Query 022435
Match_columns 297
No_of_seqs 155 out of 525
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:31:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022435.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022435hhsearch_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 2E-82 4.4E-87 602.2 22.4 285 1-297 89-379 (379)
2 PF07970 COPIIcoated_ERV: Endo 100.0 1.8E-79 4E-84 552.8 18.9 217 60-277 1-222 (222)
3 PF10399 UCR_Fe-S_N: Ubiquitin 68.0 3.3 7.1E-05 27.7 1.4 31 249-279 8-38 (41)
4 COG3531 Predicted protein-disu 59.1 2.9 6.3E-05 37.4 -0.2 9 56-64 11-19 (212)
5 COG0603 Predicted PP-loop supe 42.8 18 0.0004 32.9 2.3 34 54-88 180-215 (222)
6 PF11118 DUF2627: Protein of u 37.8 32 0.00069 26.1 2.5 22 255-276 40-61 (77)
7 PF07413 Herpes_UL37_2: Betahe 34.1 63 0.0014 30.4 4.4 41 247-287 229-272 (276)
8 KOG4085 Uncharacterized conser 26.4 74 0.0016 27.2 3.1 19 254-272 26-44 (175)
9 cd01486 Apg7 Apg7 is an E1-lik 26.1 44 0.00095 31.9 2.0 28 68-100 269-297 (307)
10 PF01102 Glycophorin_A: Glycop 25.9 81 0.0018 26.0 3.3 8 283-290 87-94 (122)
11 PF10661 EssA: WXG100 protein 25.7 56 0.0012 27.7 2.3 10 263-272 130-139 (145)
12 COG3765 WzzB Chain length dete 25.4 69 0.0015 31.1 3.2 39 236-276 298-336 (347)
13 PF12421 DUF3672: Fibronectin 24.7 57 0.0012 27.2 2.2 23 110-132 30-52 (136)
14 PF04971 Lysis_S: Lysis protei 21.8 89 0.0019 23.2 2.5 22 263-284 36-58 (68)
15 PF08394 Arc_trans_TRASH: Arch 21.6 34 0.00074 22.3 0.2 9 69-77 24-32 (37)
16 PF06596 PsbX: Photosystem II 20.9 1.5E+02 0.0032 19.6 3.1 29 253-283 3-31 (39)
No 1
>KOG2667 consensus COPII vesicle protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2e-82 Score=602.24 Aligned_cols=285 Identities=54% Similarity=0.945 Sum_probs=256.8
Q ss_pred CCcccceeccccCcEEEEeecCCCceeccccc--CCCCCCCCCcccccCCCccCCCCccCCCcCcCC---CCCccccchH
Q 022435 1 MDISGEQHLDVKHDIFKKRLDSQGNVIESRQD--GIGAPKIDKPLQRHGGRLEHNETYCGSCYGAES---SDEDCCNNCE 75 (297)
Q Consensus 1 ~D~sG~~~~dv~~~i~K~Rld~~G~~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~CgsCYga~~---~~~~CCntCe 75 (297)
||++|+.++|++++|+|.|||. ++|+.... +....+...+ ..++.+|++||||+. ....|||+|+
