIGR00155 pqiA_fam integral me 20.8 5.4E+02 0.012 22.0 13.9 120 38-164 45-166 (403)
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=99.87 E-value=5.7e-20 Score=142.24 Aligned_cols=137 Identities=19% Similarity=0.289 Sum_probs=94.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCChH-HHHHHhhcCChH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029777 43 ERNWLLASALGFAVLTSLVFLASLVADRLFGAKAANNP-LVREILLSSDIS-ATAIVLVNCIIAPLLEEAVYRGFLLTSL 120 (188)
Q Consensus 43 ~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~p~~EEl~fRg~l~~~l 120 (188)
.+++..+...|+++..+.. ..+...... +.+...++ ...+.. .+++. ....++..+++.|+.||++|||++++++
T Consensus 67 ~~~~l~gi~~Gv~~f~lwi-~~~~~~~~~-~~~~~~~~~~i~~~~-~~~~~l~~~~l~~~~l~vpi~EElfFRG~l~~~l 143 (222)
T TIGR03008 67 PRHLLFSAAVGVAVFVLWV-NLDWLLPFQ-GEPAGFDPSQIGNAG-LTRWVLIAFRLAGATLVVPVMEELFWRSFLLRYL 143 (222)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHhhc-CCccccchhhhhccc-chhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 5678888888886665442 223333322 22222222 112111 11111 1223466678899999999999999999
Q ss_pred Hhh-c-------ChHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhCCchHHHHHHHHHHHHHHHHH
Q 029777 121 AST-M-------SWRNAVVISSAIFSVAHFSIDNFLQLFIIGCVLGSSYCWSGNLISSIAIHSLYNASILMII 185 (188)
Q Consensus 121 ~~~-~-------~~~~ail~ssllF~l~H~~~~~~~~~~~~g~~~~~~y~~t~~i~~~i~~H~~~n~~~~i~~ 185 (188)
.++ . ..+.+.++||++|++.|.. ....++.|+++|++|.||||++.++++|+++|...-..+
T Consensus 144 ~~~~f~~~~~~~~~~~a~lisSllFal~H~~---~~~~~l~Gli~~~l~~~tgsL~~~I~~H~~~N~ll~~~v 213 (222)
T TIGR03008 144 QQSDFESVPGGRFHWPSFLAVTLLFGLEHHL---IVAGLIAGLAYNLLLLRTGSIMACILAHAVTNGLLGLWV 213 (222)
T ss_pred HHhcccccccccccHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHH
Confidence 753 1 2467999999999999974 556778899999999999999999999999999865543
No 2
>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=99.84 E-value=2.8e-20 Score=125.44 Aligned_cols=88 Identities=33% Similarity=0.556 Sum_probs=80.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHhhhch-hHHHHHHHHHHHHHHHHHhhCCchHHH
Q 029777 93 ATAIVLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISSAIFSVAHFSI-DNFLQLFIIGCVLGSSYCWSGNLISSI 171 (188)
Q Consensus 93 ~~~~~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ssllF~l~H~~~-~~~~~~~~~g~~~~~~y~~t~~i~~~i 171 (188)
.+...+...+.+|+.||++|||++++.++++.++..+.++|+++|++.|.+. ..+...++.|+.++++|.||||+|+++
T Consensus 3 ~~~~~~~~~~~~~~~EEl~fRg~l~~~l~~~~~~~~a~~is~~~f~~~H~~~~~~~~~~~~~g~~~~~~~~~t~sl~~~i 82 (91)
T PF02517_consen 3 FLIFFLVMILIAPIAEELFFRGFLFNRLRRRFNPWFAILISSLLFALWHLPNGPQFIYAFLFGLLFGYLYLRTGSLWAAI 82 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHcCChHHHH
Confidence 3455678889999999999999999999999888999999999999999975 448888999999999999999999999
Q ss_pred HHHHHHHHH
Q 029777 172 AIHSLYNAS 180 (188)
Q Consensus 172 ~~H~~~n~~ 180 (188)
++|+.+|.+
T Consensus 83 ~~H~~~n~~ 91 (91)
T PF02517_consen 83 IAHALWNLV 91 (91)
T ss_pred HHHHHHHcC
Confidence 999999963
No 3
>COG1266 Predicted metal-dependent membrane protease [General function prediction only]
