Query 026757
Match_columns 233
No_of_seqs 169 out of 303
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 12:16:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026757.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026757hhsearch_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 1.8E-44 4E-49 318.8 17.3 167 59-227 74-269 (286)
2 PLN00042 photosystem II oxygen 100.0 2.4E-42 5.2E-47 305.6 17.7 166 60-227 48-243 (260)
3 PF01789 PsbP: PsbP; InterPro 100.0 3.9E-38 8.5E-43 265.4 15.0 145 83-227 11-159 (175)
4 PLN00067 PsbP domain-containin 100.0 7.8E-37 1.7E-41 270.1 18.1 168 57-227 38-248 (263)
5 PLN00066 PsbP domain-containin 100.0 1.5E-34 3.4E-39 257.2 18.6 164 57-227 40-243 (262)
6 PLN03152 hypothetical protein; 99.9 2.4E-23 5.3E-28 180.5 13.4 156 60-228 29-226 (241)
7 PF08786 DUF1795: Domain of un 96.7 0.15 3.2E-06 40.5 14.6 111 106-224 3-114 (130)
8 PF12712 DUF3805: Domain of un 93.0 4.5 9.7E-05 33.7 12.8 44 96-140 2-46 (153)
9 PRK11615 hypothetical protein; 87.8 17 0.00037 31.4 15.2 114 101-223 46-165 (185)
10 PF10518 TAT_signal: TAT (twin 74.6 4.4 9.5E-05 24.0 2.8 12 62-73 2-13 (26)
11 smart00564 PQQ beta-propeller 55.8 21 0.00046 20.8 3.4 22 207-228 11-32 (33)
12 PF07174 FAP: Fibronectin-atta 52.2 8.4 0.00018 35.4 1.6 94 96-193 110-228 (297)
13 TIGR02811 formate_TAT formate 42.3 39 0.00086 24.3 3.5 12 59-70 6-17 (66)
14 PF09211 DUF1958: Domain of un 42.2 24 0.00051 25.6 2.3 39 173-216 3-45 (65)
15 PF08006 DUF1700: Protein of u 40.5 16 0.00035 30.6 1.5 18 146-163 46-63 (181)
16 PF05137 PilN: Fimbrial assemb 35.7 1.2E+02 0.0025 21.2 5.2 26 170-195 52-77 (78)
17 COG3212 Predicted membrane pro 31.9 2.5E+02 0.0054 23.2 7.2 21 173-193 99-119 (144)
18 PF03621 MbtH: MbtH-like prote 30.3 75 0.0016 22.1 3.2 29 92-120 10-43 (54)
19 PF01011 PQQ: PQQ enzyme repea 30.3 34 0.00073 21.2 1.4 24 207-230 5-28 (38)
20 PF10657 RC-P840_PscD: Photosy 30.3 1E+02 0.0023 25.3 4.5 87 130-218 42-140 (144)
21 PLN00058 photosystem II reacti 29.7 41 0.00089 26.3 2.0 21 59-79 46-66 (103)
22 PF13570 PQQ_3: PQQ-like domai 29.1 76 0.0016 19.6 2.9 28 184-218 1-28 (40)
23 PF10399 UCR_Fe-S_N: Ubiquitin 28.7 40 0.00087 22.1 1.6 13 58-70 5-17 (41)
24 PLN00054 photosystem I reactio 27.5 74 0.0016 26.2 3.2 15 59-73 25-39 (139)
25 PF12559 Inhibitor_I10: Serine 27.4 25 0.00054 24.8 0.4 12 104-115 44-55 (56)
26 PF10738 Lpp-LpqN: Probable li 25.7 4.2E+02 0.0091 22.5 10.3 114 105-225 33-156 (175)
27 TIGR01409 TAT_signal_seq Tat ( 25.1 99 0.0022 18.3 2.8 10 62-71 1-10 (29)
28 cd06872 PX_SNX19_like_plant Th 22.9 2.1E+02 0.0046 22.1 5.0 25 172-196 3-27 (107)
29 PF12318 FAD-SLDH: Membrane bo 22.8 60 0.0013 27.4 2.0 15 153-167 107-121 (168)
30 PF09478 CBM49: Carbohydrate b 22.7 3E+02 0.0065 19.9 6.0 18 181-198 12-29 (80)
31 PRK10882 hydrogenase 2 protein 22.7 1.1E+02 0.0023 28.8 3.8 12 62-73 1-12 (328)
32 PF15495 Fimbrillin_C: Major f 22.4 1.9E+02 0.0041 21.6 4.5 40 182-221 5-45 (85)
No 1
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=1.8e-44 Score=318.79 Aligned_cols=167 Identities=27% Similarity=0.449 Sum_probs=148.3
Q ss_pred cCccchhHHHHHHH-HHHHhhhcCCCCCCccccccCCceeeeeCCCCeEEecCCCceEeeecCceeeeeccCCCCceEEE
Q 026757 59 LDKCGRRQMIAVGV-IAPWVSLVNQTPPSFAAESNKGFLSVTDKKDGYSFVYPFGWQEVIIEGQDKVFKDVIEPLESVSV 137 (233)
Q Consensus 59 ~~~~~RR~~L~~~~-~aa~~s~~~~~~~A~A~e~~~gf~~y~D~~dgYsf~yP~~W~e~~~~G~d~~f~d~~~~~enVsV 137 (233)
...++||++|+.++ .+.+.+.....+.|||+ +.||+.|+|..|||+|+||.||+++++.|+|++|||+++.+|||+|
T Consensus 74 ~~~~~rr~~~~~~l~~~~~~~s~~~~~~a~a~--~~~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~ENVSV 151 (286)
T PLN00059 74 VCAVGRRKSMMMGLLMSGLIVSEANLPTAFAS--IPVFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDENLSV 151 (286)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHhhcCchhhcC--CcccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCccccceEE
Confidence 35678999988766 34555555555678886 4589999999999999999999999999999999999999999999
Q ss_pred EEecCC---CCCccccCChHHHHHHHHHHhcCCC-------CCceeEEEeeEec-cCCeEEEEEEEEEeC----------
Q 026757 138 NLIPTG---KQDIRDFGPPQEVAETLIKKFLAPP-------TQKTKIIAASEND-VDGKAYYAFEFTAQA---------- 196 (233)
Q Consensus 138 vv~P~~---~~si~dlGspeeva~~Ll~~~~~~~-------~~~a~ll~a~~r~-~dGk~YY~~Ey~v~~---------- 196 (233)
+|+|++ +++|+|||+|+|||++|++++++++ +++++||+|++|+ .||++||+|||.++.