T Consensus 89 ~D~sg~~~l~i~~~i~k~rl~~--~~i~~~~~~~~~~~~k~~~p--------~~~~~~c~~~~~~~~~~~~~~~~~~~~~ 158 (379)
T KOG2667|consen 89 MDVSGEMVLDIDHLIYKLRLDP--EPIPLTIRRFDIFQHKQTIP--------TTDPILCGLCYGAEDFNDGDIDCCNLCE 158 (379)
T ss_pred eccccccccchhhhhhhcccCc--cccccchhhhcccccccccC--------CCCccchhhhhhhhccccccchhhhcch
Confidence 7999999999999999999999 55552111 1111110011 112468999999998 5788999999
Q ss_pred HHHHHHHhcCCcCCCCCchhhhhhhchhhhhcccCCCcceEEEEEEEeeeeeeEEEccCCccccccceeeeeccccCCCc
Q 022435 76 EVREAYRKKGWALSNPDLIDQCKREGFLQRIKEEEGEGCNIYGFLEVNKVAGNFHFAPGKSFHQSGVHVHDILAFQRDSF 155 (297)
Q Consensus 76 dV~~ay~~~gw~~~~~~~ieQC~~e~~~~~~~~~~~eGC~i~G~~~VnkV~Gnfhia~g~~~~~~~~h~hd~~~~~~~~~ 155 (297)
+|++||+.+||++++.+.++||.++++..+.+.+.+|||||+|++.||||||||||+||++++..+.|+||...+ +.+
T Consensus 159 ~v~~a~~~~g~~~~~~~~~~q~~~~~~~~~~~~~~geGCRi~G~l~VNKVaGnfHia~g~~~~~~~~h~hd~~~~--~~~ 236 (379)
T KOG2667|consen 159 DVREAYRKAGWDFADEDLIDQCKNEGFTNKAAEQKGEGCRIYGQLEVNKVAGNFHIAPGKSSQHSNAHVHDLSLL--DNL 236 (379)
T ss_pred HHHHHhhhccccccCccchhhhcccccccccCCCCCCceEEEEEEEEeeecceEEEccCCCccccccccchhhhc--ccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999998766 689
Q ss_pred cccEEEeEeeecCCCCCCcCCCCCceeeeeCCceeEEEEEEEEEeEEEeCCCceEEeeeeeeEEEeeeccCCCCC-CCCE
Q 022435 156 NISHKINKLAFGEHFPGVVNPLDGVRWTQETPSGMYQYFIKVVPTVYTDVSGHTIQSNQFSVTEHFRSSEQGRLQ-TLPG 234 (297)
Q Consensus 156 N~sH~I~~lsFG~~~~~~~~PLdg~~~~~~~~~~~~~YflkvVPT~y~~~~~~~~~t~QYSvt~~~~~~~~~~~~-~~Pg 234 (297)
||||+|||||||+.+|+..|||||+.+++.++..||+||+|||||.|.+..|.++.|||||||+|++....+... ++||
T Consensus 237 n~SH~InhLSFG~~~p~~~nPLdG~~~~~~~~~~~~~Yf~KvVPT~y~~~~~~~~~T~QysVt~~~~~~~~~~~~~~~PG 316 (379)
T KOG2667|consen 237 NFSHRINHLSFGEYIPGIVNPLDGTNFIANEHLTTFQYFLKVVPTVYKYKSGRVIDTNQYSVTEYEYVLHSHRAKSGIPG 316 (379)
T ss_pred CceEEEeeeccCCCCcccccCCCCccccccCCccceeeEEEEcceEEEeecCceecceeeeeeeeEEeccccccccCCCe
Confidence 999999999999999999999999999999999999999999999999999999999999999999998644444 9999
Q ss_pred EEEEEeccceEEEEEeeeccHHHHHHHHhHhhcchhhHHHHHHHHHHHHHHHhhhhhhcCCCC
Q 022435 235 VFFFYDLSPIKVTFTEEHVSFLHFLTNVCAIVGGVFTVSGIIDAFIYHGQRAIKKKIEIGKFS 297 (297)
Q Consensus 235 v~F~Yd~SPi~V~~~e~r~s~~~flt~lcAIiGGvftv~gliD~~~~~~~~~i~~k~~~gK~~ 297 (297)