Probab=99.78 E-value=1e-16 Score=124.20 Aligned_cols=88 Identities=39% Similarity=0.558 Sum_probs=81.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHhhhch----hHHHHHHHHHHHHHHHHHhhCCc
Q 029777 92 SATAIVLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISSAIFSVAHFSI----DNFLQLFIIGCVLGSSYCWSGNL 167 (188)
Q Consensus 92 ~~~~~~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ssllF~l~H~~~----~~~~~~~~~g~~~~~~y~~t~~i 167 (188)
......+...+.+|+.||++|||++++++.++.+.+.+.++||++|++.|.+. .....++..|+.+++.|.||||+
T Consensus 121 ~~~~~~~~~~i~~~l~EEl~fRg~l~~~l~~~~~~~~a~iissllFal~H~~~~~~~~~~~~~~~~gli~~~~~~~t~~l 200 (226)
T COG1266 121 WLLLFFLVLLILAPLAEELLFRGYLLGALARRFGPLLAIIISSLLFALLHLPNGLLLLYFLLYFIAGLILGLLYLRTGSL 200 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcCcHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 35566788889999999999999999999999999999999999999999964 56778889999999999999999
Q ss_pred hHHHHHHHHHHH
Q 029777 168 ISSIAIHSLYNA 179 (188)
Q Consensus 168 ~~~i~~H~~~n~ 179 (188)
|.++..|..+|.
T Consensus 201 ~~~i~~H~~~N~ 212 (226)
T COG1266 201 WVPILLHALINL 212 (226)
T ss_pred HHHHHHHHHHHH
Confidence 999999999995
No 4
>KOG4130 consensus Prenyl protein protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=3.8e-10 Score=86.80 Aligned_cols=86 Identities=29% Similarity=0.345 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh-cChHHHHHHHHHHHHHhhhch--------------------hHHHHHHHHHH
Q 029777 97 VLVNCIIAPLLEEAVYRGFLLTSLAST-MSWRNAVVISSAIFSVAHFSI--------------------DNFLQLFIIGC 155 (188)
Q Consensus 97 ~~~~~~~~p~~EEl~fRg~l~~~l~~~-~~~~~ail~ssllF~l~H~~~--------------------~~~~~~~~~g~ 155 (188)
.+-..+++|+.||+.||..+++....- .+...++..+.++||+.|... -++.++.+.|-
T Consensus 131 ~~RN~iiaPLtEElvfracmlp~~l~~~~s~l~avF~~PLfFGvAH~HHiyEqL~~g~~~~~~ilL~t~fQfsYTtlFG~ 210 (291)
T KOG4130|consen 131 WFRNFIIAPLTEELVFRACMLPTYLNLIQSSLQAVFWQPLFFGVAHAHHIYEQLQEGSMTTVSILLTTCFQFSYTTLFGG 210 (291)
T ss_pred HHHhhhhccchHHHHHHHHHHHHHHHhhhcchhhHHHhhHHHhHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHH
Confidence 466789999999999999999988875 778889999999999999842 13566778888
Q ss_pred HHHHHHHhhCCchHHHHHHHHHHHHHH
Q 029777 156 VLGSSYCWSGNLISSIAIHSLYNASIL 182 (188)
Q Consensus 156 ~~~~~y~~t~~i~~~i~~H~~~n~~~~ 182 (188)
--+.++.|||++|.+++.|+.+|..++
T Consensus 211 yTaflF~rTghl~~~iLvHAfCN~MGf 237 (291)
T KOG4130|consen 211 YTAFLFVRTGHLWCPILVHAFCNIMGF 237 (291)
T ss_pred HHHHHhhhcCCchHHHHHHHHHhhcCC
Confidence 888899999999999999999998654
No 5
>COG4449 Predicted protease of the Abi (CAAX) family [General function prediction only]
Probab=96.62 E-value=0.0012 Score=56.32 Aligned_cols=81 Identities=21% Similarity=0.191 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHH--HHHHHhhhch--------------h-HHHHHHHHHHHHHH
Q 029777 97 VLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISS--AIFSVAHFSI--------------D-NFLQLFIIGCVLGS 159 (188)
Q Consensus 97 ~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ss--llF~l~H~~~--------------~-~~~~~~~~g~~~~~ 159 (188)
++-+.++.+++||+.||-.+.+.=.+...+|..+-... ++|.++|--. + ....+.+.|+--+.
