Query 026608
Match_columns 236
No_of_seqs 130 out of 229
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 10:15:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026608hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00066 PsbP domain-containin 100.0 5.5E-47 1.2E-51 340.0 19.7 164 60-236 85-260 (262)
2 PLN00059 PsbP domain-containin 100.0 1.5E-39 3.2E-44 291.2 17.5 144 82-235 108-285 (286)
3 PLN00042 photosystem II oxygen 100.0 5.4E-39 1.2E-43 287.3 18.5 150 76-234 85-259 (260)
4 PLN00067 PsbP domain-containin 100.0 7.3E-38 1.6E-42 279.7 18.6 136 94-234 106-263 (263)
5 PF01789 PsbP: PsbP; InterPro 100.0 2E-36 4.4E-41 255.7 14.1 162 44-235 4-175 (175)
6 PLN03152 hypothetical protein; 99.9 1E-25 2.3E-30 197.8 16.1 136 93-235 84-241 (241)
7 PF08786 DUF1795: Domain of un 97.8 0.00068 1.5E-08 54.2 12.9 122 96-232 3-130 (130)
8 PRK11615 hypothetical protein; 92.9 3.7 8E-05 36.0 12.9 130 94-234 49-184 (185)
9 COG5435 Uncharacterized conser 90.4 4.8 0.0001 34.2 10.6 124 96-234 10-141 (147)
10 PF10738 Lpp-LpqN: Probable li 87.8 7.5 0.00016 33.6 10.3 134 92-235 30-174 (175)
11 PF07174 FAP: Fibronectin-atta 61.8 54 0.0012 30.7 8.5 21 90-110 114-134 (297)
12 smart00564 PQQ beta-propeller 53.7 19 0.00041 21.3 2.9 24 197-220 9-32 (33)
13 COG3212 Predicted membrane pro 52.6 33 0.00071 28.7 5.1 36 170-216 100-135 (144)
14 PF07009 DUF1312: Protein of u 49.5 42 0.00091 26.5 5.0 42 176-217 31-81 (113)
15 PF01011 PQQ: PQQ enzyme repea 43.2 14 0.00031 23.3 1.2 24 198-221 4-27 (38)
16 PF12712 DUF3805: Domain of un 43.1 2.1E+02 0.0046 24.4 11.7 120 93-234 9-130 (153)
17 PF15495 Fimbrillin_C: Major f 32.9 86 0.0019 23.8 4.3 35 178-212 5-44 (85)
18 PF10518 TAT_signal: TAT (twin 28.5 58 0.0013 19.5 2.1 24 34-57 2-25 (26)
19 PF09478 CBM49: Carbohydrate b 24.9 1.1E+02 0.0024 22.5 3.6 30 177-206 12-43 (80)
20 smart00712 PUR DNA/RNA-binding 24.6 2E+02 0.0044 20.8 4.8 55 176-231 7-61 (63)
21 PLN00064 photosystem II protei 22.8 1.1E+02 0.0024 26.5 3.6 18 139-156 116-133 (166)
22 cd01396 MeCP2_MBD MeCP2, MBD1, 21.8 95 0.0021 23.2 2.7 30 98-127 6-35 (77)
23 smart00456 WW Domain with 2 co 21.5 55 0.0012 19.5 1.2 18 203-220 12-29 (32)
24 PF14289 DUF4369: Domain of un 21.3 3E+02 0.0066 20.0 5.4 25 179-204 24-48 (106)
No 1
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=5.5e-47 Score=340.00 Aligned_cols=164 Identities=24% Similarity=0.445 Sum_probs=147.5
Q ss_pred CCCCCccceeeeccCCCcCccCCcCCcccCCCCccEEeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEee-
Q 026608 60 LAEPAQTYHIYYGTAASAANYGGYGGNSDKKASAEYIYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFLA- 138 (236)
Q Consensus 60 ~~~~~~~~~~y~g~~~~~~~~GG~g~~~d~~dg~~Y~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~s- 138 (236)
++++++||+|||+|+++ ||||||+ |++..+|.|++|+||+|++|||+|+|++|+|++|.|+.+ +||+|+|..
T Consensus 85 s~~~~~g~~~~~rp~~~---~Gg~G~~--~~~i~~Y~F~yP~GW~ev~VS~~d~gg~~vd~Rf~~~~~--~nvsVvVspv 157 (262)
T PLN00066 85 SEPDENGWRTYRRPEGK---SGGHGVG--WSEITPYSFKVPQGWEEVPVSIADLGGTEIDLRFASDKE--GRLKVVVAPV 157 (262)
T ss_pred CCccccceEEEecCccc---cCcCCCC--ccccCCeEEECCCCCeEeecccccCCCCceEEEeccCCC--ccEEEEEecc
Confidence 45678999999999988 9999999 899999999999999999999999999999999999544 456666641
Q ss_pred -----------cccccCChHHHHHHHHhhccccchhcccccceeeceeeecCCeeeEEEEEccCCceeEEEEEEeCCEEE
Q 026608 139 -----------GFRQLAPKDAVLNNLALSDVDLQDLLASADKVASEEKKDDKGQLYYVYEIDGVGSHSLISVTCANNKLY 207 (236)
Q Consensus 139 -----------~i~~LG~peevl~~l~~~~~~~~~~i~~a~~llsa~~r~~dGktYY~yE~~~~~rH~LasvTV~~GkLY 207 (236)
+|+|||+|++|++.|..+.++.+. ++++|+++++++.|||+||+||| .||+|++|||++||||
T Consensus 158 ~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~~---~e~eLl~a~~re~dGktYY~~E~---~rH~LasaTV~~GrLY 231 (262)
T PLN00066 158 LRFADNLGDNATIEEIGPPEKVISGFGPELIGEPV---EEGKVLSMEVAEHSGRTYYQFEL---PPHTLVTATAAGNRVY 231 (262)
T ss_pred ccccccccCCCChHHcCCHHHHHHHHHHHhcCCCc---cccceeEeeeeecCCcEEEEEEE---eCceEEEEEEECCEEE
Confidence 567999999999999887766554 35569999999999999999999 4999999999999999
Q ss_pred EEEeecCCccchhhHHHHHHHhhcceecC
Q 026608 208 AHFVNAPTPEWNRDEETLRHVHESFKTVQ 236 (236)
Q Consensus 208 tl~v~a~ekrW~k~~~~Lr~VvdSF~V~~ 236 (236)
+|++++||+||+|++++|++|++||+|++
T Consensus 232 t~~asape~rW~k~~~~lr~v~dSF~V~~ 260 (262)
T PLN00066 232 IFSVTANGLQWKRHYKDLKRIAKSFRVVT 260 (262)
T ss_pred EEEeecchHhhHHHHHHHHHHhhceeeec
Confidence 99999999999999999999999999975
No 2
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=1.5e-39 Score=291.23 Aligned_cols=144 Identities=20% Similarity=0.334 Sum_probs=128.6
Q ss_pred CcCCcccCCCCccEEeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEee-------cccccCChHHHHHHHH
Q 026608 82 GYGGNSDKKASAEYIYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFLA-------GFRQLAPKDAVLNNLA 154 (236)
Q Consensus 82 G~g~~~d~~dg~~Y~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~s-------~i~~LG~peevl~~l~ 154 (236)
||....|+.|||+|.| |.||.++. ..|+|++|+|+++.+|||+|+|+. +|+|||+|++|+++|+
T Consensus 108 ~l~~y~D~~DGY~FlY--P~GWi~V~-------~~G~DVvFrD~Ie~~ENVSV~ISs~sss~~~sLeDLGsP~eVgerLl 178 (286)
T PLN00059 108 VFREYIDTFDGYSFKY--PQNWIQVR-------GAGADIFFRDPVVLDENLSVEFSSPSSSKYTSLEDLGSPEEVGKRVL 178 (286)
T ss_pred ccceeEcCCCCeEEeC--CCCCeEec-------cCCCceEEeccCccccceEEEEecCCcccCCChHHcCCHHHHHHHHH
Confidence 5777789999999999 99999998 469999999999999999999982 6889999999999999
Q ss_pred hhccccc-----hhcccccceeeceeeec-CCeeeEEEEEc---------------------cCCceeEEEEEEeCCEEE
Q 026608 155 LSDVDLQ-----DLLASADKVASEEKKDD-KGQLYYVYEID---------------------GVGSHSLISVTCANNKLY 207 (236)
Q Consensus 155 ~~~~~~~-----~~i~~a~~llsa~~r~~-dGktYY~yE~~---------------------~~~rH~LasvTV~~GkLY 207 (236)
++.++.+ +..+ ..+|+++++|+. ||++||+|||. +|.||+|++|+|.|||||
T Consensus 179 kqvLa~f~str~GsgR-eaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~~~qdr~~~~~w~RH~LA~v~V~nGkLY 257 (286)
T PLN00059 179 RQYLTEFMSTRLGVKR-EANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVENDRLY 257 (286)
T ss_pred HHHhcccccccCCCCc-ceEEEEeeeEEccCCcEEEEEEEEEEcCcccccccccccccccccccceeeEEEEEEeCCEEE
Confidence 8887653 3444 455999987754 99999999998 248999999999999999
Q ss_pred EEEeecCCccchhhHHHHHHHhhcceec
Q 026608 208 AHFVNAPTPEWNRDEETLRHVHESFKTV 235 (236)
Q Consensus 208 tl~v~a~ekrW~k~~~~Lr~VvdSF~V~ 235 (236)
+|++|+||+||.|++++|++|++||+|.
T Consensus 258 TL~~qtpE~RW~kvk~~f~~V~dSF~V~ 285 (286)
T PLN00059 258 SIRLQTPEKVFLEEEKDLRRVMDSFRVE 285 (286)
T ss_pred EEEcCCcHHHHHHHHHHHHHHHhheeec
Confidence 9999999999999999999999999986
No 3
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=5.4e-39 Score=287.27 Aligned_cols=150 Identities=17% Similarity=0.265 Sum_probs=125.0
Q ss_pred CcCccCCcCCcccCCCCccEEeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEe----ecccccCChHHHHH
Q 026608 76 SAANYGGYGGNSDKKASAEYIYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFL----AGFRQLAPKDAVLN 151 (236)
Q Consensus 76 ~~~~~GG~g~~~d~~dg~~Y~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~----s~i~~LG~peevl~ 151 (236)
+|-+.-||... +.|||+|.| |++|+++++ .+..|+|++|+|+++.+|||+|+|+ .+|+|||+||++++
T Consensus 85 ~~k~~~gF~~y--~~dgY~Fly--P~~W~~~ke----~~~~G~dv~f~D~~~~~eNVSV~Ispt~k~sI~dlGsPee~l~ 156 (260)
T PLN00042 85 KPKTNTGFLPY--NGDGFKLLV--PSKWNPSKE----REFPGQVLRFEDNFDATSNLSVMVTPTDKKSITDYGSPEEFLS 156 (260)
T ss_pred CCCCCCCCeEe--eCCCeEEec--CCCCccccc----cccCCceEEeeccccccccEEEEEecCCcCCHhhcCCHHHHHH
Confidence 44556667666 458888888 999998874 4578999999999999999999998 49999999999655
Q ss_pred H----HHhhccccc---------hhcccccceeeceeeecCCeeeEEEEEc-------cCCceeEEEEEEeCCEEEEEEe
Q 026608 152 N----LALSDVDLQ---------DLLASADKVASEEKKDDKGQLYYVYEID-------GVGSHSLISVTCANNKLYAHFV 211 (236)
Q Consensus 152 ~----l~~~~~~~~---------~~i~~a~~llsa~~r~~dGktYY~yE~~-------~~~rH~LasvTV~~GkLYtl~v 211 (236)
. |.++.+..+ +++++ .+|+++++++.||++||+|||. +++||+||+|||+|||||+|++
T Consensus 157 ~vgylL~kq~~a~~t~s~~Gf~p~~vat-a~Lleas~re~dGk~YY~lE~~~~~ad~d~~~RH~LatatV~~GkLYtl~a 235 (260)
T PLN00042 157 KVSYLLGKQAYSGETASEGGFDANAVAT-AAVLESSTQEVGGKPYYYLSVLTRTADGDEGGKHQLITATVSDGKLYICKA 235 (260)
T ss_pred HHHHHHHhhhccCccccccCcCcccccc-eeEEEeeeEEeCCeEEEEEEEEEecCCCCCCCceEEEEEEEECCEEEEEEe
Confidence 4 444444433 22333 3599999999999999999997 3789999999999999999999
Q ss_pred ecCCccchhh-HHHHHHHhhccee
Q 026608 212 NAPTPEWNRD-EETLRHVHESFKT 234 (236)
Q Consensus 212 ~a~ekrW~k~-~~~Lr~VvdSF~V 234 (236)
|+||+||+|+ ++.|++|++||+|
T Consensus 236 qa~EkRW~K~~~k~l~~v~~SFsV 259 (260)
T PLN00042 236 QAGDKRWFKGARKFVEGAASSFSV 259 (260)
T ss_pred cCchhhhhHHHHHHHHHHHhceec
Confidence 9999999998 7789999999997
No 4
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=7.3e-38 Score=279.73 Aligned_cols=136 Identities=22% Similarity=0.384 Sum_probs=117.0
Q ss_pred cEEeeCCCCceecceeccccCC--------CCcceEEeCCCCCCceEEEEEe----------ecccccCChHHHHHHHHh
Q 026608 94 EYIYDVPDGWKERLVSKVEKGT--------NGTDSEFYNPKKRTEKEYLTFL----------AGFRQLAPKDAVLNNLAL 155 (236)
Q Consensus 94 ~Y~y~vP~gW~ev~Vs~~e~g~--------~G~Dv~F~d~~~~~enVsvvi~----------s~i~~LG~peevl~~l~~ 155 (236)
.|.|.+|+||+|++|+++..|+ .|+|++|+|+. ++||+|+|+ .+|+|||+|++|+++|..
