Query 005997
Match_columns 665
No_of_seqs 230 out of 451
Neff 6.1
Searched_HMMs 46136
Date Thu Mar 28 16:53:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005997.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005997hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2194 Aminopeptidases of the 100.0 1E-107 3E-112 925.7 47.2 577 1-657 226-834 (834)
2 PF04389 Peptidase_M28: Peptid 98.0 8.1E-07 1.8E-11 86.6 -0.9 88 1-89 90-179 (179)
3 KOG2195 Transferrin receptor a 88.8 0.69 1.5E-05 55.0 6.1 74 6-82 443-517 (702)
4 PF10190 Tmemb_170: Putative t 59.4 85 0.0018 28.8 9.2 53 156-209 28-80 (105)
5 PF09940 DUF2172: Domain of un 45.1 24 0.00052 39.2 4.0 58 44-105 244-308 (386)
6 PF12911 OppC_N: N-terminal TM 36.4 39 0.00085 26.5 3.0 35 391-425 9-43 (56)
7 PF05297 Herpes_LMP1: Herpesvi 30.2 17 0.00037 38.7 0.0 12 289-300 163-174 (381)
8 COG1294 AppB Cytochrome bd-typ 27.1 8.9E+02 0.019 26.8 20.4 71 121-191 59-141 (346)
9 PF03176 MMPL: MMPL family; I 27.0 7.9E+02 0.017 26.1 15.6 36 172-211 169-204 (333)
10 PF05421 DUF751: Protein of un 24.8 3.1E+02 0.0068 22.7 6.4 28 377-404 14-41 (61)
11 COG2056 Predicted permease [Ge 22.5 7E+02 0.015 28.1 10.3 99 286-398 118-217 (444)
12 PF05297 Herpes_LMP1: Herpesvi 21.7 30 0.00066 36.9 0.0 14 586-599 322-335 (381)
13 COG5336 Uncharacterized protei 21.5 1.7E+02 0.0037 27.1 4.7 29 185-219 53-81 (116)
14 PF02009 Rifin_STEVOR: Rifin/s 21.1 98 0.0021 33.5 3.7 31 370-400 257-287 (299)
No 1
>KOG2194 consensus Aminopeptidases of the M20 family [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=100.00 E-value=1.5e-107 Score=925.71 Aligned_cols=577 Identities=28% Similarity=0.462 Sum_probs=504.0
Q ss_pred CCCCCcceeEecCCChhHHHHHHhhCCCCcccchHHHHHhCCCCCCCCcchhhhhcCCCceeeeeeecCCCcccCCCCCc
Q 005997 1 MGIGGKSGLFQAGPHPWAVENFAAAAKYPSGQVTAQDLFASGAITSATDFQVYKEVAGLSGLDFAYTDKSAVYHTKNDKL 80 (665)
Q Consensus 1 ~GsgG~~~lFqtg~~~~lv~~y~~~a~~P~a~sla~~if~~g~ipsdTDf~vf~~~g~i~GlD~A~~~~~~~YHT~~D~~ 80 (665)
+|+||||+|||+||++|++|+|++++|||||++++||+||+|+|||||||||||||||++|||||++.|||+|||++|.+
T Consensus 226 ~GsGGreiLFQagp~~wl~k~Y~~~~phPf~stlgee~Fq~g~IpSdTDfrif~eyg~l~GLD~A~~~Ng~vYHTk~D~~ 305 (834)
T KOG2194|consen 226 AGSGGREILFQAGPNHWLLKAYLQAAPHPFASTLGEELFQSGIIPSDTDFRIFREYGHLPGLDMAFVKNGYVYHTKYDGI 305 (834)
T ss_pred cCcccceeEEecCCchHHHHHHHhhCCCchhhhhHHHhhhcCcCccccchHHHHHhCCcccceeeeeeccceEEeecccc
Confidence 69999999999999559999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHHHHHHhhcCCCCCCCCCccccCCCCCCCeEEecccCceEEEeechHHHHHHHHHHHHHHHHhhh
Q 005997 81 DLLKPGSLQHLGENMLAFLLQAASSTSLPKGNAMEKEGKTVHETAVYFDILGTYMVLYRQGFANMLHNSVIVQSLLIWTA 160 (665)
Q Consensus 81 ~~i~~~slQh~G~n~L~l~~~l~~~~~l~~~~~~~~~~~~~~~~~VyFd~~g~~~v~y~~~~~~~ln~~v~~~~lll~~~ 160 (665)
++++|||+||+|||+|+++|.++|+ |++ +.++.+.+ +||||++|++|+.|+++++++||++++. .++ .