T Consensus 712 iL~vIl~PAl~EElvFRvvLlP~P~E~r~~W~tl~a~~~l~LfvLyHplnA~T~y~rg~PvFf~PiFL~ltglLGL~Ctv 791 (827)
T COG4449 712 ILTVILIPALGEELVFRVVLLPGPGEGRRPWVTLGAATGLVLFVLYHPLNALTFYPRGAPVFFRPIFLLLTGLLGLGCTV 791 (827)
T ss_pred hhhheehhhccccceeEEEecCCCCccccchHhHHHHHHHHHHHHhhhhhhhhccccCCcceeccHHHHHHHHHhhhhhh
Confidence 35556677789999999999987666545555444333 3899999732 1 12334466776777
Q ss_pred HHHhhCCchHHHHHHHHH
Q 029777 160 SYCWSGNLISSIAIHSLY 177 (188)
Q Consensus 160 ~y~~t~~i~~~i~~H~~~ 177 (188)
.|.-|+|+|+.+.+|...
T Consensus 792 ty~vT~SlW~iV~lHW~v 809 (827)
T COG4449 792 TYRVTGSLWPIVLLHWAV 809 (827)
T ss_pred hHHhccchHHHHHHHHHH
Confidence 788899999999999764
No 6
>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=95.34 E-value=1 Score=35.21 Aligned_cols=46 Identities=15% Similarity=0.107 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHhhh
Q 029777 93 ATAIVLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISSAIFSVAHF 142 (188)
Q Consensus 93 ~~~~~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ssllF~l~H~ 142 (188)
.....++..+.+++.||. -|-..++.+.++.+.... .++.||+.|.
T Consensus 60 ~~l~~ly~~l~AGiFEE~-gR~i~~k~l~kk~~~~~~---~al~~GlGhG 105 (223)
T PF10086_consen 60 PILYALYGGLMAGIFEET-GRYIGFKYLLKKRRDWSD---DALAYGLGHG 105 (223)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHcccchhh---HHHHHHcchH
Confidence 455668889999999995 355555555544332221 3455555554
No 7
>PF13367 PrsW-protease: Protease prsW family
Probab=91.85 E-value=4.4 Score=30.56 Aligned_cols=37 Identities=22% Similarity=0.283 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHhh---------CCchHHHHHHHHHHHHHHH
Q 029777 147 FLQLFIIGCVLGSSYCWS---------GNLISSIAIHSLYNASILM 183 (188)
Q Consensus 147 ~~~~~~~g~~~~~~y~~t---------~~i~~~i~~H~~~n~~~~i 183 (188)
...+.+.|..+++...++ .-...++..|+++|.....