T Consensus 106 gY~FlyP~gW~~v~Vs~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~ 183 (263)
T PLN00067 106 PYQFILPPTWKQTRVANILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGP 183 (263)
T ss_pred cceEeCCCCCcCccccccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhH
Confidence 4555559999999999986664 35899999965 558888865 278899999999999977
Q ss_pred hccccchhcccccceeeceeeecCCeeeEEEEEc----cCCceeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhc
Q 026608 156 SDVDLQDLLASADKVASEEKKDDKGQLYYVYEID----GVGSHSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHES 231 (236)
Q Consensus 156 ~~~~~~~~i~~a~~llsa~~r~~dGktYY~yE~~----~~~rH~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdS 231 (236)
...+. .. +.++|+++++++.||++||+|||. +++||+|+++||++||||||++++||+||+|+++.|++|++|
T Consensus 184 ~v~g~--~~-~~~eLLeAs~re~dGktYY~~E~~tp~a~~gRHnLataTV~~GkLYtf~asanEkRW~K~k~~l~~V~dS 260 (263)
T PLN00067 184 FVTGN--SY-DPDELLETSVEKIGDQTYYKYVLETPFALTGSHNLAKATAKGNTVVLFVVSASDKQWQSSEKTLKAILDS 260 (263)
T ss_pred HhhcC--CC-CCcceEEeeeEeeCCeEEEEEEEEecCCCCCceEEEEEEEECCEEEEEEecCCHHHHHHHHHHHHHHHHh
Confidence 76652 22 345699999999999999999999 468999999999999999999999999999999999999999
Q ss_pred cee
Q 026608 232 FKT 234 (236)
Q Consensus 232 F~V 234 (236)
|+|
T Consensus 261 FsV 263 (263)
T PLN00067 261 FQA 263 (263)
T ss_pred ccC
Confidence 986
No 5
>PF01789 PsbP: PsbP; InterPro: IPR002683 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 []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbP. Both PsbP and PsbQ (IPR008797 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. PsbP increases the affinity of the water oxidation site for chloride ions and provides the conditions required for high affinity binding of calcium ions [, ]. The crystal structure of PsbP from Nicotiana tabacum (Common tobacco) revealed a two-domain structure, where domain 1 may play a role in the ion retention activity in PSII, the N-terminal residues being essential for calcium and chloride ion retention activity []. PsbP is encoded in the nuclear genome in plants.; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 2VU4_A 1V2B_A 2LNJ_A 2XB3_A.
Probab=100.00 E-value=2e-36 Score=255.65 Aligned_cols=162 Identities=25% Similarity=0.465 Sum_probs=125.9
Q ss_pred HHHHHHHhhhcccCCCCCCCCccceeeeccCCCcCccCCcCCcccCCCCccEEeeCCCCceecceeccccCCCCcceEEe
Q 026608 44 LTATLATTTLLTASPSLAEPAQTYHIYYGTAASAANYGGYGGNSDKKASAEYIYDVPDGWKERLVSKVEKGTNGTDSEFY 123 (236)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~~~~y~g~~~~~~~~GG~g~~~d~~dg~~Y~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~ 123 (236)
|++++.+++..|.. ....+|+.|.. ..++|.|.| |+||+++. ..|+|++|+
T Consensus 4 ~~~~~~~~~~~~~~----~~~~~~~~y~d----------------~~~~y~f~~--P~gW~~~~-------~~G~~v~f~ 54 (175)
T PF01789_consen 4 LAALLSSANVACAA----EASTGFQPYTD----------------SDDGYSFLY--PSGWEEVD-------VSGADVVFR 54 (175)
T ss_dssp ------------ST----T--SSEEEEEE----------------CTTTEEEEE--ETTEEEEE-------STTEEEEEE
T ss_pred eEEeeccchhhhcc----cCCCCceEEEc----------------CCCCEEEEC--CCCCeecC-------CCCeEEEEE
Confidence 34444444444443 34677888873 446666666 99998887 478999999
Q ss_pred CCCCCCceEEEEEe----e-cccccCChHHHHHHHHhhccccchhcccccceeeceeeecCCeeeEEEEEc----c-CCc
Q 026608 124 NPKKRTEKEYLTFL----A-GFRQLAPKDAVLNNLALSDVDLQDLLASADKVASEEKKDDKGQLYYVYEID----G-VGS 193 (236)
Q Consensus 124 d~~~~~enVsvvi~----s-~i~~LG~peevl~~l~~~~~~~~~~i~~a~~llsa~~r~~dGktYY~yE~~----~-~~r 193 (236)
|+.+..+||+|+|. . +|++||+|++++++|+......+.... ..+|+++.+++.+|++||+|||. + +.|
T Consensus 55 d~~~~~~nvsV~v~p~~~~~sl~~lGs~~~va~~l~~~~~~~~~~~~-~a~li~a~~~~~~g~~yY~~Ey~~~~~~~~~r 133 (175)
T PF01789_consen 55 DPIDADENVSVVVSPVPKDFSLEDLGSPEEVAERLLNGELASPGSGR-EAELISASEREVDGKTYYEYEYTVQSPNEGRR 133 (175)
T ss_dssp ETTETTSEEEEEEEE-STS-SGGGG-SHHHHHHHHHHHCCCHCTSSE-EEEEEEEEEEEETTEEEEEEEEEEEETTEEEE
