Query 026701
Match_columns 235
No_of_seqs 202 out of 385
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 11:30:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026701.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026701hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00042 photosystem II oxygen 100.0 1.4E-47 3.1E-52 332.2 21.1 200 28-232 27-259 (260)
2 PLN00059 PsbP domain-containin 100.0 3.2E-45 6.9E-50 316.6 20.8 194 37-234 62-286 (286)
3 PF01789 PsbP: PsbP; InterPro 100.0 2.2E-41 4.7E-46 282.7 16.4 161 73-233 11-175 (175)
4 PLN00067 PsbP domain-containin 100.0 8E-41 1.7E-45 289.4 19.9 180 51-232 40-263 (263)
5 PLN00066 PsbP domain-containin 100.0 2.6E-38 5.5E-43 276.4 20.2 176 50-234 41-260 (262)
6 PLN03152 hypothetical protein; 100.0 3.5E-29 7.6E-34 211.8 14.6 138 83-233 76-241 (241)
7 PF08786 DUF1795: Domain of un 98.6 3.5E-06 7.5E-11 66.7 15.3 127 96-230 3-130 (130)
8 COG5435 Uncharacterized conser 96.9 0.037 7.9E-07 45.1 12.9 129 96-233 10-142 (147)
9 PRK11615 hypothetical protein; 96.8 0.26 5.7E-06 41.4 17.2 132 92-232 47-184 (185)
10 PF10738 Lpp-LpqN: Probable li 95.3 0.46 9.9E-06 39.9 12.0 133 94-233 32-174 (175)
11 PF12712 DUF3805: Domain of un 94.4 2.2 4.8E-05 34.5 13.1 120 86-233 2-131 (153)
12 COG4784 Putative Zn-dependent 91.7 1.3 2.9E-05 41.2 9.0 180 17-233 231-415 (479)
13 PF07174 FAP: Fibronectin-atta 80.8 21 0.00046 32.1 10.1 21 87-107 111-131 (297)
14 PF10518 TAT_signal: TAT (twin 77.0 2 4.4E-05 24.6 1.7 12 54-65 2-13 (26)
15 COG3212 Predicted membrane pro 40.4 1.7E+02 0.0036 23.7 7.3 22 163-184 99-120 (144)
16 TIGR02811 formate_TAT formate 40.1 21 0.00046 25.1 1.8 12 52-63 7-18 (66)
17 TIGR01409 TAT_signal_seq Tat ( 33.6 28 0.00061 20.2 1.3 11 54-64 1-11 (29)
18 PF10399 UCR_Fe-S_N: Ubiquitin 33.5 34 0.00073 21.8 1.8 11 51-61 6-16 (41)
19 PF09211 DUF1958: Domain of un 33.2 49 0.0011 23.3 2.7 39 163-206 3-45 (65)
20 smart00564 PQQ beta-propeller 32.8 41 0.00089 19.0 2.0 20 198-217 12-31 (33)
21 PF05757 PsbQ: Oxygen evolving 29.4 18 0.00039 31.1 0.0 20 41-61 17-36 (202)
22 PF05137 PilN: Fimbrial assemb 28.3 1.8E+02 0.004 19.8 5.2 33 152-184 43-76 (78)
23 PF12559 Inhibitor_I10: Serine 27.4 25 0.00054 24.1 0.4 12 94-105 44-55 (56)
24 PF08006 DUF1700: Protein of u 23.7 47 0.001 27.4 1.5 19 135-153 45-63 (181)
25 PF12712 DUF3805: Domain of un 23.0 57 0.0012 26.5 1.8 26 80-105 14-39 (153)
26 COG3211 PhoX Predicted phospha 22.6 98 0.0021 30.9 3.6 12 53-64 20-31 (616)
27 PRK07474 sulfur oxidation prot 21.2 71 0.0015 26.3 2.1 10 53-62 7-16 (154)
28 PF07009 DUF1312: Protein of u 20.0 2.7E+02 0.0058 21.2 5.0 43 172-218 33-84 (113)
No 1
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=1.4e-47 Score=332.23 Aligned_cols=200 Identities=28% Similarity=0.498 Sum_probs=169.4
Q ss_pred ccccccCCccceeeecCCCCcccccchhhHHHHH---HHHHHhhcccCCCcccccc-----cc---CcccceeecCCceE
Q 026701 28 TRSATAFSCQNFFTCPEDISSDEENKSKRRLLLM---GAGLLTANLLPANSLFAQE-----IP---KNYDAFVDRIDGYS 96 (235)
Q Consensus 28 ~~~~~~~~~~~~~~c~~~~~~~~~~~~~RR~~L~---g~~a~~a~~~pa~~a~a~~-----~p---~g~~~y~D~~~gys 96 (235)
+|.....++.. ++|.++++ ....++||.+|+ |++++++.+.|+.+||+++ .| .||.+|. +|||+
T Consensus 27 ~~~~~~~~~~~-~~~~~~~~--~~~~~srr~~l~~~~ga~a~~~~~~pa~aay~~~anvfg~~k~~~gF~~y~--~dgY~ 101 (260)
T PLN00042 27 ARAVSASRPSQ-VVCRAQEE--DNSAVSRRAALALLAGAAAAGAKVSPANAAYGESANVFGKPKTNTGFLPYN--GDGFK 101 (260)
T ss_pred ccccCCCCCcc-eeeecccc--ccccccHHHHHHHHHHHHHhhcccCchhhhhcchhhccCCCCCCCCCeEee--CCCeE
Confidence 44455566666 59999865 335678998876 3334457788999999987 34 6899997 59999
Q ss_pred EEcCCCce---eeeecCccceeeccccCcccEEEEEecCCCCCccccCChHHH----HHHHHhhHhcCC---------CC
Q 026701 97 YVYPSDWT---EFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEV----VSNLARHVYAAP---------NQ 160 (235)
Q Consensus 97 f~~P~~W~---e~~~~g~d~~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeev----a~~l~~~~~~~p---------~~ 160 (235)
|+||.+|+ +.+++|+|++|+|++++.+||+|+|.|+++++|+|||+|||+ .+.|+++++.++ ++
T Consensus 102 FlyP~~W~~~ke~~~~G~dv~f~D~~~~~eNVSV~Ispt~k~sI~dlGsPee~l~~vgylL~kq~~a~~t~s~~Gf~p~~ 181 (260)
T PLN00042 102 LLVPSKWNPSKEREFPGQVLRFEDNFDATSNLSVMVTPTDKKSITDYGSPEEFLSKVSYLLGKQAYSGETASEGGFDANA 181 (260)
T ss_pred EecCCCCccccccccCCceEEeeccccccccEEEEEecCCcCCHhhcCCHHHHHHHHHHHHHhhhccCccccccCcCccc
Confidence 99999995 667889999999999999999999999999999999999994 556777777543 32
Q ss_pred --ceEEEEeeeeeeCCeeEEEEEEEEeCCC---CcceEEEEEEEECCeEEEEEEEecchhhHHH-HHHHHhhhcccee
Q 026701 161 --VADILDMQEKSVDGKNYYTFEYILTSPN---YSSASIATIAIANGRYYTLIVGANERRWKRV-RNKLKVVADSFRI 232 (235)
Q Consensus 161 --~a~ll~a~~~~~dG~~YY~~Ey~~~s~~---~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~-~~~l~~vv~SFrv 232 (235)
.++|++++++++||++||+|||.+++++ ++||+|++++|.+||||||++|+||+||.|. ++.|+.|++||+|
T Consensus 182 vata~Lleas~re~dGk~YY~lE~~~~~ad~d~~~RH~LatatV~~GkLYtl~aqa~EkRW~K~~~k~l~~v~~SFsV 259 (260)
