Query 027282
Match_columns 225
No_of_seqs 166 out of 237
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 07:37:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027282hhsearch_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 1.4E-46 2.9E-51 331.6 15.2 162 61-224 71-234 (286)
2 PLN00042 photosystem II oxygen 100.0 5.2E-45 1.1E-49 321.7 16.5 197 1-222 1-224 (260)
3 PF01789 PsbP: PsbP; InterPro 100.0 5.7E-30 1.2E-34 214.6 11.2 122 93-222 17-140 (175)
4 PLN00067 PsbP domain-containin 99.9 5.1E-27 1.1E-31 207.3 14.5 146 66-222 42-229 (263)
5 PLN00066 PsbP domain-containin 99.9 2.2E-26 4.8E-31 204.4 14.2 135 65-207 43-215 (262)
6 PLN03152 hypothetical protein; 99.7 4.8E-17 1E-21 141.2 8.5 139 65-221 29-205 (241)
7 PF12712 DUF3805: Domain of un 91.2 1.3 2.8E-05 36.7 7.7 47 99-145 1-47 (153)
8 PLN00016 RNA-binding protein; 83.9 0.63 1.4E-05 42.8 1.9 61 6-66 4-68 (378)
9 PF07174 FAP: Fibronectin-atta 76.5 11 0.00024 34.6 7.2 100 101-207 111-227 (297)
10 PF08786 DUF1795: Domain of un 61.0 76 0.0017 24.6 9.1 91 110-212 3-100 (130)
11 PRK11615 hypothetical protein; 56.9 1.3E+02 0.0029 26.1 9.9 98 106-222 47-160 (185)
12 PF10518 TAT_signal: TAT (twin 52.5 17 0.00037 21.4 2.4 16 67-82 2-17 (26)
13 PF08006 DUF1700: Protein of u 47.4 11 0.00025 31.4 1.6 22 151-172 44-65 (181)
14 TIGR03741 PRTRC_E PRTRC system 45.4 51 0.0011 25.9 4.9 49 124-173 12-66 (104)
15 PF09211 DUF1958: Domain of un 31.9 37 0.0008 24.6 2.0 17 187-204 3-19 (65)
16 PF10399 UCR_Fe-S_N: Ubiquitin 29.9 52 0.0011 21.6 2.2 15 62-76 4-18 (41)
17 PF09478 CBM49: Carbohydrate b 28.0 77 0.0017 23.0 3.2 19 197-215 13-31 (80)
18 TIGR02811 formate_TAT formate 27.9 63 0.0014 23.2 2.6 14 63-76 5-18 (66)
19 PF12559 Inhibitor_I10: Serine 26.3 26 0.00057 24.7 0.4 12 108-119 44-55 (56)
20 PLN00058 photosystem II reacti 24.3 1.3E+02 0.0029 23.5 3.9 19 62-80 44-62 (103)
21 PF00031 Cystatin: Cystatin do 23.6 1.4E+02 0.0031 21.5 4.0 27 184-212 35-61 (94)
22 PF05137 PilN: Fimbrial assemb 22.9 2.6E+02 0.0057 19.2 5.6 27 183-210 51-77 (78)
23 PF05984 Cytomega_UL20A: Cytom 22.7 74 0.0016 24.4 2.2 21 67-87 1-22 (100)
24 COG4709 Predicted membrane pro 21.8 53 0.0011 28.7 1.5 22 151-172 44-65 (195)
No 1
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=1.4e-46 Score=331.65 Aligned_cols=162 Identities=67% Similarity=1.008 Sum_probs=145.2
Q ss_pred ccccccchhHHHHH--HHHHHHHhhhcCCcchhhhccccCccceeecCCCeeeecCCCceeecccccceEeeCCCCCccc
Q 027282 61 AATQFAVPRRNAMA--LILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDEN 138 (225)
Q Consensus 61 ~~~~~~~~RR~aL~--~~~sa~~~s~~~~~~~a~Ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eN 138 (225)
..+.+.++||.+|+ ++++.++++.++. +.|+|.++ ||++|+|+.|||+|+||.||++|++.|+|++|||+++.+||
T Consensus 71 ~~~~~~~~rr~~~~~~l~~~~~~~s~~~~-~~a~a~~~-~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~EN 148 (286)
T PLN00059 71 AKQVCAVGRRKSMMMGLLMSGLIVSEANL-PTAFASIP-VFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDEN 148 (286)
T ss_pred hhhhhhhhhhhhhHHHHHHHHHHHHhhcC-chhhcCCc-ccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCccccc
Confidence 45678999999966 4345454444444 36777654 89999999999999999999999999999999999999999
Q ss_pred eEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhhhccccccCCcceeeEEecceeecCCCeeeEEEEEEEeecCCCCce