T Consensus 129 ~~~t~i~g~~l~~~~~~~~~~~~~~~~~~~~~a~~lH~~~N~~~~~ 174 (191)
T PF13367_consen 129 ALFTAIFGYGLGLAKRRRKRGFRLALLLGFLLAVLLHGLWNFPLSL 174 (191)
T ss_pred HHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344556666666655322 2356789999999998765
No 8
>COG4377 Predicted membrane protein [Function unknown]
Probab=91.31 E-value=5.5 Score=30.68 Aligned_cols=71 Identities=14% Similarity=0.161 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHhhhchhHHHH--HHHHHHHHHHHHHhhCCchH
Q 029777 94 TAIVLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISSAIFSVAHFSIDNFLQ--LFIIGCVLGSSYCWSGNLIS 169 (188)
Q Consensus 94 ~~~~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ssllF~l~H~~~~~~~~--~~~~g~~~~~~y~~t~~i~~ 169 (188)
....++.+..+++.||-- |-..++.+.||-.-+ ..++.||+.|.....+.. +-...+..-.....|||...
T Consensus 77 l~y~IYG~lMAg~FEE~g-R~l~~rfl~kR~~~~----Ad~lAyglGHgGlEail~g~~S~~~l~i~~~Avn~g~~~~ 149 (258)
T COG4377 77 LIYIIYGLLMAGFFEETG-RLLFFRFLEKRSLEK----ADALAYGLGHGGLEAILLGLTSLLNLYIVLSAVNTGNPQV 149 (258)
T ss_pred cHHHHHHHHHHHHHHHHh-HHHHHHHHHhCcccc----hhHHHHhcccccHHHHHHHHHhHhhHHHhhhhhccCCHHH
Confidence 345588899999999964 777777776643332 378899999986533322 12233333333445666554
No 9
>PHA02758 hypothetical protein; Provisional
Probab=67.85 E-value=14 Score=28.80 Aligned_cols=49 Identities=33% Similarity=0.560 Sum_probs=30.7
Q ss_pred HHHHHHHhhhchhHHH-------HHHHHHHHHHH------------HHHhhCCchHHHHHHHHHHHHH
Q 029777 133 SSAIFSVAHFSIDNFL-------QLFIIGCVLGS------------SYCWSGNLISSIAIHSLYNASI 181 (188)
Q Consensus 133 ssllF~l~H~~~~~~~-------~~~~~g~~~~~------------~y~~t~~i~~~i~~H~~~n~~~ 181 (188)
....|+++|.+..... ..+..|..++. -.+|.+.+..+++-|+.+|.-.
T Consensus 221 anamfailhlpsrl~agykmtgsdlfaigiaf~ill~inf~arwlw~iyke~giiasiighafynagv 288 (321)
T PHA02758 221 ANAMFAILHLPSRLAAGYKMTGSDLFAIGIAFGILLLINFGARWLWEIYKEGGIIASIIGHAFYNAGV 288 (321)
T ss_pred HHHHHHHHhChHHHhhccccccchhhhHHHHHHHhheeecchhhHHHHHhcCCchhhhhhHHHHHhHH
Confidence 3456899998653221 12333333332 2345678999999999999754
No 10
>PF02028 BCCT: BCCT family transporter; InterPro: IPR000060 These prokaryotic transport proteins belong to a family known as BCCT (for Betaine / Carnitine / Choline Transporters) and are specific for compounds containing a quaternary nitrogen atom. The BCCT proteins contain 12 transmembrane regions and are energized by proton symport. They contain a conserved region with four tryptophans in their central region [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2WSX_B 3HFX_A 2WSW_A 4DOJ_B 2WIT_C 4AIN_A 3P03_B.