T Consensus 306 ~~i~~gs~q~tGen~L~~v~~lan~-el~------~~~~~~~g-~vyfdv~g~~~~~y~~~~~~iLNi~i~~---~i~-l 373 (834)
T KOG2194|consen 306 QYIPPGSLQHTGENILALVRSLANS-ELD------NSTERSKG-TVYFDVVGKYFLAYSESTGVILNITICI---SIW-L 373 (834)
T ss_pred cccCcchhhhhhhHHHHHHHHHhch-hhc------cccccCCC-ceehhhhhhhhheeehhhhhhhhhhhhh---hhh-h
Confidence 9999999999999999999999998 564 24556667 9999999999999999999999943332 222 2
Q ss_pred hhcccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005997 161 SLVMGGYPAAVSLALTCLSAILMLVFSVSFAVVIAFILPQISSSPVPYVANPWLAVGLFAAPAFLGALTGQHLGYIILKA 240 (665)
Q Consensus 161 sl~~~~~~~~~~~~~~~l~~~ls~~~~~~~~~lvA~~~~~~~~~~msw~s~~~l~igLy~~pal~g~~l~~~~~y~~l~~ 240 (665)
...+++...++++.+.++.+++++++++++++++|++++.++ .+|+||++||+++|||.||+++|+.+++.+ |....|
T Consensus 374 ~~~~~g~~~~~~f~~~~~~~i~s~~~~~~l~~~~a~~l~~v~-l~~sw~s~p~l~~~ly~~p~~~gl~~~~~~-y~~~~~ 451 (834)
T KOG2194|consen 374 MSLRSGSSQLGKFILACLLQILSIVVAIGLPVLVALFLDWVG-LPLSWFSNPWLLLGLYYLPSLFGLAILQAL-YAKRSK 451 (834)
T ss_pred hhhcccchhhhhHHHHHHHHHHHHHHHHhhHHHHHHHhhccc-ccceeecchHHHHHHHHhHHHHHhhHHHHH-HHhhcc
Confidence 333333345889999999999999999999999999999994 599999999999999999999999999987 544333
Q ss_pred HhhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccchHHHHHHHhHHHHHHHHHHHhhcCCcCCC
Q 005997 241 YLANMFSKRMQLSPIVQADLIKLEAERWLFKAGFLQWLILLALGNFYKIGSTFIALFWLVPPAFAYGFLEATLTPVRFPR 320 (665)
Q Consensus 241 ~~~~~~~~~~~ls~~~~~~~~~l~~~~~~~~a~~~~w~ll~i~~t~~~igSaYl~~i~~~f~l~a~~l~~~~l~~~~~~~ 320 (665)
+.+ +. .++.+++++|+ +|++|++++|++++||+|++++++++++++ .++++..+.|.++
T Consensus 452 ~~~--------~~--------~~~~~ql~~h~---~l~~l~~~~t~y~I~S~y~~~~~~~~~v~~--~~~~~~~~l~~~~ 510 (834)
T KOG2194|consen 452 RHS--------LE--------YLQHDQLLLHS---LLSILLIIMTYYGIRSAYLPLLLLLFYVIS--YLLNTLTILHLCG 510 (834)
T ss_pred ccc--------cc--------hhhHHHHHHHH---HHHHHHHHheecccchhHHHHHHHHHHHHH--HHHhhceeeccCC
Confidence 221 11 23567888887 788899999999999999999999999999 4467888899999
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHhhCCchHH
Q 005997 321 PLKLATLLLGLAVPVLVSAGNFIRLANVIVAIVVRFDRNPGGTPEWLGNVILAVFIAVVLCLTLVYLLSYVHLSGAKRPI 400 (665)
Q Consensus 321 ~~~~~~~l~~~~lP~l~~~~~~~~~~~vfipm~GR~g~~~~~~Pd~~~d~~Ia~~~a~~t~l~~~~llPli~~~~~~~~i 400 (665)
..|..++++||+.|+.+.+|.+++++.+|+|||||+|.+. ||| ++||.+++..+.+.+++++|+++++|+++.+