Q 027282 139 VSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEH 218 (225)
Q Consensus 139 VsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~~~n~l 218 (225)
|||+|+||+++++++|+|||+|+||||+|+++++++||+|++|++++++||++.+|++.||++||+|||.|++++++|+|
T Consensus 149 VSV~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~ 228 (286)
T PLN00059 149 LSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNEL 228 (286)
T ss_pred eEEEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCcccccc
Confidence 99999999855699999999999999999999999999999999999999999999866999999999999999999999
Q ss_pred eeeccC
Q 027282 219 KVICKQ 224 (225)
Q Consensus 219 ~~~~~~ 224 (225)
|+|+||
T Consensus 229 ~~~~qd 234 (286)
T PLN00059 229 AVMPQD 234 (286)
T ss_pred cccccc
Confidence 999985
No 2
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=5.2e-45 Score=321.68 Aligned_cols=197 Identities=21% Similarity=0.265 Sum_probs=160.8
Q ss_pred CchhhhhhccccCccccccccccccccCccchhhhhhccCCCccccceeeccccccccccccccccchhHHHHHHHHHH-
Q 027282 1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSS- 79 (225)
Q Consensus 1 ma~~~~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~~~~~~~~~RR~aL~~~~sa- 79 (225)
||+++||+||++++.+...++.+..+. +.....++.+.+|.++. .+.+.++||.+|++++++
T Consensus 1 ~a~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~-------~~~~~~srr~~l~~~~ga~ 63 (260)
T PLN00042 1 MASTACFLHQSALKSAAALASSSSASA----------RAVSASRPSQVVCRAQE-------EDNSAVSRRAALALLAGAA 63 (260)
T ss_pred Ccchhhhhhcccccchhhhcccccccc----------cccCCCCCcceeeeccc-------cccccccHHHHHHHHHHHH
Confidence 999999999999976633322211221 12444555667777652 134678999999988875
Q ss_pred HHhhhcCCcchhhhcc---------ccCccceeecCCCeeeecCCCcee---ecccccceEeeCCCCCccceEEEEeCCC
Q 027282 80 YIFSDFGFRNTALAQQ---------SVGFREYIDTFDGYSFKYPQNWIQ---VRGAGADIFYRDPYVLDENVSVELSSPS 147 (225)
Q Consensus 80 ~~~s~~~~~~~a~Ae~---------~~gf~~y~D~~dGYsf~yP~~W~~---v~~~G~dv~f~d~~~~~eNVsV~Isp~~ 147 (225)
++.+.+.|+++||+|+ .+||.+|. +|||+|+||++|++ .+++|+|++|+|+++.+|||||+|+|++
T Consensus 64 a~~~~~~pa~aay~~~anvfg~~k~~~gF~~y~--~dgY~FlyP~~W~~~ke~~~~G~dv~f~D~~~~~eNVSV~Ispt~ 141 (260)
T PLN00042 64 AAGAKVSPANAAYGESANVFGKPKTNTGFLPYN--GDGFKLLVPSKWNPSKEREFPGQVLRFEDNFDATSNLSVMVTPTD 141 (260)
T ss_pred HhhcccCchhhhhcchhhccCCCCCCCCCeEee--CCCeEEecCCCCccccccccCCceEEeeccccccccEEEEEecCC
Confidence 4457899999999876 69999996 69999999999995 4578999999999999999999999996
Q ss_pred CCCCCCcccCCChHH----HHHHHHHHHhhhccccccCCcc------eeeEEecceeecCCCeeeEEEEEEEeecC----
Q 027282 148 SSRYKSVEDLGPPKE----AGRKVLRQYLTEFMSTRLGVRR------ESNILSTSSRVADDGRLYYLVEHVLKIHM---- 213 (225)
Q Consensus 148 ~~~~~si~dlGsPee----v~~~L~~~~~~~~~st~~~~~~------~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~---- 213 (225)
+++|+|||+||| |+++|+++++++ +|+.++++ +++||++++|+ +||++||+|||.+++..
T Consensus 142 ---k~sI~dlGsPee~l~~vgylL~kq~~a~--~t~s~~Gf~p~~vata~Lleas~re-~dGk~YY~lE~~~~~ad~d~~ 215 (260)
T PLN00042 142 ---KKSITDYGSPEEFLSKVSYLLGKQAYSG--ETASEGGFDANAVATAAVLESSTQE-VGGKPYYYLSVLTRTADGDEG 215 (260)
T ss_pred ---cCCHhhcCCHHHHHHHHHHHHHhhhccC--ccccccCcCcccccceeEEEeeeEE-eCCeEEEEEEEEEecCCCCCC
Confidence 799999999999 999999999988 57666665 88999999999 89999999999999863
Q ss_pred CCCceeeec
Q 027282 214 PSGEHKVIC 222 (225)
Q Consensus 214 ~~n~l~~~~ 222 (225)
.||+|+.+.