T PLN00042 182 VATAAVLESSTQEVGGKPYYYLSVLTRTADGDEGGKHQLITATVSDGKLYICKAQAGDKRWFKGARKFVEGAASSFSV 259 (260)
T ss_pred ccceeEEEeeeEEeCCeEEEEEEEEEecCCCCCCCceEEEEEEEECCEEEEEEecCchhhhhHHHHHHHHHHHhceec
Confidence 4689999999999999999999999886 7999999999999999999999999999997 7789999999997
No 2
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=3.2e-45 Score=316.60 Aligned_cols=194 Identities=27% Similarity=0.438 Sum_probs=164.9
Q ss_pred cceeeecCCCCcccccchhhHHHHH-HHH--HHhhcccCCCccccccccCcccceeecCCceEEEcCCCceeeeecCccc
Q 026701 37 QNFFTCPEDISSDEENKSKRRLLLM-GAG--LLTANLLPANSLFAQEIPKNYDAFVDRIDGYSYVYPSDWTEFEFTGHDS 113 (235)
Q Consensus 37 ~~~~~c~~~~~~~~~~~~~RR~~L~-g~~--a~~a~~~pa~~a~a~~~p~g~~~y~D~~~gysf~~P~~W~e~~~~g~d~ 113 (235)
-..+.|.-+ ....-++.||.+++ ++. .+.......+.|+|+ |+||+.|.|+.|||+|.||.||.++...|+|+
T Consensus 62 ~~~~~~~~~--~~~~~~~~rr~~~~~~l~~~~~~~s~~~~~~a~a~--~~~l~~y~D~~DGY~FlYP~GWi~V~~~G~DV 137 (286)
T PLN00059 62 PVAINCLTD--AKQVCAVGRRKSMMMGLLMSGLIVSEANLPTAFAS--IPVFREYIDTFDGYSFKYPQNWIQVRGAGADI 137 (286)
T ss_pred Ceeeecccc--hhhhhhhhhhhhhHHHHHHHHHHHHhhcCchhhcC--CcccceeEcCCCCeEEeCCCCCeEeccCCCce
Confidence 334567754 44556889999865 332 122222223456665 67999999999999999999999999999999
Q ss_pred eeeccccCcccEEEEEecCC---CCCccccCChHHHHHHHHhhHhcCC-------CCceEEEEeeeeee-CCeeEEEEEE
Q 026701 114 GFKDRYLQLQNVRVRFIPTD---KKDVHDLGPMEEVVSNLARHVYAAP-------NQVADILDMQEKSV-DGKNYYTFEY 182 (235)
Q Consensus 114 ~f~d~~~~~~nVsV~i~p~~---~~si~d~Gspeeva~~l~~~~~~~p-------~~~a~ll~a~~~~~-dG~~YY~~Ey 182 (235)
+|+|+.+..+||+|+|.|++ +++|+|||+|++|+++|+++++++| +++++|+++.+++. ||++||++||
T Consensus 138 vFrD~Ie~~ENVSV~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY 217 (286)
T PLN00059 138 FFRDPVVLDENLSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEV 217 (286)
T ss_pred EEeccCccccceEEEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEE
Confidence 99999999999999999754 7999999999999999999999864 37899999998855 9999999999
Q ss_pred EEeCC-----------------CCcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhccceeee
Q 026701 183 ILTSP-----------------NYSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRILD 234 (235)
Q Consensus 183 ~~~s~-----------------~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~~ 234 (235)
.++++ ++.||.|++++|.+||||||++|+||++|+++++.|++|++||+|.+
T Consensus 218 ~Vks~~~~n~~~~~~qdr~~~~~w~RH~LA~v~V~nGkLYTL~~qtpE~RW~kvk~~f~~V~dSF~V~~ 286 (286)
T PLN00059 218 NIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVENDRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEK 286 (286)
T ss_pred EEEcCcccccccccccccccccccceeeEEEEEEeCCEEEEEEcCCcHHHHHHHHHHHHHHHhheeecC
Confidence 99874 46999999999999999999999999999999999999999999974
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=2.2e-41 Score=282.68 Aligned_cols=161 Identities=39% Similarity=0.695 Sum_probs=142.1
Q ss_pred CCccccccccCcccceeecCCceEEEcCCCceeeeecCccceeeccccCcccEEEEEecCCCC-CccccCChHHHHHHHH
Q 026701 73 ANSLFAQEIPKNYDAFVDRIDGYSYVYPSDWTEFEFTGHDSGFKDRYLQLQNVRVRFIPTDKK-DVHDLGPMEEVVSNLA 151 (235)
Q Consensus 73 a~~a~a~~~p~g~~~y~D~~~gysf~~P~~W~e~~~~g~d~~f~d~~~~~~nVsV~i~p~~~~-si~d~Gspeeva~~l~ 151 (235)
+..+.+++.+.||+.|.|+.+||+|.||.+|+++++.|++++|+|+.+..+||+|+|.|.... +|+|||+|+++++.|+
T Consensus 11 ~~~~~~~~~~~~~~~y~d~~~~y~f~~P~gW~~~~~~G~~v~f~d~~~~~~nvsV~v~p~~~~~sl~~lGs~~~va~~l~ 90 (175)
T PF01789_consen 11 ANVACAAEASTGFQPYTDSDDGYSFLYPSGWEEVDVSGADVVFRDPIDADENVSVVVSPVPKDFSLEDLGSPEEVAERLL 90 (175)
T ss_dssp -----STT--SSEEEEEECTTTEEEEEETTEEEEESTTEEEEEEETTETTSEEEEEEEE-STS-SGGGG-SHHHHHHHHH
T ss_pred chhhhcccCCCCceEEEcCCCCEEEECCCCCeecCCCCeEEEEECcccccceEEEEEEecCCcCchhhcCCHHHHHHHHh
Confidence 344444456789999999999999999999999999999999999999999999999997655 9999999999999999
Q ss_pred hhHhcCCC--CceEEEEeeeeeeCCeeEEEEEEEEeCCC-CcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhc
Q 026701 152 RHVYAAPN--QVADILDMQEKSVDGKNYYTFEYILTSPN-YSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVAD 228 (235)
Q Consensus 152 ~~~~~~p~--~~a~ll~a~~~~~dG~~YY~~Ey~~~s~~-~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~ 228 (235)
+...+.++ +.++|+++.+++.+|++||+|||++++++ +.||.++++++.+|+||+|++|++|++|+++++.|++|++
T Consensus 91 ~~~~~~~~~~~~a~li~a~~~~~~g~~yY~~Ey~~~~~~~~~rh~l~~~tv~~g~lY~l~~~a~e~~w~k~~~~l~~iv~ 170 (175)
T PF01789_consen 91 NGELASPGSGREAELISASEREVDGKTYYEYEYTVQSPNEGRRHNLAVVTVKNGKLYTLTAQAPESRWDKVEPKLRKIVD 170 (175)
T ss_dssp HHCCCHCTSSEEEEEEEEEEEEETTEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEHHHHHTCHHHHHHHHH
T ss_pred hhhcccccCCcceEEEEeeeeecCCccEEEEEEEeccCCCcccEEEEEEEEECCEEEEEEEEcCHHHHHHHHHHHHHHHh
Confidence 99887776 78999999999999999999999999988 9999999999999999999999999999999999999999
Q ss_pred cceee
Q 026701 229 SFRIL 233 (235)
Q Consensus 229 SFrv~ 233 (235)
||+|.