|||.||||||+|+++|+|+||+||||+||||||||||||||||+++|++++++++|.++||++
T Consensus 317 ifF~YelSPl~V~v~E~r~sf~~Flt~lCAIiGGvftvagiid~~~~~~~~~i~~k~~~gk~~ 379 (379)
T KOG2667|consen 317 IFFKYELSPLMVKVTEERQSFSHFLTRLCAIIGGVFTVAGILDSLLYHILELIKGKIALGKYT 379 (379)
T ss_pred EEEEEecCceEEEEEeccccHHHHHHHHHHHhcceeehHHHHHHHHHHHHHHHhcchhhhccC
Confidence 999999999999999999999999999999999999999999999999999999999999974
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=1.8e-79 Score=552.79 Aligned_cols=217 Identities=60% Similarity=1.128 Sum_probs=202.2
Q ss_pred CcCcCCCCCccccchHHHHHHHHhcCCcCCCCCchhhhhhhchhhhhcc--cCCCcceEEEEEEEeeeeeeEEEccCCcc
Q 022435 60 CYGAESSDEDCCNNCEEVREAYRKKGWALSNPDLIDQCKREGFLQRIKE--EEGEGCNIYGFLEVNKVAGNFHFAPGKSF 137 (297)
Q Consensus 60 CYga~~~~~~CCntCedV~~ay~~~gw~~~~~~~ieQC~~e~~~~~~~~--~~~eGC~i~G~~~VnkV~Gnfhia~g~~~ 137 (297)
||||+.++++||||||||++||+++||++++++.||||.++ +.++++. ..+|||||+|++.||||||||||+||+++
T Consensus 1 CYga~~~~~~CCnTC~~V~~ay~~~~w~~~~~~~~eQC~~~-~~~~~~~~~~~~egCri~G~l~VnkV~Gnfhi~~g~~~ 79 (222)
T PF07970_consen 1 CYGAETEEGKCCNTCEDVREAYRKKGWAFPDLENIEQCRRE-YVKKIKEQVNEGEGCRIYGSLEVNKVPGNFHIAPGRSF 79 (222)
T ss_pred CCCCCCCCCCcCcCHHHHHHHHHHhCCCCCCccccccccch-hhhhhhhhccCCCCCEEEEEEEEEEEEEEEEEEecchh
Confidence 99999999999999999999999999999999999999999 6555544 34699999999999999999999999999
Q ss_pred ccccceeeeeccccCC-CccccEEEeEeeecCCCCCCcCCCCCceee--eeCCceeEEEEEEEEEeEEEeCCCceEEeee
Q 022435 138 HQSGVHVHDILAFQRD-SFNISHKINKLAFGEHFPGVVNPLDGVRWT--QETPSGMYQYFIKVVPTVYTDVSGHTIQSNQ 214 (297)
Q Consensus 138 ~~~~~h~hd~~~~~~~-~~N~sH~I~~lsFG~~~~~~~~PLdg~~~~--~~~~~~~~~YflkvVPT~y~~~~~~~~~t~Q 214 (297)
...+.|+||+..+... .+||||+|||||||+++|+..|||||+.++ ++....+|+||||||||+|..+++..+.|||
T Consensus 80 ~~~~~h~hd~~~~~~~~~~N~SH~I~~lsFG~~~~~~~~PLdg~~~~~~~~~~~~~~~YflkvVPT~y~~~~~~~~~t~q 159 (222)
T PF07970_consen 80 QQDGGHIHDLSPFDDEPKFNFSHTINHLSFGEEIPGIVNPLDGTQKIVQTDNGNYMYQYFLKVVPTTYEDLDGFSIETYQ 159 (222)
T ss_pred ccCCcceeehhhhccccCCCCCeEEEEEEeccccccccccccCccccccCCCCceeEEEEEEEeeeeeEecccccccccc
Confidence 9899999999988766 899999999999999999999999999984 5666799999999999999999888789999
