Query 030362
Match_columns 179
No_of_seqs 107 out of 517
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 12:35:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030362.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030362hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2667 COPII vesicle protein 100.0 4.9E-59 1.1E-63 404.8 18.4 176 1-178 197-378 (379)
2 PF07970 COPIIcoated_ERV: Endo 100.0 3.6E-56 7.7E-61 366.2 17.1 159 1-159 56-222 (222)
3 PF10399 UCR_Fe-S_N: Ubiquitin 47.6 3.3 7.2E-05 25.3 -1.2 31 131-161 8-38 (41)
4 PF01034 Syndecan: Syndecan do 45.7 7.1 0.00015 26.2 0.1 10 167-176 34-43 (64)
5 COG3765 WzzB Chain length dete 42.5 15 0.00033 32.4 1.7 46 119-169 299-344 (347)
6 PF12421 DUF3672: Fibronectin 41.8 20 0.00043 27.3 2.0 19 1-19 34-52 (136)
7 PF05365 UCR_UQCRX_QCR9: Ubiqu 33.4 26 0.00056 22.7 1.3 29 143-171 15-43 (55)
8 PF04971 Lysis_S: Lysis protei 33.3 14 0.0003 25.1 -0.1 28 145-172 36-64 (68)
9 PF15631 Imm-NTF2-2: NTF2 fold 32.7 34 0.00074 23.1 1.8 22 2-23 34-55 (66)
10 PRK13718 conjugal transfer pro 26.1 68 0.0015 22.5 2.4 51 115-175 26-76 (84)
11 KOG0910 Thioredoxin-like prote 24.8 65 0.0014 25.2 2.3 21 73-93 108-128 (150)
12 PF11888 DUF3408: Protein of u 24.0 55 0.0012 24.7 1.8 30 135-164 87-117 (136)
13 PF10661 EssA: WXG100 protein 22.4 32 0.00069 26.6 0.2 13 143-155 128-140 (145)
14 KOG2014 SMT3/SUMO-activating c 22.2 26 0.00056 30.7 -0.4 11 143-153 286-296 (331)
15 PF02468 PsbN: Photosystem II 21.5 59 0.0013 20.1 1.2 18 47-64 25-42 (43)
16 PF07413 Herpes_UL37_2: Betahe 20.8 78 0.0017 27.2 2.3 35 129-163 229-266 (276)
17 PRK13183 psbN photosystem II r 20.8 46 0.001 20.9 0.7 19 46-64 27-45 (46)
18 CHL00020 psbN photosystem II p 20.6 44 0.00095 20.7 0.5 19 46-64 24-42 (43)
No 1
>KOG2667 consensus COPII vesicle protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.9e-59 Score=404.81 Aligned_cols=176 Identities=44% Similarity=0.769 Sum_probs=157.5
Q ss_pred CEEEEEEEEeeeeeEEEEEEcCCc----eeeeeeeeCCCcccccceEEeEeeeCCCCCCCCCCCCCceeeecCCceeEEE
Q 030362 1 MQVYGVLDVQRVAGNFHISVHGLN----IYVAQMIFGGAKNVNVSHVIHDLSFGPKYPGIHNPLDGTVRMLHDTSGTFKY 76 (179)
Q Consensus 1 cri~G~l~VnkV~GnfhI~~~~~~----~~~~~~~~~~~~~~N~sH~I~~lsFG~~~~~~~~PLdg~~~~~~~~~~~~~Y 76 (179)
|||+|++.||||||||||++.+.. .+.++.. ..+++||||+||||||||++|+..|||||+..++.+...+|+|
T Consensus 197 CRi~G~l~VNKVaGnfHia~g~~~~~~~~h~hd~~--~~~~~n~SH~InhLSFG~~~p~~~nPLdG~~~~~~~~~~~~~Y 274 (379)
T KOG2667|consen 197 CRIYGQLEVNKVAGNFHIAPGKSSQHSNAHVHDLS--LLDNLNFSHRINHLSFGEYIPGIVNPLDGTNFIANEHLTTFQY 274 (379)