T Consensus 152 ~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~~ 231 (286)
T PLN00059 152 EFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVM 231 (286)
T ss_pred EEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCccccccccc
Confidence 999875 5999999999999999999999874 3799999999995 599999999999887
Q ss_pred -------CCCcceEEEEEEEeCCeEEEEEEEecceeee
Q 026757 197 -------PNYIRHALGVVTVGNGMKLITTREFEVHHFS 227 (233)
Q Consensus 197 -------~~~~RH~la~vtv~~gkLYtl~~q~~~~~f~ 227 (233)
++|.||+|++++|+|||||||++|+++.+|.
T Consensus 232 ~qdr~~~~~w~RH~LA~v~V~nGkLYTL~~qtpE~RW~ 269 (286)
T PLN00059 232 PQDRVARLEWNRRYLAVLGVENDRLYSIRLQTPEKVFL 269 (286)
T ss_pred ccccccccccceeeEEEEEEeCCEEEEEEcCCcHHHHH
Confidence 3789999999999999999999999999984
No 2
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=2.4e-42 Score=305.56 Aligned_cols=166 Identities=25% Similarity=0.405 Sum_probs=143.5
Q ss_pred CccchhHHHHHHHH-HHHhhhcCCCCCCcccc--------ccCCceeeeeCCCCeEEecCCCce---EeeecCceeeeec
Q 026757 60 DKCGRRQMIAVGVI-APWVSLVNQTPPSFAAE--------SNKGFLSVTDKKDGYSFVYPFGWQ---EVIIEGQDKVFKD 127 (233)
Q Consensus 60 ~~~~RR~~L~~~~~-aa~~s~~~~~~~A~A~e--------~~~gf~~y~D~~dgYsf~yP~~W~---e~~~~G~d~~f~d 127 (233)
....||.+|++++. +++.+.+.|+.+||+++ ...||.+|. +|||+|+||.+|+ |..++|+|++|+|
T Consensus 48 ~~~srr~~l~~~~ga~a~~~~~~pa~aay~~~anvfg~~k~~~gF~~y~--~dgY~FlyP~~W~~~ke~~~~G~dv~f~D 125 (260)
T PLN00042 48 SAVSRRAALALLAGAAAAGAKVSPANAAYGESANVFGKPKTNTGFLPYN--GDGFKLLVPSKWNPSKEREFPGQVLRFED 125 (260)
T ss_pred ccccHHHHHHHHHHHHHhhcccCchhhhhcchhhccCCCCCCCCCeEee--CCCeEEecCCCCccccccccCCceEEeec
Confidence 44679988876553 34568889999999754 468999995 5999999999998 5557899999999
Q ss_pred cCCCCceEEEEEecCCCCCccccCChHHHHHH----HHHHhcCCC---------C--CceeEEEeeEeccCCeEEEEEEE
Q 026757 128 VIEPLESVSVNLIPTGKQDIRDFGPPQEVAET----LIKKFLAPP---------T--QKTKIIAASENDVDGKAYYAFEF 192 (233)
Q Consensus 128 ~~~~~enVsVvv~P~~~~si~dlGspeeva~~----Ll~~~~~~~---------~--~~a~ll~a~~r~~dGk~YY~~Ey 192 (233)
+++.++||+|+|+|+++++|+|||+||||+++ |.++++.++ + ..++||+++++++||++||+|||
T Consensus 126 ~~~~~eNVSV~Ispt~k~sI~dlGsPee~l~~vgylL~kq~~a~~t~s~~Gf~p~~vata~Lleas~re~dGk~YY~lE~ 205 (260)
T PLN00042 126 NFDATSNLSVMVTPTDKKSITDYGSPEEFLSKVSYLLGKQAYSGETASEGGFDANAVATAAVLESSTQEVGGKPYYYLSV 205 (260)
T ss_pred cccccccEEEEEecCCcCCHhhcCCHHHHHHHHHHHHHhhhccCccccccCcCcccccceeEEEeeeEEeCCeEEEEEEE
Confidence 99999999999999999999999999996554 557887754 1 25799999999999999999999
Q ss_pred EEeCC---CCcceEEEEEEEeCCeEEEEEEEecceeee
Q 026757 193 TAQAP---NYIRHALGVVTVGNGMKLITTREFEVHHFS 227 (233)
Q Consensus 193 ~v~~~---~~~RH~la~vtv~~gkLYtl~~q~~~~~f~ 227 (233)
.++.+ +++||+|+++||.|||||||++|++|++|-
T Consensus 206 ~~~~ad~d~~~RH~LatatV~~GkLYtl~aqa~EkRW~ 243 (260)
T PLN00042 206 LTRTADGDEGGKHQLITATVSDGKLYICKAQAGDKRWF 243 (260)
T ss_pred EEecCCCCCCCceEEEEEEEECCEEEEEEecCchhhhh
Confidence 98865 489999999999999999999999999994
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=3.9e-38 Score=265.37 Aligned_cols=145 Identities=46% Similarity=0.741 Sum_probs=129.5
Q ss_pred CCCCccccccCCceeeeeCCCCeEEecCCCceEeeecCceeeeeccCCCCceEEEEEecCCCC-CccccCChHHHHHHHH
Q 026757 83 TPPSFAAESNKGFLSVTDKKDGYSFVYPFGWQEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQ-DIRDFGPPQEVAETLI 161 (233)
Q Consensus 83 ~~~A~A~e~~~gf~~y~D~~dgYsf~yP~~W~e~~~~G~d~~f~d~~~~~enVsVvv~P~~~~-si~dlGspeeva~~Ll 161 (233)
+..+.+++...||++|.|+.+||+|.||.+|+++++.|+|++|+|+.+..+||+|+|.|+.+. +|+|||+|++|+++|+
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 334444567789999999999999999999999999999999999999999999999999875 9999999999999999
Q ss_pred HHhcCCCC--CceeEEEeeEeccCCeEEEEEEEEEeCCC-CcceEEEEEEEeCCeEEEEEEEecceeee
Q 026757 162 KKFLAPPT--QKTKIIAASENDVDGKAYYAFEFTAQAPN-YIRHALGVVTVGNGMKLITTREFEVHHFS 227 (233)
Q Consensus 162 ~~~~~~~~--~~a~ll~a~~r~~dGk~YY~~Ey~v~~~~-~~RH~la~vtv~~gkLYtl~~q~~~~~f~ 227 (233)
+..+++++ +.++||++++++.+|++||+|||.++.++ +.||+|++++|.|||||+|++|+++.||.
