Query 032208
Match_columns 145
No_of_seqs 125 out of 307
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 11:02:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032208.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032208hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00365 60S ribosomal protein 100.0 8.4E-66 1.8E-70 431.0 11.0 131 13-143 17-147 (266)
2 PTZ00222 60S ribosomal protein 100.0 2.6E-61 5.7E-66 403.2 11.0 123 21-143 23-147 (263)
3 KOG3166 60S ribosomal protein 100.0 1E-48 2.2E-53 319.1 6.2 123 18-143 1-124 (209)
4 PF01601 Corona_S2: Coronaviru 59.5 2.9 6.2E-05 39.9 -0.2 13 45-57 540-552 (610)
5 PF04705 TSNR_N: Thiostrepton- 49.0 5.8 0.00013 30.3 0.1 23 19-41 81-105 (115)
6 COG1358 RPL8A Ribosomal protei 47.8 17 0.00038 27.5 2.5 38 95-143 5-42 (116)
7 PF13932 GIDA_assoc_3: GidA as 38.6 22 0.00049 24.5 1.7 49 49-100 1-52 (72)
8 COG1135 AbcC ABC-type metal io 34.8 51 0.0011 29.6 3.7 39 57-95 145-186 (339)
9 COG1136 SalX ABC-type antimicr 33.8 57 0.0012 27.3 3.7 41 56-96 145-188 (226)
10 PF08085 Entericidin: Enterici 30.0 9.3 0.0002 21.2 -1.1 8 34-41 5-12 (21)
11 COG5510 Predicted small secret 24.9 18 0.0004 23.5 -0.6 8 34-41 27-34 (44)
12 cd03225 ABC_cobalt_CbiO_domain 24.5 1.1E+02 0.0024 23.4 3.7 42 54-95 135-179 (211)
13 cd03260 ABC_PstB_phosphate_tra 24.4 1.1E+02 0.0024 23.8 3.7 44 53-96 141-187 (227)
14 PRK09810 entericidin A; Provis 24.0 16 0.00035 23.3 -0.9 8 34-41 24-31 (41)
15 TIGR01978 sufC FeS assembly AT 24.0 1.2E+02 0.0025 23.8 3.7 43 54-96 145-190 (243)
16 TIGR02314 ABC_MetN D-methionin 23.8 1E+02 0.0022 26.8 3.6 43 54-96 141-186 (343)
17 TIGR02673 FtsE cell division A 23.5 1.2E+02 0.0027 23.3 3.7 41 55-95 139-182 (214)
18 cd03219 ABC_Mj1267_LivG_branch 22.6 1.3E+02 0.0028 23.5 3.7 42 54-95 144-188 (236)
19 cd03245 ABCC_bacteriocin_expor 22.4 1.3E+02 0.0029 23.1 3.8 44 54-97 141-187 (220)
20 cd03259 ABC_Carb_Solutes_like 22.3 1.4E+02 0.003 23.0 3.8 42 54-95 131-175 (213)
21 TIGR01277 thiQ thiamine ABC tr 21.9 1.4E+02 0.003 23.1 3.8 42 54-95 129-173 (213)
22 cd03235 ABC_Metallic_Cations A 21.9 1.3E+02 0.0028 23.1 3.6 41 55-95 134-177 (213)
23 cd03301 ABC_MalK_N The N-termi 21.7 1.4E+02 0.003 23.0 3.7 42 54-95 131-175 (213)
24 cd03261 ABC_Org_Solvent_Resist 21.6 1.4E+02 0.003 23.4 3.7 42 54-95 137-181 (235)
25 PRK03745 signal recognition pa 21.5 29 0.00063 25.8 -0.1 12 46-57 2-13 (100)
26 cd03226 ABC_cobalt_CbiO_domain 21.1 1.4E+02 0.003 22.9 3.6 42 54-95 127-171 (205)