T ss_pred CcccccceEEEEEEecCCcCchhhcCCHHHHHHHHhhhhcccccCCc-ceEEEEeeeeecCCccEEEEEEEeccCCCccc
Confidence 99999999999987 2 899999999999999887766665444 45599999999999999999998 2 579
Q ss_pred eeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhcceec
Q 026608 194 HSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHESFKTV 235 (236)
Q Consensus 194 H~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdSF~V~ 235 (236)
|+|+++||.|||||+|+++++|+||.|++++|++|++||+|+
T Consensus 134 h~l~~~tv~~g~lY~l~~~a~e~~w~k~~~~l~~iv~SF~v~ 175 (175)
T PF01789_consen 134 HNLAVVTVKNGKLYTLTAQAPESRWDKVEPKLRKIVDSFRVY 175 (175)
T ss_dssp EEEEEEEEETTEEEEEEEEEEHHHHHTCHHHHHHHHHC-EE-
T ss_pred EEEEEEEEECCEEEEEEEEcCHHHHHHHHHHHHHHHhcEEeC
Confidence 999999999999999999999999999999999999999986
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.94 E-value=1e-25 Score=197.80 Aligned_cols=136 Identities=15% Similarity=0.238 Sum_probs=102.5
Q ss_pred ccEEeeCCCCceecc---eeccccCCCC-------cceEEeCCCCCCceEEEEEee------------cccccCChHHHH
Q 026608 93 AEYIYDVPDGWKERL---VSKVEKGTNG-------TDSEFYNPKKRTEKEYLTFLA------------GFRQLAPKDAVL 150 (236)
Q Consensus 93 ~~Y~y~vP~gW~ev~---Vs~~e~g~~G-------~Dv~F~d~~~~~enVsvvi~s------------~i~~LG~peevl 150 (236)
-.|...||..+..+- --++-..-+| --+||.. -+++|||+|+|.. .|.+||+++||+
T Consensus 84 ~gf~~~~pp~f~di~e~~~~~~g~~~yg~~akp~~~~aRf~s-~D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVg 162 (241)
T PLN03152 84 DGFSIRVPPSFEDIMEPEDYNAGLSLYGDKAKPRTFAARFAS-PDGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAA 162 (241)
T ss_pred CceEEeCCCChhhhcChhhcccccceecCCCCCcceeeeecC-CCCCceEEEEEecCccccccccccCChhHcCCHHHHH
Confidence 348888899997552 0111111222 2578854 4778999999872 577999999999
Q ss_pred HHHHhhccccchhcccccceeeceeeecCCeeeEEEEEccCCceeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhh
Q 026608 151 NNLALSDVDLQDLLASADKVASEEKKDDKGQLYYVYEIDGVGSHSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHE 230 (236)
Q Consensus 151 ~~l~~~~~~~~~~i~~a~~llsa~~r~~dGktYY~yE~~~~~rH~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~Vvd 230 (236)
+.++ ++++..-.+..+..+ ++.|||+||+|||.-.+||+|++|+|++||||+|.++++|+||.|++++|+++++
T Consensus 163 kv~v-----P~g~~~~saR~iel~-~E~dGKtYY~lEy~v~~RH~LaTVaVsrGKLYTl~aSt~EkRW~Kvk~kfr~aa~ 236 (241)
T PLN03152 163 KIFV-----PGGATLYSARTIKVK-EEEGIRTYYFYEFGRDEQHVALVATVNSGKAYIAGATAPESKWDDDGVKLRSAAI 236 (241)
T ss_pred HhhC-----CCcccccccceeeee-eecCCceeEEEEEEeCCcEEEEEEEEcCCeEEEEecCCchhchHHHHHHHHHHHh
Confidence 6654 333211011133333 5899999999999976999999999999999999999999999999999999999
Q ss_pred cceec
Q 026608 231 SFKTV 235 (236)
Q Consensus 231 SF~V~ 235 (236)
||+|+
T Consensus 237 SFsV~ 241 (241)
T PLN03152 237 SLTVL 241 (241)
T ss_pred heeeC
Confidence 99985
No 7
>PF08786 DUF1795: Domain of unknown function (DUF1795); InterPro: IPR014894 This is a bacterial protein of unknown function. It forms an antiparallel beta sheet structure and contains some alpha helical regions. ; PDB: 1TU1_A 3LYD_A.
Probab=97.82 E-value=0.00068 Score=54.24 Aligned_cols=122 Identities=13% Similarity=0.137 Sum_probs=73.7
Q ss_pred EeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEe-ecccccCChHHHHHHHHhhccccchhcccccceeece
Q 026608 96 IYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFL-AGFRQLAPKDAVLNNLALSDVDLQDLLASADKVASEE 174 (236)
Q Consensus 96 ~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~-s~i~~LG~peevl~~l~~~~~~~~~~i~~a~~llsa~ 174 (236)
.|.+|.+|+...++. +++.|+... ..+++|+ ..+.+=.+.++.+++..... ...+..-. +++.+
T Consensus 3 ~~~lP~~~~D~t~nv---------~~~~~~~~~--~~slvIsR~~l~~g~tl~~~~~~q~~~l---~~~l~~~~-~~~~~ 67 (130)
T PF08786_consen 3 SLTLPDGWQDRTMNV---------LVLPDSGGS--GPSLVISRDPLPDGETLEDYLQRQLAQL---RKQLPGFQ-LVERQ 67 (130)
T ss_dssp EEEEETTSEE--BEE---------EEE--BTTB---EEEEEEEE---TTS-HHHHHHHHHHHH---HCCSTT-E-EEEEE
T ss_pred eEeCCCcceeceEEE---------EEccCCCCC--cceEEEEeccCCCCCCHHHHHHHHHHHH---HhhCCCcE-EEeeE