T Consensus 91 ~~~~~~~~~~~~a~li~a~~~~~~g~~yY~~Ey~~~~~~~~~rh~l~~~tv~~g~lY~l~~~a~e~~w~ 159 (175)
T PF01789_consen 91 NGELASPGSGREAELISASEREVDGKTYYEYEYTVQSPNEGRRHNLAVVTVKNGKLYTLTAQAPESRWD 159 (175)
T ss_dssp HHCCCHCTSSEEEEEEEEEEEEETTEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEEEEHHHHH
T ss_pred hhhcccccCCcceEEEEeeeeecCCccEEEEEEEeccCCCcccEEEEEEEEECCEEEEEEEEcCHHHHH
Confidence 99888776 78999999999999999999999999988 99999999999999999999999999985
No 4
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=7.8e-37 Score=270.10 Aligned_cols=168 Identities=17% Similarity=0.290 Sum_probs=139.3
Q ss_pred CccCccchhHHHHHHHHHHHhhhcCCCCCCcc-----------ccccCCceeeeeC-----------CCCeEEecCCCce
Q 026757 57 NSLDKCGRRQMIAVGVIAPWVSLVNQTPPSFA-----------AESNKGFLSVTDK-----------KDGYSFVYPFGWQ 114 (233)
Q Consensus 57 ~~~~~~~RR~~L~~~~~aa~~s~~~~~~~A~A-----------~e~~~gf~~y~D~-----------~dgYsf~yP~~W~ 114 (233)
.......||++|.++++++++++..+. .+.| .....||..|... ..||+|+||.+|+
T Consensus 38 ~~~~~~~rr~~~~~~~~~~~~~~~~~~-~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~ 116 (263)
T PLN00067 38 RAAVVIHRRELLLGLALAPLILIAPEP-PAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWK 116 (263)
T ss_pred cccchhHHHHHHhhhhhhhhhhccCCc-hhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCc
Confidence 445567899998766655544443322 2223 1123588888532 3489999999999
Q ss_pred Eeeec----C-----------ceeeeeccCCCCceEEEEEecC------CCCCccccCChHHHHHHHHHHhcCCCCCcee
Q 026757 115 EVIIE----G-----------QDKVFKDVIEPLESVSVNLIPT------GKQDIRDFGPPQEVAETLIKKFLAPPTQKTK 173 (233)
Q Consensus 115 e~~~~----G-----------~d~~f~d~~~~~enVsVvv~P~------~~~si~dlGspeeva~~Ll~~~~~~~~~~a~ 173 (233)
+++++ | +|++|+|.+ ++||+|+|+|+ +.++|+|||+|++|+++|.+.++++++++++
T Consensus 117 ~v~Vs~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~~~~~~e 194 (263)
T PLN00067 117 QTRVANILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGNSYDPDE 194 (263)
T ss_pred CccccccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcCCCCCcc
Confidence 98885 4 799999955 68999999997 3489999999999999999999988778899
Q ss_pred EEEeeEeccCCeEEEEEEEEEeCCCCcceEEEEEEEeCCeEEEEEEEecceeee
Q 026757 174 IIAASENDVDGKAYYAFEFTAQAPNYIRHALGVVTVGNGMKLITTREFEVHHFS 227 (233)
Q Consensus 174 ll~a~~r~~dGk~YY~~Ey~v~~~~~~RH~la~vtv~~gkLYtl~~q~~~~~f~ 227 (233)
||++++++.||++||+|||.++..+++||+|+++||++||||||++|++|+||.
T Consensus 195 LLeAs~re~dGktYY~~E~~tp~a~~gRHnLataTV~~GkLYtf~asanEkRW~ 248 (263)
T PLN00067 195 LLETSVEKIGDQTYYKYVLETPFALTGSHNLAKATAKGNTVVLFVVSASDKQWQ 248 (263)
T ss_pred eEEeeeEeeCCeEEEEEEEEecCCCCCceEEEEEEEECCEEEEEEecCCHHHHH
Confidence 999999999999999999999999999999999999999999999999999995
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=1.5e-34 Score=257.20 Aligned_cols=164 Identities=20% Similarity=0.370 Sum_probs=132.7
Q ss_pred CccCccchhHHHHHHHHHHHhhhc-CCC--CCC-cc----------ccccCCceeeeeCC-------------CCeEEec
Q 026757 57 NSLDKCGRRQMIAVGVIAPWVSLV-NQT--PPS-FA----------AESNKGFLSVTDKK-------------DGYSFVY 109 (233)
Q Consensus 57 ~~~~~~~RR~~L~~~~~aa~~s~~-~~~--~~A-~A----------~e~~~gf~~y~D~~-------------dgYsf~y 109 (233)
.....+.||.+|+.++++++.+.+ .|+ .++ ++ +.+..||++|..+. .+|+|+|
T Consensus 40 ~~~~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~y 119 (262)
T PLN00066 40 DVATAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKV 119 (262)
T ss_pred hhcchhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEEC
Confidence 334566899999876654332222 222 111 11 23447999998764 4799999
Q ss_pred CCCceEeeec-----CceeeeeccCCCCceEEEEEecC--------CCCCccccCChHHHHHHHHHHhcCCCCCceeEEE
Q 026757 110 PFGWQEVIIE-----GQDKVFKDVIEPLESVSVNLIPT--------GKQDIRDFGPPQEVAETLIKKFLAPPTQKTKIIA 176 (233)
Q Consensus 110 P~~W~e~~~~-----G~d~~f~d~~~~~enVsVvv~P~--------~~~si~dlGspeeva~~Ll~~~~~~~~~~a~ll~ 176 (233)
|.+|+|+.++ |+++.+++..+..+||+|+|.|+ ++++|+|||+|++|++.|+++++.++.++++|++
T Consensus 120 P~GW~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~~~e~eLl~ 199 (262)
T PLN00066 120 PQGWEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGEPVEEGKVLS 199 (262)
T ss_pred CCCCeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCCCccccceeE
Confidence 9999999886 55555666667889999999997 4689999999999999999998888878899999
Q ss_pred eeEeccCCeEEEEEEEEEeCCCCcceEEEEEEEeCCeEEEEEEEecceeee
Q 026757 177 ASENDVDGKAYYAFEFTAQAPNYIRHALGVVTVGNGMKLITTREFEVHHFS 227 (233)
Q Consensus 177 a~~r~~dGk~YY~~Ey~v~~~~~~RH~la~vtv~~gkLYtl~~q~~~~~f~ 227 (233)
+++++.||++||+||| .||+|+++||.+||||||++|+++.||.