Probab=42.30 E-value=1.9e+02 Score=25.41 Aligned_cols=69 Identities=9% Similarity=0.042 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCh------HHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhh
Q 029777 96 IVLVNCIIAPLLEEAVYRGFLLTSLASTMSW------RNAVVISSAIFSVAHFSIDNFLQLFIIGCVLGSSYCWS 164 (188)
Q Consensus 96 ~~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~------~~ail~ssllF~l~H~~~~~~~~~~~~g~~~~~~y~~t 164 (188)
..+...+.++++--++|-|..-+...-..+| -..-.-.+.-++..|=....+..+.+.|+.++|.++++
T Consensus 79 sW~aMlf~aGig~GivfwgvaEP~~~~~~pP~~~~p~s~~A~~~A~~~~~fHWG~~~Wa~Y~~~~l~~ay~~y~k 153 (485)
T PF02028_consen 79 SWFAMLFCAGIGAGIVFWGVAEPLYHYQSPPFGIEPGSPEAAEWAMAYSFFHWGFHAWAIYALVGLAIAYFFYNK 153 (485)
T ss_dssp HHHHHHHHHCSSHHHHHHHHHHHHHHHHS-STT-TTT-HHHHHHHHHHHHHHTSHHHHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHhcchhhcchhHhhHHHhcCCCCCCCCCCHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHheeeeec
Confidence 3456666777777778887766554433222 11234688889999988888999999999999997773
No 11
>PF07185 DUF1404: Protein of unknown function (DUF1404); InterPro: IPR009844 This family consists of several archaeal proteins of around 180 residues in length. Members of this family seem to be found exclusively in Sulfolobus tokodaii and Sulfolobus solfataricus. The function of this family is unknown.
Probab=32.29 E-value=2.2e+02 Score=21.35 Aligned_cols=68 Identities=19% Similarity=0.137 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHH---------------HHHHHHhhcChHHHHHHHHHHHHHhhhchh-------------HHH
Q 029777 97 VLVNCIIAPLLEEAVYRGF---------------LLTSLASTMSWRNAVVISSAIFSVAHFSID-------------NFL 148 (188)
Q Consensus 97 ~~~~~~~~p~~EEl~fRg~---------------l~~~l~~~~~~~~ail~ssllF~l~H~~~~-------------~~~ 148 (188)
.+....++|+.||+-++.- +.+....|.+. ...++.+..=..||.+.. +-+
T Consensus 5 ~l~i~~vNP~te~l~~~~~~~~M~sHY~L~~~g~llgy~~~k~~~-~~~i~g~~~~v~WhlP~~F~l~a~~~~~Rii~el 83 (169)
T PF07185_consen 5 FLIIASVNPFTESLEFYNPIAYMLSHYALFWGGFLLGYKLFKGKI-IFLILGIIPAVFWHLPYFFDLSASSLWYRIIDEL 83 (169)
T ss_pred HHHHHHhhhhHHHHhccChHHHHHHHHHHHHHHHHHHHHHhcccc-hhhhhhhHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence 3556667777777666543 33322223333 346677888889999742 234
Q ss_pred HHHHHHHHHHHHHHhhC
Q 029777 149 QLFIIGCVLGSSYCWSG 165 (188)
Q Consensus 149 ~~~~~g~~~~~~y~~t~ 165 (188)
..++.|++.|....+-+
T Consensus 84 Sl~lgGiL~Gss~~~m~ 100 (169)
T PF07185_consen 84 SLFLGGILIGSSIPSMS 100 (169)
T ss_pred HHHHHHHHhcchHHHHH
Confidence 45678888876654444
No 12
>COG2839 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.24 E-value=2.1e+02 Score=21.08 Aligned_cols=40 Identities=13% Similarity=0.210 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHH
Q 029777 97 VLVNCIIAPLLEEAVYRGFLLTSLASTMSWRNAVVISSAI 136 (188)
Q Consensus 97 ~~~~~~~~p~~EEl~fRg~l~~~l~~~~~~~~ail~ssll 136 (188)
++...+.+.++-|+++|.-+.+..|...+-..+.+.+++.
T Consensus 103 ii~gPfiga~v~ElI~~r~~~~A~k~g~Gslvg~L~g~i~ 142 (160)
T COG2839 103 IILGPFIGAFVGELIERRDFLLAVKAGLGSLVGFLVGSIA 142 (160)
T ss_pred eehhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888999999988888877776666666666643
No 13
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=31.23 E-value=43 Score=18.75 Aligned_cols=27 Identities=19% Similarity=-0.025 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCc
Q 029777 4 LSLLLFQVLELSAALFLLSRTIKPEYD 30 (188)
Q Consensus 4 ~~~l~~~~~~~~~~~~~~~~~~~~~~~ 30 (188)
++.++......+.+.+.++++..+++.
