Query 023653
Match_columns 279
No_of_seqs 175 out of 332
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 05:38:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023653hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00059 PsbP domain-containin 100.0 8.8E-57 1.9E-61 403.8 21.9 214 62-276 72-286 (286)
2 PLN00042 photosystem II oxygen 100.0 5E-53 1.1E-57 380.7 21.3 235 1-274 1-259 (260)
3 PF01789 PsbP: PsbP; InterPro 100.0 2.3E-40 5.1E-45 286.4 14.8 158 93-274 17-174 (175)
4 PLN00067 PsbP domain-containin 100.0 8.9E-39 1.9E-43 287.7 19.4 183 65-274 41-263 (263)
5 PLN00066 PsbP domain-containin 100.0 8.9E-36 1.9E-40 270.6 19.4 180 65-276 43-260 (262)
6 PLN03152 hypothetical protein; 99.9 2.1E-27 4.5E-32 209.1 13.1 175 65-275 29-241 (241)
7 PF08786 DUF1795: Domain of un 98.1 0.00019 4.1E-09 58.8 14.5 127 110-272 3-130 (130)
8 COG5435 Uncharacterized conser 94.1 2.5 5.5E-05 35.9 13.5 135 110-278 10-145 (147)
9 PRK11615 hypothetical protein; 94.0 3.8 8.2E-05 36.0 14.8 133 106-274 47-184 (185)
10 PF10738 Lpp-LpqN: Probable li 91.2 7 0.00015 34.1 12.9 132 109-275 33-174 (175)
11 PLN00016 RNA-binding protein; 73.8 1.9 4.2E-05 41.1 1.8 62 5-66 3-68 (378)
12 PF12712 DUF3805: Domain of un 72.8 58 0.0013 27.6 13.6 130 100-276 2-132 (153)
13 PF10518 TAT_signal: TAT (twin 66.6 7.2 0.00016 23.4 2.6 16 67-82 2-17 (26)
14 PF07174 FAP: Fibronectin-atta 66.1 98 0.0021 29.1 11.0 24 99-122 109-132 (297)
15 COG4784 Putative Zn-dependent 56.0 78 0.0017 31.1 8.7 41 235-276 375-416 (479)
16 PLN00058 photosystem II reacti 49.2 30 0.00066 27.4 4.0 24 61-84 43-66 (103)
17 smart00564 PQQ beta-propeller 48.7 25 0.00055 20.9 3.0 21 239-259 11-31 (33)
18 TIGR02811 formate_TAT formate 29.5 57 0.0012 23.9 2.7 14 64-77 6-19 (66)
19 PF10399 UCR_Fe-S_N: Ubiquitin 29.2 53 0.0012 21.9 2.2 16 63-78 5-20 (41)
20 PF08006 DUF1700: Protein of u 27.9 34 0.00075 29.3 1.5 21 152-172 45-65 (181)
21 PF01011 PQQ: PQQ enzyme repea 26.5 45 0.00097 21.1 1.5 22 239-260 5-26 (38)
22 PF08802 CytB6-F_Fe-S: Cytochr 22.1 82 0.0018 20.9 2.1 16 66-81 5-20 (39)
23 TIGR01409 TAT_signal_seq Tat ( 21.0 1E+02 0.0022 18.6 2.2 12 67-78 1-12 (29)
24 PF07009 DUF1312: Protein of u 21.0 2.4E+02 0.0052 22.4 5.1 25 236-260 60-84 (113)
No 1
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=8.8e-57 Score=403.77 Aligned_cols=214 Identities=73% Similarity=1.122 Sum_probs=194.8
Q ss_pred cccccchhHHHHHHHH-HHHHhhhcCCccccccccCCCcccceeCCCceEEeccCCceEecccccceEEeCCCCCCccEE
Q 023653 62 ATQFAVPRRNAMALIL-SSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVS 140 (279)
Q Consensus 62 ~~~~~~~RR~~l~~~~-sa~~~~~~~~~~~a~a~~~~gf~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~~~nVs 140 (279)
.+.++++||++|+..+ .+.++......+.|++.++ ||+.|.|+.|||+|+||.||+++++.|+|++|+|+++.+|||+
T Consensus 72 ~~~~~~~rr~~~~~~l~~~~~~~s~~~~~~a~a~~~-~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~ENVS 150 (286)
T PLN00059 72 KQVCAVGRRKSMMMGLLMSGLIVSEANLPTAFASIP-VFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDENLS 150 (286)
T ss_pred hhhhhhhhhhhhHHHHHHHHHHHHhhcCchhhcCCc-ccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCccccceE
Confidence 4468999999976443 2334333333346777654 8999999999999999999999999999999999999999999
Q ss_pred EEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCccccceeecceeeeCCCceEEEEEEEeecccccccccc
Q 023653 141 VELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAV 220 (279)
Q Consensus 141 V~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~ 220 (279)
|+|+|+++.++++|+|||+|+|||++|+++++++||+++.|++++++||++.+|++.||++||+|||.++.++++|++|+
T Consensus 151 V~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~ 230 (286)
T PLN00059 151 VEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNELAV 230 (286)
T ss_pred EEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCcccccccc
Confidence 99999885568999999999999999999999999999999999999999999986699999999999999999999999
Q ss_pred CCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHHHHhcceeeee
Q 023653 221 MPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNK 276 (279)
Q Consensus 221 ~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~~vv~SFrv~~ 276 (279)
++.+|.|.++|.||+|++++|.|||||||++|+||+||.|+++.|++|++||+|++
T Consensus 231 ~~qdr~~~~~w~RH~LA~v~V~nGkLYTL~~qtpE~RW~kvk~~f~~V~dSF~V~~ 286 (286)
T PLN00059 231 MPQDRVARLEWNRRYLAVLGVENDRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEK 286 (286)
T ss_pred cccccccccccceeeEEEEEEeCCEEEEEEcCCcHHHHHHHHHHHHHHHhheeecC
Confidence 99999999999999999999999999999999999999999999999999999975
No 2
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=5e-53 Score=380.67 Aligned_cols=235 Identities=23% Similarity=0.298 Sum_probs=191.9
Q ss_pred CcchhhhhccccCccccccccccccccCccchhhhhcccCCCccccceeeccccccccccccccccchhHHHHHHHHHH-
Q 023653 1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSS- 79 (279)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~k~~~i~~~~~~~~~RR~~l~~~~sa- 79 (279)
||+++||+||++++.+...++.+..+ . +.....++.+.+|.++.. +...++||.+|++++++
T Consensus 1 ~a~~~~~~~~~~~~~~~~~~~~~~~~-~---------~~~~~~~~~~~~~~~~~~-------~~~~~srr~~l~~~~ga~ 63 (260)
T PLN00042 1 MASTACFLHQSALKSAAALASSSSAS-A---------RAVSASRPSQVVCRAQEE-------DNSAVSRRAALALLAGAA 63 (260)
T ss_pred Ccchhhhhhcccccchhhhccccccc-c---------cccCCCCCcceeeecccc-------ccccccHHHHHHHHHHHH
Confidence 99999999999997663332221111 1 124445556667766521 33678999999988776
Q ss_pred HHhhhcCCcccccccc---------CCCcccceeCCCceEEeccCCceEec---ccccceEEeCCCCCCccEEEEEeCCC
Q 023653 80 YIFSDFGFRNTALAQQ---------SVGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPS 147 (279)
Q Consensus 80 ~~~~~~~~~~~a~a~~---------~~gf~~y~D~~dgYsf~yP~~W~~~~---~~G~d~~f~d~~~~~~nVsV~i~p~~ 147 (279)
++.+.+.|+.+||+++ ..||.+|. .|||+|+||.+|++++ .+|+|++|+|+++.++||+|+|+|++
T Consensus 64 a~~~~~~pa~aay~~~anvfg~~k~~~gF~~y~--~dgY~FlyP~~W~~~ke~~~~G~dv~f~D~~~~~eNVSV~Ispt~ 141 (260)
T PLN00042 64 AAGAKVSPANAAYGESANVFGKPKTNTGFLPYN--GDGFKLLVPSKWNPSKEREFPGQVLRFEDNFDATSNLSVMVTPTD 141 (260)
T ss_pred HhhcccCchhhhhcchhhccCCCCCCCCCeEee--CCCeEEecCCCCccccccccCCceEEeeccccccccEEEEEecCC
Confidence 3345788999998763 78999996 5999999999999654 46999999999999999999999986
Q ss_pred CCCCCccccCCChHH----HHHHHHHHHhhhhhhcccCCcc------ccceeecceeeeCCCceEEEEEEEeeccccccc
Q 023653 148 SSRYKSVEDLGPPKE----AGRKVLRQYLTEFMSTRLGVRR------ESNILSTSSRVADDGRLYYLVEVNIKSFANNNE 217 (279)
Q Consensus 148 ~~~~~si~dlGspee----va~~ll~~~~~~~~st~~g~~~------~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~ 217 (279)
+++|+|||+||| |++.|.++.+.+ .|+.++++ .++||++++++ +||++||+|||.+++
T Consensus 142 ---k~sI~dlGsPee~l~~vgylL~kq~~a~--~t~s~~Gf~p~~vata~Lleas~re-~dGk~YY~lE~~~~~------ 209 (260)
T PLN00042 142 ---KKSITDYGSPEEFLSKVSYLLGKQAYSG--ETASEGGFDANAVATAAVLESSTQE-VGGKPYYYLSVLTRT------ 209 (260)
T ss_pred ---cCCHhhcCCHHHHHHHHHHHHHhhhccC--ccccccCcCcccccceeEEEeeeEE-eCCeEEEEEEEEEec------
Confidence 689999999999 777788888876 45555554 67899999998 799999999999998
Q ss_pred cccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHh-hHHHHHHhcceee
Q 023653 218 LAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEE-ENDLRQVIDSFRV 274 (279)
Q Consensus 218 ~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~-~~~l~~vv~SFrv 274 (279)
|++ ++++||+|+++||.|||||||++|+||+||+|+ ++.|+.|++||+|
T Consensus 210 ----ad~----d~~~RH~LatatV~~GkLYtl~aqa~EkRW~K~~~k~l~~v~~SFsV 259 (260)
T PLN00042 210 ----ADG----DEGGKHQLITATVSDGKLYICKAQAGDKRWFKGARKFVEGAASSFSV 259 (260)
T ss_pred ----CCC----CCCCceEEEEEEEECCEEEEEEecCchhhhhHHHHHHHHHHHhceec
Confidence 776 789999999999999999999999999999998 5579999999997
No 3
>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=2.3e-40 Score=286.39 Aligned_cols=158 Identities=44% Similarity=0.718 Sum_probs=141.1