T Consensus 511 ~~~~~~~~i~~~~p~~~~ay~~~~~~~~fipm~Gr~g~~~--nPd----~~i~~~~~~~~~l~~~f~i~l~~~fr~~~~i 584 (834)
T KOG2194|consen 511 TLYLITLLICQVGPFLFAAYSTYSLVRTFIPMMGRFGNAS--NPD----LSISFLNAFGANLIVGFLIPLVHLFRRSKSI 584 (834)
T ss_pred ceeeeeeeeeehHhHHHHHHHHHHHHHeeeccccccCCCC--Cch----HHHHHHHHHHHHhhHHHHHHHHHHHcCCchh
Confidence 9999999999999999999999999999999999999865 998 9999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCC-CccceEEEEEEecCCCCCCC---CCCcceeeccCCCCC--------CchhhH-
Q 005997 401 AIASCVLFVLSLILVLSGTVPPFSED-TARAVNVVHVVDASGKFGGK---QEPSSFIALYSTTPG--------KLTKEV- 467 (665)
Q Consensus 401 ~~~l~~v~~~~~~~~~~~~~fPy~~~-~~~r~~~~hv~r~~~~~~~~---~d~~~~~~~~d~~~~--------~~t~~~- 467 (665)
+.+++.++.+++++++|+++|||+++ ++||++++|++|+++++.+. +|+++|+...|.... +.+++.
T Consensus 585 ~~~l~~I~~~~~~i~~T~~~fPy~~~~~~~r~~~lH~~rtf~~~~~~~~~~ds~~~i~~~D~r~~~~~~~~~~~~~~~~~ 664 (834)
T KOG2194|consen 585 ILGLFGITAVILIIASTSIGFPYRPKTTVQRVPVLHVRRTFYDRDGTSSQNDSGYFINSQDRRGAEVLPFTKSNLTDLSS 664 (834)
T ss_pred HHHHHHHHHHHHHHHhcCCcCCccccccceeEEEEecccceecccCceeecccceeeeecccccccCCcchhhccccccc
Confidence 99888888888888999999999977 56799999999999987777 799999999876543 233333
Q ss_pred --hhhccccccCCCccccccccccccceeeecCCCCcccCCCCC-------ceeeecccccccccccccCCCeEEEEEEE
Q 005997 468 --EQIKEGFVCGRDNVVDFVTLSMEYGCLTYDGTEGGWSQSDVP-------TIHVESEGFGIMDTKGNDNGRITKVSIDM 538 (665)
Q Consensus 468 --~~c~~~~~Cg~p~~~df~~~~~y~~~~~~~~~~~~w~~~~~P-------~l~~~~~~~~~~~~~~~~~~~~~r~~f~l 538 (665)
.+|+.+++||+| .|+ |.+.++++.|+|.++| .+.+++|+ ..+ +++.|++|++
T Consensus 665 ~~~~~~~~~~c~~p---------~y~--w~~~~~~~~~vp~~~~v~~~~~~~l~l~sk~-------~~~-~~~~r~~~~i 725 (834)
T KOG2194|consen 665 VQADCDDEMMCGMP---------VYN--WIKPREQSLWVPNPEPVIGPYPPNLKLLSKT-------SLD-NGNLRYEFSI 725 (834)
T ss_pred ccccccccccCCce---------eee--ccccCccceEecCCccccCCCCceEEEeecc-------ccC-CCceEEEEEE
Confidence 458999999999 887 9999999999999886 45566665 554 6689999999
Q ss_pred cCcCeEEEEecc---ceecceeeecCccccccCccCCCCCCcEEEEEEec-CCCcEEEEEEEEecCCCcccccccccccC
Q 005997 539 KGSVRWSLAIDA---EEIEDFTFKEGSEELVPRDEKSGMDGWHIIQFSGG-KNAVSKFDLDLYWAKNSTESYHNANRKEK 614 (665)
Q Consensus 539 ~g~~rmsl~i~p---~~i~~wSf~~~~~~~~~~~~~~~~~~~~~I~~~~g-~~~P~~F~l~l~~~~~~~~~~~~~~~~~~ 614 (665)
++++|+++||+| +++.+|||++. + ..+ +.+ +|+++++|| ++.|++||+|+++.++ ..