Q ss_pred eeeEEEeeeccCCCCCCCCEEEEEEeccceEEEEEeeeccHHHHHHHHhHhhcchhhHHHHHH
Q 022435 215 FSVTEHFRSSEQGRLQTLPGVFFFYDLSPIKVTFTEEHVSFLHFLTNVCAIVGGVFTVSGIID 277 (297)
Q Consensus 215 YSvt~~~~~~~~~~~~~~Pgv~F~Yd~SPi~V~~~e~r~s~~~flt~lcAIiGGvftv~gliD 277 (297)
||||++.+.+......++|||||+||||||+|+++++|+||+||||+|||||||||||+||||
T Consensus 160 Ysvt~~~~~~~~~~~~~~PGI~F~Yd~SPi~v~~~~~r~s~~~flt~lcaIiGGvftv~gliD 222 (222)
T PF07970_consen 160 YSVTEHSRPLNGGSSGGLPGIFFKYDFSPIMVVITEDRKSFLHFLTRLCAIIGGVFTVAGLID 222 (222)
T ss_pred ccceeeeeeccCCCCCCCceEEEEEeceeEEEEEEEecCCHHHHHHHHHHHhchHheEEEecC
Confidence 999999999866544789999999999999999999999999999999999999999999998
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=67.95 E-value=3.3 Score=27.65 Aligned_cols=31 Identities=16% Similarity=0.255 Sum_probs=25.7
Q ss_pred EeeeccHHHHHHHHhHhhcchhhHHHHHHHH
Q 022435 249 TEEHVSFLHFLTNVCAIVGGVFTVSGIIDAF 279 (297)
Q Consensus 249 ~e~r~s~~~flt~lcAIiGGvftv~gliD~~ 279 (297)
...|+.|+...|...|.+|++.++.-+|+++
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 3568899999999999999999998888764
No 4
>COG3531 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=59.07 E-value=2.9 Score=37.41 Aligned_cols=9 Identities=67% Similarity=1.586 Sum_probs=8.0
Q ss_pred ccCCCcCcC
Q 022435 56 YCGSCYGAE 64 (297)
Q Consensus 56 ~CgsCYga~ 64 (297)
-|||||||.
T Consensus 11 mCgWCyGa~ 19 (212)
T COG3531 11 MCGWCYGAA 19 (212)
T ss_pred chhhhhCcc
Confidence 499999996
No 5
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=42.78 E-value=18 Score=32.88 Aligned_cols=34 Identities=26% Similarity=0.620 Sum_probs=26.9
Q ss_pred CCccCCCcCcCCCCCcc--ccchHHHHHHHHhcCCcC
Q 022435 54 ETYCGSCYGAESSDEDC--CNNCEEVREAYRKKGWAL 88 (297)
Q Consensus 54 ~~~CgsCYga~~~~~~C--CntCedV~~ay~~~gw~~ 88 (297)
-.+--|||.....+ .| |-+|...++||+..||.-
T Consensus 180 ~~~T~SCY~g~~~~-~CG~C~sC~~R~~af~~~g~~d 215 (222)
T COG0603 180 LELTWSCYNGGEGD-HCGECESCVLRERAFKEAGLED 215 (222)
T ss_pred chhceEEeCCCCCC-CCCCCHHHHHHHHHHHHhCCcc
Confidence 44577999987542 45 999999999999998654
No 6
>PF11118 DUF2627: Protein of unknown function (DUF2627); InterPro: IPR020138 This entry represents uncharacterised membrane proteins with no known function.