Q ss_pred cccCCCcccceeCCCceEEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHh
Q 023653 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYL 172 (279)
Q Consensus 93 a~~~~gf~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~ 172 (279)
+.+..||++|.|+.+||+|.||.+|+++++.|+|++|+|+.+..+||+|+|+|++. .++|+|||+|++|++.|++..+
T Consensus 17 ~~~~~~~~~y~d~~~~y~f~~P~gW~~~~~~G~~v~f~d~~~~~~nvsV~v~p~~~--~~sl~~lGs~~~va~~l~~~~~ 94 (175)
T PF01789_consen 17 AEASTGFQPYTDSDDGYSFLYPSGWEEVDVSGADVVFRDPIDADENVSVVVSPVPK--DFSLEDLGSPEEVAERLLNGEL 94 (175)
T ss_dssp TT--SSEEEEEECTTTEEEEEETTEEEEESTTEEEEEEETTETTSEEEEEEEE-ST--S-SGGGG-SHHHHHHHHHHHCC
T ss_pred ccCCCCceEEEcCCCCEEEECCCCCeecCCCCeEEEEECcccccceEEEEEEecCC--cCchhhcCCHHHHHHHHhhhhc
Confidence 45678999999999999999999999999999999999999999999999999984 4499999999999999999888
Q ss_pred hhhhhcccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEee
Q 023653 173 TEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQ 252 (279)
Q Consensus 173 ~~~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~q 252 (279)
.++ ++++.++||++.+++ .||++||+|||.+++ |+ ++.||+|+++++.+||||+|++|
T Consensus 95 ~~~-----~~~~~a~li~a~~~~-~~g~~yY~~Ey~~~~----------~~------~~~rh~l~~~tv~~g~lY~l~~~ 152 (175)
T PF01789_consen 95 ASP-----GSGREAELISASERE-VDGKTYYEYEYTVQS----------PN------EGRRHNLAVVTVKNGKLYTLTAQ 152 (175)
T ss_dssp CHC-----TSSEEEEEEEEEEEE-ETTEEEEEEEEEEEE----------TT------EEEEEEEEEEEEETTEEEEEEEE
T ss_pred ccc-----cCCcceEEEEeeeee-cCCccEEEEEEEecc----------CC------CcccEEEEEEEEECCEEEEEEEE
Confidence 753 445889999999999 689999999999988 32 37999999999999999999999
Q ss_pred cCccccHHhhHHHHHHhcceee
Q 023653 253 TPENVFVEEENDLRQVIDSFRV 274 (279)
Q Consensus 253 a~e~~W~k~~~~l~~vv~SFrv 274 (279)
++|++|+++++.|++|++||+|
T Consensus 153 a~e~~w~k~~~~l~~iv~SF~v 174 (175)
T PF01789_consen 153 APESRWDKVEPKLRKIVDSFRV 174 (175)
T ss_dssp EEHHHHHTCHHHHHHHHHC-EE
T ss_pred cCHHHHHHHHHHHHHHHhcEEe
Confidence 9999999999999999999998
No 4
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=8.9e-39 Score=287.65 Aligned_cols=183 Identities=17% Similarity=0.222 Sum_probs=148.2
Q ss_pred ccchhHHHHHHHHHHHHhhhcCC-ccccc-------ccc---CCCcccce-----------eCCCceEEeccCCceEecc
Q 023653 65 FAVPRRNAMALILSSYIFSDFGF-RNTAL-------AQQ---SVGFREYI-----------DTFDGYSFKYPQNWIQVRG 122 (279)
Q Consensus 65 ~~~~RR~~l~~~~sa~~~~~~~~-~~~a~-------a~~---~~gf~~y~-----------D~~dgYsf~yP~~W~~~~~ 122 (279)
....||++|.+++.+.+++.... +..|. ..+ .+||-.|. +...||+|+||.+|+++++
T Consensus 41 ~~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~V 120 (263)
T PLN00067 41 VVIHRRELLLGLALAPLILIAPEPPAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRV 120 (263)
T ss_pred chhHHHHHHhhhhhhhhhhccCCchhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCccc
Confidence 34789999877755444433322 22222 112 55777765 3355899999999999888
Q ss_pred c----c-----------cceEEeCCCCCCccEEEEEeCCC---CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcc
Q 023653 123 A----G-----------ADIFYRDPYVLDENVSVELSSPS---SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR 184 (279)
Q Consensus 123 ~----G-----------~d~~f~d~~~~~~nVsV~i~p~~---~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~ 184 (279)
+ | +|++|+|+. ++||+|+|.|+. .++.++|+|||+|++|+++|.+.+.+ ++.+
T Consensus 121 s~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g-------~~~~ 191 (263)
T PLN00067 121 ANILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTG-------NSYD 191 (263)
T ss_pred cccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhc-------CCCC
Confidence 5 4 799999965 669999999973 12468999999999999999877665 4567
Q ss_pred ccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHH
Q 023653 185 ESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEEND 264 (279)
Q Consensus 185 ~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~ 264 (279)
+.+||++++++ .||++||+|||.++. + +++||+|+++++++|+||||++|++|+||+|+++.