T Consensus 200 a~~re~dGktYY~~E~-------~rH~LasaTV~~GrLYt~~asape~rW~ 243 (262)
T PLN00066 200 MEVAEHSGRTYYQFEL-------PPHTLVTATAAGNRVYIFSVTANGLQWK 243 (262)
T ss_pred eeeeecCCcEEEEEEE-------eCceEEEEEEECCEEEEEEeecchHhhH
Confidence 9999999999999999 3899999999999999999999999995
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.90 E-value=2.4e-23 Score=180.49 Aligned_cols=156 Identities=24% Similarity=0.367 Sum_probs=112.4
Q ss_pred CccchhHHHHHHHHHHHhh--hcCCCCCCcccc------------ccCCceeeeeCCCCeEEecCCCceEeee----c--
Q 026757 60 DKCGRRQMIAVGVIAPWVS--LVNQTPPSFAAE------------SNKGFLSVTDKKDGYSFVYPFGWQEVII----E-- 119 (233)
Q Consensus 60 ~~~~RR~~L~~~~~aa~~s--~~~~~~~A~A~e------------~~~gf~~y~D~~dgYsf~yP~~W~e~~~----~-- 119 (233)
+...||+++.-.+.+.+++ ...|...++|+. +++.+-.| -++||++.||.+++.+.- +
T Consensus 29 ~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nt~~w~~~--~g~gf~~~~pp~f~di~e~~~~~~g 106 (241)
T PLN03152 29 CGASRRDFILHTASLCASSLAAQNPLPPSLADPSKPSKPLLSGIANTKSWFQF--YGDGFSIRVPPSFEDIMEPEDYNAG 106 (241)
T ss_pred ccccccceeeehhHHHHhhhhcCCCCCccccCCCCCCCchheeeecchhhhhh--hCCceEEeCCCChhhhcChhhcccc
Confidence 3445888875443222222 223445555532 22445555 489999999999985421 1
Q ss_pred ----C-------ceeeeeccCCCCceEEEEEecCC--------CCCccccCChHHHHHHHHHHhcCCCCC---ceeEEEe
Q 026757 120 ----G-------QDKVFKDVIEPLESVSVNLIPTG--------KQDIRDFGPPQEVAETLIKKFLAPPTQ---KTKIIAA 177 (233)
Q Consensus 120 ----G-------~d~~f~d~~~~~enVsVvv~P~~--------~~si~dlGspeeva~~Ll~~~~~~~~~---~a~ll~a 177 (233)
| -..||..+ +.+|||||+|.|++ .++|+|||+|+||++.++ +++. .++.++.
T Consensus 107 ~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~v-----P~g~~~~saR~iel 180 (241)
T PLN03152 107 LSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFV-----PGGATLYSARTIKV 180 (241)
T ss_pred cceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhC-----CCcccccccceeee
Confidence 2 12445443 45899999999974 589999999999996665 4442 5666766
Q ss_pred eEeccCCeEEEEEEEEEeCCCCcceEEEEEEEeCCeEEEEEEEecceeeeE
Q 026757 178 SENDVDGKAYYAFEFTAQAPNYIRHALGVVTVGNGMKLITTREFEVHHFSF 228 (233)
Q Consensus 178 ~~r~~dGk~YY~~Ey~v~~~~~~RH~la~vtv~~gkLYtl~~q~~~~~f~~ 228 (233)
+ ++.||++||+|||.++ .||+|++|+|.+||||||++++++.+|.-
T Consensus 181 ~-~E~dGKtYY~lEy~v~----~RH~LaTVaVsrGKLYTl~aSt~EkRW~K 226 (241)
T PLN03152 181 K-EEEGIRTYYFYEFGRD----EQHVALVATVNSGKAYIAGATAPESKWDD 226 (241)
T ss_pred e-eecCCceeEEEEEEeC----CcEEEEEEEEcCCeEEEEecCCchhchHH
Confidence 4 4899999999999986 89999999999999999999999999963
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=96.67 E-value=0.15 Score=40.50 Aligned_cols=111 Identities=13% Similarity=0.096 Sum_probs=70.8
Q ss_pred EEecCCCceEeeecCceeeeeccCCCCceEEEEEecCCCCCccccCChHHHHHHHHHHhcCCCCCceeEEEeeEeccCCe
Q 026757 106 SFVYPFGWQEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQEVAETLIKKFLAPPTQKTKIIAASENDVDGK 185 (233)
Q Consensus 106 sf~yP~~W~e~~~~G~d~~f~d~~~~~enVsVvv~P~~~~si~dlGspeeva~~Ll~~~~~~~~~~a~ll~a~~r~~dGk 185 (233)
+|..|.+|+...+ +-.++.|.....-|+.|+-.+.. +=.+.++..++.+++.- .....-++++......+|.
T Consensus 3 ~~~lP~~~~D~t~--nv~~~~~~~~~~~slvIsR~~l~-----~g~tl~~~~~~q~~~l~-~~l~~~~~~~~~~~~l~~~ 74 (130)
T PF08786_consen 3 SLTLPDGWQDRTM--NVLVLPDSGGSGPSLVISRDPLP-----DGETLEDYLQRQLAQLR-KQLPGFQLVERQPITLGGR 74 (130)
T ss_dssp EEEEETTSEE--B--EEEEE--BTTB-EEEEEEEE--------TTS-HHHHHHHHHHHHH-CCSTT-EEEEEEEEEETTE
T ss_pred eEeCCCcceeceE--EEEEccCCCCCcceEEEEeccCC-----CCCCHHHHHHHHHHHHH-hhCCCcEEEeeEEEEeCCC
Confidence 5788999997543 11223333222233444433332 22356667777665443 2224567888777789999
Q ss_pred EEEEEEEEEeCCCCcceEEEEEEEeC-CeEEEEEEEecce
Q 026757 186 AYYAFEFTAQAPNYIRHALGVVTVGN-GMKLITTREFEVH 224 (233)
Q Consensus 186 ~YY~~Ey~v~~~~~~RH~la~vtv~~-gkLYtl~~q~~~~ 224 (233)
+-+.+||.-...+..-|+..++..-+ +++|+++.+++..
