Query 031462
Match_columns 159
No_of_seqs 77 out of 79
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 14:27:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031462.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031462hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05512 AWPM-19: AWPM-19-like 100.0 2.7E-79 5.9E-84 482.4 14.3 142 15-156 1-142 (142)
2 PF14118 YfzA: YfzA-like prote 48.6 11 0.00023 28.9 1.4 70 14-83 19-89 (94)
3 KOG4268 Uncharacterized conser 45.0 89 0.0019 26.5 6.4 76 12-90 65-160 (189)
4 PF11712 Vma12: Endoplasmic re 43.9 1.2E+02 0.0026 23.3 6.7 48 11-81 78-126 (142)
5 PHA00736 hypothetical protein 36.6 42 0.00092 24.7 2.9 13 65-77 60-72 (79)
6 PF05653 Mg_trans_NIPA: Magnes 31.5 90 0.0019 27.1 4.6 48 25-97 223-270 (300)
7 cd03394 PAP2_like_5 PAP2_like_ 31.1 2E+02 0.0043 20.5 6.7 47 19-68 5-52 (106)
8 PF03419 Peptidase_U4: Sporula 29.8 3.5E+02 0.0075 23.0 8.5 28 12-39 7-34 (293)
9 KOG3145 Cystine transporter Cy 26.9 4.1E+02 0.009 24.7 8.1 63 60-122 195-257 (372)
10 PF10821 DUF2567: Protein of u 24.4 2.5E+02 0.0053 23.3 5.7 59 60-119 38-99 (167)
11 COG3346 Uncharacterized conser 23.6 1.1E+02 0.0023 26.8 3.7 33 3-35 6-38 (252)
12 TIGR02854 spore_II_GA sigma-E 23.3 4.9E+02 0.011 22.5 7.8 28 12-39 7-34 (288)
13 PF07043 DUF1328: Protein of u 23.0 53 0.0012 21.4 1.3 15 67-81 3-17 (39)
14 PF04725 PsbR: Photosystem II 22.9 91 0.002 24.1 2.7 31 51-81 49-88 (99)
15 KOG4255 Uncharacterized conser 21.5 1E+02 0.0022 29.2 3.2 65 44-119 179-283 (439)
16 COG5487 Small integral membran 21.3 66 0.0014 22.5 1.6 14 67-80 8-21 (54)
17 PF07344 Amastin: Amastin surf 21.2 50 0.0011 25.8 1.1 20 125-144 56-75 (155)
18 PRK11837 undecaprenyl pyrophos 21.0 4.6E+02 0.01 21.4 8.4 47 57-107 105-165 (202)
19 PF10399 UCR_Fe-S_N: Ubiquitin 21.0 2.1E+02 0.0045 18.5 3.8 28 65-94 12-40 (41)
20 PF06541 DUF1113: Protein of u 20.5 1.5E+02 0.0032 23.3 3.6 78 20-98 2-95 (157)
No 1
>PF05512 AWPM-19: AWPM-19-like family; InterPro: IPR008390 Members of this family are 19 kDa membrane proteins. The levels of the plant protein AWPM-19 increase dramatically when there is an increase level of abscisic acid. The increase presence of this protein leads to greater tolerance of freezing [].