T Consensus 192 ~~eLLeAs~re-~dGktYY~~E~~tp~----------a-------~~gRHnLataTV~~GkLYtf~asanEkRW~K~k~~ 253 (263)
T PLN00067 192 PDELLETSVEK-IGDQTYYKYVLETPF----------A-------LTGSHNLAKATAKGNTVVLFVVSASDKQWQSSEKT 253 (263)
T ss_pred CcceEEeeeEe-eCCeEEEEEEEEecC----------C-------CCCceEEEEEEEECCEEEEEEecCCHHHHHHHHHH
Confidence 88999999998 799999999999976 3 37999999999999999999999999999999999
Q ss_pred HHHHhcceee
Q 023653 265 LRQVIDSFRV 274 (279)
Q Consensus 265 l~~vv~SFrv 274 (279)
|++|++||+|
T Consensus 254 l~~V~dSFsV 263 (263)
T PLN00067 254 LKAILDSFQA 263 (263)
T ss_pred HHHHHHhccC
Confidence 9999999986
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=8.9e-36 Score=270.56 Aligned_cols=180 Identities=26% Similarity=0.380 Sum_probs=144.1
Q ss_pred ccchhHHHHHHHHHHHHhhhcCCccccc--------------ccc-CCCcccceeC-------------CCceEEeccCC
Q 023653 65 FAVPRRNAMALILSSYIFSDFGFRNTAL--------------AQQ-SVGFREYIDT-------------FDGYSFKYPQN 116 (279)
Q Consensus 65 ~~~~RR~~l~~~~sa~~~~~~~~~~~a~--------------a~~-~~gf~~y~D~-------------~dgYsf~yP~~ 116 (279)
..++||.+|+.+++++..+.++.+..++ .+| ..||++|..+ ..+|+|+||.+
T Consensus 43 ~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP~G 122 (262)
T PLN00066 43 TAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKVPQG 122 (262)
T ss_pred chhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEECCCC
Confidence 4579999999776653333333333332 122 4567777754 35799999999
Q ss_pred ceEeccc-----ccceEEeCCCCCCccEEEEEeCCC-----CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccc
Q 023653 117 WIQVRGA-----GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES 186 (279)
Q Consensus 117 W~~~~~~-----G~d~~f~d~~~~~~nVsV~i~p~~-----~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a 186 (279)
|+++.++ |+++.|++..+.++||+|+|.|+. ..++++|+|||+|++|++.|++++++. ..+++
T Consensus 123 W~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~-------~~~e~ 195 (262)
T PLN00066 123 WEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGE-------PVEEG 195 (262)
T ss_pred CeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCC-------Ccccc
Confidence 9998876 655555544468889999999985 124789999999999999999887764 24688
Q ss_pred ceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHH
Q 023653 187 NILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLR 266 (279)
Q Consensus 187 ~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~ 266 (279)
+|+++.+++ .||++||+||| . ||+|+++||.+||||||++|+||+||+|+++.|+
T Consensus 196 eLl~a~~re-~dGktYY~~E~---~---------------------rH~LasaTV~~GrLYt~~asape~rW~k~~~~lr 250 (262)
T PLN00066 196 KVLSMEVAE-HSGRTYYQFEL---P---------------------PHTLVTATAAGNRVYIFSVTANGLQWKRHYKDLK 250 (262)
T ss_pred ceeEeeeee-cCCcEEEEEEE---e---------------------CceEEEEEEECCEEEEEEeecchHhhHHHHHHHH
Confidence 999999887 79999999999 2 5999999999999999999999999999999999
Q ss_pred HHhcceeeee
Q 023653 267 QVIDSFRVNK 276 (279)
Q Consensus 267 ~vv~SFrv~~ 276 (279)
+|++||+|+.
T Consensus 251 ~v~dSF~V~~ 260 (262)
T PLN00066 251 RIAKSFRVVT 260 (262)
T ss_pred HHhhceeeec
Confidence 9999999964
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.95 E-value=2.1e-27 Score=209.09 Aligned_cols=175 Identities=21% Similarity=0.262 Sum_probs=125.5
Q ss_pred ccchhHHHHHHHHHHHHhhhcCC--cccccccc-------------CCCcccceeCCCceEEeccCCceEecc-----c-
Q 023653 65 FAVPRRNAMALILSSYIFSDFGF--RNTALAQQ-------------SVGFREYIDTFDGYSFKYPQNWIQVRG-----A- 123 (279)
Q Consensus 65 ~~~~RR~~l~~~~sa~~~~~~~~--~~~a~a~~-------------~~gf~~y~D~~dgYsf~yP~~W~~~~~-----~- 123 (279)
+..+||+++.-.++..++++..+ ...+++++ ...+-.|. ++||++.||..+...-. +
T Consensus 29 ~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nt~~w~~~~--g~gf~~~~pp~f~di~e~~~~~~g 106 (241)
T PLN03152 29 CGASRRDFILHTASLCASSLAAQNPLPPSLADPSKPSKPLLSGIANTKSWFQFY--GDGFSIRVPPSFEDIMEPEDYNAG 106 (241)
T ss_pred ccccccceeeehhHHHHhhhhcCCCCCccccCCCCCCCchheeeecchhhhhhh--CCceEEeCCCChhhhcChhhcccc
Confidence 45577777765555444444333 23333432 11233343 89999999987765221 1
Q ss_pred ----c-------cceEEeCCCCCCccEEEEEeCCC-----CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCc-ccc
Q 023653 124 ----G-------ADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR-RES 186 (279)
Q Consensus 124 ----G-------~d~~f~d~~~~~~nVsV~i~p~~-----~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~-~~a 186 (279)
| -.++|..+ |+.|||||+|.|++ ..+.++|.|||+|+||++.++ + .|.. ..+
T Consensus 107 ~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~v-----P-----~g~~~~sa 175 (241)
T PLN03152 107 LSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFV-----P-----GGATLYSA 175 (241)
T ss_pred cceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhC-----C-----Cccccccc
Confidence 1 13577765 89999999999986 113789999999999996553 2 1211 134
Q ss_pred ceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHH
Q 023653 187 NILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLR 266 (279)
Q Consensus 187 ~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~ 266 (279)
..++. +++ .||++||+|||.+. .||.|++++|.+||||||+++++|+||+|++++|+