27 cd03264 ABC_drug_resistance_li 20.2 1.5E+02 0.0033 22.7 3.7 40 57-96 134-176 (211)
28 cd03268 ABC_BcrA_bacitracin_re 20.1 1.6E+02 0.0035 22.5 3.8 42 54-95 127-171 (208)
No 1
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=100.00 E-value=8.4e-66 Score=430.96 Aligned_cols=131 Identities=63% Similarity=0.968 Sum_probs=126.0
Q ss_pred ccccCCcccCCCCcccCCCccccCCCCCCCCcccccccCchhHHhHHHHHHHHhhhcCCCcccccccccchhhHHHHHHH
Q 032208 13 PAKKKPEKVVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKL 92 (145)
Q Consensus 13 ~~k~~~kk~~npLfekrpknfgiGqdiqpkrdltrfVkWP~YirlQrQk~iL~krLKVPPaInQFt~~Ldk~~atqLfkL 92 (145)
.++.+.++++|||||+|||||||||||||+|||||||+||+||||||||+||++||||||+||||+++||+|+|+|||+|
T Consensus 17 ~~~~~~~k~~~plfe~rpknf~iG~~iqpkrdlsrfvkwP~yirlQRqk~iL~~RlKvPp~inqF~~~ldk~~a~~lfkl 96 (266)
T PTZ00365 17 LKKSKKKKQKHPLFEKTPRNFRIGGDIRPKVDLSRYVRWPRYILLQRQRRVLLQRLKVPPALNQFTYTLDKNQASQLLRL 96 (266)
T ss_pred ccccccccccCcccccCccccCcCCCCCCCccchhhcccchhhhHHHHHHHHHHhcCCCccHhhhhhhhcHhhHHHHHHH
Confidence 34445678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCcCCHHHHHHHHHHHHHHHHcCCCCCCCCCceeeccchhhhHHhhhc
Q 032208 93 LLKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQM 143 (145)
Q Consensus 93 l~KYrPEtk~eKk~RL~~~Ae~ka~gk~~~~kkp~vlk~GiN~VT~LVE~~ 143 (145)
|+||||||++||++||+++||++|+|++.++++|++|++||||||++||++
T Consensus 97 l~KYrPEtk~~kk~RL~~~A~~~a~g~~~~~kkp~~vk~Gin~VtklIekk 147 (266)
T PTZ00365 97 LSKYKPETRAEKKARLLKEAEKAAAGEEVESKKPFMLKYGLNHVTDLVEYK 147 (266)
T ss_pred HHhcCCccHHHHHHHHHHHHHHHhcCCCCCCCCchHHHhhhHHHHHHHHhC
Confidence 999999999999999999999999999977999999999999999999985
No 2
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=100.00 E-value=2.6e-61 Score=403.22 Aligned_cols=123 Identities=45% Similarity=0.785 Sum_probs=119.0
Q ss_pred cCCCCcccCCCccccCCCCCCCCcccccccCchhHHhHHHHHHHHhhhcCCCcccccccccchhhHHHHHHHhhhcCcCC
Q 032208 21 VVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYRPED 100 (145)
Q Consensus 21 ~~npLfekrpknfgiGqdiqpkrdltrfVkWP~YirlQrQk~iL~krLKVPPaInQFt~~Ldk~~atqLfkLl~KYrPEt 100 (145)
...||||+|||||||||||||+|||||||+||+||||||||+||++||||||+||||+++||+|+|+|||+||+||||||
T Consensus 23 ~~~~lfe~rpknf~ig~di~pkrdlsrfvkwP~yirlQrqk~iL~~rlKvPp~inqF~~~ldk~~a~~lfkll~KYrPEt 102 (263)
T PTZ00222 23 AAASHFVARPKNFGIGQDVPYARDLSRFMRWPTFVTMQRKKRVLQRRLKVPPALNQFTKVLDRSSRNELLKLIKKYAPET 102 (263)
T ss_pred CcchhhhcCccccCCCCCCCCCccchhhhcchhhhhHHHHHHHHHHhcCCCchHhhhhhhhhHhhHHHHHHHHHHcCCcc