T Consensus 13 VF~lVglv~i~iva~~iYRKw~aRkr~ 39 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRKWQARKRA 39 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777777788888877766554
No 14
>COG2339 prsW Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.53 E-value=3.1e+02 Score=22.27 Aligned_cols=16 Identities=31% Similarity=0.553 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 029777 96 IVLVNCIIAPLLEEAV 111 (188)
Q Consensus 96 ~~~~~~~~~p~~EEl~ 111 (188)
..+...+.+|+.||..
T Consensus 106 ~~l~~al~~G~vEE~~ 121 (274)
T COG2339 106 LFLGSALLAGLVEEPL 121 (274)
T ss_pred HHHHHHHhhhhhHHHH
Confidence 3477788999999975
No 15
>PF09512 ThiW: Thiamine-precursor transporter protein (ThiW); InterPro: IPR012652 Levels of thiamine pyrophosphate (TPP) or thiamine regulate transcription or translation of a number of thiamine biosynthesis, salvage, or transport genes in a wide range of prokaryotes. The mechanism involves direct binding, with no protein involved, to a structural element called THI found in the untranslated upstream region of thiamine metabolism gene operons. This element is called a riboswitch and is seen also for other metabolites such as FMN and glycine. This protein family consists of proteins identified in operons controlled by the THI riboswitch and designated ThiW. The hydrophobic nature of this protein and reconstructed metabolic background suggests that this protein acts in transport of a thiazole precursor of thiamine.
Probab=29.45 E-value=2.3e+02 Score=20.80 Aligned_cols=17 Identities=18% Similarity=0.081 Sum_probs=9.3
Q ss_pred HHHHHhhCCchHHHHHH
Q 029777 158 GSSYCWSGNLISSIAIH 174 (188)
Q Consensus 158 ~~~y~~t~~i~~~i~~H 174 (188)
|+.|.|+|++|.+.+..
T Consensus 80 Gllyr~~~k~~~a~lGE 96 (150)
T PF09512_consen 80 GLLYRKTKKLWAAALGE 96 (150)
T ss_pred HHHHHHhCcchHHHHHH
Confidence 34566666666555443
No 16
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=28.35 E-value=1.5e+02 Score=18.15 Aligned_cols=22 Identities=18% Similarity=0.359 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 029777 47 LLASALGFAVLTSLVFLASLVA 68 (188)
Q Consensus 47 ~~~~~~g~~~~~~~~~~~~~l~ 68 (188)
....++|+++.-.+.++.-++.
T Consensus 36 a~~~~iG~~i~G~iGf~Ikli~ 57 (61)
T PRK09400 36 AKVTGLGILLIGLIGFIIYLIM 57 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444566655555554444443
No 17
>PF05437 AzlD: Branched-chain amino acid transport protein (AzlD); InterPro: IPR008407 This family consists of a number of bacterial and archaeal branched-chain amino acid transport proteins. AzlD, a member of this group, has been shown by mutational analysis to be involved in branched-chain amino acid transport, and to be involved in conferring resistance to 4-azaleucine []. However, its exact role in these processes is not yet clear []. Based on its hydropathy profile, it has been suggested to be a membrane protein [].
Probab=26.09 E-value=2e+02 Score=18.90 Aligned_cols=26 Identities=19% Similarity=0.110 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHhhCCchHHHHHHH
Q 029777 150 LFIIGCVLGSSYCWSGNLISSIAIHS 175 (188)
Q Consensus 150 ~~~~g~~~~~~y~~t~~i~~~i~~H~ 175 (188)
......+-..++.|+||+..++..=.