T Consensus 726 ~~~d~~s~~i~p~~d~~~~~wsf~~~---~--~~~--~~~-~~~i~~~yg~~~~p~~F~lel~~~~~-----------~~ 786 (834)
T KOG2194|consen 726 TGTDHISLFISPLNDVKVLDWSFTTS---P--LTE--NKT-PYHIYFSYGLDSTPLNFWLELEKEEG-----------VT 786 (834)
T ss_pred eccCceEEEEEecCCceEEEEeccCC---c--ccc--cCC-ceEEEEEeecCCCCceEEEEEeeccC-----------cc
Confidence 999999999999 69999999755 3 322 223 688888888 8999999999999944 77
Q ss_pred CCCeEEEe------ccccCCCHHHHHHHhcCCCcccccCCCCCcchhhh
Q 005997 615 QRPLLKLR------TDFDRLTPKTERVLSKLPAWCSLFGKSTSPQTLSF 657 (665)
Q Consensus 615 ~~p~~~l~------~~~~~~t~~~~~fl~~fP~wa~~~g~~~sp~~l~~ 657 (665)
++| +|++ +|.+++||+.++|+++||+||..++|++|+....|
T Consensus 787 ~v~-~k~~~~~h~~~~~~~~t~~~~~~~~~lP~~~~~~~~~~~~~~~~~ 834 (834)
T KOG2194|consen 787 DVP-FKLGVSAHYIHDLELITPEYKEFLETLPSWAATVDWSTSYESWIF 834 (834)
T ss_pred CCc-eEEeeeeeeccchhhcCHHHHHHHHhCCchhhccccccchhheeC
Confidence 888 8888 57889999999999999999999999999987654
No 2
>PF04389 Peptidase_M28: Peptidase family M28; InterPro: IPR007484 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found in metallopeptidases belonging to the MEROPS peptidase family M28 (aminopeptidase Y, clan MH) []. They also contain a transferrin receptor-like dimerisation domain (IPR007365 from INTERPRO) and a protease-associated PA domain (IPR003137 from INTERPRO).; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A 3BI1_A 2C6C_A ....
Probab=98.02 E-value=8.1e-07 Score=86.61 Aligned_cols=88 Identities=26% Similarity=0.430 Sum_probs=68.8
Q ss_pred CCCCCcceeEecCC-ChhHHHHHHhhCCCCcccchHHHHHhCCCCCCCCcchhhhhcCCCceeeeeeec-CCCcccCCCC
Q 005997 1 MGIGGKSGLFQAGP-HPWAVENFAAAAKYPSGQVTAQDLFASGAITSATDFQVYKEVAGLSGLDFAYTD-KSAVYHTKND 78 (665)
Q Consensus 1 ~GsgG~~~lFqtg~-~~~lv~~y~~~a~~P~a~sla~~if~~g~ipsdTDf~vf~~~g~i~GlD~A~~~-~~~~YHT~~D 78 (665)
.|.|++.+++++++ .++.++.+.+..++|.+.....+..+....+..+|...|.. .|+|++.+.... ....|||+.|
T Consensus 90 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sD~~~F~~-~gip~~~~~~~~~~~~~~Ht~~D 168 (179)
T PF04389_consen 90 IGSGDPTVYSEGSPSLPSRLEAYLSSFKQPYGSSLGPDVPPEKPTFGGSDHYPFSK-AGIPAVTLSSTDGYNPYYHTPED 168 (179)
T ss_dssp SBSSSSEEEEEEGGGHHHHHHHHHHHHHHHHHCHTSSECEEEESSTTSSTCHHHHT-TT-EEEEEEESSSSGTTTTSTT-
T ss_pred cccCcccceeeeeccccchhhhhhhhhhhhhhcccccccccccCCCCCCCcHhhhc-CCEeEEEEEecCCCCCCCCCccc
Confidence 37888999999766 45556666655556777777666765566888999999996 999999999999 8899999999
Q ss_pred CcCCCCcchHH
Q 005997 79 KLDLLKPGSLQ 89 (665)
Q Consensus 79 ~~~~i~~~slQ 89 (665)
+++++++++||
T Consensus 169 t~~~~~~~~l~ 179 (179)
T PF04389_consen 169 TPDNLDPDTLQ 179 (179)