Confidence 456699999987642 344444333 3444554 34433345555555543221 11111111 44555
Q ss_pred eeecCCeeeEEEEEc----cCCceeEEEEEEeC-CEEEEEEeecCCccchhhHHHHHHHhhcc
Q 026608 175 KKDDKGQLYYVYEID----GVGSHSLISVTCAN-NKLYAHFVNAPTPEWNRDEETLRHVHESF 232 (236)
Q Consensus 175 ~r~~dGktYY~yE~~----~~~rH~LasvTV~~-GkLYtl~v~a~ekrW~k~~~~Lr~VvdSF 232 (236)
....+|+.-+.+|+. +..-|+...+...+ +++|+|..+++.......++.+..|++||
T Consensus 68 ~~~l~~~~a~~l~~~~~~~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~~~~~~~i~~Sf 130 (130)
T PF08786_consen 68 PITLGGRPARELEYSFRSGGQPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQRAHWEAILKSF 130 (130)
T ss_dssp EEEETTEEEEEEEEEEEETTCEEEEEEEEEEEC-CCEEEEEEEEECCCHHHHHHHHHHHHCT-
T ss_pred EEEeCCCCeEEEEEEEeeCCEEEEEEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 566788877777777 33468888888777 99999999999999999999999999998
No 8
>PRK11615 hypothetical protein; Provisional
Probab=92.93 E-value=3.7 Score=36.01 Aligned_cols=130 Identities=15% Similarity=0.163 Sum_probs=79.4
Q ss_pred cEEeeCCCCceecceeccccCCCCc-ceEEeCCCCCCceEEEEEeecccccCChHHHHHHHHhhccccchhccccc-cee
Q 026608 94 EYIYDVPDGWKERLVSKVEKGTNGT-DSEFYNPKKRTEKEYLTFLAGFRQLAPKDAVLNNLALSDVDLQDLLASAD-KVA 171 (236)
Q Consensus 94 ~Y~y~vP~gW~ev~Vs~~e~g~~G~-Dv~F~d~~~~~enVsvvi~s~i~~LG~peevl~~l~~~~~~~~~~i~~a~-~ll 171 (236)
.+.|.+|.|+.+..- | .|+.+. =-+|-|+ .++++.++|..+ ++.+.|+.|+.....-| .-+.++ .++
T Consensus 49 Kl~FtLPag~sdqsg-k--~Gtq~nn~~vYad~--tg~kavIVi~gD-----~~~~~Ld~la~rl~~qQ-r~rdp~lqvv 117 (185)
T PRK11615 49 KLSFTLPADMSDQSG-K--LGTQANNMHVYADA--TGQKAVIVILGD-----DTNEDLAVLAKRLEDQQ-RSRDPQLQVV 117 (185)
T ss_pred EEEEEcCCccccccc-c--ccccccceEEEEcC--CCCEEEEEEeCC-----CChhhHHHHHHHHHHHH-HhhCcCceee
Confidence 688888999986641 1 234443 3567773 334554444321 23344454432221111 111111 023
Q ss_pred eceeeecCCeeeEEEEEc---cC-CceeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhccee
Q 026608 172 SEEKKDDKGQLYYVYEID---GV-GSHSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHESFKT 234 (236)
Q Consensus 172 sa~~r~~dGktYY~yE~~---~~-~rH~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdSF~V 234 (236)
..+.-+.+|+.++.++-. ++ -.-+=+.++..++||-++.+..|.+-=.+.+..-++|+++..+
T Consensus 118 snK~i~i~G~~~qQLDS~~t~~Gqk~~SSvvL~~v~~rl~tlQitlpA~nqqqaq~~ae~ii~tl~~ 184 (185)
T PRK11615 118 TNKAIELKGHKLQQLDSIISAKGQTAYSSVVLGKVDNQLLTMQITLPADNQQQAQTTAENIINTLVI 184 (185)
T ss_pred cceeEEECCeeeEEeeeeeecCCceEEEEEEEEeeCCeEEEEEEecCCCCHHHHHHHHHHHHhheec
Confidence 334456799999999987 22 2234566777899999999999999888889999999887654
No 9
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=90.43 E-value=4.8 Score=34.19 Aligned_cols=124 Identities=12% Similarity=0.149 Sum_probs=69.3
Q ss_pred EeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEee-cccccCChHHHHHHHHhhccccchhcccccceeece
Q 026608 96 IYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFLA-GFRQLAPKDAVLNNLALSDVDLQDLLASADKVASEE 174 (236)
Q Consensus 96 ~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~s-~i~~LG~peevl~~l~~~~~~~~~~i~~a~~llsa~ 174 (236)
.+++|+.|+...|+. |.....+..-.+++|+= .++.=-+-.+..++.+.. +.+++..-+ ++.-.
T Consensus 10 ~l~lP~~w~DrSvNv-----------f~~~~~gt~~~sfvIsRd~~~~g~~~~~y~~rql~~---l~k~Lpgy~-~~~~~ 74 (147)
T COG5435 10 TLELPAAWQDRSVNV-----------FVSGDNGTSGFSFVISRDPLEPGDTFPEYVQRQLAL---LRKQLPGYE-LHHRR 74 (147)
T ss_pred eEcCcchhccceEEE-----------EEecCCCcceeEEEEecCCCCCCCcHHHHHHHHHHH---HHhhCCCeE-Eeecc
Confidence 578899999888754 33333334445556652 222111112222222111 122221111 22222
Q ss_pred eeecCCe----eeEEEEEc--cCCc-eeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhccee
Q 026608 175 KKDDKGQ----LYYVYEID--GVGS-HSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHESFKT 234 (236)
Q Consensus 175 ~r~~dGk----tYY~yE~~--~~~r-H~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdSF~V 234 (236)
+-+.+|. .+|.+-+. ++++ |++.++.-.++++-+|..+++..-=++.|+....++.||..