T Consensus 67 ~l~a~~~~~~~~~~~~~~~~~v~~G~ 92 (99)
T PF05437_consen 67 YLIAALVAALVALRTRNLLLSVLAGV 92 (99)
T ss_pred HHHHHHHHHHHHHHHcchHHHHHHHH
Confidence 33344444445667777877776543
No 18
>PF04835 Pox_A9: A9 protein conserved region; InterPro: IPR006920 This entry represents a family of Chordopoxvirus A9 proteins. Chordopoxvirus belongs to the family Poxviridae and is the cause of vertebrate infections [].
Probab=25.35 E-value=1.6e+02 Score=17.55 Aligned_cols=44 Identities=14% Similarity=0.181 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhhcChHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHH
Q 029777 111 VYRGFLLTSLASTMSWRNAVVISSAIFSVAHFSIDNFLQLFIIGCVLGSSY 161 (188)
Q Consensus 111 ~fRg~l~~~l~~~~~~~~ail~ssllF~l~H~~~~~~~~~~~~g~~~~~~y 161 (188)
+||..++.....+..+ +|+-|...-. .-.++++++.|+++-++.
T Consensus 4 l~rH~~myfce~k~R~------NsF~fViik~-vismimylilGi~L~yis 47 (54)
T PF04835_consen 4 LFRHCFMYFCENKLRP------NSFWFVIIKS-VISMIMYLILGIALIYIS 47 (54)
T ss_pred HHHHHHHHHHHhhcCC------chHHHHHHHH-HHHHHHHHHHHHHHhhhc
Confidence 5788888777766554 2232322221 125677888888776554
No 19
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=23.84 E-value=78 Score=18.10 Aligned_cols=17 Identities=18% Similarity=0.364 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 029777 5 SLLLFQVLELSAALFLL 21 (188)
Q Consensus 5 ~~l~~~~~~~~~~~~~~ 21 (188)
.+++..++...+.++..
T Consensus 14 ~~v~~~~~F~gi~~w~~ 30 (49)
T PF05545_consen 14 GTVLFFVFFIGIVIWAY 30 (49)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 20
>TIGR00842 bcct choline/carnitine/betaine transport. properties inherent to their polypeptide chains.
Probab=23.61 E-value=4.1e+02 Score=23.24 Aligned_cols=68 Identities=12% Similarity=0.083 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCh-----H-H-HHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhC
Q 029777 98 LVNCIIAPLLEEAVYRGFLLTSLASTMSW-----R-N-AVVISSAIFSVAHFSIDNFLQLFIIGCVLGSSYCWSG 165 (188)
Q Consensus 98 ~~~~~~~p~~EEl~fRg~l~~~l~~~~~~-----~-~-ail~ssllF~l~H~~~~~~~~~~~~g~~~~~~y~~t~ 165 (188)
+...+.++++--++|-|.--+...-..+| . . ...-.+.-++..|=....+..+.+.|+.++|.+.|+|
T Consensus 43 ~aMlf~aG~G~gllfwgvaEP~~h~~~Pp~g~~~~s~~~A~~~A~~~~~fHWG~~aWaiY~l~ala~aY~~~rk~ 117 (453)
T TIGR00842 43 LAMLFAAGMGIGLMFWGVAEPLTYYLTPPFGAGPTSTTQAQEQALAYTLFHWGIHAWAIYALVGLALAYFHVRKG 117 (453)
T ss_pred HHHHHHHhhhhhhhhhHhhhHHHHhCCCCCCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHhheecC
Confidence 44445555555566666544433221221 1 1 2455688899999888888899999999999776654
No 21
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=23.49 E-value=1.9e+02 Score=17.88 Aligned_cols=17 Identities=24% Similarity=0.358 Sum_probs=10.0
Q ss_pred cchhHHHHHHHHHHHHH
Q 029777 42 AERNWLLASALGFAVLT 58 (188)
Q Consensus 42 ~~~~~~~~~~~g~~~~~ 58 (188)
.++++..+...|.....