T ss_dssp SGGGC-HHHH-
T ss_pred ChhhcCCccCC
Confidence 99999999998
No 3
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=88.85 E-value=0.69 Score=55.02 Aligned_cols=74 Identities=18% Similarity=0.351 Sum_probs=52.5
Q ss_pred cceeEecCC-ChhHHHHHHhhCCCCcccchHHHHHhCCCCCCCCcchhhhhcCCCceeeeeeecCCCcccCCCCCcCC
Q 005997 6 KSGLFQAGP-HPWAVENFAAAAKYPSGQVTAQDLFASGAITSATDFQVYKEVAGLSGLDFAYTDKSAVYHTKNDKLDL 82 (665)
Q Consensus 6 ~~~lFqtg~-~~~lv~~y~~~a~~P~a~sla~~if~~g~ipsdTDf~vf~~~g~i~GlD~A~~~~~~~YHT~~D~~~~ 82 (665)
-.+-.+|+| -.-+++.=++..++|.-.-..+.+= . ...||||.-|-.|.|||+.|++|-.....|||.+||++.
T Consensus 443 ~~l~~~~~PlL~~li~~~~k~~~~p~~~~~~~~v~--~-~g~~Sd~~~F~~~~GIpsv~~~f~~~yP~yhs~~dt~~~ 517 (702)
T KOG2195|consen 443 YTLHVKTTPLLTDLIEEAAKSVLSPDKGDQSNRVL--S-LGGGSDYASFLQFAGIPSVDFAFNRTYPFYHSTYDTYEW 517 (702)
T ss_pred ceeEEecCccHHHHHHHHHhccCCCCccccceeEe--c-cCCCCcchhhccccCcceeeeeecCCcceeecccCcHHH
Confidence 344555655 3444444444456666544444222 2 489999999999999999999999999999999999433
No 4
>PF10190 Tmemb_170: Putative transmembrane protein 170; InterPro: IPR019334 This entry represents a group of putative transmembrane proteins conserved from nematodes to humans. The protein is only approximately 130 amino acids in length. The function is unknown.
Probab=59.36 E-value=85 Score=28.79 Aligned_cols=53 Identities=11% Similarity=-0.011 Sum_probs=38.1
Q ss_pred HHhhhhhcccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCcccc
Q 005997 156 LIWTASLVMGGYPAAVSLALTCLSAILMLVFSVSFAVVIAFILPQISSSPVPYV 209 (665)
Q Consensus 156 ll~~~sl~~~~~~~~~~~~~~~l~~~ls~~~~~~~~~lvA~~~~~~~~~~msw~ 209 (665)
++-+..+++-+......+.....+.+.++..+.+.+.++|.++.+- +..|++.
T Consensus 28 liA~~~lRkhk~~~f~pi~~l~mg~l~p~~~G~itSa~IA~vY~a~-~~~M~~~ 80 (105)
T PF10190_consen 28 LIAFFTLRKHKFGRFIPIVILLMGVLGPLTGGSITSAAIAGVYRAA-GFRMSTW 80 (105)
T ss_pred HHHHHHHhhccchhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHc-CCcccHH
Confidence 3334455554444556677777777888888999999999999875 6788875
No 5
>PF09940 DUF2172: Domain of unknown function (DUF2172); InterPro: IPR012353 The proteins in this entry are encoded by genes located in polysaccharide biosynthesis gene clusters, and are therefore believed to be involved in polysaccharide biosynthesis. The ste gene cluster (for Streptomyces eps) is involved in exopolysaccharide EPS 139A biosynthesis in Streptomyces sp. 139 []. Members of this group exhibit distant sequence similarity to aminopeptidases (IPR007484 from INTERPRO, MEROPS peptidase family M28).; PDB: 3K9T_A.