T Consensus 171 SF~v~ 175 (175)
T PF01789_consen 171 SFRVY 175 (175)
T ss_dssp C-EE-
T ss_pred cEEeC
Confidence 99984
No 4
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=8e-41 Score=289.44 Aligned_cols=180 Identities=21% Similarity=0.425 Sum_probs=152.0
Q ss_pred ccchhhHHHHHHHHHHhhccc-CCCcccccc------c---c--Ccccceeec-----------CCceEEEcCCCceeee
Q 026701 51 ENKSKRRLLLMGAGLLTANLL-PANSLFAQE------I---P--KNYDAFVDR-----------IDGYSYVYPSDWTEFE 107 (235)
Q Consensus 51 ~~~~~RR~~L~g~~a~~a~~~-pa~~a~a~~------~---p--~g~~~y~D~-----------~~gysf~~P~~W~e~~ 107 (235)
.....||++|.|+++....+. +..++.|.| + | .||..|... ..||+|+||.+|+++.
T Consensus 40 ~~~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~ 119 (263)
T PLN00067 40 AVVIHRRELLLGLALAPLILIAPEPPAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTR 119 (263)
T ss_pred cchhHHHHHHhhhhhhhhhhccCCchhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCcc
Confidence 445789999998765433322 222333432 1 2 378877654 3599999999998877
Q ss_pred ec----C-----------ccceeeccccCcccEEEEEecC------CCCCccccCChHHHHHHHHhhHhcCCCCceEEEE
Q 026701 108 FT----G-----------HDSGFKDRYLQLQNVRVRFIPT------DKKDVHDLGPMEEVVSNLARHVYAAPNQVADILD 166 (235)
Q Consensus 108 ~~----g-----------~d~~f~d~~~~~~nVsV~i~p~------~~~si~d~Gspeeva~~l~~~~~~~p~~~a~ll~ 166 (235)
++ | +|++|+|.. .+||+|+|.|. ++.+|+|||+||+|++.|++.+.+.+++..+|++
T Consensus 120 Vs~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~~~~~~eLLe 197 (263)
T PLN00067 120 VANILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGNSYDPDELLE 197 (263)
T ss_pred ccccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcCCCCCcceEE
Confidence 65 3 799999965 56999999995 4689999999999999999999988888899999
Q ss_pred eeeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhcccee
Q 026701 167 MQEKSVDGKNYYTFEYILTSPNYSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRI 232 (235)
Q Consensus 167 a~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv 232 (235)
+++++.||++||.|||.++.++++||+|+++++++|+||||++|++|+||.|+++.|++|++||+|
T Consensus 198 As~re~dGktYY~~E~~tp~a~~gRHnLataTV~~GkLYtf~asanEkRW~K~k~~l~~V~dSFsV 263 (263)
T PLN00067 198 TSVEKIGDQTYYKYVLETPFALTGSHNLAKATAKGNTVVLFVVSASDKQWQSSEKTLKAILDSFQA 263 (263)
T ss_pred eeeEeeCCeEEEEEEEEecCCCCCceEEEEEEEECCEEEEEEecCCHHHHHHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999999999999999999999999999999986
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=2.6e-38 Score=276.36 Aligned_cols=176 Identities=27% Similarity=0.506 Sum_probs=146.1
Q ss_pred cccchhhHHHHHHHHHH---hhcccCCCcc------cccccc-------CcccceeecC-------------CceEEEcC
Q 026701 50 EENKSKRRLLLMGAGLL---TANLLPANSL------FAQEIP-------KNYDAFVDRI-------------DGYSYVYP 100 (235)
Q Consensus 50 ~~~~~~RR~~L~g~~a~---~a~~~pa~~a------~a~~~p-------~g~~~y~D~~-------------~gysf~~P 100 (235)
....++||.+|++.+++ ++.+.|+.+. .|..+| .||++|..|. .+|+|.||
T Consensus 41 ~~~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP 120 (262)
T PLN00066 41 VATAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKVP 120 (262)
T ss_pred hcchhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEECC
Confidence 34578999999854333 2223443221 233443 5899999883 47999999
Q ss_pred CCceeeeec-----C--ccceeeccccCcccEEEEEecC--------CCCCccccCChHHHHHHHHhhHhcCCCCceEEE
Q 026701 101 SDWTEFEFT-----G--HDSGFKDRYLQLQNVRVRFIPT--------DKKDVHDLGPMEEVVSNLARHVYAAPNQVADIL 165 (235)
Q Consensus 101 ~~W~e~~~~-----g--~d~~f~d~~~~~~nVsV~i~p~--------~~~si~d~Gspeeva~~l~~~~~~~p~~~a~ll 165 (235)
.||+|+.++ | .|.+|.+ ...+||+|+|.|. ++.+|+|||+||+|++.|++++++++.++++|+
T Consensus 121 ~GW~ev~VS~~d~gg~~vd~Rf~~--~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~~~e~eLl 198 (262)
T PLN00066 121 QGWEEVPVSIADLGGTEIDLRFAS--DKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGEPVEEGKVL 198 (262)
T ss_pred CCCeEeecccccCCCCceEEEecc--CCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCCCcccccee
Confidence 999998876 4 3456665 5678999999995 578999999999999999999988888889999
Q ss_pred EeeeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhccceeee
Q 026701 166 DMQEKSVDGKNYYTFEYILTSPNYSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRILD 234 (235)
Q Consensus 166 ~a~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~~ 234 (235)
++++++.||++||+||| .+|+|+++||.+||||+|++++||+||++.++.|++|++||+|++
T Consensus 199 ~a~~re~dGktYY~~E~-------~rH~LasaTV~~GrLYt~~asape~rW~k~~~~lr~v~dSF~V~~ 260 (262)
T PLN00066 199 SMEVAEHSGRTYYQFEL-------PPHTLVTATAAGNRVYIFSVTANGLQWKRHYKDLKRIAKSFRVVT 260 (262)
T ss_pred EeeeeecCCcEEEEEEE-------eCceEEEEEEECCEEEEEEeecchHhhHHHHHHHHHHhhceeeec
Confidence 99999999999999999 289999999999999999999999999999999999999999974
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.96 E-value=3.5e-29 Score=211.75 Aligned_cols=138 Identities=22% Similarity=0.374 Sum_probs=111.1
Q ss_pred CcccceeecCCceEEEcCCCceeee----ec-Cc------------cceeeccccCcccEEEEEecC--------CCCCc