T ss_pred eEEEEEEEEeeecceEEEccCCCccccccccchhh--hcccCCceEEEeeeccCCCCcccccCCCCccccccCCccceee
Confidence 999999999999999999964211 1111111 1147999999999999999999999999998888888899999
Q ss_pred EEEEEEEEEEeecCceeeeeeeEEEEEEEeec-CCCC-CcceEEEEEEccceEEEEEeeeccHHHHHHhHhhhccceeee
Q 030362 77 YIKIVPTEYRYISKDVLPTNQFSVTEYFSTIN-EFDR-TWPAVYFLYDLSPITVTIKEERRSFLHLITRLCAVLGGTFAL 154 (179)
Q Consensus 77 flkvVPT~y~~~~~~~~~t~QYsvt~~~~~~~-~~~~-~~PgI~F~Yd~sPi~v~~~~~r~s~~~flt~lcaIiGGvftv 154 (179)
|+|||||.|.+.++.++.|||||||++.+... +.+. ++|||||+||+|||+|+++|+|.||++|||+|||||||+|||
T Consensus 275 f~KvVPT~y~~~~~~~~~T~QysVt~~~~~~~~~~~~~~~PGifF~YelSPl~V~v~E~r~sf~~Flt~lCAIiGGvftv 354 (379)
T KOG2667|consen 275 FLKVVPTVYKYKSGRVIDTNQYSVTEYEYVLHSHRAKSGIPGIFFKYELSPLMVKVTEERQSFSHFLTRLCAIIGGVFTV 354 (379)
T ss_pred EEEEcceEEEeecCceecceeeeeeeeEEeccccccccCCCeEEEEEecCceEEEEEeccccHHHHHHHHHHHhcceeeh
Confidence 99999999999999999999999999998876 3333 899999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHHcCCcccCcC
Q 030362 155 TGMLDRWMYRLLEALTKPSARSVL 178 (179)
Q Consensus 155 ~gliD~~~~~~~~~~~k~~~~~~~ 178 (179)
||+||++++++.++++++.+.+|+
T Consensus 355 agiid~~~~~~~~~i~~k~~~gk~ 378 (379)
T KOG2667|consen 355 AGILDSLLYHILELIKGKIALGKY 378 (379)
T ss_pred HHHHHHHHHHHHHHHhcchhhhcc
Confidence 999999999999999999998886
No 2
>PF07970 COPIIcoated_ERV: Endoplasmic reticulum vesicle transporter ; InterPro: IPR012936 This domain occurs in many hypothetical proteins, and also two partially characterised proteins. One of these proteins, PTX1 Q96RQ1 from SWISSPROT, is a homeodomain-containing transcription factor involved in regulating all pituitary hormone genes []. This protein is down regulated in prostate carcinoma []. The other protein, ERGIC-32 Q969X5 from SWISSPROT, is involved in protein transport from the ER to the Golgi [].
Probab=100.00 E-value=3.6e-56 Score=366.18 Aligned_cols=159 Identities=41% Similarity=0.739 Sum_probs=139.3
Q ss_pred CEEEEEEEEeeeeeEEEEEEcCCc----eeeeeeeeCCCc-ccccceEEeEeeeCCCCCCCCCCCCCceee--ecCCcee
Q 030362 1 MQVYGVLDVQRVAGNFHISVHGLN----IYVAQMIFGGAK-NVNVSHVIHDLSFGPKYPGIHNPLDGTVRM--LHDTSGT 73 (179)
Q Consensus 1 cri~G~l~VnkV~GnfhI~~~~~~----~~~~~~~~~~~~-~~N~sH~I~~lsFG~~~~~~~~PLdg~~~~--~~~~~~~ 73 (179)
|||+|++.||||+|||||+++... .+.++....... .+|+||+|||||||+++|+..|||||+.++ .+....+
T Consensus 56 Cri~G~l~VnkV~Gnfhi~~g~~~~~~~~h~hd~~~~~~~~~~N~SH~I~~lsFG~~~~~~~~PLdg~~~~~~~~~~~~~ 135 (222)
T PF07970_consen 56 CRIYGSLEVNKVPGNFHIAPGRSFQQDGGHIHDLSPFDDEPKFNFSHTINHLSFGEEIPGIVNPLDGTQKIVQTDNGNYM 135 (222)