T Consensus 216 ~RH~Latat 224 (260)
T PLN00042 216 GKHQLITAT 224 (260)
T ss_pred CceEEEEEE
Confidence 789888764
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=99.96 E-value=5.7e-30 Score=214.63 Aligned_cols=122 Identities=40% Similarity=0.631 Sum_probs=107.0
Q ss_pred hccccCccceeecCCCeeeecCCCceeecccccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHh
Q 027282 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYL 172 (225)
Q Consensus 93 Ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~ 172 (225)
+++..||++|.|+.+||+|+||.+|+++++.|+|++|+|+++..+||+|+|+|+.. .++|+|||+|++||++|++..+
T Consensus 17 ~~~~~~~~~y~d~~~~y~f~~P~gW~~~~~~G~~v~f~d~~~~~~nvsV~v~p~~~--~~sl~~lGs~~~va~~l~~~~~ 94 (175)
T PF01789_consen 17 AEASTGFQPYTDSDDGYSFLYPSGWEEVDVSGADVVFRDPIDADENVSVVVSPVPK--DFSLEDLGSPEEVAERLLNGEL 94 (175)
T ss_dssp TT--SSEEEEEECTTTEEEEEETTEEEEESTTEEEEEEETTETTSEEEEEEEE-ST--S-SGGGG-SHHHHHHHHHHHCC
T ss_pred ccCCCCceEEEcCCCCEEEECCCCCeecCCCCeEEEEECcccccceEEEEEEecCC--cCchhhcCCHHHHHHHHhhhhc
Confidence 45678999999999999999999999999999999999999999999999999984 4499999999999999999988
Q ss_pred hhccccccCCcceeeEEecceeecCCCeeeEEEEEEEeecC--CCCceeeec
Q 027282 173 TEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM--PSGEHKVIC 222 (225)
Q Consensus 173 ~~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~--~~n~l~~~~ 222 (225)
..+ +++++++||++.+|+ .+|++||+|||.+++.. .||.|+++.
T Consensus 95 ~~~-----~~~~~a~li~a~~~~-~~g~~yY~~Ey~~~~~~~~~rh~l~~~t 140 (175)
T PF01789_consen 95 ASP-----GSGREAELISASERE-VDGKTYYEYEYTVQSPNEGRRHNLAVVT 140 (175)
T ss_dssp CHC-----TSSEEEEEEEEEEEE-ETTEEEEEEEEEEEETTEEEEEEEEEEE
T ss_pred ccc-----cCCcceEEEEeeeee-cCCccEEEEEEEeccCCCcccEEEEEEE
Confidence 773 556999999999999 78999999999999875 788887653
No 4
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=99.95 E-value=5.1e-27 Score=207.30 Aligned_cols=146 Identities=18% Similarity=0.189 Sum_probs=111.3
Q ss_pred cchhHHHHHHHHHHHHhhhcCCcchhhh-c-----------cccCccceee-----------cCCCeeeecCCCceeecc
Q 027282 66 AVPRRNAMALILSSYIFSDFGFRNTALA-Q-----------QSVGFREYID-----------TFDGYSFKYPQNWIQVRG 122 (225)
Q Consensus 66 ~~~RR~aL~~~~sa~~~s~~~~~~~a~A-e-----------~~~gf~~y~D-----------~~dGYsf~yP~~W~~v~~ 122 (225)
...||++|.+++-+.++++...+ .+-| | ...||.-|.- +..||+|+||.+|+++++
T Consensus 42 ~~~rr~~~~~~~~~~~~~~~~~~-~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~V 120 (263)
T PLN00067 42 VIHRRELLLGLALAPLILIAPEP-PAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRV 120 (263)
T ss_pred hhHHHHHHhhhhhhhhhhccCCc-hhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCccc
Confidence 36899997766444444333322 2222 1 1346666642 246999999999999888
Q ss_pred c----c-----------cceEeeCCCCCccceEEEEeCCCC---CCCCCcccCCChHHHHHHHHHHHhhhccccccCCcc
Q 027282 123 A----G-----------ADIFYRDPYVLDENVSVELSSPSS---SRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR 184 (225)
Q Consensus 123 ~----G-----------~dv~f~d~~~~~eNVsV~Isp~~~---~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~ 184 (225)
. | +|++|+|+ .++||+|+|+|+.. .++++|+|||+||+|+++|++.+.++ +.+
T Consensus 121 s~~~sGnycqp~c~~p~~dv~F~D~--~dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~-------~~~ 191 (263)
T PLN00067 121 ANILSGNYCQPKCAEPWVEVKFEDE--KQGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGN-------SYD 191 (263)
T ss_pred cccccCccccccccCCCceEEEeCC--CCCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcC-------CCC
Confidence 6 4 89999995 47899999999831 13699999999999999999988864 477
Q ss_pred eeeEEecceeecCCCeeeEEEEEEEeecC-CCCceeeec
Q 027282 185 ESNILSTSSRVADDGRLYYLVEHVLKIHM-PSGEHKVIC 222 (225)
Q Consensus 185 ~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~-~~n~l~~~~ 222 (225)
+.+||++++|+ .||++||+|||.++... .||+|+..+
T Consensus 192 ~~eLLeAs~re-~dGktYY~~E~~tp~a~~gRHnLataT 229 (263)
T PLN00067 192 PDELLETSVEK-IGDQTYYKYVLETPFALTGSHNLAKAT 229 (263)