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCCC-CC-CCCCceeeccchhhhHHhhhc
Q 032208 101 RAAKKERLLKRAQAEAEGKT-VE-AKKPIVVKYGLNHVTYLIEQM 143 (145)
Q Consensus 101 k~eKk~RL~~~Ae~ka~gk~-~~-~kkp~vlk~GiN~VT~LVE~~ 143 (145)
++||++||+++||++++|++ .+ +++|++|.+|+|+||++||++
T Consensus 103 k~~kk~Rl~~~A~~~~~g~~~~~~~kkp~~LvsG~n~VtkaIekk 147 (263)
T PTZ00222 103 RKARRDRLHKVAEEKKKDPKKTVSTKAPLAVVTGLQEVTRAIEKK 147 (263)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCCCCCeeccCHHHHHHHHHcC
Confidence 99999999999999999999 44 499999999999999999986
No 3
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-48 Score=319.10 Aligned_cols=123 Identities=59% Similarity=0.948 Sum_probs=116.0
Q ss_pred CcccCCCCcccCCCccccCCCCCCCCcccccccCchhHHhHHHHHHHHhhhcCCCcccccccccchhhHHHHHHHhhhcC
Q 032208 18 PEKVVNPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAIRIQRQRRILRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYR 97 (145)
Q Consensus 18 ~kk~~npLfekrpknfgiGqdiqpkrdltrfVkWP~YirlQrQk~iL~krLKVPPaInQFt~~Ldk~~atqLfkLl~KYr 97 (145)
+++++|||||+||+||||||||||+||||+||+||+||++|||++||+ ||||||+||||+++||.++|+++|+|+|+||
T Consensus 1 ~~k~~~~l~~~rp~nfg~gq~iqpk~dlt~~~k~p~~i~lq~q~~~l~-~lkvpp~i~qf~~~l~~~~a~~~~kl~hkyr 79 (209)
T KOG3166|consen 1 AKKVVNPLFEKRPKNFGIGQDIQPKRDLTCFVKWPRYIRLQRQKAILY-RLKVPPAINQFTQALDLQTATKLLKLAHKYR 79 (209)
T ss_pred CCcccchhHHhcccccCcccccccccccccceeccHHHHhhhchhhhe-eeccCcchhhhhcccchHHHHHHHHHHhhcC
Confidence 368999999999999999999999999999999999999999999999 9999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHHHHHHHcCCC-CCCCCCceeeccchhhhHHhhhc
Q 032208 98 PEDRAAKKERLLKRAQAEAEGKT-VEAKKPIVVKYGLNHVTYLIEQM 143 (145)
Q Consensus 98 PEtk~eKk~RL~~~Ae~ka~gk~-~~~kkp~vlk~GiN~VT~LVE~~ 143 (145)
||++++++.|++++ +++++++ +++++|+++++|+||||+||||+
T Consensus 80 P~~~~~~~~r~~a~--~~~~~kg~v~tkrp~~~~~gvnTVttLVenK 124 (209)
T KOG3166|consen 80 PETKKKKKQRLLAE--AKAAGKGDVPTKRPPVLRAGVNTVTTLVENK 124 (209)
T ss_pred chhhhhhhhhHHHH--HHHHhccCCCcCCCcccccCcceEeehhhcc
Confidence 99999888888754 5566666 89999999999999999999997
No 4
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=59.47 E-value=2.9 Score=39.87 Aligned_cols=13 Identities=31% Similarity=0.889 Sum_probs=3.6
Q ss_pred ccccccCchhHHh
Q 032208 45 LHRYVKWPKAIRI 57 (145)
Q Consensus 45 ltrfVkWP~Yirl 57 (145)
...|+|||-||||
T Consensus 540 ~e~YiKWPWyVWL 552 (610)
T PF01601_consen 540 YETYIKWPWYVWL 552 (610)
T ss_dssp CCCHH--------
T ss_pred eeEEeehHHHHHH