Q 026701 83 KNYDAFVDRIDGYSYVYPSDWTEFE----FT-GH------------DSGFKDRYLQLQNVRVRFIPT--------DKKDV 137 (235)
Q Consensus 83 ~g~~~y~D~~~gysf~~P~~W~e~~----~~-g~------------d~~f~d~~~~~~nVsV~i~p~--------~~~si 137 (235)
+.|..|. ++||++.||.+++... +. |- ..||..+ |..+||+|+|.|. +.++|
T Consensus 76 ~~w~~~~--g~gf~~~~pp~f~di~e~~~~~~g~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDL 152 (241)
T PLN03152 76 KSWFQFY--GDGFSIRVPPSFEDIMEPEDYNAGLSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDI 152 (241)
T ss_pred hhhhhhh--CCceEEeCCCChhhhcChhhcccccceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCCh
Confidence 4577776 8999999999995432 11 11 1234332 4568999999995 57899
Q ss_pred cccCChHHHHHHHHhhHhcCCCC---ceEEEEeeeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEECCeEEEEEEEecch
Q 026701 138 HDLGPMEEVVSNLARHVYAAPNQ---VADILDMQEKSVDGKNYYTFEYILTSPNYSSASIATIAIANGRYYTLIVGANER 214 (235)
Q Consensus 138 ~d~Gspeeva~~l~~~~~~~p~~---~a~ll~a~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~ 214 (235)
.|||+|+||++.|++ ++. .++.++.+ ++.||++||+|||.+. .||.|++++|.+||||||+++++|+
T Consensus 153 tDLGsp~EVgkv~vP-----~g~~~~saR~iel~-~E~dGKtYY~lEy~v~----~RH~LaTVaVsrGKLYTl~aSt~Ek 222 (241)
T PLN03152 153 TDLGSLKEAAKIFVP-----GGATLYSARTIKVK-EEEGIRTYYFYEFGRD----EQHVALVATVNSGKAYIAGATAPES 222 (241)
T ss_pred hHcCCHHHHHHhhCC-----Ccccccccceeeee-eecCCceeEEEEEEeC----CcEEEEEEEEcCCeEEEEecCCchh
Confidence 999999999977653 332 35555554 3789999999999974 7999999999999999999999999
Q ss_pred hhHHHHHHHHhhhccceee
Q 026701 215 RWKRVRNKLKVVADSFRIL 233 (235)
Q Consensus 215 ~W~k~~~~l~~vv~SFrv~ 233 (235)
||+|++.+|+++++||.|+
T Consensus 223 RW~Kvk~kfr~aa~SFsV~ 241 (241)
T PLN03152 223 KWDDDGVKLRSAAISLTVL 241 (241)
T ss_pred chHHHHHHHHHHHhheeeC
Confidence 9999999999999999985
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=98.60 E-value=3.5e-06 Score=66.68 Aligned_cols=127 Identities=13% Similarity=0.124 Sum_probs=86.8
Q ss_pred EEEcCCCceeeeecCccceeeccccCcccEEEEEecCCCCCccccCChHHHHHHHHhhHhcCCCCceEEEEeeeeeeCCe
Q 026701 96 SYVYPSDWTEFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVYAAPNQVADILDMQEKSVDGK 175 (235)
Q Consensus 96 sf~~P~~W~e~~~~g~d~~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~~~p~~~a~ll~a~~~~~dG~ 175 (235)
+|..|.+|+.... +...+.+......++.|.-.+. .+=.++++..++.+...- .--...++++....+.+|.
T Consensus 3 ~~~lP~~~~D~t~--nv~~~~~~~~~~~slvIsR~~l-----~~g~tl~~~~~~q~~~l~-~~l~~~~~~~~~~~~l~~~ 74 (130)
T PF08786_consen 3 SLTLPDGWQDRTM--NVLVLPDSGGSGPSLVISRDPL-----PDGETLEDYLQRQLAQLR-KQLPGFQLVERQPITLGGR 74 (130)
T ss_dssp EEEEETTSEE--B--EEEEE--BTTB-EEEEEEEE--------TTS-HHHHHHHHHHHHH-CCSTT-EEEEEEEEEETTE
T ss_pred eEeCCCcceeceE--EEEEccCCCCCcceEEEEeccC-----CCCCCHHHHHHHHHHHHH-hhCCCcEEEeeEEEEeCCC
Confidence 6788999988653 3345555433233444433322 222456667766555442 2223467777777789999
Q ss_pred eEEEEEEEEeCCCCcceEEEEEEEEC-CeEEEEEEEecchhhHHHHHHHHhhhccc
Q 026701 176 NYYTFEYILTSPNYSSASIATIAIAN-GRYYTLIVGANERRWKRVRNKLKVVADSF 230 (235)
Q Consensus 176 ~YY~~Ey~~~s~~~~rH~l~~~tv~~-g~LYtl~~~a~e~~W~k~~~~l~~vv~SF 230 (235)
+.+.+||.+...+..-|...++...+ +++|+++.+++....+..++.++.+++||
T Consensus 75 ~a~~l~~~~~~~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~~~~~~~i~~Sf 130 (130)
T PF08786_consen 75 PARELEYSFRSGGQPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQRAHWEAILKSF 130 (130)
T ss_dssp EEEEEEEEEEETTCEEEEEEEEEEEC-CCEEEEEEEEECCCHHHHHHHHHHHHCT-
T ss_pred CeEEEEEEEeeCCEEEEEEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 99999999987777779998888888 99999999999999999999999999998
No 8
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=96.92 E-value=0.037 Score=45.07 Aligned_cols=129 Identities=12% Similarity=0.082 Sum_probs=79.0
Q ss_pred EEEcCCCceeeeecCccceeeccccCcccEEEEEecCCCCCccccCChHHHHHHHHhhHhc-CCCCceEEEEeeeeeeCC
Q 026701 96 SYVYPSDWTEFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVYA-APNQVADILDMQEKSVDG 174 (235)
Q Consensus 96 sf~~P~~W~e~~~~g~d~~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~~-~p~~~a~ll~a~~~~~dG 174 (235)
+|..|+.|+...+. ...+.++. ..-++.+|+.. .++.=-...++..+.+...-. -|+ .++..-.+.+++|
T Consensus 10 ~l~lP~~w~DrSvN--vf~~~~~g--t~~~sfvIsRd---~~~~g~~~~~y~~rql~~l~k~Lpg--y~~~~~~e~~v~~ 80 (147)
T COG5435 10 TLELPAAWQDRSVN--VFVSGDNG--TSGFSFVISRD---PLEPGDTFPEYVQRQLALLRKQLPG--YELHHRREIEVGG 80 (147)
T ss_pred eEcCcchhccceEE--EEEecCCC--cceeEEEEecC---CCCCCCcHHHHHHHHHHHHHhhCCC--eEEeeccccccCc
Confidence 68899999776541 12222222 33456666532 111101122333322222211 133 3455544566788
Q ss_pred eeEEEEEEEEeCC--CCcc-eEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhccceee
Q 026701 175 KNYYTFEYILTSP--NYSS-ASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRIL 233 (235)
Q Consensus 175 ~~YY~~Ey~~~s~--~~~r-H~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~ 233 (235)
..--..+|.+..+ ++++ +.+.++.-.++++-+++++++..-=++.++.+..++.||.+.