T Consensus 75 ~a~~l~~~~~~~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~ 114 (130)
T PF08786_consen 75 PARELEYSFRSGGQPVYQRQAAVLLPGRRVLVFTYTAPGP 114 (130)
T ss_dssp EEEEEEEEEEETTCEEEEEEEEEEEC-CCEEEEEEEEECC
T ss_pred CeEEEEEEEeeCCEEEEEEEEEEEECCCEEEEEEEEcCCC
Confidence 99999999888888899999999988 9999999998653
No 8
>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=93.02 E-value=4.5 Score=33.68 Aligned_cols=44 Identities=16% Similarity=0.280 Sum_probs=26.1
Q ss_pred eeeeeCCCCeEEecCCCceEeeecCce-eeeeccCCCCceEEEEEe
Q 026757 96 LSVTDKKDGYSFVYPFGWQEVIIEGQD-KVFKDVIEPLESVSVNLI 140 (233)
Q Consensus 96 ~~y~D~~dgYsf~yP~~W~e~~~~G~d-~~f~d~~~~~enVsVvv~ 140 (233)
.-|..++.=|+..||.+|.|.+ .|.+ -.|.||..=++|..+..-
T Consensus 2 kKfiSpg~WFS~~YP~~W~EfE-D~E~sflFYnp~~WTGNfRISay 46 (153)
T PF12712_consen 2 KKFISPGAWFSMEYPADWNEFE-DGEGSFLFYNPDQWTGNFRISAY 46 (153)
T ss_dssp EEEE-GGG-EEEEE-TT-EEE----TTEEEEE-SSS---EEEEEEE
T ss_pred CcccCCCceEEEecCCCcchhc-cCCcceEEEChHHhcCceEEEEE
Confidence 4577788889999999999987 5654 458999888999887753
No 9
>PRK11615 hypothetical protein; Provisional
Probab=87.80 E-value=17 Score=31.42 Aligned_cols=114 Identities=12% Similarity=0.129 Sum_probs=69.5
Q ss_pred CCCCeEEecCCCceEeeec-C----ceeeeeccCCCCceEEEEEecCCCCCccccCChHHHHHHHHHH-hcCCCCCceeE
Q 026757 101 KKDGYSFVYPFGWQEVIIE-G----QDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQEVAETLIKK-FLAPPTQKTKI 174 (233)
Q Consensus 101 ~~dgYsf~yP~~W~e~~~~-G----~d~~f~d~~~~~enVsVvv~P~~~~si~dlGspeeva~~Ll~~-~~~~~~~~a~l 174 (233)
-..+.+|.+|.++.+.... | .--+|-|.. ...+-|+|.+ +. +=++ .+..+.+|..+ .-+-| .-.+
T Consensus 46 LdGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~t--g~kavIVi~g-D~-~~~~---Ld~la~rl~~qQr~rdp--~lqv 116 (185)
T PRK11615 46 LDGKLSFTLPADMSDQSGKLGTQANNMHVYADAT--GQKAVIVILG-DD-TNED---LAVLAKRLEDQQRSRDP--QLQV 116 (185)
T ss_pred eccEEEEEcCCccccccccccccccceEEEEcCC--CCEEEEEEeC-CC-Chhh---HHHHHHHHHHHHHhhCc--Ccee
Confidence 3568999999999855332 2 335677743 3444333322 21 1111 24455566532 22222 2345
Q ss_pred EEeeEeccCCeEEEEEEEEEeCCCCcceEEEEEEEeCCeEEEEEEEecc
Q 026757 175 IAASENDVDGKAYYAFEFTAQAPNYIRHALGVVTVGNGMKLITTREFEV 223 (233)
Q Consensus 175 l~a~~r~~dGk~YY~~Ey~v~~~~~~RH~la~vtv~~gkLYtl~~q~~~ 223 (233)
+.-+.-+++|+++++++-.+...+..--.-++++..++||-||.+..+-
T Consensus 117 vsnK~i~i~G~~~qQLDS~~t~~Gqk~~SSvvL~~v~~rl~tlQitlpA 165 (185)
T PRK11615 117 VTNKAIELKGHKLQQLDSIISAKGQTAYSSVVLGKVDNQLLTMQITLPA 165 (185)
T ss_pred ecceeEEECCeeeEEeeeeeecCCceEEEEEEEEeeCCeEEEEEEecCC
Confidence 5555557899999999998877665555556667779999999887664
No 10
>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=74.65 E-value=4.4 Score=23.99 Aligned_cols=12 Identities=33% Similarity=0.490 Sum_probs=9.2
Q ss_pred cchhHHHHHHHH
Q 026757 62 CGRRQMIAVGVI 73 (233)
Q Consensus 62 ~~RR~~L~~~~~ 73 (233)
+.||++|..+++
T Consensus 2 ~sRR~fLk~~~a 13 (26)
T PF10518_consen 2 LSRRQFLKGGAA 13 (26)
T ss_pred CcHHHHHHHHHH
Confidence 579999976554
No 11
>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=55.84 E-value=21 Score=20.79 Aligned_cols=22 Identities=9% Similarity=0.093 Sum_probs=18.5
Q ss_pred EEEeCCeEEEEEEEecceeeeE
Q 026757 207 VTVGNGMKLITTREFEVHHFSF 228 (233)
Q Consensus 207 vtv~~gkLYtl~~q~~~~~f~~ 228 (233)
++-.+|+||.+.+..++-+|.+
T Consensus 11 ~~~~~g~l~a~d~~~G~~~W~~ 32 (33)
T smart00564 11 VGSTDGTLYALDAKTGEILWTY 32 (33)
T ss_pred EEcCCCEEEEEEcccCcEEEEc
Confidence 4456899999999999999875
No 12
>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=52.15 E-value=8.4 Score=35.43 Aligned_cols=94 Identities=30% Similarity=0.464 Sum_probs=48.9
Q ss_pred eeeeeCCCCeEEecCCCceEeeec----CceeeeeccCCC--------Cce-EEEEEecCCC---CCccccCChHHHHHH
Q 026757 96 LSVTDKKDGYSFVYPFGWQEVIIE----GQDKVFKDVIEP--------LES-VSVNLIPTGK---QDIRDFGPPQEVAET 159 (233)
Q Consensus 96 ~~y~D~~dgYsf~yP~~W~e~~~~----G~d~~f~d~~~~--------~en-VsVvv~P~~~---~si~dlGspeeva~~ 159 (233)
.++.|...||+|++|.||++.+-. |+.+.-+..-++ ..| -+|++...+. .+.| -+-.+.|.+
T Consensus 110 grvdn~~gGFS~vvP~GW~~Sda~~L~yG~alls~~~~~~~~~~~~~p~andt~v~lgrld~kl~a~ae--~dn~kaa~r 187 (297)
T PF07174_consen 110 GRVDNAAGGFSYVVPAGWVESDASHLDYGSALLSKQTGEPPMPGQPPPVANDTSVVLGRLDLKLFASAE--PDNTKAAVR 187 (297)
T ss_pred ccccccccceEEeccCCccccccceeecceeeeccCCCCCCCCCCCCCcCCCceEEecccccccccccc--CChHHHHHH
Confidence 355667789999999999976531 444433322111 223 4555555542 1222 134456677
Q ss_pred HHHH---hcCC-C----CCceeEEEeeEeccCC-eEEEEEEEE
Q 026757 160 LIKK---FLAP-P----TQKTKIIAASENDVDG-KAYYAFEFT 193 (233)
Q Consensus 160 Ll~~---~~~~-~----~~~a~ll~a~~r~~dG-k~YY~~Ey~ 193 (233)
|... ++-+ | +++..-|++. ...| --||...|.
T Consensus 188 l~sdmgeffmp~pg~rinq~~~~l~~~--g~~g~asyyevkf~ 228 (297)
T PF07174_consen 188 LASDMGEFFMPYPGTRINQETTPLDAN--GMPGSASYYEVKFT 228 (297)
T ss_pred HhccccceeccCCCccccccccccccC--CcccceeEEEEEec
Confidence 7643 2222 2 3566666642 2333 356666554
No 13
>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=42.33 E-value=39 Score=24.33 Aligned_cols=12 Identities=17% Similarity=0.213 Sum_probs=8.7
Q ss_pred cCccchhHHHHH
Q 026757 59 LDKCGRRQMIAV 70 (233)
Q Consensus 59 ~~~~~RR~~L~~ 70 (233)
+....||++|..