T Consensus 176 R~iel-~~E-~dGKtYY~lEy~v~---------------------~RH~LaTVaVsrGKLYTl~aSt~EkRW~Kvk~kfr 232 (241)
T PLN03152 176 RTIKV-KEE-EGIRTYYFYEFGRD---------------------EQHVALVATVNSGKAYIAGATAPESKWDDDGVKLR 232 (241)
T ss_pred ceeee-eee-cCCceeEEEEEEeC---------------------CcEEEEEEEEcCCeEEEEecCCchhchHHHHHHHH
Confidence 44444 345 79999999999972 69999999999999999999999999999999999
Q ss_pred HHhcceeee
Q 023653 267 QVIDSFRVN 275 (279)
Q Consensus 267 ~vv~SFrv~ 275 (279)
.+++||+|+
T Consensus 233 ~aa~SFsV~ 241 (241)
T PLN03152 233 SAAISLTVL 241 (241)
T ss_pred HHHhheeeC
Confidence 999999985
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=98.08 E-value=0.00019 Score=58.78 Aligned_cols=127 Identities=12% Similarity=0.072 Sum_probs=83.5
Q ss_pred EEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccccee
Q 023653 110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNIL 189 (279)
Q Consensus 110 sf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll 189 (279)
+|.+|.+|..... +...+.|+.....|+.|.-.+++. . .+.++..++.++++-. .-..-.++
T Consensus 3 ~~~lP~~~~D~t~--nv~~~~~~~~~~~slvIsR~~l~~--g------~tl~~~~~~q~~~l~~--------~l~~~~~~ 64 (130)
T PF08786_consen 3 SLTLPDGWQDRTM--NVLVLPDSGGSGPSLVISRDPLPD--G------ETLEDYLQRQLAQLRK--------QLPGFQLV 64 (130)
T ss_dssp EEEEETTSEE--B--EEEEE--BTTB-EEEEEEEE---T--T------S-HHHHHHHHHHHHHC--------CSTT-EEE
T ss_pred eEeCCCcceeceE--EEEEccCCCCCcceEEEEeccCCC--C------CCHHHHHHHHHHHHHh--------hCCCcEEE
Confidence 5788999998554 223444543334455555555442 2 3555666665544322 12245566
Q ss_pred ecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEEC-CEEEEEEeecCccccHHhhHHHHHH
Q 023653 190 STSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN-NRLYELRLQTPENVFVEEENDLRQV 268 (279)
Q Consensus 190 ~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~-gkLYtl~~qa~e~~W~k~~~~l~~v 268 (279)
+...-+ .+|.+.+.++|.-.. ....-|+..++...+ +++|+++.+++....+..++.++.+
T Consensus 65 ~~~~~~-l~~~~a~~l~~~~~~-----------------~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~~~~~~~i 126 (130)
T PF08786_consen 65 ERQPIT-LGGRPARELEYSFRS-----------------GGQPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQRAHWEAI 126 (130)
T ss_dssp EEEEEE-ETTEEEEEEEEEEEE-----------------TTCEEEEEEEEEEEC-CCEEEEEEEEECCCHHHHHHHHHHH
T ss_pred eeEEEE-eCCCCeEEEEEEEee-----------------CCEEEEEEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHHHH
Confidence 654444 789999999999976 235678888888888 9999999999999999999999999
Q ss_pred hcce
Q 023653 269 IDSF 272 (279)
Q Consensus 269 v~SF 272 (279)
++||
T Consensus 127 ~~Sf 130 (130)
T PF08786_consen 127 LKSF 130 (130)
T ss_dssp HCT-
T ss_pred HhcC
Confidence 9998
No 8
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=94.11 E-value=2.5 Score=35.95 Aligned_cols=135 Identities=17% Similarity=0.120 Sum_probs=79.4
Q ss_pred EEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccccee
Q 023653 110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNIL 189 (279)
Q Consensus 110 sf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll 189 (279)
.|.+|..|.-..+ -.|.-...+..-++.+|+--...... .. .+..++.+..+-. + .+ .-++.
T Consensus 10 ~l~lP~~w~DrSv----Nvf~~~~~gt~~~sfvIsRd~~~~g~-----~~-~~y~~rql~~l~k----~-Lp---gy~~~ 71 (147)
T COG5435 10 TLELPAAWQDRSV----NVFVSGDNGTSGFSFVISRDPLEPGD-----TF-PEYVQRQLALLRK----Q-LP---GYELH 71 (147)
T ss_pred eEcCcchhccceE----EEEEecCCCcceeEEEEecCCCCCCC-----cH-HHHHHHHHHHHHh----h-CC---CeEEe
Confidence 5789999997544 23333333345566666432211111 12 2233333322221 1 11 23444
Q ss_pred ecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcce-EEEEEEEEECCEEEEEEeecCccccHHhhHHHHHH
Q 023653 190 STSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDR-RYLSVLGVENNRLYELRLQTPENVFVEEENDLRQV 268 (279)
Q Consensus 190 ~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~r-H~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~~v 268 (279)
...+-+ ++|..-...+|.-.. |. .+++| +++.++.-.++++-+++++++..-=++.++....+
T Consensus 72 ~~~e~~-v~~~aa~~~~y~w~~----------~~-----~~~r~v~q~~~~i~~g~~vLifT~Tt~~~ftp~q~~~~~~~ 135 (147)
T COG5435 72 HRREIE-VGGAAAPLLDYQWTS----------PE-----GEQRRVQQRQVFIERGDTVLIFTLTTPGEFTPSQKKAWEQV 135 (147)
T ss_pred eccccc-cCccccceeEEEeec----------CC-----CCCceEEEEEeecccCCeEEEEEecCCCCCCHHHHHHHHHH
Confidence 444333 778877777777765 31 13344 45555555678999999999999999999999999
Q ss_pred hcceeeeeec
Q 023653 269 IDSFRVNKVS 278 (279)
Q Consensus 269 v~SFrv~~~~ 278 (279)
+.||....-+
T Consensus 136 I~Sf~p~~~~ 145 (147)
T COG5435 136 IQSFVPNPPE 145 (147)
T ss_pred HHhcCCCCCC
Confidence 9999876543
No 9
>PRK11615 hypothetical protein; Provisional
Probab=94.04 E-value=3.8 Score=36.02 Aligned_cols=133 Identities=14% Similarity=0.201 Sum_probs=83.7
Q ss_pred CCceEEeccCCceEeccc-cc----ceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhccc
Q 023653 106 FDGYSFKYPQNWIQVRGA-GA----DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL 180 (279)
Q Consensus 106 ~dgYsf~yP~~W~~~~~~-G~----d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~ 180 (279)
..+.+|.+|.++....+. |+ --.|-|+. ...+-++|-+.+ +-++ .+..+.+|..+--.