T Consensus 81 ~aa~~~~y~w~~~~~~~r~v~q~~~~i~~g~~vLifT~Tt~~~ftp~q~~~~~~~I~Sf~p~ 142 (147)
T COG5435 81 AAAPLLDYQWTSPEGEQRRVQQRQVFIERGDTVLIFTLTTPGEFTPSQKKAWEQVIQSFVPN 142 (147)
T ss_pred cccceeEEEeecCCCCCceEEEEEeecccCCeEEEEEecCCCCCCHHHHHHHHHHHHhcCCC
Confidence 7777777877664 4555 666665556788999999999999999999999999999863
No 9
>PRK11615 hypothetical protein; Provisional
Probab=96.77 E-value=0.26 Score=41.38 Aligned_cols=132 Identities=12% Similarity=0.207 Sum_probs=84.8
Q ss_pred CCceEEEcCCCceeeeec-C----ccceeeccccCcccEEEEEecCCCCCccccCChHHHHHHHHhhHh-cCCCCceEEE
Q 026701 92 IDGYSYVYPSDWTEFEFT-G----HDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVY-AAPNQVADIL 165 (235)
Q Consensus 92 ~~gysf~~P~~W~e~~~~-g----~d~~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~-~~p~~~a~ll 165 (235)
+..++|.+|.|+.+.... | ..-.|-|... .=.|+|+..+..+ ++ .+..+.+|..+-- +.|+ ..++
T Consensus 47 dGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~tg---~kavIVi~gD~~~-~~---Ld~la~rl~~qQr~rdp~--lqvv 117 (185)
T PRK11615 47 DGKLSFTLPADMSDQSGKLGTQANNMHVYADATG---QKAVIVILGDDTN-ED---LAVLAKRLEDQQRSRDPQ--LQVV 117 (185)
T ss_pred ccEEEEEcCCccccccccccccccceEEEEcCCC---CEEEEEEeCCCCh-hh---HHHHHHHHHHHHHhhCcC--ceee
Confidence 468999999999654321 2 3356766432 2233333322111 11 3445555555432 2232 3466
Q ss_pred EeeeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhcccee
Q 026701 166 DMQEKSVDGKNYYTFEYILTSPNYSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRI 232 (235)
Q Consensus 166 ~a~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv 232 (235)
..+..+++|++....+=+....+..--.-..++..|+||-+|.+..|.+.-.+....-+.|+++..+
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 6666778999999999877544333344455667799999999999999999888888999888764
No 10
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=95.30 E-value=0.46 Score=39.91 Aligned_cols=133 Identities=13% Similarity=0.071 Sum_probs=77.2
Q ss_pred ceEEEcCCCceeeeec---Cccceeeccc---cCcccEEEEEecCCCCCccccCChHHHHHHHHhhHhcCCCCceEEEEe
Q 026701 94 GYSYVYPSDWTEFEFT---GHDSGFKDRY---LQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVYAAPNQVADILDM 167 (235)
Q Consensus 94 gysf~~P~~W~e~~~~---g~d~~f~d~~---~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~~~p~~~a~ll~a 167 (235)
.-++-.|.||+...-+ ++-....++. +-..|+.|++.... .+| +|+|+++.--.....-|| .+-++.