T Consensus 75 e~~v~~~aa~~~~y~w~~~~~~~r~v~q~~~~i~~g~~vLifT~Tt~~~ftp~q~~~~~~~I~Sf~p 141 (147)
T COG5435 75 EIEVGGAAAPLLDYQWTSPEGEQRRVQQRQVFIERGDTVLIFTLTTPGEFTPSQKKAWEQVIQSFVP 141 (147)
T ss_pred ccccCccccceeEEEeecCCCCCceEEEEEeecccCCeEEEEEecCCCCCCHHHHHHHHHHHHhcCC
Confidence 3445554 56666663 4444 45555555668899999999888777889999999999974
No 10
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=87.79 E-value=7.5 Score=33.60 Aligned_cols=134 Identities=13% Similarity=0.073 Sum_probs=68.7
Q ss_pred CccEEeeCCCCceecceeccccCCCCcc-eEEeCCCCCC--ceEEEEEeecccccCChHHHHHHHHhhccccchhccccc
Q 026608 92 SAEYIYDVPDGWKERLVSKVEKGTNGTD-SEFYNPKKRT--EKEYLTFLAGFRQLAPKDAVLNNLALSDVDLQDLLASAD 168 (236)
Q Consensus 92 g~~Y~y~vP~gW~ev~Vs~~e~g~~G~D-v~F~d~~~~~--enVsvvi~s~i~~LG~peevl~~l~~~~~~~~~~i~~a~ 168 (236)
.-.-.+-+|.||....-.+++ .... +.... .++. -|+.|++.+=..+| +|+++++.--.+.-.+++.-
T Consensus 30 ~p~v~lP~P~GW~~~~~~~~~---~a~~vi~~~~-~~~~~~Pnavv~V~kL~G~~-Dp~e~l~~a~~d~~~l~g~~---- 100 (175)
T PF10738_consen 30 APTVSLPTPPGWEPAPDPNPP---WAYAVIVDPQ-ADGGFPPNAVVTVSKLTGDF-DPAEALEHAPADAQNLPGFR---- 100 (175)
T ss_pred CCEEeccCCcCcccCCCCCCC---ceEEEEEecc-ccCCCCCceEEEEEeccCCC-CHHHHHHhchhhHhhCcCcc----
Confidence 345667779999987622211 1112 12222 2222 36655444322345 47777764322222233221
Q ss_pred ceeeceeeecCCeeeEEEE----EccCCce--eEEEEEEeCCEEEE--EEeecCCccchhhHHHHHHHhhcceec
Q 026608 169 KVASEEKKDDKGQLYYVYE----IDGVGSH--SLISVTCANNKLYA--HFVNAPTPEWNRDEETLRHVHESFKTV 235 (236)
Q Consensus 169 ~llsa~~r~~dGktYY~yE----~~~~~rH--~LasvTV~~GkLYt--l~v~a~ekrW~k~~~~Lr~VvdSF~V~ 235 (236)
-++.+.-+-+|-.=+.+| ..+..+| +..+|...++..|. |++++.+.+=...-+....|.+.|+|-
T Consensus 101 -~~~~s~~~~~GfpS~~i~GtY~~~g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~qa~~~~~a~~aI~~g~~It 174 (175)
T PF10738_consen 101 -ELDGSPSDFSGFPSSQIEGTYDKDGMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQAVALADATEAIDEGFTIT 174 (175)
T ss_pred -cccCCccccCCCceeEEEEEEeeCCEEeEeEEEEEEEeCCCcEEEEEEEeeccccchhhhhhHHHHHHcCCEec
Confidence 123333344454444433 2222233 34444445666665 556667777777789999999999985
No 11
>PF07174 FAP: Fibronectin-attachment protein (FAP); InterPro: IPR010801 This family contains bacterial fibronectin-attachment proteins (FAP). Family members are rich in alanine and proline, are approximately 300 long, and seem to be restricted to mycobacteria. These proteins contain a fibronectin-binding motif that allows mycobacteria to bind to fibronectin in the extracellular matrix [].; GO: 0050840 extracellular matrix binding, 0005576 extracellular region
Probab=61.84 E-value=54 Score=30.75 Aligned_cols=21 Identities=38% Similarity=0.703 Sum_probs=15.4
Q ss_pred CCCccEEeeCCCCceecceec
Q 026608 90 KASAEYIYDVPDGWKERLVSK 110 (236)
Q Consensus 90 ~dg~~Y~y~vP~gW~ev~Vs~ 110 (236)
.+...|+|.||.||++..-+.
T Consensus 114 n~~gGFS~vvP~GW~~Sda~~ 134 (297)
T PF07174_consen 114 NAAGGFSYVVPAGWVESDASH 134 (297)
T ss_pred ccccceEEeccCCccccccce
Confidence 344568999999999776433
No 12
>smart00564 PQQ beta-propeller repeat. Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases.
Probab=53.72 E-value=19 Score=21.30 Aligned_cols=24 Identities=21% Similarity=0.307 Sum_probs=19.4
Q ss_pred EEEEEeCCEEEEEEeecCCccchh
Q 026608 197 ISVTCANNKLYAHFVNAPTPEWNR 220 (236)
Q Consensus 197 asvTV~~GkLYtl~v~a~ekrW~k 220 (236)
+-++-.+|+||.+.+...+.+|..
T Consensus 9 v~~~~~~g~l~a~d~~~G~~~W~~ 32 (33)
T smart00564 9 VYVGSTDGTLYALDAKTGEILWTY 32 (33)
T ss_pred EEEEcCCCEEEEEEcccCcEEEEc
Confidence 334557899999999999999963
No 13
>COG3212 Predicted membrane protein [Function unknown]
Probab=52.59 E-value=33 Score=28.75 Aligned_cols=36 Identities=31% Similarity=0.391 Sum_probs=28.3
Q ss_pred eeeceeeecCCeeeEEEEEccCCceeEEEEEEeCCEEEEEEeecCCc
Q 026608 170 VASEEKKDDKGQLYYVYEIDGVGSHSLISVTCANNKLYAHFVNAPTP 216 (236)
Q Consensus 170 llsa~~r~~dGktYY~yE~~~~~rH~LasvTV~~GkLYtl~v~a~ek 216 (236)
+.+.+-...+|+.+|++|+.. .+|+-|.|.+.|..-
T Consensus 100 v~dieLe~~~g~~vYevei~~-----------~d~~e~ev~iDA~TG 135 (144)
T COG3212 100 VDDIELEEDNGRLVYEVEIVK-----------DDGQEYEVEIDAKTG 135 (144)
T ss_pred eeEEEEeccCCEEEEEEEEEe-----------CCCcEEEEEEecCCC
Confidence 677777788999999999993 257888888777654
No 14
>PF07009 DUF1312: Protein of unknown function (DUF1312); InterPro: IPR010739 This family consists of several bacterial proteins of around 120 residues in length. The function of this family is unknown.; PDB: 4ESN_B 1NPP_B 1M1G_D 1NPR_A 1M1H_A 2KPP_A 3LD7_C.