T Consensus 47 dGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~t--g~kavIVi~gD~-----~~~~---Ld~la~rl~~qQr~------- 109 (185)
T PRK11615 47 DGKLSFTLPADMSDQSGKLGTQANNMHVYADAT--GQKAVIVILGDD-----TNED---LAVLAKRLEDQQRS------- 109 (185)
T ss_pred ccEEEEEcCCccccccccccccccceEEEEcCC--CCEEEEEEeCCC-----Chhh---HHHHHHHHHHHHHh-------
Confidence 567999999999965432 32 23777742 334443342221 1112 24445555443221
Q ss_pred CCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHH
Q 023653 181 GVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVE 260 (279)
Q Consensus 181 g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k 260 (279)
....-.++.-+.-+ ++|+++++++-.+... | ..--.-++++..+++|-||.+..|.+.-.+
T Consensus 110 -rdp~lqvvsnK~i~-i~G~~~qQLDS~~t~~-----------G------qk~~SSvvL~~v~~rl~tlQitlpA~nqqq 170 (185)
T PRK11615 110 -RDPQLQVVTNKAIE-LKGHKLQQLDSIISAK-----------G------QTAYSSVVLGKVDNQLLTMQITLPADNQQQ 170 (185)
T ss_pred -hCcCceeecceeEE-ECCeeeEEeeeeeecC-----------C------ceEEEEEEEEeeCCeEEEEEEecCCCCHHH
Confidence 12234455555555 7999999999888651 1 223334456677999999999999999888
Q ss_pred hhHHHHHHhcceee
Q 023653 261 EENDLRQVIDSFRV 274 (279)
Q Consensus 261 ~~~~l~~vv~SFrv 274 (279)
.....+.|+++..+
T Consensus 171 aq~~ae~ii~tl~~ 184 (185)
T PRK11615 171 AQTTAENIINTLVI 184 (185)
T ss_pred HHHHHHHHHhheec
Confidence 88889999988654
No 10
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=91.25 E-value=7 Score=34.15 Aligned_cols=132 Identities=17% Similarity=0.120 Sum_probs=74.3
Q ss_pred eEEeccCCceEeccccc---ceEEeCC-C--CCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCC
Q 023653 109 YSFKYPQNWIQVRGAGA---DIFYRDP-Y--VLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGV 182 (279)
Q Consensus 109 Ysf~yP~~W~~~~~~G~---d~~f~d~-~--~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~ 182 (279)
-++-.|.+|........ -....++ . .-.-|+.|++..+. .+|- |+|+.+.=-.+...
T Consensus 33 v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~-------G~~D-p~e~l~~a~~d~~~--------- 95 (175)
T PF10738_consen 33 VSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLT-------GDFD-PAEALEHAPADAQN--------- 95 (175)
T ss_pred EeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEecc-------CCCC-HHHHHHhchhhHhh---------
Confidence 56777899999654321 1222222 1 12357777777665 2333 55544321111111
Q ss_pred ccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEE--ECC--EEEEEEeecCcccc
Q 023653 183 RRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGV--ENN--RLYELRLQTPENVF 258 (279)
Q Consensus 183 ~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv--~~g--kLYtl~~qa~e~~W 258 (279)
....+.++.+..+ .+|-+-+.+|-+-+. . ...+|....+.| .++ +|..|++++.+.+=
T Consensus 96 l~g~~~~~~s~~~-~~GfpS~~i~GtY~~----------~-------g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~qa 157 (175)
T PF10738_consen 96 LPGFRELDGSPSD-FSGFPSSQIEGTYDK----------D-------GMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQA 157 (175)
T ss_pred CcCcccccCCccc-cCCCceeEEEEEEee----------C-------CEEeEeEEEEEEEeCCCcEEEEEEEeeccccch
Confidence 0112244444434 689899988855443 1 123333333222 244 56667888899999
Q ss_pred HHhhHHHHHHhcceeee
Q 023653 259 VEEENDLRQVIDSFRVN 275 (279)
Q Consensus 259 ~k~~~~l~~vv~SFrv~ 275 (279)
....+..+.|++.|+|.
T Consensus 158 ~~~~~a~~aI~~g~~It 174 (175)
T PF10738_consen 158 VALADATEAIDEGFTIT 174 (175)
T ss_pred hhhhhHHHHHHcCCEec
Confidence 99999999999999985
No 11
>PLN00016 RNA-binding protein; Provisional
Probab=73.81 E-value=1.9 Score=41.06 Aligned_cols=62 Identities=16% Similarity=0.170 Sum_probs=48.4
Q ss_pred hhhhccccCccccccccccccccCccchhhhhcccCCCccccceeecccccccccc----cccccc
Q 023653 5 VMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM----AATQFA 66 (279)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~k~~~i~----~~~~~~ 66 (279)
++..|...+++++++++.+.+.+..++...++.|+.+.+.......+...++++|+ |++.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VLVt~~~~GatG~i 68 (378)
T PLN00016 3 SSSRLRSSSASSLLSSSSSSSISPALAARAQGSRRASQVAGAAAAAAVEKKKVLIVNTNSGGHAFI 68 (378)
T ss_pred cchhcccccccccCCchhhhhhhHHhhhccccccccccchhhhhhcccccceEEEEeccCCCceeE
Confidence 34577788888888888888888888888888888888865555555556779999 988775
No 12
>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=72.76 E-value=58 Score=27.63 Aligned_cols=130 Identities=17% Similarity=0.326 Sum_probs=60.0
Q ss_pred ccceeCCCceEEeccCCceEecccccc-eEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhc
Q 023653 100 REYIDTFDGYSFKYPQNWIQVRGAGAD-IFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMST 178 (279)
Q Consensus 100 ~~y~D~~dgYsf~yP~~W~~~~~~G~d-~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st 178 (279)
.-|..+..=|+..||.+|.+.+ +|.+ ..|.||..=..|+.+..-.-. +-+ -+...+++.+..