T ss_pred CEEEEEEEEEEEEEEEEEEecchhccCCcceeehhhhccccCCCCCeEEEEEEeccccccccccccCccccccCCCCcee
Confidence 999999999999999999986532 111111111122 799999999999999999999999999883 4667889
Q ss_pred EEEEEEEEEEEEEeecCceeeeeeeEEEEEEEeecCCC-CCcceEEEEEEccceEEEEEeeeccHHHHHHhHhhhcccee
Q 030362 74 FKYYIKIVPTEYRYISKDVLPTNQFSVTEYFSTINEFD-RTWPAVYFLYDLSPITVTIKEERRSFLHLITRLCAVLGGTF 152 (179)
Q Consensus 74 ~~YflkvVPT~y~~~~~~~~~t~QYsvt~~~~~~~~~~-~~~PgI~F~Yd~sPi~v~~~~~r~s~~~flt~lcaIiGGvf 152 (179)
|+||||||||+|...++..++|||||+|++.+.+.... .++|||||+||||||+|+++++|+||+||||+|||||||+|
T Consensus 136 ~~YflkvVPT~y~~~~~~~~~t~qYsvt~~~~~~~~~~~~~~PGI~F~Yd~SPi~v~~~~~r~s~~~flt~lcaIiGGvf 215 (222)
T PF07970_consen 136 YQYFLKVVPTTYEDLDGFSIETYQYSVTEHSRPLNGGSSGGLPGIFFKYDFSPIMVVITEDRKSFLHFLTRLCAIIGGVF 215 (222)
T ss_pred EEEEEEEeeeeeEeccccccccccccceeeeeeccCCCCCCCceEEEEEeceeEEEEEEEecCCHHHHHHHHHHHhchHh
Confidence 99999999999999988767999999999999987654 78999999999999999999999999999999999999999
Q ss_pred eehhhhH
Q 030362 153 ALTGMLD 159 (179)
Q Consensus 153 tv~gliD 159 (179)
|++||||
T Consensus 216 tv~gliD 222 (222)
T PF07970_consen 216 TVAGLID 222 (222)
T ss_pred eEEEecC
Confidence 9999998
No 3
>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=47.63 E-value=3.3 Score=25.27 Aligned_cols=31 Identities=23% Similarity=0.326 Sum_probs=23.5
Q ss_pred EeeeccHHHHHHhHhhhccceeeehhhhHHH
Q 030362 131 KEERRSFLHLITRLCAVLGGTFALTGMLDRW 161 (179)
Q Consensus 131 ~~~r~s~~~flt~lcaIiGGvftv~gliD~~ 161 (179)
..+|+.|+...+...|.+|++.++.-++++|
T Consensus 8 ~~~RRdFL~~at~~~gavG~~~~a~Pfv~s~ 38 (41)
T PF10399_consen 8 DPTRRDFLTIATSAVGAVGAAAAAWPFVSSM 38 (41)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4567888888888889999888877777654
No 4
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=45.70 E-value=7.1 Score=26.19 Aligned_cols=10 Identities=20% Similarity=0.122 Sum_probs=0.7
Q ss_pred HHHcCCcccC
Q 030362 167 EALTKPSARS 176 (179)
Q Consensus 167 ~~~~k~~~~~ 176 (179)
-.++|++|++
T Consensus 34 yR~rkkdEGS 43 (64)
T PF01034_consen 34 YRMRKKDEGS 43 (64)
T ss_dssp ---S------
T ss_pred HHHHhcCCCC
Confidence 3457777765
No 5
>COG3765 WzzB Chain length determinant protein [Cell envelope biogenesis, outer membrane]
Probab=42.49 E-value=15 Score=32.42 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=32.1
Q ss_pred EEEEccceEEEEEeeeccHHHHHHhHhhhccceeeehhhhHHHHHHHHHHH
Q 030362 119 FLYDLSPITVTIKEERRSFLHLITRLCAVLGGTFALTGMLDRWMYRLLEAL 169 (179)
Q Consensus 119 F~Yd~sPi~v~~~~~r~s~~~flt~lcaIiGGvftv~gliD~~~~~~~~~~ 169 (179)
|+|+.+|..=+-+. .|=-.+++-+.|+|||++.+... ++.++.+..