Confidence 4579999999997
No 5
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=49.04 E-value=5.8 Score=30.34 Aligned_cols=23 Identities=52% Similarity=0.885 Sum_probs=14.6
Q ss_pred cccCCCCc--ccCCCccccCCCCCC
Q 032208 19 EKVVNPLF--EKRPKQFGIGGALPP 41 (145)
Q Consensus 19 kk~~npLf--ekrpknfgiGqdiqp 41 (145)
..++|-|| ||.|+-|||-.--.|
T Consensus 81 ~~v~N~lFk~erK~k~fGiArvPrp 105 (115)
T PF04705_consen 81 SAVVNQLFKGERKPKVFGIARVPRP 105 (115)
T ss_dssp HHHHCCCS-SSS--SEEEEEE----
T ss_pred HHHHHHHHhcccccceeeeecCCCC
Confidence 36789999 899999999865444
No 6
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=47.82 E-value=17 Score=27.46 Aligned_cols=38 Identities=34% Similarity=0.271 Sum_probs=26.3
Q ss_pred hcCcCCHHHHHHHHHHHHHHHHcCCCCCCCCCceeeccchhhhHHhhhc
Q 032208 95 KYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQM 143 (145)
Q Consensus 95 KYrPEtk~eKk~RL~~~Ae~ka~gk~~~~kkp~vlk~GiN~VT~LVE~~ 143 (145)
-+.|++..++--.++..|.. .--|..|+|++|..||++
T Consensus 5 ~~~~~~~~~k~l~~l~~a~~-----------~~ki~~G~~e~~Kai~~g 42 (116)
T COG1358 5 PLAPEMLEQKALSLLGKASR-----------AGKLKKGTNEVTKAIERG 42 (116)
T ss_pred ccCcHHHHHHHHHHHHHHHh-----------cCCchhhHHHHHHHHHcC
Confidence 35677777776666655431 124668999999999985
No 7
>PF13932 GIDA_assoc_3: GidA associated domain 3; PDB: 3CES_C 3CP2_A 3G05_A 3CP8_A 2ZXI_B 2ZXH_A.
Probab=38.65 E-value=22 Score=24.49 Aligned_cols=49 Identities=24% Similarity=0.319 Sum_probs=27.5
Q ss_pred ccCchhHHhHHHHHH---HHhhhcCCCcccccccccchhhHHHHHHHhhhcCcCC
Q 032208 49 VKWPKAIRIQRQRRI---LRQRLKVPPALNQFTKTLDKNLASSLFKLLLKYRPED 100 (145)
Q Consensus 49 VkWP~YirlQrQk~i---L~krLKVPPaInQFt~~Ldk~~atqLfkLl~KYrPEt 100 (145)
||.=.|+.-|.+..- =...+.+|+.||-.. + .+.+.....-|.+.||+|
T Consensus 1 iKY~~Yi~rq~~~i~~~~~~e~~~iP~~~dy~~--i-~~LS~E~~ekL~~~rP~T 52 (72)
T PF13932_consen 1 IKYEGYIERQQQEIERLRKDESLKIPEDFDYSK--I-PGLSNEAREKLEKIRPRT 52 (72)
T ss_dssp HHTHHHHHHHHHHCHHHHHHHTSB--TTS-CCC--S-TT--CHHHHHHHHH--SC
T ss_pred CCcHHHHHHHHHHHHHHHHHhCCCCcCCCChhh--c-cccHHHHHHHHHhcCCCC
Confidence 345567776655431 234588999997643 2 256778888899999999
No 8
>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=34.84 E-value=51 Score=29.58 Aligned_cols=39 Identities=28% Similarity=0.403 Sum_probs=34.4
Q ss_pred hHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 57 IQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 57 lQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
-|+||--....|=.-|.| +.=|.+||.+|+.+++.||..