Probab=45.09 E-value=24 Score=39.18 Aligned_cols=58 Identities=24% Similarity=0.360 Sum_probs=39.3
Q ss_pred CCCCCcchhhhhcCCCceeeeee--ecCCC-----cccCCCCCcCCCCcchHHHHHHHHHHHHHHhhcC
Q 005997 44 ITSATDFQVYKEVAGLSGLDFAY--TDKSA-----VYHTKNDKLDLLKPGSLQHLGENMLAFLLQAASS 105 (665)
Q Consensus 44 ipsdTDf~vf~~~g~i~GlD~A~--~~~~~-----~YHT~~D~~~~i~~~slQh~G~n~L~l~~~l~~~ 105 (665)
.|-..|=|+|-. ||+|+.. +.++- -|||..|+++-|+|..|+..-+-++..+..|=+.
T Consensus 244 ~~~GsDERQfcS----PG~dLPv~~~~Rs~yg~ypEYHTS~Dnl~fi~p~~L~~s~~~~~~~i~~lE~n 308 (386)
T PF09940_consen 244 LPRGSDERQFCS----PGFDLPVGSLMRSKYGEYPEYHTSLDNLDFISPEGLEGSFEVLLEAIEILENN 308 (386)
T ss_dssp -S-SSTHHHHTS----TTT---EEEEESS-TT--TTTTBTTSSGGG--HHHHHHHHHHHHHHHHHHHH-
T ss_pred cccCCCcceeec----CCcCCceeeeecccccCCcccccCCCccccCCHHHHHHHHHHHHHHHHHHhcC
Confidence 567778888865 7866543 33333 7999999999999999999888888888777543
No 6
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=36.39 E-value=39 Score=26.51 Aligned_cols=35 Identities=14% Similarity=0.312 Sum_probs=21.5
Q ss_pred HHhhCCchHHHHHHHHHHHHHHHHHHhCCCCCCCC
Q 005997 391 VHLSGAKRPIAIASCVLFVLSLILVLSGTVPPFSE 425 (665)
Q Consensus 391 i~~~~~~~~i~~~l~~v~~~~~~~~~~~~~fPy~~ 425 (665)
..+++|.|.-+.++.++.++.++....+...||++
T Consensus 9 ~~~f~~nk~a~~gl~il~~~vl~ai~~p~~~p~~~ 43 (56)
T PF12911_consen 9 WRRFRRNKLAVIGLIILLILVLLAIFAPFISPYDP 43 (56)
T ss_pred HHHHHhCchHHHHHHHHHHHHHHHHHHHHcCCCCc
Confidence 45666666666666555555555556666688854
No 7
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=30.24 E-value=17 Score=38.73 Aligned_cols=12 Identities=25% Similarity=0.772 Sum_probs=0.0
Q ss_pred ccchHHHHHHHh
Q 005997 289 IGSTFIALFWLV 300 (665)
Q Consensus 289 igSaYl~~i~~~ 300 (665)
|=..-.=+.|++
T Consensus 163 WfT~L~dL~WL~ 174 (381)
T PF05297_consen 163 WFTILVDLYWLL 174 (381)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 333333345544
No 8
>COG1294 AppB Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]
Probab=27.12 E-value=8.9e+02 Score=26.84 Aligned_cols=71 Identities=11% Similarity=0.103 Sum_probs=37.7
Q ss_pred CCCCeEEecccCce-EEEeechHHHHHHHHHHHHHH---HHhhhhh---cccCh-----hhHHHHHHHHHHHHHHHHHHH
Q 005997 121 VHETAVYFDILGTY-MVLYRQGFANMLHNSVIVQSL---LIWTASL---VMGGY-----PAAVSLALTCLSAILMLVFSV 188 (665)