T Consensus 32 ~v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~----G~~-Dp~e~l~~a~~d~~~l~g--~~~~~~ 104 (175)
T PF10738_consen 32 TVSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLT----GDF-DPAEALEHAPADAQNLPG--FRELDG 104 (175)
T ss_pred EEeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEecc----CCC-CHHHHHHhchhhHhhCcC--cccccC
Confidence 4667777888654322 2111111111 11246777766532 223 577776521112212233 234555
Q ss_pred eeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEE--CCe--EEEEEEEecchhhHHHHHHHHhhhccceee
Q 026701 168 QEKSVDGKNYYTFEYILTSPNYSSASIATIAIA--NGR--YYTLIVGANERRWKRVRNKLKVVADSFRIL 233 (235)
Q Consensus 168 ~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~--~g~--LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~ 233 (235)
+..+.+|-+-+.+|-+.+..+..+|......|. ++. |-.|++++.+++=....+..+.|.+.|+|-
T Consensus 105 s~~~~~GfpS~~i~GtY~~~g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~qa~~~~~a~~aI~~g~~It 174 (175)
T PF10738_consen 105 SPSDFSGFPSSQIEGTYDKDGMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQAVALADATEAIDEGFTIT 174 (175)
T ss_pred CccccCCCceeEEEEEEeeCCEEeEeEEEEEEEeCCCcEEEEEEEeeccccchhhhhhHHHHHHcCCEec
Confidence 555678888888886665554445655444443 444 556688888888888899999999999984
No 11
>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=94.42 E-value=2.2 Score=34.51 Aligned_cols=120 Identities=18% Similarity=0.248 Sum_probs=56.4
Q ss_pred cceeecCCceEEEcCCCceeeeecCccc-eeeccccCcccEEEEEecCCCCCccccCChHHHHHHHHhhHhcCCCCceEE
Q 026701 86 DAFVDRIDGYSYVYPSDWTEFEFTGHDS-GFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVYAAPNQVADI 164 (235)
Q Consensus 86 ~~y~D~~~gysf~~P~~W~e~~~~g~d~-~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~~~p~~~a~l 164 (235)
+-|..|+.=|++.||.+|.|.+ .|.++ .|.++..=.+|.++..-... + -+-..+++..-+++- ++ +++
T Consensus 2 kKfiSpg~WFS~~YP~~W~EfE-D~E~sflFYnp~~WTGNfRISayk~~--~---~~ygk~~i~~EL~en---~~--a~~ 70 (153)
T PF12712_consen 2 KKFISPGAWFSMEYPADWNEFE-DGEGSFLFYNPDQWTGNFRISAYKGG--S---AQYGKECIRQELKEN---PS--AKL 70 (153)
T ss_dssp EEEE-GGG-EEEEE-TT-EEE----TTEEEEE-SSS---EEEEEEEE----S---TTHHHHHHHHHHHH----TT---EE
T ss_pred CcccCCCceEEEecCCCcchhc-cCCcceEEEChHHhcCceEEEEEecc--c---ccchHHHHHHHHHhC---CC--cce
Confidence 4578887789999999998887 45544 67788776678776544311 1 112233333222221 22 222
Q ss_pred EE---------eeeeeeCCeeEEEEEEEEeCCCCcceEEEEEEEECCeEEEEEEEecchhhHHHHHHHHhhhccceee
Q 026701 165 LD---------MQEKSVDGKNYYTFEYILTSPNYSSASIATIAIANGRYYTLIVGANERRWKRVRNKLKVVADSFRIL 233 (235)
Q Consensus 165 l~---------a~~~~~dG~~YY~~Ey~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~ 233 (235)
+. ....+.+|. | |+ .|... +-.++..|.|..+.+-..= ....+.|+.|..+.
T Consensus 71 vkvg~~~caYs~E~f~eeg~-~----Yt-------sH~Wv--tg~~~~sfeCSFTv~kg~~---~~~aE~iiasL~vR 131 (153)
T PF12712_consen 71 VKVGNWECAYSKEMFQEEGA-Y----YT-------SHLWV--TGEGDVSFECSFTVPKGES---VKEAEEIIASLEVR 131 (153)
T ss_dssp EEETTEEEEEEEEEEEETTE-E----EE-------EEEEE--EEETTEEEEEEEEEETT------HHHHHHHHH-EE-
T ss_pred EEeccEEEEEEhhhhhccCe-e----EE-------EEEEE--EecCceEEEEEEEccCCCC---cchHHHHHhhheeh
Confidence 22 222234442 1 22 25433 4578899999998875433 33345667776653
No 12
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=91.66 E-value=1.3 Score=41.16 Aligned_cols=180 Identities=14% Similarity=0.166 Sum_probs=84.9
Q ss_pred eccccCCCcccccccccCCccceeeecCCCCcccccchhhHHHHHHHHHHhhcccCCCccccccccCccc---ceeecCC
Q 026701 17 KKLNVAYPNELTRSATAFSCQNFFTCPEDISSDEENKSKRRLLLMGAGLLTANLLPANSLFAQEIPKNYD---AFVDRID 93 (235)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~RR~~L~g~~a~~a~~~pa~~a~a~~~p~g~~---~y~D~~~ 93 (235)
+-|..+|||..+|.....+... . - ....-+..+|.-+|.|+= .-.|++..-+||. .|.-++-
T Consensus 231 ldfl~sHPntpqRiqla~~hAR--q-~---g~~gvg~~gRd~fL~gid---------g~lyGDSp~eGyvRgq~FlH~~L 295 (479)
T COG4784 231 LDFLASHPNTPQRIQLARRHAR--Q-F---GAPGVGTRGRDSFLAGID---------GLLYGDSPQEGYVRGQTFLHPEL 295 (479)
T ss_pred cchhhcCCCChHHHHHHHHHHH--h-h---CCCCCCcccHHHHHhccc---------CcccCCCcccceecccceecccc
Confidence 4566788888877532221110 0 0 111124456777776542 1134443224554 6777788
Q ss_pred ceEEEcCCCceeeeecCccceeeccccCcccEEEEEecCCCCCccccCChHHHHHHHHhhHhcCCC-CceEEEEeeeeee
Q 026701 94 GYSYVYPSDWTEFEFTGHDSGFKDRYLQLQNVRVRFIPTDKKDVHDLGPMEEVVSNLARHVYAAPN-QVADILDMQEKSV 172 (235)
Q Consensus 94 gysf~~P~~W~e~~~~g~d~~f~d~~~~~~nVsV~i~p~~~~si~d~Gspeeva~~l~~~~~~~p~-~~a~ll~a~~~~~ 172 (235)
|++|.||.||+-.....+...+. +.+ +.+..-.+ ++..--++.+++.. ... .+ +...| +...+
T Consensus 296 g~tf~~P~Gf~IdN~~~Avlatg----~ge-~aIrfdgv---~~~s~~sltdyirs---gwv--~gl~~etv---kq~~i 359 (479)
T COG4784 296 GVTFDVPDGFKIDNSAEAVLATG----PGE-VAIRFDGV---SDDSRRSLTDYIRS---GWV--AGLDPETV---KQTTI 359 (479)
T ss_pred ceEEecCCceEecCchHHhhccC----Ccc-eeEeeccc---cCccccCHHHHHHH---hhh--ccCChhhh---hhhcc
Confidence 99999999997654332222221 111 33322211 12222234444321 111 01 11111 11224
Q ss_pred CCeeEEEEEEEEeCCCCcceEEEEEEE-ECCeEEEEEEEecchhhHHHHHHHHhhhccceee
Q 026701 173 DGKNYYTFEYILTSPNYSSASIATIAI-ANGRYYTLIVGANERRWKRVRNKLKVVADSFRIL 233 (235)
Q Consensus 173 dG~~YY~~Ey~~~s~~~~rH~l~~~tv-~~g~LYtl~~~a~e~~W~k~~~~l~~vv~SFrv~ 233 (235)
||. |=.+.-....|-.+-++.+ .+++.|.+...+|-..-. .++....+..|||++
T Consensus 360 NG~-----~Aata~a~A~~w~fdvaVI~~g~rvyrfltavp~gs~~-l~~~a~sv~~SFR~l 415 (479)
T COG4784 360 NGL-----EAATARASADRWQFDVAVIRAGDRVYRFLTAVPKGSTA-LEPRANSVRRSFRPL 415 (479)
T ss_pred CCc-----hhcccCCCcccccceEEEEEeCCEEEEEEEecccCcch-hhHHHHHHHhhcccC
Confidence 441 1111111122223333333 478999988877754433 455888999999975
No 13
>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=80.83 E-value=21 Score=32.09 Aligned_cols=21 Identities=33% Similarity=0.762 Sum_probs=16.0
Q ss_pred ceeecCCceEEEcCCCceeee
Q 026701 87 AFVDRIDGYSYVYPSDWTEFE 107 (235)
Q Consensus 87 ~y~D~~~gysf~~P~~W~e~~ 107 (235)
++.+...||+|.+|.||++-+
T Consensus 111 rvdn~~gGFS~vvP~GW~~Sd 131 (297)
T PF07174_consen 111 RVDNAAGGFSYVVPAGWVESD 131 (297)
T ss_pred cccccccceEEeccCCccccc
Confidence 444556899999999997543
No 14
>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=76.98 E-value=2 Score=24.64 Aligned_cols=12 Identities=33% Similarity=0.468 Sum_probs=9.0
Q ss_pred hhhHHHHHHHHH
Q 026701 54 SKRRLLLMGAGL 65 (235)
Q Consensus 54 ~~RR~~L~g~~a 65 (235)
++||++|.+.++
T Consensus 2 ~sRR~fLk~~~a 13 (26)
T PF10518_consen 2 LSRRQFLKGGAA 13 (26)
T ss_pred CcHHHHHHHHHH
Confidence 589999985443
No 15
>COG3212 Predicted membrane protein [Function unknown]
Probab=40.39 E-value=1.7e+02 Score=23.73 Aligned_cols=22 Identities=18% Similarity=0.354 Sum_probs=16.0
Q ss_pred EEEEeeeeeeCCeeEEEEEEEE
Q 026701 163 DILDMQEKSVDGKNYYTFEYIL 184 (235)
Q Consensus 163 ~ll~a~~~~~dG~~YY~~Ey~~ 184 (235)
++.+..-.+.+|+.+|..|+..