T Consensus 145 GQKQRVaIARALa~~P~iLL~DEaTSALDP~TT~sIL~LL~~ 186 (339)
T COG1135 145 GQKQRVAIARALANNPKILLCDEATSALDPETTQSILELLKD 186 (339)
T ss_pred chhhHHHHHHHHhcCCCEEEecCccccCChHHHHHHHHHHHH
Confidence 589999889999888887 677999999999999999954
No 9
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=33.85 E-value=57 Score=27.28 Aligned_cols=41 Identities=27% Similarity=0.328 Sum_probs=34.5
Q ss_pred HhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhc
Q 032208 56 RIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKY 96 (145)
Q Consensus 56 rlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KY 96 (145)
--|+||.-+...|=-.|.| ..=|-.||..++..++.|+..+
T Consensus 145 GGqqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~ 188 (226)
T COG1136 145 GGQQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLREL 188 (226)
T ss_pred HHHHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHH
Confidence 4799999988888877766 6668899999999999999653
No 10
>PF08085 Entericidin: Entericidin EcnA/B family; InterPro: IPR012556 This family consists of the entericidin antidote/toxin peptides. The entericidin locus is activated in stationary phase under high osmolarity conditions by rho-S and simultaneously repressed by the osmoregulatory EnvZ/OmpR signal transduction pathway. The entericidin locus encodes tandem paralogous genes (ecnAB) and directs the synthesis of two small cell-envelope lipoproteins which can maintain plasmids in bacterial population by means of post-segregational killing [].; GO: 0009636 response to toxin, 0016020 membrane
Probab=29.96 E-value=9.3 Score=21.18 Aligned_cols=8 Identities=25% Similarity=0.746 Sum_probs=6.1
Q ss_pred ccCCCCCC
Q 032208 34 GIGGALPP 41 (145)
Q Consensus 34 giGqdiqp 41 (145)
|+|+||+.
T Consensus 5 G~G~Di~~ 12 (21)
T PF08085_consen 5 GVGKDIQS 12 (21)
T ss_pred hhhHhHHH
Confidence 78888864
No 11
>COG5510 Predicted small secreted protein [Function unknown]
Probab=24.89 E-value=18 Score=23.52 Aligned_cols=8 Identities=25% Similarity=0.584 Sum_probs=6.8
Q ss_pred ccCCCCCC
Q 032208 34 GIGGALPP 41 (145)
Q Consensus 34 giGqdiqp 41 (145)
|+|+|||.
T Consensus 27 G~G~DIq~ 34 (44)
T COG5510 27 GAGKDIQS 34 (44)
T ss_pred ccchhHHH
Confidence 88999975
No 12
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=24.45 E-value=1.1e+02 Score=23.41 Aligned_cols=42 Identities=29% Similarity=0.283 Sum_probs=32.9
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=..|.+ +.-+..||..+...++.++..
T Consensus 135 LSgG~~qrv~laral~~~p~llllDEPt~~LD~~~~~~~~~~l~~ 179 (211)
T cd03225 135 LSGGQKQRVAIAGVLAMDPDILLLDEPTAGLDPAGRRELLELLKK 179 (211)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHH
Confidence 445688888888888877765 666788999999888888844
No 13
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=24.39 E-value=1.1e+02 Score=23.77 Aligned_cols=44 Identities=23% Similarity=0.218 Sum_probs=35.0
Q ss_pred hhHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhc
Q 032208 53 KAIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKY 96 (145)
Q Consensus 53 ~YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KY 96 (145)
.+-.-|+||-.|...|=..|.| +.-+..||..+...+++++..+
T Consensus 141 ~LSgG~~qrv~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~ 187 (227)
T cd03260 141 GLSGGQQQRLCLARALANEPEVLLLDEPTSALDPISTAKIEELIAEL 187 (227)
T ss_pred cCCHHHHHHHHHHHHHhcCCCEEEEeCCCccCCHHHHHHHHHHHHHH
Confidence 4556788998888888777665 5668889999999999999664
No 14
>PRK09810 entericidin A; Provisional
Probab=24.05 E-value=16 Score=23.31 Aligned_cols=8 Identities=25% Similarity=0.592 Sum_probs=6.5
Q ss_pred ccCCCCCC
Q 032208 34 GIGGALPP 41 (145)
Q Consensus 34 giGqdiqp 41 (145)
|+|+|||.
T Consensus 24 G~GkDv~~ 31 (41)
T PRK09810 24 GFGEDIKH 31 (41)
T ss_pred cccHhHHH
Confidence 88999874
No 15
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=24.03 E-value=1.2e+02 Score=23.84 Aligned_cols=43 Identities=14% Similarity=0.132 Sum_probs=35.0
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhc
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKY 96 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KY 96 (145)
+-.-||||-.|...|=..|.| +.-+..||..+...+.+++.++
T Consensus 145 LS~G~~qrl~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~ 190 (243)
T TIGR01978 145 FSGGEKKRNEILQMALLEPKLAILDEIDSGLDIDALKIVAEGINRL 190 (243)
T ss_pred cCHHHHHHHHHHHHHhcCCCEEEecCCcccCCHHHHHHHHHHHHHH
Confidence 556789998888888877765 6668889999999999999664
No 16
>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein. Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.