T Consensus 6 ~~~~sRR~Flk~ 17 (66)
T TIGR02811 6 KADPSRRDLLKG 17 (66)
T ss_pred cCCccHHHHHHH
Confidence 445679999953
No 14
>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=42.19 E-value=24 Score=25.64 Aligned_cols=39 Identities=23% Similarity=0.487 Sum_probs=23.3
Q ss_pred eEEEeeEeccCCeEEEE----EEEEEeCCCCcceEEEEEEEeCCeEEE
Q 026757 173 KIIAASENDVDGKAYYA----FEFTAQAPNYIRHALGVVTVGNGMKLI 216 (233)
Q Consensus 173 ~ll~a~~r~~dGk~YY~----~Ey~v~~~~~~RH~la~vtv~~gkLYt 216 (233)
+||++.+.++||++||- |.. |..+. .. -.+.+.||+|+.
T Consensus 3 KvLskG~h~IdGk~y~v~kDlYd~-VpK~~-~~---~~~~v~dg~v~v 45 (65)
T PF09211_consen 3 KVLSKGEHTIDGKKYYVKKDLYDV-VPKGK-KP---YKLKVKDGKVHV 45 (65)
T ss_dssp EEE-SEEEEETTEEEEESS-EEEE-EETT---G---SEEEEETTEEEE
T ss_pred ccccCccEEECCEEEEecCChhhh-ccCCC-cc---ceEEEeCCEEEE
Confidence 68999999999999773 222 22211 11 245667777765
No 15
>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=40.47 E-value=16 Score=30.59 Aligned_cols=18 Identities=28% Similarity=0.671 Sum_probs=15.4
Q ss_pred CccccCChHHHHHHHHHH
Q 026757 146 DIRDFGPPQEVAETLIKK 163 (233)
Q Consensus 146 si~dlGspeeva~~Ll~~ 163 (233)
=+++||+|+++|..++.+
T Consensus 46 ii~~LG~P~~iA~~i~~~ 63 (181)
T PF08006_consen 46 IIAELGSPKEIAREILAE 63 (181)
T ss_pred HHHHcCCHHHHHHHHHHh
Confidence 468999999999998854
No 16
>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=35.71 E-value=1.2e+02 Score=21.15 Aligned_cols=26 Identities=23% Similarity=0.415 Sum_probs=20.5
Q ss_pred CceeEEEeeEeccCCeEEEEEEEEEe
Q 026757 170 QKTKIIAASENDVDGKAYYAFEFTAQ 195 (233)
Q Consensus 170 ~~a~ll~a~~r~~dGk~YY~~Ey~v~ 195 (233)
...++.+....+.+|..+|.|++.++
T Consensus 52 ~~v~l~~~~~~~~~~~~~~~F~i~~~ 77 (78)
T PF05137_consen 52 SDVSLSSISRQEGDGNSLVSFTITAK 77 (78)
T ss_pred cceEEEEEEeeccCCCceEEEEEEEE
Confidence 56778888777778888999998754
No 17
>COG3212 Predicted membrane protein [Function unknown]
Probab=31.89 E-value=2.5e+02 Score=23.15 Aligned_cols=21 Identities=19% Similarity=0.338 Sum_probs=16.9
Q ss_pred eEEEeeEeccCCeEEEEEEEE
Q 026757 173 KIIAASENDVDGKAYYAFEFT 193 (233)
Q Consensus 173 ~ll~a~~r~~dGk~YY~~Ey~ 193 (233)
++.+..=.+.+|+.+|.+|+.
T Consensus 99 ~v~dieLe~~~g~~vYevei~ 119 (144)
T COG3212 99 KVDDIELEEDNGRLVYEVEIV 119 (144)
T ss_pred ceeEEEEeccCCEEEEEEEEE
Confidence 777777667789999999985
No 18
>PF03621 MbtH: MbtH-like protein; InterPro: IPR005153 This domain is found in the MbtH protein O05821 from SWISSPROT as well as at the N terminus of the antibiotic synthesis protein NIKP1. This domain is about 70 amino acids long and contains 3 fully conserved tryptophan residues. Many of the members of this family are found in known antibiotic synthesis gene clusters.; PDB: 2PST_X 2GPF_A 2LPD_A 2KHR_A.
Probab=30.34 E-value=75 Score=22.07 Aligned_cols=29 Identities=31% Similarity=0.652 Sum_probs=19.9
Q ss_pred cCCceeeeeCCCCeEEe-----cCCCceEeeecC
Q 026757 92 NKGFLSVTDKKDGYSFV-----YPFGWQEVIIEG 120 (233)
Q Consensus 92 ~~gf~~y~D~~dgYsf~-----yP~~W~e~~~~G 120 (233)
...|...++.++-|++- +|.||..+-.+|
T Consensus 10 ~~~f~VlvN~e~QySlWP~~~~vP~GW~~~~G~~ 43 (54)
T PF03621_consen 10 DGTFLVLVNDEGQYSLWPAFRPVPAGWRAVFGPG 43 (54)
T ss_dssp -S-EEEEEETT-SEEEEETTS---TTEEEEEEEE
T ss_pred CCeEEEEEcCCCCeeeCcCCCCCCCCcceeeCCc
Confidence 35799999999999986 899999874343
No 19
>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=30.29 E-value=34 Score=21.23 Aligned_cols=24 Identities=13% Similarity=0.097 Sum_probs=20.0
Q ss_pred EEEeCCeEEEEEEEecceeeeEee
Q 026757 207 VTVGNGMKLITTREFEVHHFSFLA 230 (233)
Q Consensus 207 vtv~~gkLYtl~~q~~~~~f~~~~ 230 (233)
++-.+|+||.|.+..++-.|+|-.
T Consensus 5 ~~~~~g~l~AlD~~TG~~~W~~~~ 28 (38)
T PF01011_consen 5 VGTPDGYLYALDAKTGKVLWKFQT 28 (38)
T ss_dssp EETTTSEEEEEETTTTSEEEEEES
T ss_pred EeCCCCEEEEEECCCCCEEEeeeC
Confidence 335589999999999999999854
No 20
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 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. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=30.27 E-value=1e+02 Score=25.27 Aligned_cols=87 Identities=15% Similarity=0.258 Sum_probs=45.0
Q ss_pred CCCceEEEEEecCCCCCccccCChHHHHHHHHHHhcCC---CCCceeEEEeeEeccCCeEEEEEEEEEeCCCCc------
Q 026757 130 EPLESVSVNLIPTGKQDIRDFGPPQEVAETLIKKFLAP---PTQKTKIIAASENDVDGKAYYAFEFTAQAPNYI------ 200 (233)
Q Consensus 130 ~~~enVsVvv~P~~~~si~dlGspeeva~~Ll~~~~~~---~~~~a~ll~a~~r~~dGk~YY~~Ey~v~~~~~~------ 200 (233)
+..+++.++|.|... -..|-+-.|..++|....+.- ..+..--|+..++..|...-|-++|.-++-.|.