T ss_pred CcceEEeeeEe-eCCeEEEEEEEEecCCCCCceEEEEEE
Confidence 88999999999 89999999999998764 888888654
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=99.94 E-value=2.2e-26 Score=204.44 Aligned_cols=135 Identities=27% Similarity=0.373 Sum_probs=110.2
Q ss_pred ccchhHHHHHHHHHHHHhhhcCCcchhhh--------------cc-ccCccceeecC-------------CCeeeecCCC
Q 027282 65 FAVPRRNAMALILSSYIFSDFGFRNTALA--------------QQ-SVGFREYIDTF-------------DGYSFKYPQN 116 (225)
Q Consensus 65 ~~~~RR~aL~~~~sa~~~s~~~~~~~a~A--------------e~-~~gf~~y~D~~-------------dGYsf~yP~~ 116 (225)
..++||.+|+.+++++..+.++++..++| ++ ..||++|..+. ..|+|+||.+
T Consensus 43 ~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP~G 122 (262)
T PLN00066 43 TAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKVPQG 122 (262)
T ss_pred chhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEECCCC
Confidence 45799999997766544444444444442 12 37899998774 4699999999
Q ss_pred ceeeccc-----ccceEeeCCCCCccceEEEEeCCC-----CCCCCCcccCCChHHHHHHHHHHHhhhccccccCCccee
Q 027282 117 WIQVRGA-----GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES 186 (225)
Q Consensus 117 W~~v~~~-----G~dv~f~d~~~~~eNVsV~Isp~~-----~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~~a 186 (225)
|.++.++ |++++||+.++.++||+|+|+|+. ..++++|+|||+||+|++.|++++++.+ .+++
T Consensus 123 W~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~-------~~e~ 195 (262)
T PLN00066 123 WEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGEP-------VEEG 195 (262)
T ss_pred CeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCCC-------cccc
Confidence 9999887 788888888899999999999985 1258999999999999999999988652 4689
Q ss_pred eEEecceeecCCCeeeEEEEE
Q 027282 187 NILSTSSRVADDGRLYYLVEH 207 (225)
Q Consensus 187 ~ll~a~~r~~~dG~~YY~~Ey 207 (225)
+||++++++ .||++||+|||
T Consensus 196 eLl~a~~re-~dGktYY~~E~ 215 (262)
T PLN00066 196 KVLSMEVAE-HSGRTYYQFEL 215 (262)
T ss_pred ceeEeeeee-cCCcEEEEEEE
Confidence 999999998 89999999999
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.69 E-value=4.8e-17 Score=141.21 Aligned_cols=139 Identities=19% Similarity=0.208 Sum_probs=91.8
Q ss_pred ccchhHHHHHHHHHHHHhhhcCC--cchhhhcc-------------ccCccceeecCCCeeeecCCCceeeccc------
Q 027282 65 FAVPRRNAMALILSSYIFSDFGF--RNTALAQQ-------------SVGFREYIDTFDGYSFKYPQNWIQVRGA------ 123 (225)
Q Consensus 65 ~~~~RR~aL~~~~sa~~~s~~~~--~~~a~Ae~-------------~~gf~~y~D~~dGYsf~yP~~W~~v~~~------ 123 (225)
+..+||+.+.-.++.++.++... ...+++++ ...|-.|. ++||+..||-.+..+--+
T Consensus 29 ~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nt~~w~~~~--g~gf~~~~pp~f~di~e~~~~~~g 106 (241)
T PLN03152 29 CGASRRDFILHTASLCASSLAAQNPLPPSLADPSKPSKPLLSGIANTKSWFQFY--GDGFSIRVPPSFEDIMEPEDYNAG 106 (241)
T ss_pred ccccccceeeehhHHHHhhhhcCCCCCccccCCCCCCCchheeeecchhhhhhh--CCceEEeCCCChhhhcChhhcccc
Confidence 45567777664444444444433 22233433 13344554 899999999888753211
Q ss_pred -----------ccceEeeCCCCCccceEEEEeCCC-----CCCCCCcccCCChHHHHHHHHHHHhhhccccccCCc-cee
Q 027282 124 -----------GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR-RES 186 (225)
Q Consensus 124 -----------G~dv~f~d~~~~~eNVsV~Isp~~-----~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~-~~a 186 (225)
-..++|.-+ |..|||||+|+|++ ..+.++|+|||+|+|||+.|+ + .|+. ..+
T Consensus 107 ~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~v-----P-----~g~~~~sa 175 (241)
T PLN03152 107 LSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFV-----P-----GGATLYSA 175 (241)
T ss_pred cceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhC-----C-----Cccccccc
Confidence 135677764 89999999999985 113899999999999997655 3 1211 133
Q ss_pred eEEecceeecCCCeeeEEEEEEEeecCCCCceeee
Q 027282 187 NILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221 (225)
Q Consensus 187 ~ll~a~~r~~~dG~~YY~~Ey~v~s~~~~n~l~~~ 221 (225)
.+++. +++ .|||+||+|||.++ .||+|+..