T Consensus 299 yRYl~~P~~Pvkrd--~PrrA~ilil~~LiGgm~g~g~v---L~R~~lk~~ 344 (347)
T COG3765 299 YRYLQKPTLPVKRD--SPRRAIILILGALIGGMLGAGVV---LLRNALKKY 344 (347)
T ss_pred EEecCCCCCCCcCC--CcchHHHHHHHHHHHHHHHHHHH---HHHHHHHHh
Confidence 78888887644333 46678999999999999988763 444444443
No 6
>PF12421 DUF3672: Fibronectin type III protein ; InterPro: IPR021034 This entry represents a region of bacterial and viral proteins that are typically between 126 and 146 amino acids in length. The signature is found at the C terminus in association with PF09327 from PFAM and PF00041 from PFAM. There are two completely conserved G residues that may be functionally important. Many of the proteins in this entry are annotated as fibronectin type III however there is little accompanying literature to confirm this. It is also found in Host specificity protein J from Enterobacteria phage lambda (Bacteriophage lambda).
Probab=41.79 E-value=20 Score=27.35 Aligned_cols=19 Identities=11% Similarity=0.270 Sum_probs=17.2
Q ss_pred CEEEEEEEEeeeeeEEEEE
Q 030362 1 MQVYGVLDVQRVAGNFHIS 19 (179)
Q Consensus 1 cri~G~l~VnkV~GnfhI~ 19 (179)
|.+.|+++.+++-|++--+
T Consensus 34 ~~~~Gtv~A~~i~GDiv~~ 52 (136)
T PF12421_consen 34 CTFKGTVYANKIIGDIVKA 52 (136)
T ss_pred ceEEeEEEehhEecceeEE
Confidence 9999999999999997654
No 7
>PF05365 UCR_UQCRX_QCR9: Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like; InterPro: IPR008027 The UQCRX/QCR9 protein is the 9/10 subunit of complex III, and is a protein of about 7 kDa. Deletion of QCR9 results in the inability of Saccharomyces cerevisiae to grow on a fermentable carbon source []. The protein is part of the mitchondrial respiratory chain. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0006122 mitochondrial electron transport, ubiquinol to cytochrome c, 0005740 mitochondrial envelope; PDB: 3CX5_T 2IBZ_I 1KYO_I 3CXH_T 1EZV_I 1P84_I 1KB9_I 3H1L_W 3L71_W 3L73_W ....
Probab=33.41 E-value=26 Score=22.69 Aligned_cols=29 Identities=14% Similarity=0.362 Sum_probs=20.8
Q ss_pred hHhhhccceeeehhhhHHHHHHHHHHHcC
Q 030362 143 RLCAVLGGTFALTGMLDRWMYRLLEALTK 171 (179)
Q Consensus 143 ~lcaIiGGvftv~gliD~~~~~~~~~~~k 171 (179)
=+.+|++|.|+.-..+|.....+-+.++|
T Consensus 15 y~~~i~~gaf~fe~~fd~~~d~~w~~~Nk 43 (55)
T PF05365_consen 15 YVLTIFAGAFFFERAFDSATDKIWDSINK 43 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHhccC
Confidence 45688889888888778777666555543
No 8
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=33.26 E-value=14 Score=25.13 Aligned_cols=28 Identities=29% Similarity=0.517 Sum_probs=19.9
Q ss_pred hhhcccee-eehhhhHHHHHHHHHHHcCC
Q 030362 145 CAVLGGTF-ALTGMLDRWMYRLLEALTKP 172 (179)
Q Consensus 145 caIiGGvf-tv~gliD~~~~~~~~~~~k~ 172 (179)
.+|+||++ ++++++-.+.|+..+--+|.