Probab=100.00 E-value=2.7e-79 Score=482.39 Aligned_cols=142 Identities=74% Similarity=1.228 Sum_probs=140.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhcccccCCCCCCCCCcCcccccCCchhHHHHHHHHHHHHHHHHHHHhhhhhhhhccCC
Q 031462 15 VLNFCMFVIVLGIGGWAMNRAIEHGFVIGPSFELPAHFSPIYFPMGNAATGFFVTFALIAGVVGAASCIAGLNHVRVWTA 94 (159)
Q Consensus 15 ~lN~~mY~ivlgiagWalN~~id~g~~~~~~~~~pa~~~Piyfp~GN~AT~ffv~faLiAgVVG~aS~l~Gl~Hvr~W~~ 94 (159)
++|||||+|++|||||++||+||||++++|++++|+|||||||||||.||+||++|+|||||||++|+++|++|+|+||+
T Consensus 1 ~LN~~mY~ivl~iagWalN~~id~g~~~~~~~~~Pa~~~piyfp~GN~AT~ffv~faLlAgVVG~aS~l~G~~h~r~W~~ 80 (142)
T PF05512_consen 1 VLNFCMYVIVLGIAGWALNRAIDHGFEIGPGLGLPAHFSPIYFPMGNAATGFFVIFALLAGVVGAASVLAGLHHVRSWRS 80 (142)
T ss_pred CeehHHHHHHHHHHHHHHHHHhccCcccCCCCCCCCCcCceeccccchhHHHHHHHHHHHHHHHHHHHHhhHHHHhhcCc
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHHHHHHHHHHHHhchhcceeeccccccchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 031462 95 DSMPAAASAATIAWTLTLLAAGFACKEIELHIRNARLRTMEAFLIILSVTQLLYIAAIHGGA 156 (159)
Q Consensus 95 ~SLaaAaa~a~iAWaLTlLAmGlACKEI~lg~R~~rLrtLEaf~IIl~~TQLlY~l~lHag~ 156 (159)
|||+||+|+++|||++|+||||+||||||+|+||+||||||+|+||+++|||+|++++|+|.
T Consensus 81 ~sLaaAaa~a~iAW~lTlLAmGlACKeI~~g~r~~rLrtlEaf~IIl~~tQLly~l~lH~g~ 142 (142)
T PF05512_consen 81 ESLAAAAASALIAWALTLLAMGLACKEIHLGGRNWRLRTLEAFTIILSATQLLYLLALHAGV 142 (142)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhHheeeecCccchhhHHHHHHHHHHHHHHHHHHHHhccC
Confidence 99999999999999999999999999999999999999999999999999999999999984
No 2
>PF14118 YfzA: YfzA-like protein
Probab=48.62 E-value=11 Score=28.87 Aligned_cols=70 Identities=26% Similarity=0.298 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhcccccCCCCCCCCCcCccc-ccCCchhHHHHHHHHHHHHHHHHHHHh
Q 031462 14 LVLNFCMFVIVLGIGGWAMNRAIEHGFVIGPSFELPAHFSPIY-FPMGNAATGFFVTFALIAGVVGAASCI 83 (159)
Q Consensus 14 L~lN~~mY~ivlgiagWalN~~id~g~~~~~~~~~pa~~~Piy-fp~GN~AT~ffv~faLiAgVVG~aS~l 83 (159)
-++=.=+++|+.-..||.-|-.-++-++.--++++=-.+++.| .|-=|.-|.||.++-++.|++|+-.-+
T Consensus 19 iF~i~QLlFi~~d~t~w~pnf~~g~~~~~iv~l~~FteW~t~Y~~p~fN~~Tv~~gi~lli~~lig~~kdi 89 (94)
T PF14118_consen 19 IFLIVQLLFIIFDGTGWGPNFNEGDFFARIVNLKFFTEWFTPYKSPQFNLFTVFFGITLLIQGLIGAIKDI 89 (94)
T ss_pred HHHHHHHHHHHhhccccccccCCCchHHHHhcCHHHHhhcccccCchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3344456788888999988643321111111222222244445 889999999999999999999987543
No 3
>KOG4268 consensus Uncharacterized conserved protein containing PAP2 domain [Function unknown]
Probab=44.97 E-value=89 Score=26.48 Aligned_cols=76 Identities=24% Similarity=0.352 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhcc--cccCCCCCCCCCcCccc-ccCCchhHHHHH-----------------HHH
Q 031462 12 LLLVLNFCMFVIVLGIGGWAMNRAIEHG--FVIGPSFELPAHFSPIY-FPMGNAATGFFV-----------------TFA 71 (159)
Q Consensus 12 ~LL~lN~~mY~ivlgiagWalN~~id~g--~~~~~~~~~pa~~~Piy-fp~GN~AT~ffv-----------------~fa 71 (159)
.|..+|+.+|+=++-+|. +.+.+.|- .+++|.+. -++=.-|| ||.|...-.+|+ .+-
T Consensus 65 ~Lv~llLgLlfDli~vai--vk~~f~R~rP~~t~pS~l-~~~t~DiYsFPsGHaSRaamv~~~~l~~a~~a~Plyv~l~~ 141 (189)
T KOG4268|consen 65 VLVNLLLGLLFDLITVAI--VKKLFKRRRPYETSPSLL-DYLTMDIYSFPSGHASRAAMVSKFFLSHAVLAVPLYVLLLV 141 (189)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHhcCcccCCHHHH-HHHhhhhhcCCCcchHHHHHHHHHHHHHHHhccchhHHHHH
Confidence 455666666654444443 23344432 33333321 22223466 899988777766 356
Q ss_pred HHHHHHHHHHHhhhhhhhh
Q 031462 72 LIAGVVGAASCIAGLNHVR 90 (159)
Q Consensus 72 LiAgVVG~aS~l~Gl~Hvr 90 (159)
+-|=|||+.=++-|=||+.