T Consensus 99 ~v~dieLe~~~g~~vYevei~~ 120 (144)
T COG3212 99 KVDDIELEEDNGRLVYEVEIVK 120 (144)
T ss_pred ceeEEEEeccCCEEEEEEEEEe
Confidence 5666665667899888888863
No 16
>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=40.05 E-value=21 Score=25.07 Aligned_cols=12 Identities=42% Similarity=0.504 Sum_probs=9.0
Q ss_pred cchhhHHHHHHH
Q 026701 52 NKSKRRLLLMGA 63 (235)
Q Consensus 52 ~~~~RR~~L~g~ 63 (235)
...+||.+|.++
T Consensus 7 ~~~sRR~Flk~l 18 (66)
T TIGR02811 7 ADPSRRDLLKGL 18 (66)
T ss_pred CCccHHHHHHHH
Confidence 356899999853
No 17
>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=33.59 E-value=28 Score=20.16 Aligned_cols=11 Identities=45% Similarity=0.531 Sum_probs=8.1
Q ss_pred hhhHHHHHHHH
Q 026701 54 SKRRLLLMGAG 64 (235)
Q Consensus 54 ~~RR~~L~g~~ 64 (235)
++||++|..++
T Consensus 1 ~sRR~Flk~~~ 11 (29)
T TIGR01409 1 LSRRDFLKGAA 11 (29)
T ss_pred CchhhhHHHHH
Confidence 37999998544
No 18
>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=33.53 E-value=34 Score=21.82 Aligned_cols=11 Identities=27% Similarity=0.277 Sum_probs=5.8
Q ss_pred ccchhhHHHHH
Q 026701 51 ENKSKRRLLLM 61 (235)
Q Consensus 51 ~~~~~RR~~L~ 61 (235)
....+||++|.
T Consensus 6 ~~~~~RRdFL~ 16 (41)
T PF10399_consen 6 PVDPTRRDFLT 16 (41)
T ss_dssp ----HHHHHHH
T ss_pred CCCchHHHHHH
Confidence 34567999885
No 19
>PF09211 DUF1958: Domain of unknown function (DUF1958); InterPro: IPR015294 Penicillin-binding proteins are beta-lactam antibiotic-sensitive bacterial enzymes required for the growth and maintenance of the peptidoglycan layer of the bacterial cell wall that protects the cell from osmotic stress. Penicillin-binding protein 4 (PBP4) functions as a transpeptidase, and belongs to MEROPS peptidase family S11 (clan SE). PBP4 acts co-operatively with PBP2 in staphylococcal cell wall biosynthesis and susceptibility to antimicrobial agents []. This entry represents the C-terminal domain PBP4.; PDB: 1TVF_A 3HUN_A 3HUM_B.
Probab=33.18 E-value=49 Score=23.33 Aligned_cols=39 Identities=23% Similarity=0.599 Sum_probs=23.2
Q ss_pred EEEEeeeeeeCCeeEEE----EEEEEeCCCCcceEEEEEEEECCeEEE
Q 026701 163 DILDMQEKSVDGKNYYT----FEYILTSPNYSSASIATIAIANGRYYT 206 (235)
Q Consensus 163 ~ll~a~~~~~dG~~YY~----~Ey~~~s~~~~rH~l~~~tv~~g~LYt 206 (235)
+||++.+.++||++|+. |.. + +.+..- ....+.+|+|+.
T Consensus 3 KvLskG~h~IdGk~y~v~kDlYd~-V--pK~~~~--~~~~v~dg~v~v 45 (65)
T PF09211_consen 3 KVLSKGEHTIDGKKYYVKKDLYDV-V--PKGKKP--YKLKVKDGKVHV 45 (65)
T ss_dssp EEE-SEEEEETTEEEEESS-EEEE-E--ETT--G--SEEEEETTEEEE
T ss_pred ccccCccEEECCEEEEecCChhhh-c--cCCCcc--ceEEEeCCEEEE
Confidence 68999999999999875 222 2 211111 234557777765
No 20
>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=32.83 E-value=41 Score=19.05 Aligned_cols=20 Identities=25% Similarity=0.498 Sum_probs=16.5
Q ss_pred EEECCeEEEEEEEecchhhH
Q 026701 198 AIANGRYYTLIVGANERRWK 217 (235)
Q Consensus 198 tv~~g~LYtl~~~a~e~~W~ 217 (235)
+-.+|+||.+.....+.+|.
T Consensus 12 ~~~~g~l~a~d~~~G~~~W~ 31 (33)
T smart00564 12 GSTDGTLYALDAKTGEILWT 31 (33)
T ss_pred EcCCCEEEEEEcccCcEEEE
Confidence 34579999999998888885
No 21
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 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 PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=29.41 E-value=18 Score=31.11 Aligned_cols=20 Identities=20% Similarity=0.255 Sum_probs=0.0
Q ss_pred eecCCCCcccccchhhHHHHH
Q 026701 41 TCPEDISSDEENKSKRRLLLM 61 (235)
Q Consensus 41 ~c~~~~~~~~~~~~~RR~~L~ 61 (235)
.|.++. ...+...+||.+|.