Probab=23.77 E-value=1e+02 Score=26.80 Aligned_cols=43 Identities=26% Similarity=0.327 Sum_probs=35.5
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhc
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKY 96 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KY 96 (145)
+---|+||-.|...|=-.|.| +.-+..||..+..+++.++.+.
T Consensus 141 LSgGqkQRV~IARAL~~~P~iLLlDEPts~LD~~t~~~i~~lL~~l 186 (343)
T TIGR02314 141 LSGGQKQRVAIARALASNPKVLLCDEATSALDPATTQSILELLKEI 186 (343)
T ss_pred CCHHHHHHHHHHHHHHhCCCEEEEeCCcccCCHHHHHHHHHHHHHH
Confidence 344689999998888887776 6668899999999999999764
No 17
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=23.46 E-value=1.2e+02 Score=23.26 Aligned_cols=41 Identities=24% Similarity=0.376 Sum_probs=32.3
Q ss_pred HHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 55 IRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 55 irlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
-.-|+||-.|...|=.+|.| +.-+..||..+...+++++..
T Consensus 139 S~G~~qrl~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~ 182 (214)
T TIGR02673 139 SGGEQQRVAIARAIVNSPPLLLADEPTGNLDPDLSERILDLLKR 182 (214)
T ss_pred CHHHHHHHHHHHHHhCCCCEEEEeCCcccCCHHHHHHHHHHHHH
Confidence 34588888888888777765 666888999999999888844
No 18
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=22.61 E-value=1.3e+02 Score=23.54 Aligned_cols=42 Identities=19% Similarity=0.208 Sum_probs=30.4
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=.+|.| +.=+..||..+...+++++..
T Consensus 144 LSgG~~qrv~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 188 (236)
T cd03219 144 LSYGQQRRLEIARALATDPKLLLLDEPAAGLNPEETEELAELIRE 188 (236)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHH
Confidence 334678888887777776665 555778888888888888854
No 19
>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.
Probab=22.37 E-value=1.3e+02 Score=23.15 Aligned_cols=44 Identities=25% Similarity=0.184 Sum_probs=35.4
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhcC
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKYR 97 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KYr 97 (145)
+-.-|+||-.|...|=.+|.| +.-+..||..+...+++++..+.
T Consensus 141 LSgG~~qrl~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~ 187 (220)
T cd03245 141 LSGGQRQAVALARALLNDPPILLLDEPTSAMDMNSEERLKERLRQLL 187 (220)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhc
Confidence 444689999998888877766 66688999999999999997653
No 20
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=22.26 E-value=1.4e+02 Score=23.05 Aligned_cols=42 Identities=29% Similarity=0.264 Sum_probs=30.2
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+---|+||-.|...|=-.|.| +.-+..||..+...++.++..
T Consensus 131 LSgG~~qrl~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~ 175 (213)
T cd03259 131 LSGGQQQRVALARALAREPSLLLLDEPLSALDAKLREELREELKE 175 (213)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHH
Confidence 344678887777777766655 555778888888888888854
No 21
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=21.93 E-value=1.4e+02 Score=23.12 Aligned_cols=42 Identities=26% Similarity=0.267 Sum_probs=31.9
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=.+|.| +.-+..||..+...+++++..
T Consensus 129 LS~G~~qrl~laral~~~p~llllDEPt~~LD~~~~~~~~~~l~~ 173 (213)
T TIGR01277 129 LSGGQRQRVALARCLVRPNPILLLDEPFSALDPLLREEMLALVKQ 173 (213)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEcCCCccCCHHHHHHHHHHHHH
Confidence 444678888888777777765 556788999999889888854
No 22
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=21.92 E-value=1.3e+02 Score=23.15 Aligned_cols=41 Identities=24% Similarity=0.320 Sum_probs=30.3
Q ss_pred HHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 55 IRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 55 irlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
-.-|+||-.|...|=..|.| +.-+..||..+...+.+++..