T Consensus 142 ~walvvglSRv~lGRHyvt 160 (189)
T KOG4268|consen 142 LWALVVGLSRVMLGRHYVT 160 (189)
T ss_pred HHHHHHHHHHHHHhhHHHH
Confidence 6788999999999998874
No 4
>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=43.90 E-value=1.2e+02 Score=23.29 Aligned_cols=48 Identities=19% Similarity=0.290 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH-HhhhhhhcccccCCCCCCCCCcCcccccCCchhHHHHHHHHHHHHHHHHHH
Q 031462 11 SLLLVLNFCMFVIVLGIGGW-AMNRAIEHGFVIGPSFELPAHFSPIYFPMGNAATGFFVTFALIAGVVGAAS 81 (159)
Q Consensus 11 ~~LL~lN~~mY~ivlgiagW-alN~~id~g~~~~~~~~~pa~~~Piyfp~GN~AT~ffv~faLiAgVVG~aS 81 (159)
-+.+++|+++=++..+++|| ...... |+.-+++=+.++|.+|++...+
T Consensus 78 qls~v~Nilvsv~~~~~~~~~~~~~~~-----------------------~~~~~~~Rvllgl~~al~vlvA 126 (142)
T PF11712_consen 78 QLSTVFNILVSVFAVFFAGWYWAGYSF-----------------------GGWSFPYRVLLGLFGALLVLVA 126 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh-----------------------cccchHHHHHHHHHHHHHHHHH
Confidence 35689999999999999999 555444 1222355677778777766543
No 5
>PHA00736 hypothetical protein
Probab=36.63 E-value=42 Score=24.71 Aligned_cols=13 Identities=62% Similarity=0.971 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHH
Q 031462 65 GFFVTFALIAGVV 77 (159)
Q Consensus 65 ~ffv~faLiAgVV 77 (159)
+-=++|.||||+|
T Consensus 60 gi~vifgliag~v 72 (79)
T PHA00736 60 GITVIFGLIAGLV 72 (79)
T ss_pred HHHHHHHHHHHHh
Confidence 4458999999986
No 6
>PF05653 Mg_trans_NIPA: Magnesium transporter NIPA; InterPro: IPR008521 This family consists of several eukaryotic proteins of unknown function.
Probab=31.45 E-value=90 Score=27.08 Aligned_cols=48 Identities=17% Similarity=0.303 Sum_probs=31.8
Q ss_pred HHHHHHHhhhhhhcccccCCCCCCCCCcCcccccCCchhHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCCch
Q 031462 25 LGIGGWAMNRAIEHGFVIGPSFELPAHFSPIYFPMGNAATGFFVTFALIAGVVGAASCIAGLNHVRVWTADSM 97 (159)
Q Consensus 25 lgiagWalN~~id~g~~~~~~~~~pa~~~Piyfp~GN~AT~ffv~faLiAgVVG~aS~l~Gl~Hvr~W~~~SL 97 (159)
+.+--+.+||+.|+. .+....|+|+ .||..++.++| +-.-+.|+..+.
T Consensus 223 ~~~Q~~~LN~aL~~f--------d~~~V~P~~~-------v~~t~~~i~~g----------~i~f~e~~~~~~ 270 (300)
T PF05653_consen 223 AVLQLYYLNKALKRF--------DTSLVVPVYY-------VFFTLSSIIGG----------AIFFQEFSRMTA 270 (300)
T ss_pred HHHHHHHHHHHHHhc--------cceEEEeehh-------HHHHHHHHHHH----------HHHhcccccccH
Confidence 344557899999963 2334578777 66666666555 456778877763
No 7
>cd03394 PAP2_like_5 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.