T Consensus 176 R~iel-~~E-~dGKtYY~lEy~v~---~RH~LaTV 205 (241)
T PLN03152 176 RTIKV-KEE-EGIRTYYFYEFGRD---EQHVALVA 205 (241)
T ss_pred ceeee-eee-cCCceeEEEEEEeC---CcEEEEEE
Confidence 33433 456 89999999999986 89988764
No 7
>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=91.16 E-value=1.3 Score=36.75 Aligned_cols=47 Identities=15% Similarity=0.440 Sum_probs=26.4
Q ss_pred ccceeecCCCeeeecCCCceeecccccceEeeCCCCCccceEEEEeC
Q 027282 99 FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSS 145 (225)
Q Consensus 99 f~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~Isp 145 (225)
+..|.+++.=|++.||.+|.|.+-..--..|-|+..=+.|..+..-.
T Consensus 1 mkKfiSpg~WFS~~YP~~W~EfED~E~sflFYnp~~WTGNfRISayk 47 (153)
T PF12712_consen 1 MKKFISPGAWFSMEYPADWNEFEDGEGSFLFYNPDQWTGNFRISAYK 47 (153)
T ss_dssp -EEEE-GGG-EEEEE-TT-EEE---TTEEEEE-SSS---EEEEEEEE
T ss_pred CCcccCCCceEEEecCCCcchhccCCcceEEEChHHhcCceEEEEEe
Confidence 35678888889999999999988443445677777889998765543
No 8
>PLN00016 RNA-binding protein; Provisional
Probab=83.94 E-value=0.63 Score=42.83 Aligned_cols=61 Identities=16% Similarity=0.178 Sum_probs=47.7
Q ss_pred hhhccccCccccccccccccccCccchhhhhhccCCCccccceeecccccccccc----cccccc
Q 027282 6 MMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM----AATQFA 66 (225)
Q Consensus 6 ~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~----~~~~~~ 66 (225)
+..|...+++++++++.+.+.+..++...++.|+.+.+.......+...|+++|. |++++.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VLVt~~~~GatG~i 68 (378)
T PLN00016 4 SSRLRSSSASSLLSSSSSSSISPALAARAQGSRRASQVAGAAAAAAVEKKKVLIVNTNSGGHAFI 68 (378)
T ss_pred chhcccccccccCCchhhhhhhHHhhhccccccccccchhhhhhcccccceEEEEeccCCCceeE
Confidence 4567788888888888888888888888888888888855444444456789999 988886
No 9
>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=76.52 E-value=11 Score=34.61 Aligned_cols=100 Identities=19% Similarity=0.283 Sum_probs=53.3
Q ss_pred ceeecCCCeeeecCCCceeeccc----ccceEeeCCCCC--------c-cceEEEEeCCCCCCCCCcccCCChHHHHHHH
Q 027282 101 EYIDTFDGYSFKYPQNWIQVRGA----GADIFYRDPYVL--------D-ENVSVELSSPSSSRYKSVEDLGPPKEAGRKV 167 (225)
Q Consensus 101 ~y~D~~dGYsf~yP~~W~~v~~~----G~dv~f~d~~~~--------~-eNVsV~Isp~~~~~~~si~dlGsPeev~~~L 167 (225)
++.+...||+|.+|.||.+.+-. |..+.-+...+. . ++-+|++...+. |.--..--+-.+.+.+|
T Consensus 111 rvdn~~gGFS~vvP~GW~~Sda~~L~yG~alls~~~~~~~~~~~~~p~andt~v~lgrld~--kl~a~ae~dn~kaa~rl 188 (297)
T PF07174_consen 111 RVDNAAGGFSYVVPAGWVESDASHLDYGSALLSKQTGEPPMPGQPPPVANDTSVVLGRLDL--KLFASAEPDNTKAAVRL 188 (297)
T ss_pred cccccccceEEeccCCccccccceeecceeeeccCCCCCCCCCCCCCcCCCceEEeccccc--cccccccCChHHHHHHH
Confidence 45566889999999999987633 555544322222 2 335566665542 11111112334578888
Q ss_pred HHHHhhhccc---cccCCcceeeEEecceeecCCC-eeeEEEEE
Q 027282 168 LRQYLTEFMS---TRLGVRRESNILSTSSRVADDG-RLYYLVEH 207 (225)
Q Consensus 168 ~~~~~~~~~s---t~~~~~~~a~ll~a~~r~~~dG-~~YY~~Ey 207 (225)
+..+=.-+|- ||. +++..-|++.- ..| --||...|