T Consensus 42 D~~g~Lql~i~pasG--rrkLspt~emi~~l~~geIel~VLttqpDIai~l~~kVldnEnRYViDFD~RGvkwTMRdipV 119 (144)
T PF10657_consen 42 DRYGKLQLTISPASG--RRKLSPTPEMIDKLISGEIELFVLTTQPDIAINLQQKVLDNENRYVIDFDKRGVKWTMRDIPV 119 (144)
T ss_pred ccCCceEEEEecCCC--ccccCCcHHHHHHHhcCceEEEEEccCCCeeechhhhhhcccceEEEeccCCcceeEeecCce
Confidence 345789999999852 233445667777776422100 012222233344444455557766653322222
Q ss_pred --ceEEEEEEEe-CCeEEEEE
Q 026757 201 --RHALGVVTVG-NGMKLITT 218 (233)
Q Consensus 201 --RH~la~vtv~-~gkLYtl~ 218 (233)
...---++|. |+++|||+
T Consensus 120 fy~~~~~~l~Veid~r~YtL~ 140 (144)
T PF10657_consen 120 FYNSLTRQLCVEIDRRTYTLD 140 (144)
T ss_pred EEccCCcEEEEEECCeEEehH
Confidence 2222234555 89999985
No 21
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=29.69 E-value=41 Score=26.30 Aligned_cols=21 Identities=24% Similarity=0.230 Sum_probs=14.6
Q ss_pred cCccchhHHHHHHHHHHHhhh
Q 026757 59 LDKCGRRQMIAVGVIAPWVSL 79 (233)
Q Consensus 59 ~~~~~RR~~L~~~~~aa~~s~ 79 (233)
+...+||+++..+++++..+.
T Consensus 46 e~~~gRR~~mfaaaAaav~s~ 66 (103)
T PLN00058 46 QSTTMRRDLMFTAAAAAVCSL 66 (103)
T ss_pred cchhhHHHHHHHHHHHHHHhh
Confidence 466789999987666554444
No 22
>PF13570 PQQ_3: PQQ-like domain; PDB: 3HXJ_B 3Q54_A.
Probab=29.07 E-value=76 Score=19.57 Aligned_cols=28 Identities=18% Similarity=0.313 Sum_probs=11.8
Q ss_pred CeEEEEEEEEEeCCCCcceEEEEEEEeCCeEEEEE
Q 026757 184 GKAYYAFEFTAQAPNYIRHALGVVTVGNGMKLITT 218 (233)
Q Consensus 184 Gk~YY~~Ey~v~~~~~~RH~la~vtv~~gkLYtl~ 218 (233)
|+.-|.++.. .......++.+|+||.-+
T Consensus 1 G~~~W~~~~~-------~~~~~~~~v~~g~vyv~~ 28 (40)
T PF13570_consen 1 GKVLWSYDTG-------GPIWSSPAVAGGRVYVGT 28 (40)
T ss_dssp S-EEEEEE-S-------S---S--EECTSEEEEE-
T ss_pred CceeEEEECC-------CCcCcCCEEECCEEEEEc
Confidence 4555666552 133345567777776544
No 23
>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=28.73 E-value=40 Score=22.14 Aligned_cols=13 Identities=15% Similarity=0.250 Sum_probs=6.5
Q ss_pred ccCccchhHHHHH
Q 026757 58 SLDKCGRRQMIAV 70 (233)
Q Consensus 58 ~~~~~~RR~~L~~ 70 (233)
+....+||++|.+
T Consensus 5 ~~~~~~RRdFL~~ 17 (41)
T PF10399_consen 5 EPVDPTRRDFLTI 17 (41)
T ss_dssp -----HHHHHHHH
T ss_pred CCCCchHHHHHHH
Confidence 3455679999954
No 24
>PLN00054 photosystem I reaction center subunit N; Provisional
Probab=27.47 E-value=74 Score=26.19 Aligned_cols=15 Identities=20% Similarity=0.051 Sum_probs=9.1
Q ss_pred cCccchhHHHHHHHH
Q 026757 59 LDKCGRRQMIAVGVI 73 (233)
Q Consensus 59 ~~~~~RR~~L~~~~~ 73 (233)
...-+||.+|..+++
T Consensus 25 ~~~~grraa~~~Laa 39 (139)
T PLN00054 25 DASDGRRAALVGLAA 39 (139)
T ss_pred ccccchHHHHHHHHH
Confidence 344568888865443
No 25
>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=27.41 E-value=25 Score=24.81 Aligned_cols=12 Identities=33% Similarity=0.772 Sum_probs=4.0
Q ss_pred CeEEecCCCceE
Q 026757 104 GYSFVYPFGWQE 115 (233)
Q Consensus 104 gYsf~yP~~W~e 115 (233)
..+..||++|.|
T Consensus 44 ~~TlKyPSD~ee 55 (56)
T PF12559_consen 44 IQTLKYPSDWEE 55 (56)
T ss_dssp -----SS-SS--
T ss_pred CcceeCCCcccc
Confidence 378999999986
No 26
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=25.67 E-value=4.2e+02 Score=22.54 Aligned_cols=114 Identities=19% Similarity=0.141 Sum_probs=56.4
Q ss_pred eEEecCCCceEeeecCc---eeeeeccC---CCCceEEEEEecCCCCCccccCChHHHHHHHHHHhcCCCCCceeEEEee
Q 026757 105 YSFVYPFGWQEVIIEGQ---DKVFKDVI---EPLESVSVNLIPTGKQDIRDFGPPQEVAETLIKKFLAPPTQKTKIIAAS 178 (233)
Q Consensus 105 Ysf~yP~~W~e~~~~G~---d~~f~d~~---~~~enVsVvv~P~~~~si~dlGspeeva~~Ll~~~~~~~~~~a~ll~a~ 178 (233)
-++-.|.||....-+.. -....+.. +-.-|+.|+|.... .+| +|+|+++.=-.....-++ .+-++.+
T Consensus 33 v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~----G~~-Dp~e~l~~a~~d~~~l~g--~~~~~~s 105 (175)
T PF10738_consen 33 VSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLT----GDF-DPAEALEHAPADAQNLPG--FRELDGS 105 (175)
T ss_pred EeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEecc----CCC-CHHHHHHhchhhHhhCcC--cccccCC
Confidence 56667899997643321 12221211 11356777766432 233 466665531111111122 2345555
Q ss_pred EeccCCeEEEEEEEEEeCCCCcceEEEEEEE--eCCeEE--EEEEEeccee
Q 026757 179 ENDVDGKAYYAFEFTAQAPNYIRHALGVVTV--GNGMKL--ITTREFEVHH 225 (233)
Q Consensus 179 ~r~~dGk~YY~~Ey~v~~~~~~RH~la~vtv--~~gkLY--tl~~q~~~~~ 225 (233)
.-+.+|-+=+.+|-+-+.++..+|......| .++..| .|++++.++|
T Consensus 106 ~~~~~GfpS~~i~GtY~~~g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~q 156 (175)
T PF10738_consen 106 PSDFSGFPSSQIEGTYDKDGMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQ 156 (175)
T ss_pred ccccCCCceeEEEEEEeeCCEEeEeEEEEEEEeCCCcEEEEEEEeeccccc
Confidence 5567888888888443334444444433333 355444 5566666555
No 27
>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=25.08 E-value=99 Score=18.34 Aligned_cols=10 Identities=20% Similarity=0.348 Sum_probs=7.4
Q ss_pred cchhHHHHHH
Q 026757 62 CGRRQMIAVG 71 (233)
Q Consensus 62 ~~RR~~L~~~ 71 (233)
+.||++|...