T Consensus 52 fk~nf~~~~~~~~~~~~ 68 (77)
T PF04854_consen 52 FKQNFKQSLLLGLILLL 68 (77)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45676766666654443
No 22
>TIGR02185 Trep_Strep conserved hypothetical integral membrane protein TIGR02185. This family consists of strongly hydrophobic proteins about 190 amino acids in length with a strongly basic motif near the C-terminus. If is found in rather few species, but in paralogous families of 12 members in the oral pathogenic spirochaete Treponema denticola and 2 in Streptococcus pneumoniae R6.
Probab=21.89 E-value=3.5e+02 Score=20.34 Aligned_cols=60 Identities=10% Similarity=0.025 Sum_probs=31.4
Q ss_pred HHHhhcChHHHHHHHHHHHHHh----hhchhHHHHHHHHHHHHHHHHHh--hCCchHHHHHHHHHH
Q 029777 119 SLASTMSWRNAVVISSAIFSVA----HFSIDNFLQLFIIGCVLGSSYCW--SGNLISSIAIHSLYN 178 (188)
Q Consensus 119 ~l~~~~~~~~ail~ssllF~l~----H~~~~~~~~~~~~g~~~~~~y~~--t~~i~~~i~~H~~~n 178 (188)
.+..|.++..++.+.+++.++. ...++..+...+.|++--.+..+ +||-+...+.+.+.+
T Consensus 52 l~~~KV~K~G~~~i~~~i~gl~~~~~G~~~~~~~~~ii~gliaeli~~~g~Yks~~~~~ia~~~~~ 117 (189)
T TIGR02185 52 LMVAKVPKRGVIFIFGILLGLLFFLMGMYWPMIISSIIGGLLADIIASTGGYKNKRKVTIAYVLFF 117 (189)
T ss_pred hhhhhcCCccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHH
Confidence 3344555545555555555543 22444455555666554444332 356677777766655
No 23
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=20.80 E-value=5.4e+02 Score=22.04 Aligned_cols=120 Identities=9% Similarity=0.048 Sum_probs=0.0
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCh--HHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 029777 38 IKSPAERNWLLASALGFAVLTSLVFLASLVADRLFGAKAANN--PLVREILLSSDISATAIVLVNCIIAPLLEEAVYRGF 115 (188)
Q Consensus 38 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~p~~EEl~fRg~ 115 (188)
++++...+-.+...+...+..+......++.....|.....+ +....+..++.+..-..++...++.|+.+=+..=..
T Consensus 45 ~~~~~~~~~~lAl~italil~i~An~~P~~~~~~~G~~~~~Tl~~gv~~L~~~g~~~lA~lv~~~~i~~P~l~l~~l~~l 124 (403)
T TIGR00155 45 VGWDWSLQRPAAYALAALFLMPFSNLFPLLNMNLLGITIDATLLEGIWVMFSEGYASTGTMFFLCVQLVPAFCLITILLL 124 (403)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHhChHHhheecCCcccccHHHHHHHHHHCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHhhcChHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhh
Q 029777 116 LLTSLASTMSWRNAVVISSAIFSVAHFSIDNFLQLFIIGCVLGSSYCWS 164 (188)
Q Consensus 116 l~~~l~~~~~~~~ail~ssllF~l~H~~~~~~~~~~~~g~~~~~~y~~t 164 (188)
+.....++. ....+..+.|...+.+...+..|++-+.+....
T Consensus 125 l~~~~~~~~-------~~~~l~~~~~l~~WsM~dVFligilValvKl~~ 166 (403)
T TIGR00155 125 WNRAELPVR-------LREVLLVLFQLKTWVMADIYLVGVGVSFVKVMA 166 (403)
T ss_pred HHHHhcCcc-------hhHHHHHHHHhcccchHHHHHHHHHHHHHHHHH
Done!