T Consensus 2 kKfiSpg~WFS~~YP~~W~EfE-D~E~sflFYnp~~WTGNfRISayk~~--------~~~----ygk~~i~~EL~e---- 64 (153)
T PF12712_consen 2 KKFISPGAWFSMEYPADWNEFE-DGEGSFLFYNPDQWTGNFRISAYKGG--------SAQ----YGKECIRQELKE---- 64 (153)
T ss_dssp EEEE-GGG-EEEEE-TT-EEE----TTEEEEE-SSS---EEEEEEEE----------STT----HHHHHHHHHHHH----
T ss_pred CcccCCCceEEEecCCCcchhc-cCCcceEEEChHHhcCceEEEEEecc--------ccc----chHHHHHHHHHh----
Confidence 3466666679999999999988 4444 588899887788777532211 111 334445555542
Q ss_pred ccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCcccc
Q 023653 179 RLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVF 258 (279)
Q Consensus 179 ~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W 258 (279)
.+.+.++....- .--|.-|.--+. | ..+.-|. .++-.++..|.|..+.+-..=
T Consensus 65 ----n~~a~~vkvg~~-----~caYs~E~f~ee------------g----~~YtsH~--Wvtg~~~~sfeCSFTv~kg~~ 117 (153)
T PF12712_consen 65 ----NPSAKLVKVGNW-----ECAYSKEMFQEE------------G----AYYTSHL--WVTGEGDVSFECSFTVPKGES 117 (153)
T ss_dssp -----TT-EEEEETTE-----EEEEEEEEEEET------------T----EEEEEEE--EEEEETTEEEEEEEEEETT--
T ss_pred ----CCCcceEEeccE-----EEEEEhhhhhcc------------C----eeEEEEE--EEEecCceEEEEEEEccCCCC
Confidence 112334433221 123333332211 0 1122343 456678888888887764432
Q ss_pred HHhhHHHHHHhcceeeee
Q 023653 259 VEEENDLRQVIDSFRVNK 276 (279)
Q Consensus 259 ~k~~~~l~~vv~SFrv~~ 276 (279)
....+.|+.|..|.+
T Consensus 118 ---~~~aE~iiasL~vR~ 132 (153)
T PF12712_consen 118 ---VKEAEEIIASLEVRK 132 (153)
T ss_dssp ----HHHHHHHHH-EE--
T ss_pred ---cchHHHHHhhheehh
Confidence 234566677776643
No 13
>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=66.62 E-value=7.2 Score=23.39 Aligned_cols=16 Identities=13% Similarity=-0.014 Sum_probs=12.1
Q ss_pred chhHHHHHHHHHHHHh
Q 023653 67 VPRRNAMALILSSYIF 82 (279)
Q Consensus 67 ~~RR~~l~~~~sa~~~ 82 (279)
++||++|-..+++.+.
T Consensus 2 ~sRR~fLk~~~a~~a~ 17 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAA 17 (26)
T ss_pred CcHHHHHHHHHHHHHH
Confidence 6899999988664444
No 14
>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=66.11 E-value=98 Score=29.15 Aligned_cols=24 Identities=17% Similarity=0.466 Sum_probs=19.8
Q ss_pred cccceeCCCceEEeccCCceEecc
Q 023653 99 FREYIDTFDGYSFKYPQNWIQVRG 122 (279)
Q Consensus 99 f~~y~D~~dgYsf~yP~~W~~~~~ 122 (279)
-.++.+...||+|.+|.+|++.+-
T Consensus 109 ~grvdn~~gGFS~vvP~GW~~Sda 132 (297)
T PF07174_consen 109 PGRVDNAAGGFSYVVPAGWVESDA 132 (297)
T ss_pred cccccccccceEEeccCCcccccc
Confidence 346777789999999999998664
No 15
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=56.04 E-value=78 Score=31.05 Aligned_cols=41 Identities=22% Similarity=0.272 Sum_probs=27.2
Q ss_pred EEEEEEE-ECCEEEEEEeecCccccHHhhHHHHHHhcceeeee
Q 023653 235 YLSVLGV-ENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNK 276 (279)
Q Consensus 235 ~l~~~tv-~~gkLYtl~~qa~e~~W~k~~~~l~~vv~SFrv~~ 276 (279)
.+=++.+ .+++.|.+-.-.|...-. .++....+..|||.+.
T Consensus 375 ~fdvaVI~~g~rvyrfltavp~gs~~-l~~~a~sv~~SFR~lt 416 (479)
T COG4784 375 QFDVAVIRAGDRVYRFLTAVPKGSTA-LEPRANSVRRSFRPLT 416 (479)
T ss_pred cceEEEEEeCCEEEEEEEecccCcch-hhHHHHHHHhhcccCC
Confidence 3333333 467888887776654433 4568889999999763
No 16
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=49.16 E-value=30 Score=27.40 Aligned_cols=24 Identities=21% Similarity=0.104 Sum_probs=16.6
Q ss_pred ccccccchhHHHHHHHHHHHHhhh
Q 023653 61 AATQFAVPRRNAMALILSSYIFSD 84 (279)
Q Consensus 61 ~~~~~~~~RR~~l~~~~sa~~~~~ 84 (279)
..++....||++|...+++++.+.
T Consensus 43 ~~~e~~~gRR~~mfaaaAaav~s~ 66 (103)
T PLN00058 43 KEQQSTTMRRDLMFTAAAAAVCSL 66 (103)
T ss_pred ccccchhhHHHHHHHHHHHHHHhh
Confidence 344678899999987766555433
No 17
>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=48.68 E-value=25 Score=20.91 Aligned_cols=21 Identities=29% Similarity=0.518 Sum_probs=18.1
Q ss_pred EEEECCEEEEEEeecCccccH
Q 023653 239 LGVENNRLYELRLQTPENVFV 259 (279)
Q Consensus 239 ~tv~~gkLYtl~~qa~e~~W~ 259 (279)
++-.+|+||.+.....+.+|.