Probab=37.77 E-value=32 Score=26.12 Aligned_cols=22 Identities=32% Similarity=0.529 Sum_probs=20.9
Q ss_pred HHHHHHHHhHhhcchhhHHHHH
Q 022435 255 FLHFLTNVCAIVGGVFTVSGII 276 (297)
Q Consensus 255 ~~~flt~lcAIiGGvftv~gli 276 (297)
|.+|+..+...++|+..++|+|
T Consensus 40 wlqfl~G~~lf~~G~~Fi~GfI 61 (77)
T PF11118_consen 40 WLQFLAGLLLFAIGVGFIAGFI 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHhHh
Confidence 9999999999999999999986
No 7
>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=34.11 E-value=63 Score=30.40 Aligned_cols=41 Identities=15% Similarity=0.277 Sum_probs=29.1
Q ss_pred EEEeeeccHHHH---HHHHhHhhcchhhHHHHHHHHHHHHHHHh
Q 022435 247 TFTEEHVSFLHF---LTNVCAIVGGVFTVSGIIDAFIYHGQRAI 287 (297)
Q Consensus 247 ~~~e~r~s~~~f---lt~lcAIiGGvftv~gliD~~~~~~~~~i 287 (297)
.+..+.+.+.+- ++++|+++||.|++.+|+=-++....+.|
T Consensus 229 ~~~~~~~~l~~~~~~~~g~~~v~~G~~~lL~LFc~l~~~~Rr~i 272 (276)
T PF07413_consen 229 ILRVDYRALGHWLAALIGMFFVASGAFMLLSLFCCLSIWRRRDI 272 (276)
T ss_pred EEecCCcchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344444555555 88999999999999999876665544443
No 8
>KOG4085 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.39 E-value=74 Score=27.20 Aligned_cols=19 Identities=16% Similarity=0.361 Sum_probs=16.4
Q ss_pred cHHHHHHHHhHhhcchhhH
Q 022435 254 SFLHFLTNVCAIVGGVFTV 272 (297)
Q Consensus 254 s~~~flt~lcAIiGGvftv 272 (297)
=|+.|+.++.||+|+++.+
T Consensus 26 Ww~r~l~rl~gilgaf~~~ 44 (175)
T KOG4085|consen 26 WWYRWLCRLSGILGAFSCA 44 (175)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3589999999999998864
No 9
>cd01486 Apg7 Apg7 is an E1-like protein, that activates two different ubiquitin-like proteins, Apg12 and Apg8, and assigns them to specific E2 enzymes, Apg10 and Apg3, respectively. This leads to the covalent conjugation of Apg8 with phosphatidylethanolamine, an important step in autophagy. Autophagy is a dynamic membrane phenomenon for bulk protein degradation in the lysosome/vacuole.
Probab=26.12 E-value=44 Score=31.95 Aligned_cols=28 Identities=25% Similarity=0.745 Sum_probs=21.0
Q ss_pred Cccccch-HHHHHHHHhcCCcCCCCCchhhhhhh
Q 022435 68 EDCCNNC-EEVREAYRKKGWALSNPDLIDQCKRE 100 (297)
Q Consensus 68 ~~CCntC-edV~~ay~~~gw~~~~~~~ieQC~~e 100 (297)
..+|-.| +.|.++|++.||.| +.+|.++
T Consensus 269 ~~~C~aCs~~v~~~y~~~g~~f-----v~~~~~~ 297 (307)
T cd01486 269 YDQCTACSDAVIDEYHREGWEF-----VLKAFNS 297 (307)
T ss_pred CCccccCCHHHHHHHHhccHHH-----HHHHHcC
Confidence 4567666 56899999999988 5566554
No 10
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=25.87 E-value=81 Score=26.02 Aligned_cols=8 Identities=38% Similarity=0.505 Sum_probs=2.8
Q ss_pred HHHHhhhh
Q 022435 283 GQRAIKKK 290 (297)
Q Consensus 283 ~~~~i~~k 290 (297)
..++++||
T Consensus 87 ~irR~~Kk 94 (122)
T PF01102_consen 87 CIRRLRKK 94 (122)
T ss_dssp HHHHHS--
T ss_pred HHHHHhcc
Confidence 34455444
No 11
>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=25.73 E-value=56 Score=27.72 Aligned_cols=10 Identities=50% Similarity=0.989 Sum_probs=4.2