T Consensus 189 ~sdmgeffmp~pg~ri--nq~~~~l~~~g---~~g~asyyevkf 227 (297)
T PF07174_consen 189 ASDMGEFFMPYPGTRI--NQETTPLDANG---MPGSASYYEVKF 227 (297)
T ss_pred hccccceeccCCCccc--cccccccccCC---cccceeEEEEEe
Confidence 7764322232 332 56777777642 334 34554433
No 10
>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=61.04 E-value=76 Score=24.64 Aligned_cols=91 Identities=15% Similarity=0.126 Sum_probs=42.5
Q ss_pred eeecCCCceeecccccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhhhcccccc-------CC
Q 027282 110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL-------GV 182 (225)
Q Consensus 110 sf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~-------~~ 182 (225)
+|..|.+|..... ..+++.|.....-|+.|.-.+++ +=.+.++..++.+++.-..-...+. -+
T Consensus 3 ~~~lP~~~~D~t~--nv~~~~~~~~~~~slvIsR~~l~--------~g~tl~~~~~~q~~~l~~~l~~~~~~~~~~~~l~ 72 (130)
T PF08786_consen 3 SLTLPDGWQDRTM--NVLVLPDSGGSGPSLVISRDPLP--------DGETLEDYLQRQLAQLRKQLPGFQLVERQPITLG 72 (130)
T ss_dssp EEEEETTSEE--B--EEEEE--BTTB-EEEEEEEE-----------TTS-HHHHHHHHHHHHHCCSTT-EEEEEEEEEET
T ss_pred eEeCCCcceeceE--EEEEccCCCCCcceEEEEeccCC--------CCCCHHHHHHHHHHHHHhhCCCcEEEeeEEEEeC
Confidence 5677999997542 23455554434455555555554 2235566666666655322000000 01
Q ss_pred cceeeEEecceeecCCCeeeEEEEEEEeec
Q 027282 183 RRESNILSTSSRVADDGRLYYLVEHVLKIH 212 (225)
Q Consensus 183 ~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~ 212 (225)
++.+..++..=+. +|.++|+....+...
T Consensus 73 ~~~a~~l~~~~~~--~g~~v~Q~q~~~~~~ 100 (130)
T PF08786_consen 73 GRPARELEYSFRS--GGQPVYQRQAAVLLP 100 (130)
T ss_dssp TEEEEEEEEEEEE--TTCEEEEEEEEEEEC
T ss_pred CCCeEEEEEEEee--CCEEEEEEEEEEEEC
Confidence 3355555554333 566677766666655
No 11
>PRK11615 hypothetical protein; Provisional
Probab=56.92 E-value=1.3e+02 Score=26.05 Aligned_cols=98 Identities=13% Similarity=0.153 Sum_probs=56.4
Q ss_pred CCCeeeecCCCceeeccc-cc----ceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhhhcccccc
Q 027282 106 FDGYSFKYPQNWIQVRGA-GA----DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL 180 (225)
Q Consensus 106 ~dGYsf~yP~~W~~v~~~-G~----dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~ 180 (225)
+...+|-.|.++...... |. --+|-| ..+.=.|+|++-+ .+=++| +..+.+|.+|--+.
T Consensus 47 dGKl~FtLPag~sdqsgk~Gtq~nn~~vYad---~tg~kavIVi~gD----~~~~~L---d~la~rl~~qQr~r------ 110 (185)
T PRK11615 47 DGKLSFTLPADMSDQSGKLGTQANNMHVYAD---ATGQKAVIVILGD----DTNEDL---AVLAKRLEDQQRSR------ 110 (185)
T ss_pred ccEEEEEcCCccccccccccccccceEEEEc---CCCCEEEEEEeCC----CChhhH---HHHHHHHHHHHHhh------
Confidence 567999999999965543 32 235554 2223234343322 222222 45677777765543
Q ss_pred CCcceeeEEecceeecCCCeeeEEEEEEEee-----------cCCCCceeeec
Q 027282 181 GVRRESNILSTSSRVADDGRLYYLVEHVLKI-----------HMPSGEHKVIC 222 (225)
Q Consensus 181 ~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s-----------~~~~n~l~~~~ 222 (225)
...-.++.-..-+ ++|+++++++-.++. ....|+|++|.