T Consensus 1 ~sRR~Flk~~ 10 (29)
T TIGR01409 1 LSRRDFLKGA 10 (29)
T ss_pred CchhhhHHHH
Confidence 3699999653
No 28
>cd06872 PX_SNX19_like_plant The phosphoinositide binding Phox Homology domain of uncharacterized SNX19-like plant proteins. The PX domain is a phosphoinositide (PI) binding module involved in targeting proteins to PI-enriched membranes. Members in this subfamily are uncharacterized plant proteins containing an N-terminal PXA domain, a central PX domain, and a C-terminal domain that is conserved in some sorting nexins (SNXs). This is the same domain architecture found in SNX19. SNX13 and SNX14 also contain these three domains but also contain a regulator of G protein signaling (RGS) domain in between the PXA and PX domains. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction dom
Probab=22.95 E-value=2.1e+02 Score=22.08 Aligned_cols=25 Identities=8% Similarity=0.260 Sum_probs=19.0
Q ss_pred eeEEEeeEeccCCeEEEEEEEEEeC
Q 026757 172 TKIIAASENDVDGKAYYAFEFTAQA 196 (233)
Q Consensus 172 a~ll~a~~r~~dGk~YY~~Ey~v~~ 196 (233)
++|+++.....+++.|+.|+..++.
T Consensus 3 ~~v~~~~~~~~~~~~y~vY~I~v~~ 27 (107)
T cd06872 3 CRVLGAEIVKSGSKSFAVYSVAVTD 27 (107)
T ss_pred eEEeeeEEEecCCccEEEEEEEEEE
Confidence 5677887767777889888887654
No 29
>PF12318 FAD-SLDH: Membrane bound FAD containing D-sorbitol dehydrogenase ; InterPro: IPR024651 There are two types of membrane-bound D-sorbitol dehydrogenase: PQQ-SLDH (pyrroloquinoline quinone sorbitol dehydrogenase) and FAD-SLDH (FAD-containing sorbitol dehydrogenase). FAD-SLDH is involved in oxidation of D-sorbitol to L-sorbose and consists of a large, small and cytochrome c subunits []. This entry represents the small subunit of the FAD-containing D-sorbitol dehydrogenase. This family of proteins is found in bacteria and contains a conserved ALM sequence motif. The role of the small subunit is unknown. Gluconate dehydrogenases and fructose dehydrogenases are also included in this entry.
Probab=22.84 E-value=60 Score=27.38 Aligned_cols=15 Identities=20% Similarity=0.348 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHhcCC
Q 026757 153 PQEVAETLIKKFLAP 167 (233)
Q Consensus 153 peeva~~Ll~~~~~~ 167 (233)
..+++-.++..|+.+
T Consensus 107 l~~~a~~Ii~aWY~G 121 (168)
T PF12318_consen 107 LQDLARAIISAWYLG 121 (168)
T ss_pred HHHHHHHHHHHeeeE
Confidence 356777788888764
No 30
>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=22.75 E-value=3e+02 Score=19.85 Aligned_cols=18 Identities=17% Similarity=0.436 Sum_probs=15.1
Q ss_pred ccCCeEEEEEEEEEeCCC
Q 026757 181 DVDGKAYYAFEFTAQAPN 198 (233)
Q Consensus 181 ~~dGk~YY~~Ey~v~~~~ 198 (233)
..+|++||+|+..+...+
T Consensus 12 ~~~g~~y~qy~v~I~N~~ 29 (80)
T PF09478_consen 12 TENGQTYTQYDVTITNNG 29 (80)
T ss_pred EeCCEEEEEEEEEEEECC
Confidence 578999999999988654
No 31
>PRK10882 hydrogenase 2 protein HybA; Provisional
Probab=22.66 E-value=1.1e+02 Score=28.75 Aligned_cols=12 Identities=17% Similarity=0.346 Sum_probs=8.4
Q ss_pred cchhHHHHHHHH
Q 026757 62 CGRRQMIAVGVI 73 (233)
Q Consensus 62 ~~RR~~L~~~~~ 73 (233)
+.||.+|..+++
T Consensus 1 ~~RR~fl~~~~~ 12 (328)
T PRK10882 1 MNRRNFLKAASA 12 (328)
T ss_pred CCHHHHHHHHHH
Confidence 369999975443
No 32
>PF15495 Fimbrillin_C: Major fimbrial subunit protein type IV, Fimbrillin, C-terminal
Probab=22.41 E-value=1.9e+02 Score=21.57 Aligned_cols=40 Identities=15% Similarity=0.090 Sum_probs=24.8
Q ss_pred cCCeEEEEEEEEE-eCCCCcceEEEEEEEeCCeEEEEEEEe
Q 026757 182 VDGKAYYAFEFTA-QAPNYIRHALGVVTVGNGMKLITTREF 221 (233)
Q Consensus 182 ~dGk~YY~~Ey~v-~~~~~~RH~la~vtv~~gkLYtl~~q~ 221 (233)
.+|..||.+...= +.....-.-+.-.+|-.|..|.|+++.
T Consensus 5 ~~G~~YY~~~I~h~d~~~~~~~~~~~y~IvRNn~Y~l~I~~ 45 (85)
T PF15495_consen 5 ENGVCYYYYWINHNDNNNPATMGQGEYGIVRNNVYKLTITS 45 (85)
T ss_pred eCCEEEEEEEecCCCCCcccccccceeceEeccEEEEEEEe
Confidence 5799999998753 111111123344567778899998863
Done!