Q ss_pred hHhhcchhhH
Q 022435 263 CAIVGGVFTV 272 (297)
Q Consensus 263 cAIiGGvftv 272 (297)
++|.||+|++
T Consensus 130 l~i~~giy~~ 139 (145)
T PF10661_consen 130 LAICGGIYVV 139 (145)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 12
>COG3765 WzzB Chain length determinant protein [Cell envelope biogenesis, outer membrane]
Probab=25.41 E-value=69 Score=31.08 Aligned_cols=39 Identities=13% Similarity=0.188 Sum_probs=27.8
Q ss_pred EEEEeccceEEEEEeeeccHHHHHHHHhHhhcchhhHHHHH
Q 022435 236 FFFYDLSPIKVTFTEEHVSFLHFLTNVCAIVGGVFTVSGII 276 (297)
Q Consensus 236 ~F~Yd~SPi~V~~~e~r~s~~~flt~lcAIiGGvftv~gli 276 (297)
-|+|+-+|..=+-. ..|=-.+++-+.|+|||++.+...+
T Consensus 298 ~yRYl~~P~~Pvkr--d~PrrA~ilil~~LiGgm~g~g~vL 336 (347)
T COG3765 298 TYRYLQKPTLPVKR--DSPRRAIILILGALIGGMLGAGVVL 336 (347)
T ss_pred EEEecCCCCCCCcC--CCcchHHHHHHHHHHHHHHHHHHHH
Confidence 46677766554332 2456789999999999999877765
No 13
>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=24.74 E-value=57 Score=27.24 Aligned_cols=23 Identities=30% Similarity=0.472 Sum_probs=20.3
Q ss_pred CCCcceEEEEEEEeeeeeeEEEc
Q 022435 110 EGEGCNIYGFLEVNKVAGNFHFA 132 (297)
Q Consensus 110 ~~eGC~i~G~~~VnkV~Gnfhia 132 (297)
..|-|.+.|+|..+++-|.+--+
T Consensus 30 ~~~~~~~~Gtv~A~~i~GDiv~~ 52 (136)
T PF12421_consen 30 IAESCTFKGTVYANKIIGDIVKA 52 (136)
T ss_pred EcccceEEeEEEehhEecceeEE
Confidence 47889999999999999987654
No 14
>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=21.82 E-value=89 Score=23.18 Aligned_cols=22 Identities=14% Similarity=0.489 Sum_probs=17.9
Q ss_pred hHhhcchh-hHHHHHHHHHHHHH
Q 022435 263 CAIVGGVF-TVSGIIDAFIYHGQ 284 (297)
Q Consensus 263 cAIiGGvf-tv~gliD~~~~~~~ 284 (297)
.+||||++ ++++++-.+.|+..
T Consensus 36 IGvi~gi~~~~lt~ltN~YFK~k 58 (68)
T PF04971_consen 36 IGVIGGIFFGLLTYLTNLYFKIK 58 (68)
T ss_pred HHHHHHHHHHHHHHHhHhhhhhh
Confidence 47888876 89999999998754
No 15
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=21.64 E-value=34 Score=22.32 Aligned_cols=9 Identities=33% Similarity=0.944 Sum_probs=7.3
Q ss_pred ccccchHHH
Q 022435 69 DCCNNCEEV 77 (297)
Q Consensus 69 ~CCntCedV 77 (297)
.||+||..-
T Consensus 24 fCC~tC~~~ 32 (37)
T PF08394_consen 24 FCCPTCLSQ 32 (37)
T ss_pred EECHHHHHH
Confidence 699999854
No 16
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 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 []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=20.91 E-value=1.5e+02 Score=19.64 Aligned_cols=29 Identities=34% Similarity=0.495 Sum_probs=20.0
Q ss_pred ccHHHHHHHHhHhhcchhhHHHHHHHHHHHH
Q 022435 253 VSFLHFLTNVCAIVGGVFTVSGIIDAFIYHG 283 (297)
Q Consensus 253 ~s~~~flt~lcAIiGGvftv~gliD~~~~~~ 283 (297)
.|+..||.++.| ||++.+.-+.-.+++=+
T Consensus 3 pSL~nfl~Sl~a--G~~iVv~~i~~ali~VS 31 (39)
T PF06596_consen 3 PSLSNFLLSLVA--GAVIVVIPIAGALIFVS 31 (39)
T ss_dssp HHHHHHHHHHHH--HH-HHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHh--hhhhhhhhhhhheEEEe
Confidence 578889998854 77777777766666643
Done!