T Consensus 111 --dp~lqvvsnK~i~-i~G~~~qQLDS~~t~~Gqk~~SSvvL~~v~~rl~tlQ 160 (185)
T PRK11615 111 --DPQLQVVTNKAIE-LKGHKLQQLDSIISAKGQTAYSSVVLGKVDNQLLTMQ 160 (185)
T ss_pred --CcCceeecceeEE-ECCeeeEEeeeeeecCCceEEEEEEEEeeCCeEEEEE
Confidence 2234445444445 688888888877654 44677887763
No 12
>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=52.45 E-value=17 Score=21.41 Aligned_cols=16 Identities=13% Similarity=-0.014 Sum_probs=11.5
Q ss_pred chhHHHHHHHHHHHHh
Q 027282 67 VPRRNAMALILSSYIF 82 (225)
Q Consensus 67 ~~RR~aL~~~~sa~~~ 82 (225)
++||++|-..+++.++
T Consensus 2 ~sRR~fLk~~~a~~a~ 17 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAA 17 (26)
T ss_pred CcHHHHHHHHHHHHHH
Confidence 6899999877654433
No 13
>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=47.35 E-value=11 Score=31.37 Aligned_cols=22 Identities=36% Similarity=0.718 Sum_probs=18.2
Q ss_pred CCCcccCCChHHHHHHHHHHHh
Q 027282 151 YKSVEDLGPPKEAGRKVLRQYL 172 (225)
Q Consensus 151 ~~si~dlGsPeev~~~L~~~~~ 172 (225)
..=+++||+|+++|..+..+..
T Consensus 44 eeii~~LG~P~~iA~~i~~~~~ 65 (181)
T PF08006_consen 44 EEIIAELGSPKEIAREILAEYS 65 (181)
T ss_pred HHHHHHcCCHHHHHHHHHHhhh
Confidence 4567899999999999887654
No 14
>TIGR03741 PRTRC_E PRTRC system protein E. A novel genetic system characterized by six or seven major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family averages about 150 amino acids in length, but the last third contains low-complexity sequence that complicates sequence comparisons. This model does not include the low-complexity region.
Probab=45.38 E-value=51 Score=25.88 Aligned_cols=49 Identities=16% Similarity=0.107 Sum_probs=29.2
Q ss_pred ccceEeeCCCCCccceEEEEeCCCCCCCC------CcccCCChHHHHHHHHHHHhh
Q 027282 124 GADIFYRDPYVLDENVSVELSSPSSSRYK------SVEDLGPPKEAGRKVLRQYLT 173 (225)
Q Consensus 124 G~dv~f~d~~~~~eNVsV~Isp~~~~~~~------si~dlGsPeev~~~L~~~~~~ 173 (225)
|.++.+---...+ ++.|+|.|..+.+.+ .+.=-|+|+|..+.|...+-.
T Consensus 12 ~~~l~l~i~~~~d-~l~V~v~P~~~~~~~d~~l~~Pl~L~gTp~ELD~gF~~ai~~ 66 (104)
T TIGR03741 12 ATKLTVSLTAVGD-KLTVTVTPTPKSGAKDGALTKPLVLTGTPAELDAGFAGALGQ 66 (104)
T ss_pred CCceEEEEEcCCC-EEEEEEeeccccccccccccCCeeeccCHHHHHHHHHHHHHh
Confidence 3334343323334 899999998532222 122239999998888866544
No 15
>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=31.87 E-value=37 Score=24.62 Aligned_cols=17 Identities=35% Similarity=0.724 Sum_probs=13.8
Q ss_pred eEEecceeecCCCeeeEE
Q 027282 187 NILSTSSRVADDGRLYYL 204 (225)
Q Consensus 187 ~ll~a~~r~~~dG~~YY~ 204 (225)
+||++.+.+ +||++||.
T Consensus 3 KvLskG~h~-IdGk~y~v 19 (65)
T PF09211_consen 3 KVLSKGEHT-IDGKKYYV 19 (65)
T ss_dssp EEE-SEEEE-ETTEEEEE
T ss_pred ccccCccEE-ECCEEEEe
Confidence 689999999 99999873
No 16
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=29.86 E-value=52 Score=21.59 Aligned_cols=15 Identities=13% Similarity=0.273 Sum_probs=7.2
Q ss_pred cccccchhHHHHHHH
Q 027282 62 ATQFAVPRRNAMALI 76 (225)
Q Consensus 62 ~~~~~~~RR~aL~~~ 76 (225)
.+.....||++|...