T Consensus 17 ~vra~~-~~~~~~~~RRa~l~ 36 (202)
T PF05757_consen 17 VVRASQ-SPAQQQTSRRAVLG 36 (202)
T ss_dssp ---------------------
T ss_pred eecccc-CcccccccHHHHHH
Confidence 577664 33345668998875
No 22
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=28.34 E-value=1.8e+02 Score=19.77 Aligned_cols=33 Identities=15% Similarity=0.292 Sum_probs=21.7
Q ss_pred hhHhcCCC-CceEEEEeeeeeeCCeeEEEEEEEE
Q 026701 152 RHVYAAPN-QVADILDMQEKSVDGKNYYTFEYIL 184 (235)
Q Consensus 152 ~~~~~~p~-~~a~ll~a~~~~~dG~~YY~~Ey~~ 184 (235)
...-..|. ...++.+....+.+|..+|.|+..+
T Consensus 43 ~~L~~~~~f~~v~l~~~~~~~~~~~~~~~F~i~~ 76 (78)
T PF05137_consen 43 RNLEQSPFFSDVSLSSISRQEGDGNSLVSFTITA 76 (78)
T ss_pred HHHhhCCCccceEEEEEEeeccCCCceEEEEEEE
Confidence 33333344 5567777776666788889998875
No 23
>PF12559 Inhibitor_I10: Serine endopeptidase inhibitors; InterPro: IPR022217 This family includes both microviridins and marinostatins. It seems likely that in both cases it is the C terminus which becomes the active inhibitor after post-translational modifications of the full length, pre-peptide. it is the ester linkages within the key, 12-residue. region that circularise the molecule giving it its inhibitory conformation. ; PDB: 1IXU_A.
Probab=27.37 E-value=25 Score=24.06 Aligned_cols=12 Identities=50% Similarity=0.933 Sum_probs=3.9
Q ss_pred ceEEEcCCCcee
Q 026701 94 GYSYVYPSDWTE 105 (235)
Q Consensus 94 gysf~~P~~W~e 105 (235)
.++..||++|.+
T Consensus 44 ~~TlKyPSD~ee 55 (56)
T PF12559_consen 44 IQTLKYPSDWEE 55 (56)
T ss_dssp -----SS-SS--
T ss_pred CcceeCCCcccc
Confidence 489999999975
No 24
>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=23.68 E-value=47 Score=27.39 Aligned_cols=19 Identities=16% Similarity=0.371 Sum_probs=15.2
Q ss_pred CCccccCChHHHHHHHHhh
Q 026701 135 KDVHDLGPMEEVVSNLARH 153 (235)
Q Consensus 135 ~si~d~Gspeeva~~l~~~ 153 (235)
.-++++|+|+++|+.+..+
T Consensus 45 eii~~LG~P~~iA~~i~~~ 63 (181)
T PF08006_consen 45 EIIAELGSPKEIAREILAE 63 (181)
T ss_pred HHHHHcCCHHHHHHHHHHh
Confidence 3467899999999877655
No 25
>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=23.00 E-value=57 Score=26.51 Aligned_cols=26 Identities=27% Similarity=0.714 Sum_probs=15.5
Q ss_pred cccCcccceeecCCceEEEcCCCcee
Q 026701 80 EIPKNYDAFVDRIDGYSYVYPSDWTE 105 (235)
Q Consensus 80 ~~p~g~~~y~D~~~gysf~~P~~W~e 105 (235)
.-|.+|..|.|.++-|.|.=|..|..
T Consensus 14 ~YP~~W~EfED~E~sflFYnp~~WTG 39 (153)
T PF12712_consen 14 EYPADWNEFEDGEGSFLFYNPDQWTG 39 (153)
T ss_dssp EE-TT-EEE---TTEEEEE-SSS---
T ss_pred ecCCCcchhccCCcceEEEChHHhcC
Confidence 45889999999999999999999953
No 26
>COG3211 PhoX Predicted phosphatase [General function prediction only]
Probab=22.56 E-value=98 Score=30.87 Aligned_cols=12 Identities=33% Similarity=0.493 Sum_probs=9.4
Q ss_pred chhhHHHHHHHH
Q 026701 53 KSKRRLLLMGAG 64 (235)
Q Consensus 53 ~~~RR~~L~g~~ 64 (235)
.++||.+|.|.+
T Consensus 20 ~lsRR~fl~gsa 31 (616)
T COG3211 20 ALSRRKFLKGSA 31 (616)
T ss_pred hhhhhhhhhhhH
Confidence 689999997533
No 27
>PRK07474 sulfur oxidation protein SoxY; Provisional
Probab=21.25 E-value=71 Score=26.27 Aligned_cols=10 Identities=30% Similarity=0.106 Sum_probs=7.8
Q ss_pred chhhHHHHHH
Q 026701 53 KSKRRLLLMG 62 (235)
Q Consensus 53 ~~~RR~~L~g 62 (235)
..+||++|.+
T Consensus 7 ~~~rr~~l~~ 16 (154)
T PRK07474 7 ALSRRQALAL 16 (154)
T ss_pred CcCHHHHHHH
Confidence 4789999873
No 28
>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=20.03 E-value=2.7e+02 Score=21.19 Aligned_cols=43 Identities=19% Similarity=0.285 Sum_probs=28.7
Q ss_pred eCCeeEEEEE---------EEEeCCCCcceEEEEEEEECCeEEEEEEEecchhhHH
Q 026701 172 VDGKNYYTFE---------YILTSPNYSSASIATIAIANGRYYTLIVGANERRWKR 218 (235)
Q Consensus 172 ~dG~~YY~~E---------y~~~s~~~~rH~l~~~tv~~g~LYtl~~~a~e~~W~k 218 (235)
.||+.|+.+. |.++. ......+-+.||+.+.....||++---+
T Consensus 33 ~~g~~~~~i~L~~~~~~~~i~i~~----~~g~~~i~i~~g~vrv~~s~CpdkiCv~ 84 (113)
T PF07009_consen 33 VDGKEVKRIPLDKVNEDKTIEIDG----DGGYNTIEIKDGKVRVIESDCPDKICVK 84 (113)
T ss_dssp ETTEEEEEEETTS-BSEEEEEEET----TTCEEEEEEETTEEEEEEESTSS-HHHH
T ss_pred ECCEEEEEEECCCCCCCEEEEEec----CCcEEEEEEECCEEEEEECCCCCcchhh
Confidence 5777776552 33322 2344566789999999999999876544
Done!