Probab=31.08 E-value=2e+02 Score=20.50 Aligned_cols=47 Identities=13% Similarity=0.104 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhhhhhhcccccCCCCCCCCCcCccc-ccCCchhHHHHH
Q 031462 19 CMFVIVLGIGGWAMNRAIEHGFVIGPSFELPAHFSPIY-FPMGNAATGFFV 68 (159)
Q Consensus 19 ~mY~ivlgiagWalN~~id~g~~~~~~~~~pa~~~Piy-fp~GN~AT~ffv 68 (159)
.+++....+.+..+|..+++........... .+.| ||.|-.++.|.+
T Consensus 5 ~~~~~~~~~~~~~~~~~lK~~~~r~RP~~~~---~~~~sfPSgHa~~a~~~ 52 (106)
T cd03394 5 LLILAEAAALTAAVTEGLKFAVGRARPDGSN---NGYRSFPSGHTASAFAA 52 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCccCcHHHHHHHHH
Confidence 3445555556666776665432211111111 2333 899998887644
No 8
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=29.84 E-value=3.5e+02 Score=22.97 Aligned_cols=28 Identities=21% Similarity=0.303 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhcc
Q 031462 12 LLLVLNFCMFVIVLGIGGWAMNRAIEHG 39 (159)
Q Consensus 12 ~LL~lN~~mY~ivlgiagWalN~~id~g 39 (159)
.+++.||+|..+++-+.++.+++.....
T Consensus 7 v~fl~N~~md~~lL~~t~~~~~~~~~~~ 34 (293)
T PF03419_consen 7 VLFLVNFLMDYFLLWLTARLLKRRASRW 34 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcHH
Confidence 4688999999999999999999877744
No 9
>KOG3145 consensus Cystine transporter Cystinosin [Amino acid transport and metabolism]
Probab=26.90 E-value=4.1e+02 Score=24.70 Aligned_cols=63 Identities=19% Similarity=0.107 Sum_probs=49.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCCchHHHHHHHHHHHHHHHHHhchhccee
Q 031462 60 GNAATGFFVTFALIAGVVGAASCIAGLNHVRVWTADSMPAAASAATIAWTLTLLAAGFACKEI 122 (159)
Q Consensus 60 GN~AT~ffv~faLiAgVVG~aS~l~Gl~Hvr~W~~~SLaaAaa~a~iAWaLTlLAmGlACKEI 122 (159)
=|..|.+=+.|+|=|.+.-.-.-+--+..-|.|+..|-.=|-..=.|.|.++...|+.|-+..
T Consensus 195 ~~pv~~nDv~fslHa~lmt~Iti~Qc~~yeR~~q~vs~~ialgil~i~~~f~~~~~~va~~~~ 257 (372)
T KOG3145|consen 195 VPPVTLNDVVFSLHAVLMTVITILQCFFYERGWQRVSKGIALGILAIFWLFAVVFMYVAYWYV 257 (372)
T ss_pred CCccchhhhhhhHHHHHHHHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 355677767777777766666666666778999999998677777899999999999987643
No 10
>PF10821 DUF2567: Protein of unknown function (DUF2567); InterPro: IPR021213 This is a bacterial family of proteins with unknown function.
Probab=24.41 E-value=2.5e+02 Score=23.29 Aligned_cols=59 Identities=22% Similarity=0.240 Sum_probs=42.1
Q ss_pred CchhHHHH---HHHHHHHHHHHHHHHhhhhhhhhccCCCchHHHHHHHHHHHHHHHHHhchhc
Q 031462 60 GNAATGFF---VTFALIAGVVGAASCIAGLNHVRVWTADSMPAAASAATIAWTLTLLAAGFAC 119 (159)
Q Consensus 60 GN~AT~ff---v~faLiAgVVG~aS~l~Gl~Hvr~W~~~SLaaAaa~a~iAWaLTlLAmGlAC 119 (159)
|++..-+| -+|.++.-++|+-+.++--. .|.||.+-+..+.+.+.++=+...-.+|-..