Q Consensus 121 ~~~~~VyFd~~g~~-~v~y~~~~~~~ln~~v~~~~l---ll~~~sl---~~~~~-----~~~~~~~~~~l~~~ls~~~~~ 188 (665)
=+++.|++=..|.. +-.+|..-+.++...-+-..+ .++.+++ .|+++ +..-..+.++.+.+..++.++
T Consensus 59 WD~NeVWLVl~ggalfaaFP~~ya~~~s~lYip~~~~L~~Li~R~v~fefR~k~~~~~~k~~wd~~~~igs~~~~~~~Gv 138 (346)
T COG1294 59 WDGNEVWLVLAGGALFAAFPLAYATLFSGLYLPMILVLFGLIFRGVAFEFRSKIEDPRWKKFWDWAFFIGSFLPPLLLGV 138 (346)
T ss_pred cccccchhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccChhhHhHHHHHHHhhhHHHHHHHHH
Confidence 35677888766443 667887777766543332222 2333433 12211 122245566666666666666
Q ss_pred HHH
Q 005997 189 SFA 191 (665)
Q Consensus 189 ~~~ 191 (665)
.++
T Consensus 139 alg 141 (346)
T COG1294 139 ALG 141 (346)
T ss_pred HHH
Confidence 665
No 9
>PF03176 MMPL: MMPL family; InterPro: IPR004869 Proteins of this entry are putative integral membrane proteins from bacteria. Several of the members are mycobacterial proteins. Many of the proteins contain two copies of this aligned region. The function of these proteins is not known, although it has been suggested that they may be involved in lipid transport [].; GO: 0016020 membrane
Probab=26.98 E-value=7.9e+02 Score=26.15 Aligned_cols=36 Identities=14% Similarity=0.452 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCcccccc
Q 005997 172 SLALTCLSAILMLVFSVSFAVVIAFILPQISSSPVPYVAN 211 (665)
Q Consensus 172 ~~~~~~l~~~ls~~~~~~~~~lvA~~~~~~~~~~msw~s~ 211 (665)
..++.+++.+++++.++++..+ +.. ..+-+++|+..
T Consensus 169 ~~l~~l~~~~~~~~~~~g~~~~---~~~-~~~~~~~~~~~ 204 (333)
T PF03176_consen 169 AALLPLLPVLLSIVWTLGLVAL---LMG-LLGIPLSWITP 204 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHH-hhccccceeeh
Confidence 3444555555555555444111 111 11446777644
No 10
>PF05421 DUF751: Protein of unknown function (DUF751); InterPro: IPR008470 This family, Ycf33, contains several plant, cyanobacterial and algal chlorplast encoded proteins of unknown function. The family is exclusively found in phototrophic organisms and may therefore play a role in photosynthesis.
Probab=24.75 E-value=3.1e+02 Score=22.72 Aligned_cols=28 Identities=18% Similarity=0.070 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHhhCCchHHHHHH
Q 005997 377 AVVLCLTLVYLLSYVHLSGAKRPIAIAS 404 (665)
Q Consensus 377 a~~t~l~~~~llPli~~~~~~~~i~~~l 404 (665)
+.+..+....+-|+..+.|++..-+...