T Consensus 11 ~~~~~g~l~a~d~~~G~~~W~ 31 (33)
T smart00564 11 VGSTDGTLYALDAKTGEILWT 31 (33)
T ss_pred EEcCCCEEEEEEcccCcEEEE
Confidence 445689999999999999996
No 18
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=29.55 E-value=57 Score=23.93 Aligned_cols=14 Identities=14% Similarity=0.105 Sum_probs=10.3
Q ss_pred cccchhHHHHHHHH
Q 023653 64 QFAVPRRNAMALIL 77 (279)
Q Consensus 64 ~~~~~RR~~l~~~~ 77 (279)
...++||++|.+++
T Consensus 6 ~~~~sRR~Flk~lg 19 (66)
T TIGR02811 6 KADPSRRDLLKGLG 19 (66)
T ss_pred cCCccHHHHHHHHH
Confidence 45679999998553
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=29.16 E-value=53 Score=21.91 Aligned_cols=16 Identities=19% Similarity=0.281 Sum_probs=8.4
Q ss_pred ccccchhHHHHHHHHH
Q 023653 63 TQFAVPRRNAMALILS 78 (279)
Q Consensus 63 ~~~~~~RR~~l~~~~s 78 (279)
+....+||++|....+
T Consensus 5 ~~~~~~RRdFL~~at~ 20 (41)
T PF10399_consen 5 EPVDPTRRDFLTIATS 20 (41)
T ss_dssp -----HHHHHHHHHHH
T ss_pred CCCCchHHHHHHHHHH
Confidence 3456799999965544
No 20
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=27.95 E-value=34 Score=29.33 Aligned_cols=21 Identities=38% Similarity=0.795 Sum_probs=16.9
Q ss_pred CccccCCChHHHHHHHHHHHh
Q 023653 152 KSVEDLGPPKEAGRKVLRQYL 172 (279)
Q Consensus 152 ~si~dlGspeeva~~ll~~~~ 172 (279)
.-++++|+|+++|..++.++.
T Consensus 45 eii~~LG~P~~iA~~i~~~~~ 65 (181)
T PF08006_consen 45 EIIAELGSPKEIAREILAEYS 65 (181)
T ss_pred HHHHHcCCHHHHHHHHHHhhh
Confidence 446899999999999886654
No 21
>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=26.45 E-value=45 Score=21.08 Aligned_cols=22 Identities=23% Similarity=0.368 Sum_probs=18.7
Q ss_pred EEEECCEEEEEEeecCccccHH
Q 023653 239 LGVENNRLYELRLQTPENVFVE 260 (279)
Q Consensus 239 ~tv~~gkLYtl~~qa~e~~W~k 260 (279)
++..+|+||.|++.+++..|..
T Consensus 5 ~~~~~g~l~AlD~~TG~~~W~~ 26 (38)
T PF01011_consen 5 VGTPDGYLYALDAKTGKVLWKF 26 (38)
T ss_dssp EETTTSEEEEEETTTTSEEEEE
T ss_pred EeCCCCEEEEEECCCCCEEEee
Confidence 3356899999999999999974
No 22
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=22.05 E-value=82 Score=20.90 Aligned_cols=16 Identities=31% Similarity=0.565 Sum_probs=10.8
Q ss_pred cchhHHHHHHHHHHHH
Q 023653 66 AVPRRNAMALILSSYI 81 (279)
Q Consensus 66 ~~~RR~~l~~~~sa~~ 81 (279)
.++||++|-.++.++.
T Consensus 5 dm~RR~lmN~ll~Gav 20 (39)
T PF08802_consen 5 DMSRRQLMNLLLGGAV 20 (39)
T ss_dssp -HHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHhhH
Confidence 3689999887655333
No 23
>TIGR01409 TAT_signal_seq Tat (twin-arginine translocation) pathway signal sequence. Members with small amino acid side chains at the -1 and -3 positions from the C-terminus of the model should be predicted to be cleaved as are Sec pathway signal sequences. Members are almost exclusively bacterial, although archaeal sequences are also found. A large fraction of the members of this family may have bound redox-active cofactors.
Probab=20.99 E-value=1e+02 Score=18.63 Aligned_cols=12 Identities=17% Similarity=0.241 Sum_probs=9.1
Q ss_pred chhHHHHHHHHH
Q 023653 67 VPRRNAMALILS 78 (279)
Q Consensus 67 ~~RR~~l~~~~s 78 (279)
++||++|-....
T Consensus 1 ~sRR~Flk~~~~ 12 (29)
T TIGR01409 1 LSRRDFLKGAAA 12 (29)
T ss_pred CchhhhHHHHHH
Confidence 479999987644
No 24
>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=20.98 E-value=2.4e+02 Score=22.39 Aligned_cols=25 Identities=8% Similarity=0.402 Sum_probs=19.6
Q ss_pred EEEEEEECCEEEEEEeecCccccHH
Q 023653 236 LSVLGVENNRLYELRLQTPENVFVE 260 (279)
Q Consensus 236 l~~~tv~~gkLYtl~~qa~e~~W~k 260 (279)
...+-+.||+.+.....||++-=-+
T Consensus 60 ~~~i~i~~g~vrv~~s~CpdkiCv~ 84 (113)
T PF07009_consen 60 YNTIEIKDGKVRVIESDCPDKICVK 84 (113)
T ss_dssp EEEEEEETTEEEEEEESTSS-HHHH
T ss_pred EEEEEEECCEEEEEECCCCCcchhh
Confidence 4577799999999999999875433
Done!