T Consensus 38 ~~e~~~~F~a~a~f~~l~lv~Gvvaav~~W~-~R~~RGP~~~~~l~~Gsv~aa~lA~~vG~~v 99 (167)
T PF10821_consen 38 GGESEHFFDADALFVLLGLVLGVVAAVAVWL-WRRRRGPVMVLALAVGSVAAAALAARVGAWV 99 (167)
T ss_pred CCcchhHhhHHHHHHHHHHHHHHHHHHHHHH-HHhhcCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55554444 57888899999999998888 9999999998887776665444333334333
No 11
>COG3346 Uncharacterized conserved protein [Function unknown]
Probab=23.58 E-value=1.1e+02 Score=26.85 Aligned_cols=33 Identities=36% Similarity=0.733 Sum_probs=25.3
Q ss_pred CCCchhhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031462 3 NTQMKPVASLLLVLNFCMFVIVLGIGGWAMNRA 35 (159)
Q Consensus 3 ~g~~k~~a~~LL~lN~~mY~ivlgiagWalN~~ 35 (159)
+.+.+.-..+++++=+.+|.|.++++.|-+-|.
T Consensus 6 ~~~~~~~~~~l~~l~~~~~~il~~LGtWQl~Rl 38 (252)
T COG3346 6 STRRRRWLALLLLLVLATFAILLGLGTWQLQRL 38 (252)
T ss_pred cccccchhHHHHHHHHHHHHHHHhhhhhhhhhH
Confidence 344455556678899999999999999987553
No 12
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA. Members of this protein family are the stage II sporulation protein SpoIIGA. This protein acts as an activating protease for Sigma-E, one of several specialized sigma factors of the sporulation process in Bacillus subtilis and related endospore-forming bacteria.
Probab=23.33 E-value=4.9e+02 Score=22.45 Aligned_cols=28 Identities=11% Similarity=0.223 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhcc
Q 031462 12 LLLVLNFCMFVIVLGIGGWAMNRAIEHG 39 (159)
Q Consensus 12 ~LL~lN~~mY~ivlgiagWalN~~id~g 39 (159)
.+.+.||+|-.+++-+.++.+.+...+.
T Consensus 7 v~~l~Nf~~d~~LL~~t~~~lk~~~~~~ 34 (288)
T TIGR02854 7 VVFLENFIIDYFLLYLTARTLKDKVSQW 34 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccchHH
Confidence 3678999999999999999999877743
No 13
>PF07043 DUF1328: Protein of unknown function (DUF1328); InterPro: IPR009760 This entry represents several hypothetical bacterial proteins of around 50 residues in length. The function of this family is unknown but is thought to be a membrane protein.; GO: 0005886 plasma membrane
Probab=22.96 E-value=53 Score=21.36 Aligned_cols=15 Identities=53% Similarity=0.866 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHH
Q 031462 67 FVTFALIAGVVGAAS 81 (159)
Q Consensus 67 fv~faLiAgVVG~aS 81 (159)
|++.|++||+.|...
T Consensus 3 FliiAliAg~lGF~G 17 (39)
T PF07043_consen 3 FLIIALIAGVLGFGG 17 (39)
T ss_pred hHHHHHHHHHcCccc
Confidence 788999999998754
No 14
>PF04725 PsbR: Photosystem II 10 kDa polypeptide PsbR; InterPro: IPR006814 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight intrinsic protein PsbR found in PSII, which is also known as the 10 kDa polypeptide. The PsbR gene is found only in the nucleus of green algae and higher plants. PsbR may provide a binding site for the extrinsic oxygen-evolving complex protein PsbP to the thylakoid membrane. PsbR has a transmembrane domain to anchor it to the thylakoid membrane, and a charged N-terminal domain capable of forming ion bridges with extrinsic proteins, allowing PsbR to act as a docking protein. PsbR may be a pH-dependent stabilising protein that functions at both donor and acceptor sides of PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0042651 thylakoid membrane
Probab=22.87 E-value=91 Score=24.12 Aligned_cols=31 Identities=35% Similarity=0.775 Sum_probs=20.6
Q ss_pred CcCccccc-----CCch----hHHHHHHHHHHHHHHHHHH
Q 031462 51 HFSPIYFP-----MGNA----ATGFFVTFALIAGVVGAAS 81 (159)
Q Consensus 51 ~~~Piyfp-----~GN~----AT~ffv~faLiAgVVG~aS 81 (159)
.+||||-| .|+. .|+..+--.+++|++|...