Probab=49.45 E-value=42 Score=26.48 Aligned_cols=42 Identities=12% Similarity=0.059 Sum_probs=31.6
Q ss_pred eecCCeeeEEEEEcc---------CCceeEEEEEEeCCEEEEEEeecCCcc
Q 026608 176 KDDKGQLYYVYEIDG---------VGSHSLISVTCANNKLYAHFVNAPTPE 217 (236)
Q Consensus 176 r~~dGktYY~yE~~~---------~~rH~LasvTV~~GkLYtl~v~a~ekr 217 (236)
-..||+.|+.|.+.. .+......+-+.+|+.+.....+|++-
T Consensus 31 I~~~g~~~~~i~L~~~~~~~~i~i~~~~g~~~i~i~~g~vrv~~s~Cpdki 81 (113)
T PF07009_consen 31 IYVDGKEVKRIPLDKVNEDKTIEIDGDGGYNTIEIKDGKVRVIESDCPDKI 81 (113)
T ss_dssp EEETTEEEEEEETTS-BSEEEEEEETTTCEEEEEEETTEEEEEEESTSS-H
T ss_pred EEECCEEEEEEECCCCCCCEEEEEecCCcEEEEEEECCEEEEEECCCCCcc
Confidence 356899998887763 234445688899999999999999873
No 15
>PF01011 PQQ: PQQ enzyme repeat family.; InterPro: IPR002372 Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [, ]. A number of bacterial quinoproteins belong to this family. Enzymes in this group have repeats of a beta propeller.; PDB: 1H4I_C 1H4J_E 1W6S_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A 1G72_A ....
Probab=43.20 E-value=14 Score=23.33 Aligned_cols=24 Identities=21% Similarity=0.232 Sum_probs=20.4
Q ss_pred EEEEeCCEEEEEEeecCCccchhh
Q 026608 198 SVTCANNKLYAHFVNAPTPEWNRD 221 (236)
Q Consensus 198 svTV~~GkLYtl~v~a~ekrW~k~ 221 (236)
-++..+|+||.|.+.+.+..|...
T Consensus 4 ~~~~~~g~l~AlD~~TG~~~W~~~ 27 (38)
T PF01011_consen 4 YVGTPDGYLYALDAKTGKVLWKFQ 27 (38)
T ss_dssp EEETTTSEEEEEETTTTSEEEEEE
T ss_pred EEeCCCCEEEEEECCCCCEEEeee
Confidence 345688999999999999999764
No 16
>PF12712 DUF3805: Domain of unknown function (DUF3805); InterPro: IPR024315 This entry represents an N-terminal domain found in a family of bacterial proteins, whose function is unknown. In two related Bacteroides species, the gene for members of this family lies immediately upstream from a putative ATP binding component of an ATP transporter and a putative histidinol phosphatase. The structure of this domain is strikingly similar to the N-terminal structure of 1tui, also of unknown function. The domain carries four conserved tryptophan residues.; PDB: 3HLZ_A.
Probab=43.11 E-value=2.1e+02 Score=24.40 Aligned_cols=120 Identities=18% Similarity=0.230 Sum_probs=53.5
Q ss_pred ccEEeeCCCCceecceeccccCCCCcceEEeCCCCCCceEEEEEee-cccccCChHHHHHHHHhhcccc-chhcccccce
Q 026608 93 AEYIYDVPDGWKERLVSKVEKGTNGTDSEFYNPKKRTEKEYLTFLA-GFRQLAPKDAVLNNLALSDVDL-QDLLASADKV 170 (236)
Q Consensus 93 ~~Y~y~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~~~enVsvvi~s-~i~~LG~peevl~~l~~~~~~~-~~~i~~a~~l 170 (236)
.=|+..+|.+|.|..- .+--..|.||.+=+-|..+..-. .-.++| .+++..-+++..+. +-.+..-+-.
T Consensus 9 ~WFS~~YP~~W~EfED-------~E~sflFYnp~~WTGNfRISayk~~~~~yg--k~~i~~EL~en~~a~~vkvg~~~ca 79 (153)
T PF12712_consen 9 AWFSMEYPADWNEFED-------GEGSFLFYNPDQWTGNFRISAYKGGSAQYG--KECIRQELKENPSAKLVKVGNWECA 79 (153)
T ss_dssp G-EEEEE-TT-EEE----------TTEEEEE-SSS---EEEEEEEE--STTHH--HHHHHHHHHH-TT-EEEEETTEEEE
T ss_pred ceEEEecCCCcchhcc-------CCcceEEEChHHhcCceEEEEEecccccch--HHHHHHHHHhCCCcceEEeccEEEE
Confidence 3477777999999861 22346688888877776533322 222343 33443333332221 1122222223
Q ss_pred eeceeeecCCeeeEEEEEccCCceeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhccee
Q 026608 171 ASEEKKDDKGQLYYVYEIDGVGSHSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHESFKT 234 (236)
Q Consensus 171 lsa~~r~~dGktYY~yE~~~~~rH~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdSF~V 234 (236)
.+++..+.+|. ||+ .|- =||-.++..|.+.-+.+-. ...+..+.|+.|..|
T Consensus 80 Ys~E~f~eeg~-~Yt-------sH~--Wvtg~~~~sfeCSFTv~kg---~~~~~aE~iiasL~v 130 (153)
T PF12712_consen 80 YSKEMFQEEGA-YYT-------SHL--WVTGEGDVSFECSFTVPKG---ESVKEAEEIIASLEV 130 (153)
T ss_dssp EEEEEEEETTE-EEE-------EEE--EEEEETTEEEEEEEEEETT------HHHHHHHHH-EE
T ss_pred EEhhhhhccCe-eEE-------EEE--EEEecCceEEEEEEEccCC---CCcchHHHHHhhhee
Confidence 44444555554 333 232 2455677777777666543 234555666666655
No 17
>PF15495 Fimbrillin_C: Major fimbrial subunit protein type IV, Fimbrillin, C-terminal
Probab=32.86 E-value=86 Score=23.78 Aligned_cols=35 Identities=20% Similarity=0.322 Sum_probs=26.7
Q ss_pred cCCeeeEEEEEcc-----CCceeEEEEEEeCCEEEEEEee
Q 026608 178 DKGQLYYVYEIDG-----VGSHSLISVTCANNKLYAHFVN 212 (236)
Q Consensus 178 ~dGktYY~yE~~~-----~~rH~LasvTV~~GkLYtl~v~ 212 (236)
.+|..||.+.+.. .....+.-..|-+|..|.|.++
T Consensus 5 ~~G~~YY~~~I~h~d~~~~~~~~~~~y~IvRNn~Y~l~I~ 44 (85)