T Consensus 14 s~~lG~~~~~~~pl~~llk~p~tai~~i 41 (61)
T PF05421_consen 14 SVMLGLFLIIFEPLKPLLKNPVTAIALI 41 (61)
T ss_pred HHHHHHHHHHHHHHHHHhcCchHHHHHH
Confidence 3344455678899999999987655544
No 11
>COG2056 Predicted permease [General function prediction only]
Probab=22.48 E-value=7e+02 Score=28.08 Aligned_cols=99 Identities=20% Similarity=0.291 Sum_probs=44.8
Q ss_pred hhhccchHHHHHHHhHHHHHHHHHHHhhcCCcCCCChHHHHHHHHHHHHHHHHHHHHHHHH-HHHhccccccCCCCCCCC
Q 005997 286 FYKIGSTFIALFWLVPPAFAYGFLEATLTPVRFPRPLKLATLLLGLAVPVLVSAGNFIRLA-NVIVAIVVRFDRNPGGTP 364 (665)
Q Consensus 286 ~~~igSaYl~~i~~~f~l~a~~l~~~~l~~~~~~~~~~~~~~l~~~~lP~l~~~~~~~~~~-~vfipm~GR~g~~~~~~P 364 (665)
..-+--||++. ++.|+++ + .|. .+-.|+.-...+-.++..|++..=+-|-+.| .+...-+-..|. +
T Consensus 118 liPVHIAFIPi--lIPPLL~--l-fn~---LkiDRR~vAc~ltFGL~apYi~LPvGFG~IF~~ii~~n~~~a~~-----~ 184 (444)
T COG2056 118 LIPVHIAFIPI--LIPPLLS--L-FNK---LKIDRRLVACVLTFGLTAPYILLPVGFGLIFQSIILDNINAAGV-----S 184 (444)
T ss_pred ccceeeeeehh--hhhHHHH--H-HHH---hhhhHHHHHHHhhcccccceeEecchHHHHHHHHHHHHHHhcCC-----C
Confidence 34445666653 3445654 2 333 2222232333445667778775433333322 333322211111 1
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHhhCCch
Q 005997 365 EWLGNVILAVFIAVVLCLTLVYLLSYVHLSGAKR 398 (665)
Q Consensus 365 d~~~d~~Ia~~~a~~t~l~~~~llPli~~~~~~~ 398 (665)
.-+.++--|..+. ...+.+|+++-++..+||+|
T Consensus 185 ~~~~~V~~am~ip-~lgMi~GLl~ai~~~YrKpR 217 (444)
T COG2056 185 LSVNQVPKAMWIP-GLGMIVGLLLAIFVSYRKPR 217 (444)
T ss_pred cchhhhHHHHHHH-HHHHHHHHHHHHHHhhcCCc
Confidence 1111222232222 33456788888888777765
No 12
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=21.73 E-value=30 Score=36.91 Aligned_cols=14 Identities=7% Similarity=0.007 Sum_probs=0.0
Q ss_pred CCCcEEEEEEEEec
Q 005997 586 KNAVSKFDLDLYWA 599 (665)
Q Consensus 586 ~~~P~~F~l~l~~~ 599 (665)
+..|=+..=+++..
T Consensus 322 dggPp~Lt~~ve~~ 335 (381)
T PF05297_consen 322 DGGPPKLTEEVENK 335 (381)
T ss_dssp --------------
T ss_pred CCCCCccccccccC
Confidence 45555555555543
No 13
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.48 E-value=1.7e+02 Score=27.10 Aligned_cols=29 Identities=14% Similarity=0.447 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHhhhccCCCCCcccccchhHHHHHH
Q 005997 185 VFSVSFAVVIAFILPQISSSPVPYVANPWLAVGLF 219 (665)
Q Consensus 185 ~~~~~~~~lvA~~~~~~~~~~msw~s~~~l~igLy 219 (665)
+.++...+++++++|.+.+ +.||-.|.+-
T Consensus 53 IsGilVGa~iG~llD~~ag------TsPwglIv~l 81 (116)
T COG5336 53 ISGILVGAGIGWLLDKFAG------TSPWGLIVFL 81 (116)
T ss_pred HHHHHHHHHHHHHHHHhcC------CCcHHHHHHH
Confidence 3444556677788898754 5677555543
No 14
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=21.10 E-value=98 Score=33.49 Aligned_cols=31 Identities=16% Similarity=0.357 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCchHH
Q 005997 370 VILAVFIAVVLCLTLVYLLSYVHLSGAKRPI 400 (665)
Q Consensus 370 ~~Ia~~~a~~t~l~~~~llPli~~~~~~~~i 400 (665)
.++|+++|++++.+.-..+=+|-|+||||++
T Consensus 257 ~I~aSiiaIliIVLIMvIIYLILRYRRKKKm 287 (299)
T PF02009_consen 257 AIIASIIAILIIVLIMVIIYLILRYRRKKKM 287 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 6888888888888888888899999997654
Done!