T Consensus 36 IGvi~gi~~~~lt~ltN~YFK~k~drr~~ 64 (68)
T PF04971_consen 36 IGVIGGIFFGLLTYLTNLYFKIKEDRRKA 64 (68)
T ss_pred HHHHHHHHHHHHHHHhHhhhhhhHhhhHh
Confidence 47888876 78888888888765544333
No 9
>PF15631 Imm-NTF2-2: NTF2 fold immunity protein
Probab=32.74 E-value=34 Score=23.06 Aligned_cols=22 Identities=27% Similarity=0.311 Sum_probs=17.6
Q ss_pred EEEEEEEEeeeeeEEEEEEcCC
Q 030362 2 QVYGVLDVQRVAGNFHISVHGL 23 (179)
Q Consensus 2 ri~G~l~VnkV~GnfhI~~~~~ 23 (179)
-|+|++.-+..-|++||.....
T Consensus 34 iV~Gtl~~~~~GGv~~I~I~K~ 55 (66)
T PF15631_consen 34 IVEGTLPPGMLGGVFYIEIRKK 55 (66)
T ss_pred EEEeecCCCccCCeEEEEEEcc
Confidence 3789998888899999987544
No 10
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=26.11 E-value=68 Score=22.47 Aligned_cols=51 Identities=20% Similarity=0.371 Sum_probs=27.0
Q ss_pred ceEEEEEEccceEEEEEeeeccHHHHHHhHhhhccceeeehhhhHHHHHHHHHHHcCCccc
Q 030362 115 PAVYFLYDLSPITVTIKEERRSFLHLITRLCAVLGGTFALTGMLDRWMYRLLEALTKPSAR 175 (179)
Q Consensus 115 PgI~F~Yd~sPi~v~~~~~r~s~~~flt~lcaIiGGvftv~gliD~~~~~~~~~~~k~~~~ 175 (179)
|.|++++|- |+-+.....+..-++=+|+ |+++.+. -++|.+...+++++++
T Consensus 26 PviywSWDt----VK~TTa~d~l~a~~iI~~~--gv~~~~l----y~ffs~Ltkl~~~d~~ 76 (84)
T PRK13718 26 PVIYWSWDT----VKETTADDMLAAVFVILYS--GVLLFIL----YFFFSALTKLQKHDER 76 (84)
T ss_pred ceEEEEehh----ccccchhHHHHHHHHHHHH--hHHHHHH----HHHHHHHHHHHhcccc
Confidence 999999993 4444444444333333322 4443333 4556666555555544
No 11
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=24.81 E-value=65 Score=25.21 Aligned_cols=21 Identities=24% Similarity=0.331 Sum_probs=17.9
Q ss_pred eEEEEEEEEEEEEEeecCcee
Q 030362 73 TFKYYIKIVPTEYRYISKDVL 93 (179)
Q Consensus 73 ~~~YflkvVPT~y~~~~~~~~ 93 (179)
.-+|.++.|||.....+|++.
T Consensus 108 a~~Y~I~avPtvlvfknGe~~ 128 (150)
T KOG0910|consen 108 AEDYEISAVPTVLVFKNGEKV 128 (150)
T ss_pred HhhcceeeeeEEEEEECCEEe
Confidence 447999999999999888764
No 12
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=24.01 E-value=55 Score=24.71 Aligned_cols=30 Identities=20% Similarity=0.480 Sum_probs=25.9
Q ss_pred ccHHHHHHhHhhhcc-ceeeehhhhHHHHHH
Q 030362 135 RSFLHLITRLCAVLG-GTFALTGMLDRWMYR 164 (179)
Q Consensus 135 ~s~~~flt~lcaIiG-Gvftv~gliD~~~~~ 164 (179)
..+..=|.++..+|| +=.+++|+||.++-.