T PF15495_consen 5 ENGVCYYYYWINHNDNNNPATMGQGEYGIVRNNVYKLTIT 44 (85)
T ss_pred eCCEEEEEEEecCCCCCcccccccceeceEeccEEEEEEE
Confidence 5899999999982 1123455568889999999987
No 18
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=28.53 E-value=58 Score=19.54 Aligned_cols=24 Identities=21% Similarity=-0.017 Sum_probs=14.1
Q ss_pred CCCcchHHHHHHHHHHHhhhcccC
Q 026608 34 TPTKQSLTSLLTATLATTTLLTAS 57 (236)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~~~~ 57 (236)
+.+.+-|.+++++++++++-++.+
T Consensus 2 ~sRR~fLk~~~a~~a~~~~~~~~~ 25 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAAAALGGCAG 25 (26)
T ss_pred CcHHHHHHHHHHHHHHHHhccccC
Confidence 344556666666666666655554
No 19
>PF09478 CBM49: Carbohydrate binding domain CBM49; InterPro: IPR019028 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This domain is found at the C-terminal of cellulases and in vitro binding studies have shown it to binds to crystalline cellulose []. ; GO: 0030246 carbohydrate binding, 0005576 extracellular region
Probab=24.94 E-value=1.1e+02 Score=22.51 Aligned_cols=30 Identities=27% Similarity=0.517 Sum_probs=21.8
Q ss_pred ecCCeeeEEEEEc--cCCceeEEEEEEeCCEE
Q 026608 177 DDKGQLYYVYEID--GVGSHSLISVTCANNKL 206 (236)
Q Consensus 177 ~~dGktYY~yE~~--~~~rH~LasvTV~~GkL 206 (236)
..+|++||.|+.. +.+.|.+-.+.+.-..|
T Consensus 12 ~~~g~~y~qy~v~I~N~~~~~I~~~~i~~~~l 43 (80)
T PF09478_consen 12 TENGQTYTQYDVTITNNGSKPIKSLKISIDNL 43 (80)
T ss_pred EeCCEEEEEEEEEEEECCCCeEEEEEEEECcc
Confidence 5789999999998 66677776665544444
No 20
>smart00712 PUR DNA/RNA-binding repeats in PUR-alpha/beta/gamma and in hypothetical proteins from spirochetes and the Bacteroides-Cytophaga-Flexibacter bacteria.
Probab=24.63 E-value=2e+02 Score=20.79 Aligned_cols=55 Identities=9% Similarity=0.173 Sum_probs=34.2
Q ss_pred eecCCeeeEEEEEccCCceeEEEEEEeCCEEEEEEeecCCccchhhHHHHHHHhhc
Q 026608 176 KDDKGQLYYVYEIDGVGSHSLISVTCANNKLYAHFVNAPTPEWNRDEETLRHVHES 231 (236)
Q Consensus 176 r~~dGktYY~yE~~~~~rH~LasvTV~~GkLYtl~v~a~ekrW~k~~~~Lr~VvdS 231 (236)
-..+.++|| |++.+-.|-....|+-.++.---..+..|...|.+-.+.|..+++=
T Consensus 7 l~~~~k~fy-fDvk~N~rG~fLrIsE~~~~~~r~~I~lp~~~~~~F~~~l~~~~~~ 61 (63)
T smart00712 7 LTVENKRFY-FDVKENRRGRFLRISEVKNNGGRSSITVPEQGAAEFRDALNKLIEK 61 (63)
T ss_pred EEeCCcEEE-EEecccCCccEEEEEEecCCCCceEEEEEHHHHHHHHHHHHHHHHh
Confidence 345567776 7888433334445544332111566777889999999888887763
No 21
>PLN00064 photosystem II protein Psb27; Provisional
Probab=22.81 E-value=1.1e+02 Score=26.54 Aligned_cols=18 Identities=17% Similarity=0.117 Sum_probs=12.6
Q ss_pred cccccCChHHHHHHHHhh
Q 026608 139 GFRQLAPKDAVLNNLALS 156 (236)
Q Consensus 139 ~i~~LG~peevl~~l~~~ 156 (236)
+..-|.+..-+|+.|++.
T Consensus 116 Gl~SFttMyTALNaLAGH 133 (166)
T PLN00064 116 GRPSFRDMYSALNAVSGH 133 (166)
T ss_pred CcccHHHHHHHHHHHHHH
Confidence 444577777788888765
No 22
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=21.83 E-value=95 Score=23.21 Aligned_cols=30 Identities=27% Similarity=0.580 Sum_probs=19.6
Q ss_pred eCCCCceecceeccccCCCCcceEEeCCCC
Q 026608 98 DVPDGWKERLVSKVEKGTNGTDSEFYNPKK 127 (236)
Q Consensus 98 ~vP~gW~ev~Vs~~e~g~~G~Dv~F~d~~~ 127 (236)
.+|.||+...+-.......-.|+.|.+|..
T Consensus 6 ~lp~GW~r~~~~R~~gs~~k~DvyY~sP~G 35 (77)
T cd01396 6 RLPPGWKRELVPRKSGSAGKFDVYYISPTG 35 (77)
T ss_pred CCCCCCEEEEEEecCCCCCcceEEEECCCC
Confidence 369999877654432212346999988864
No 23
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=21.52 E-value=55 Score=19.50 Aligned_cols=18 Identities=11% Similarity=0.403 Sum_probs=14.4
Q ss_pred CCEEEEEEeecCCccchh
Q 026608 203 NNKLYAHFVNAPTPEWNR 220 (236)
Q Consensus 203 ~GkLYtl~v~a~ekrW~k 220 (236)
+|+.|-++..+.+.+|.+
T Consensus 12 ~g~~yy~n~~t~~s~W~~ 29 (32)
T smart00456 12 DGRPYYYNHETKETQWEK 29 (32)
T ss_pred CCCEEEEECCCCCEEcCC
Confidence 478888888888888865
No 24
>PF14289 DUF4369: Domain of unknown function (DUF4369)
Probab=21.26 E-value=3e+02 Score=20.01 Aligned_cols=25 Identities=28% Similarity=0.349 Sum_probs=10.6
Q ss_pred CCeeeEEEEEccCCceeEEEEEEeCC
Q 026608 179 KGQLYYVYEIDGVGSHSLISVTCANN 204 (236)
Q Consensus 179 dGktYY~yE~~~~~rH~LasvTV~~G 204 (236)
+|..-|.+.+.+. ...+-++.|.||
T Consensus 24 ~~~~vyL~~~~~~-~~~~ds~~v~nG 48 (106)
T PF14289_consen 24 DGDKVYLYYYDNG-KVVIDSVVVKNG 48 (106)
T ss_pred CCCEEEEEEeCCC-CEEEEEEEEeCC
Confidence 4444444444321 144444444433
Done!