T Consensus 49 gYSPIY~p~~Ws~~GD~Y~gGt~gL~~WA~~l~glL~~Ga 88 (99)
T PF04725_consen 49 GYSPIYTPDEWSPSGDVYVGGTTGLLIWAVTLAGLLGGGA 88 (99)
T ss_pred ccCCCcChhhcCCCCCeecCChhhHHHHHHHHHHHHcccc
Confidence 67899966 5554 4456666667777777543
No 15
>KOG4255 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.48 E-value=1e+02 Score=29.17 Aligned_cols=65 Identities=28% Similarity=0.368 Sum_probs=40.6
Q ss_pred CCCCCCCCcCcccccCCchhHHHHHHHHHHHHHHHHHHHhhhhhh-hhccCC----------------------------
Q 031462 44 PSFELPAHFSPIYFPMGNAATGFFVTFALIAGVVGAASCIAGLNH-VRVWTA---------------------------- 94 (159)
Q Consensus 44 ~~~~~pa~~~Piyfp~GN~AT~ffv~faLiAgVVG~aS~l~Gl~H-vr~W~~---------------------------- 94 (159)
|+..+|+||+| .|.|++.|++.+.-+ .++-+++- -|.|++
T Consensus 179 ~~r~fP~rFs~--------s~FFl~l~~~~~~al---aAF~vL~r~~~~~~~s~~~~~~p~~~l~si~~~ee~~~~~~~~ 247 (439)
T KOG4255|consen 179 PGRPFPPRFSV--------STFFLALFAFTCAAL---AAFFVLYRLGAHWPSSTTGELEPQLQLGSIGAEEETDESSPLQ 247 (439)
T ss_pred CCCCCCCCccH--------HHHHHHHHHHHHHHH---HHHHHHHhcCCCCCCCCCCCCCCccccCCCCcccccccCCCCC
Confidence 55557888888 567889998876543 33444443 345551
Q ss_pred -----------CchHHHHHHHHHHHHHHHHHhchhc
Q 031462 95 -----------DSMPAAASAATIAWTLTLLAAGFAC 119 (159)
Q Consensus 95 -----------~SLaaAaa~a~iAWaLTlLAmGlAC 119 (159)
|.=+++-.++-.|-.+++.|+=.|-
T Consensus 248 ~dsSq~~g~~~e~~A~~~~~A~lAfL~~l~A~vnA~ 283 (439)
T KOG4255|consen 248 EDSSQAAGTIPEPKAAALCSAHLAFLLGLVAFVNAL 283 (439)
T ss_pred CCcccCCCccCCCccccccHHHHHHHHHHHHHHHHH
Confidence 2234555568888888888875543
No 16
>COG5487 Small integral membrane protein [Function unknown]
Probab=21.30 E-value=66 Score=22.46 Aligned_cols=14 Identities=50% Similarity=0.854 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHH
Q 031462 67 FVTFALIAGVVGAA 80 (159)
Q Consensus 67 fv~faLiAgVVG~a 80 (159)
|++.+||||+.|..
T Consensus 8 FlvialIa~~lGFg 21 (54)
T COG5487 8 FLVIALIAGALGFG 21 (54)
T ss_pred HHHHHHHHHHhCcc
Confidence 77889999999864
No 17
>PF07344 Amastin: Amastin surface glycoprotein; InterPro: IPR009944 This family contains the eukaryotic surface glycoprotein amastin (approximately 180 residues long).In Trypanosoma cruzi, amastin is particularly abundant during the amastigote stage.
Probab=21.21 E-value=50 Score=25.80 Aligned_cols=20 Identities=35% Similarity=0.476 Sum_probs=16.2
Q ss_pred cccccchhHHHHHHHHHHHH
Q 031462 125 HIRNARLRTMEAFLIILSVT 144 (159)
Q Consensus 125 g~R~~rLrtLEaf~IIl~~T 144 (159)
..|..|.|+.|||.||..+.