T Consensus 87 ~e~h~~l~~Iv~~ig~~~~si~~yidNIL~~ 117 (136)
T PF11888_consen 87 RETHERLSRIVRVIGERKMSISGYIDNILRH 117 (136)
T ss_pred HHHHHHHHHHHHHHCCCCCcHHHHHHHHHHH
Confidence 467788999999999 669999999999854
No 13
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=22.39 E-value=32 Score=26.61 Aligned_cols=13 Identities=31% Similarity=0.575 Sum_probs=6.1
Q ss_pred hHhhhccceeeeh
Q 030362 143 RLCAVLGGTFALT 155 (179)
Q Consensus 143 ~lcaIiGGvftv~ 155 (179)
.||+|.||+|+++
T Consensus 128 ~ll~i~~giy~~~ 140 (145)
T PF10661_consen 128 ILLAICGGIYVVL 140 (145)
T ss_pred HHHHHHHHHHHHH
Confidence 3344445555444
No 14
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=22.24 E-value=26 Score=30.71 Aligned_cols=11 Identities=55% Similarity=1.120 Sum_probs=8.9
Q ss_pred hHhhhccceee
Q 030362 143 RLCAVLGGTFA 153 (179)
Q Consensus 143 ~lcaIiGGvft 153 (179)
=+||||||+.+
T Consensus 286 Pv~AvVGGiva 296 (331)
T KOG2014|consen 286 PVCAVVGGILA 296 (331)
T ss_pred chhhhhhhHhH
Confidence 47999999863
No 15
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 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 transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=21.48 E-value=59 Score=20.09 Aligned_cols=18 Identities=22% Similarity=0.593 Sum_probs=14.7
Q ss_pred eeeCCCCCCCCCCCCCce
Q 030362 47 LSFGPKYPGIHNPLDGTV 64 (179)
Q Consensus 47 lsFG~~~~~~~~PLdg~~ 64 (179)
.+||++..++.+|.|.++
T Consensus 25 taFGppSk~LrDPfeeHe 42 (43)
T PF02468_consen 25 TAFGPPSKELRDPFEEHE 42 (43)
T ss_pred heeCCCccccCCcccccC
Confidence 579998888999988763
No 16
>PF07413 Herpes_UL37_2: Betaherpesvirus immediate-early glycoprotein UL37; InterPro: IPR010880 This family consists of several Betaherpesvirus immediate-early glycoprotein UL37 sequences. The human cytomegalovirus (HCMV) UL37 immediate-early regulatory protein is a type I integral membrane N-glycoprotein which traffics through the ER and the Golgi network [].
Probab=20.84 E-value=78 Score=27.19 Aligned_cols=35 Identities=17% Similarity=0.281 Sum_probs=24.6
Q ss_pred EEEeeeccHHHH---HHhHhhhccceeeehhhhHHHHH
Q 030362 129 TIKEERRSFLHL---ITRLCAVLGGTFALTGMLDRWMY 163 (179)
Q Consensus 129 ~~~~~r~s~~~f---lt~lcaIiGGvftv~gliD~~~~ 163 (179)
.+..+...+.+. ++++|++.||.|++.+++=-++-
T Consensus 229 ~~~~~~~~l~~~~~~~~g~~~v~~G~~~lL~LFc~l~~ 266 (276)
T PF07413_consen 229 ILRVDYRALGHWLAALIGMFFVASGAFMLLSLFCCLSI 266 (276)
T ss_pred EEecCCcchhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 344444555555 88999999999999976654443
No 17
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=20.77 E-value=46 Score=20.85 Aligned_cols=19 Identities=26% Similarity=0.560 Sum_probs=15.4
Q ss_pred EeeeCCCCCCCCCCCCCce
Q 030362 46 DLSFGPKYPGIHNPLDGTV 64 (179)
Q Consensus 46 ~lsFG~~~~~~~~PLdg~~ 64 (179)
.-+||++..++.+|.|.++
T Consensus 27 YtaFGppSk~LrDPFeeHe 45 (46)
T PRK13183 27 YTAFGPPSKELDDPFDDHE 45 (46)
T ss_pred eeccCCcccccCCchhhcC
Confidence 4589999888999988763
No 18
>CHL00020 psbN photosystem II protein N
Probab=20.65 E-value=44 Score=20.65 Aligned_cols=19 Identities=16% Similarity=0.373 Sum_probs=15.2
Q ss_pred EeeeCCCCCCCCCCCCCce
Q 030362 46 DLSFGPKYPGIHNPLDGTV 64 (179)
Q Consensus 46 ~lsFG~~~~~~~~PLdg~~ 64 (179)
.-+||++..++.+|.|.++
T Consensus 24 YtaFGppSk~LrDPfeeHe 42 (43)
T CHL00020 24 YTAFGQPSKQLRDPFEEHE 42 (43)
T ss_pred eeccCCchhccCCchhhcC
Confidence 4589999888899988763
Done!