T Consensus 134 SgG~~qrv~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 177 (213)
T cd03235 134 SGGQQQRVLLARALVQDPDLLLLDEPFAGVDPKTQEDIYELLRE 177 (213)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHH
Confidence 34578888877777776655 556788888888888888854
No 23
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=21.65 E-value=1.4e+02 Score=22.96 Aligned_cols=42 Identities=24% Similarity=0.217 Sum_probs=29.0
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=..|.| +.-+..||..+...+.+++..
T Consensus 131 LS~G~~qr~~laral~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 175 (213)
T cd03301 131 LSGGQRQRVALGRAIVREPKVFLMDEPLSNLDAKLRVQMRAELKR 175 (213)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHH
Confidence 344577777777776666655 555777888888888887744
No 24
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.58 E-value=1.4e+02 Score=23.44 Aligned_cols=42 Identities=21% Similarity=0.211 Sum_probs=33.3
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-||||-.|...|=..|.| +.-+..||..+...++.++..
T Consensus 137 LSgG~~qrv~ia~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 181 (235)
T cd03261 137 LSGGMKKRVALARALALDPELLLYDEPTAGLDPIASGVIDDLIRS 181 (235)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEecCCcccCCHHHHHHHHHHHHH
Confidence 445688998888888877766 566788999999999998855
No 25
>PRK03745 signal recognition particle protein Srp19; Provisional
Probab=21.49 E-value=29 Score=25.83 Aligned_cols=12 Identities=33% Similarity=0.908 Sum_probs=10.1
Q ss_pred cccccCchhHHh
Q 032208 46 HRYVKWPKAIRI 57 (145)
Q Consensus 46 trfVkWP~Yirl 57 (145)
.+||-||+|+-.
T Consensus 2 ~~~vIyP~Y~D~ 13 (100)
T PRK03745 2 GRFVVWPSELDS 13 (100)
T ss_pred CcEEEeeccccC
Confidence 478999999974
No 26
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=21.10 E-value=1.4e+02 Score=22.93 Aligned_cols=42 Identities=21% Similarity=0.113 Sum_probs=31.2
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=..|.| +.-+..||......+..++..
T Consensus 127 LS~G~~qrv~laral~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 171 (205)
T cd03226 127 LSGGQKQRLAIAAALLSGKDLLIFDEPTSGLDYKNMERVGELIRE 171 (205)
T ss_pred CCHHHHHHHHHHHHHHhCCCEEEEeCCCccCCHHHHHHHHHHHHH
Confidence 445688888888887777765 556778888888888888754
No 27
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=20.20 E-value=1.5e+02 Score=22.72 Aligned_cols=40 Identities=25% Similarity=0.205 Sum_probs=29.8
Q ss_pred hHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhhc
Q 032208 57 IQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLKY 96 (145)
Q Consensus 57 lQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~KY 96 (145)
-|+||-.|...|=-.|.| +.-+..||..+..++++++..+
T Consensus 134 G~~qrv~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~ 176 (211)
T cd03264 134 GMRRRVGIAQALVGDPSILIVDEPTAGLDPEERIRFRNLLSEL 176 (211)
T ss_pred HHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHH
Confidence 477777777777766665 5557788988888888888554
No 28
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=20.06 E-value=1.6e+02 Score=22.54 Aligned_cols=42 Identities=26% Similarity=0.170 Sum_probs=30.6
Q ss_pred hHHhHHHHHHHHhhhcCCCcc---cccccccchhhHHHHHHHhhh
Q 032208 54 AIRIQRQRRILRQRLKVPPAL---NQFTKTLDKNLASSLFKLLLK 95 (145)
Q Consensus 54 YirlQrQk~iL~krLKVPPaI---nQFt~~Ldk~~atqLfkLl~K 95 (145)
+-.-|+||-.|...|=.+|.+ +.-+..||..+...+++++..
T Consensus 127 LS~G~~qrv~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~ 171 (208)
T cd03268 127 FSLGMKQRLGIALALLGNPDLLILDEPTNGLDPDGIKELRELILS 171 (208)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEECCCcccCCHHHHHHHHHHHHH
Confidence 344678887777777776655 566778888888888888854
Done!