T Consensus 56 ~~~~~~f~aa~afaIisi~~ 75 (155)
T PF07344_consen 56 PQRRSRFRAAQAFAIISIFV 75 (155)
T ss_pred cHHHHHHHHHHHHHHHHHHH
Confidence 46778999999999986543
No 18
>PRK11837 undecaprenyl pyrophosphate phosphatase; Provisional
Probab=21.03 E-value=4.6e+02 Score=21.37 Aligned_cols=47 Identities=21% Similarity=0.309 Sum_probs=26.2
Q ss_pred ccCCchhHHHHHHHH--------------HHHHHHHHHHHhhhhhhhhccCCCchHHHHHHHHHH
Q 031462 57 FPMGNAATGFFVTFA--------------LIAGVVGAASCIAGLNHVRVWTADSMPAAASAATIA 107 (159)
Q Consensus 57 fp~GN~AT~ffv~fa--------------LiAgVVG~aS~l~Gl~Hvr~W~~~SLaaAaa~a~iA 107 (159)
||.|..++.|...++ ++|-+||.+-...|.| |-+|-+++..-..+++
T Consensus 105 FPSgHa~~~~~~a~~~l~~~~~~~~~~~~~~a~lva~SRVylGvH----ypsDVlgG~~lG~~~~ 165 (202)
T PRK11837 105 FPSDHGTVIFTFALAFLFWHRLWSGSLLMAIAVAIAWSRVYLGVH----WPLDMLGALLVGMIGC 165 (202)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc----cHHHHHHHHHHHHHHH
Confidence 899988777644222 2344555555555555 5666555554444433
No 19
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=20.97 E-value=2.1e+02 Score=18.50 Aligned_cols=28 Identities=25% Similarity=0.231 Sum_probs=17.6
Q ss_pred HHHH-HHHHHHHHHHHHHHhhhhhhhhccCC
Q 031462 65 GFFV-TFALIAGVVGAASCIAGLNHVRVWTA 94 (159)
Q Consensus 65 ~ffv-~faLiAgVVG~aS~l~Gl~Hvr~W~~ 94 (159)
..|+ +-+--.|.||.+.+..-+ +.+|++
T Consensus 12 RdFL~~at~~~gavG~~~~a~Pf--v~s~~P 40 (41)
T PF10399_consen 12 RDFLTIATSAVGAVGAAAAAWPF--VSSMNP 40 (41)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--HHTTSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HhccCC
Confidence 3444 556666777777766543 667776
No 20
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=20.47 E-value=1.5e+02 Score=23.34 Aligned_cols=78 Identities=22% Similarity=0.399 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHhhhhh---hcccccCCCCCCCCCcCcccccC------------CchhHHHHHHHHHHHHHHHHHHHhh
Q 031462 20 MFVIVLGIGGWAMNRAI---EHGFVIGPSFELPAHFSPIYFPM------------GNAATGFFVTFALIAGVVGAASCIA 84 (159)
Q Consensus 20 mY~ivlgiagWalN~~i---d~g~~~~~~~~~pa~~~Piyfp~------------GN~AT~ffv~faLiAgVVG~aS~l~ 84 (159)
.|+.+-++.||.++... .+++...+|+ +=-.+.|||=-+ .|.-.-|+.-..+...+=-+++.+.
T Consensus 2 ~~F~iys~~Gw~~E~~~~~~~~~~~~~~Gf-l~gP~~piYG~g~vl~~~~~~~~~~~~~~~f~~~~i~~t~lEyi~g~~l 80 (157)
T PF06541_consen 2 FYFFIYSFLGWILETIYCSIREGKFVNRGF-LFGPFCPIYGFGAVLLILLLRPLRRSPILLFLLGMILITALEYITGWIL 80 (157)
T ss_pred eeehHHHHHHHHHHHHHHHHhCCeeeeCCc-ccccHHHHHhHHheeeHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 36677789999998643 3333333333 122456877221 1333333333333332223444444
Q ss_pred h-hhhhhccCCCchH
Q 031462 85 G-LNHVRVWTADSMP 98 (159)
Q Consensus 85 G-l~Hvr~W~~~SLa 98 (159)
- ..|.|.|+..+..
T Consensus 81 e~~~~~~~WDYS~~~ 95 (157)
T PF06541_consen 81 EKLFGARWWDYSDLP 95 (157)
T ss_pred HHHHCCccCcCCCCc
Confidence 4 7899999988743
Done!