T Consensus 4 ~~~~~~~RRdFL~~a 18 (41)
T PF10399_consen 4 NEPVDPTRRDFLTIA 18 (41)
T ss_dssp ------HHHHHHHHH
T ss_pred CCCCCchHHHHHHHH
Confidence 344567999999644
No 17
>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=27.95 E-value=77 Score=22.99 Aligned_cols=19 Identities=11% Similarity=0.246 Sum_probs=16.3
Q ss_pred CCCeeeEEEEEEEeecCCC
Q 027282 197 DDGRLYYLVEHVLKIHMPS 215 (225)
Q Consensus 197 ~dG~~YY~~Ey~v~s~~~~ 215 (225)
.+|.+||+|++.++....+
T Consensus 13 ~~g~~y~qy~v~I~N~~~~ 31 (80)
T PF09478_consen 13 ENGQTYTQYDVTITNNGSK 31 (80)
T ss_pred eCCEEEEEEEEEEEECCCC
Confidence 5889999999999987753
No 18
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=27.91 E-value=63 Score=23.23 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=10.3
Q ss_pred ccccchhHHHHHHH
Q 027282 63 TQFAVPRRNAMALI 76 (225)
Q Consensus 63 ~~~~~~RR~aL~~~ 76 (225)
....++||++|.++
T Consensus 5 ~~~~~sRR~Flk~l 18 (66)
T TIGR02811 5 QKADPSRRDLLKGL 18 (66)
T ss_pred ccCCccHHHHHHHH
Confidence 34567999998844
No 19
>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=26.31 E-value=26 Score=24.66 Aligned_cols=12 Identities=33% Similarity=0.874 Sum_probs=4.0
Q ss_pred CeeeecCCCcee
Q 027282 108 GYSFKYPQNWIQ 119 (225)
Q Consensus 108 GYsf~yP~~W~~ 119 (225)
..++.||++|.+
T Consensus 44 ~~TlKyPSD~ee 55 (56)
T PF12559_consen 44 IQTLKYPSDWEE 55 (56)
T ss_dssp -----SS-SS--
T ss_pred CcceeCCCcccc
Confidence 389999999976
No 20
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=24.25 E-value=1.3e+02 Score=23.50 Aligned_cols=19 Identities=21% Similarity=0.128 Sum_probs=13.3
Q ss_pred cccccchhHHHHHHHHHHH
Q 027282 62 ATQFAVPRRNAMALILSSY 80 (225)
Q Consensus 62 ~~~~~~~RR~aL~~~~sa~ 80 (225)
++.....||++|...++++
T Consensus 44 ~~e~~~gRR~~mfaaaAaa 62 (103)
T PLN00058 44 EQQSTTMRRDLMFTAAAAA 62 (103)
T ss_pred cccchhhHHHHHHHHHHHH
Confidence 4467789999987665544
No 21
>PF00031 Cystatin: Cystatin domain; InterPro: IPR000010 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The cystatins are cysteine proteinase inhibitors belonging to MEROPS inhibitor family I25, clan IH [, , ]. They mainly inhibit peptidases belonging to peptidase families C1 (papain family) and C13 (legumain family). The cystatin family includes: The Type 1 cystatins, which are intracellular cystatins that are present in the cytosol of many cell types, but can also appear in body fluids at significant concentrations. They are single-chain polypeptides of about 100 residues, which have neither disulphide bonds nor carbohydrate side chains. The Type 2 cystatins, which are mainly extracellular secreted polypeptides synthesised with a 19-28 residue signal peptide. They are broadly distributed and found in most body fluids. The Type 3 cystatins, which are multidomain proteins. The mammalian representatives of this group are the kininogens. There are three different kininogens in mammals: H- (high molecular mass, IPR002395 from INTERPRO) and L- (low molecular mass) kininogen which are found in a number of species, and T-kininogen that is found only in rat. Unclassified cystatins. These are cystatin-like proteins found in a range of organisms: plant phytocystatins, fetuin in mammals, insect cystatins and a puff adder venom cystatin which inhibits metalloproteases of the MEROPS peptidase family M12 (astacin/adamalysin). Also a number of the cystatins-like proteins have been shown to be devoid of inhibitory activity. All true cystatins inhibit cysteine peptidases of the papain family (MEROPS peptidase family C1), and some also inhibit legumain family enzymes (MEROPS peptidase family C13). These peptidases play key roles in physiological processes, such as intracellular protein degradation (cathepsins B, H and L), are pivotal in the remodelling of bone (cathepsin K), and may be important in the control of antigen presentation (cathepsin S, mammalian legumain). Moreover, the activities of such peptidases are increased in pathophysiological conditions, such as cancer metastasis and inflammation. Additionally, such peptidases are essential for several pathogenic parasites and bacteria. Thus in animals cystatins not only have capacity to regulate normal body processes and perhaps cause disease when down-regulated, but in other organisms may also participate in defence against biotic and abiotic stress. ; GO: 0004869 cysteine-type endopeptidase inhibitor activity; PDB: 3L0R_B 2W9P_K 2W9Q_A 3S67_A 3QRD_D 1R4C_G 3GAX_A 1TIJ_B 1G96_A 3NX0_A ....
Probab=23.57 E-value=1.4e+02 Score=21.46 Aligned_cols=27 Identities=19% Similarity=0.324 Sum_probs=21.5
Q ss_pred ceeeEEecceeecCCCeeeEEEEEEEeec
Q 027282 184 RESNILSTSSRVADDGRLYYLVEHVLKIH 212 (225)
Q Consensus 184 ~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~ 212 (225)
+-.+|+++.+.. +.|. -|.+++.+..+
T Consensus 35 ~~~~v~~a~~Qv-V~G~-~Y~i~~~~~~t 61 (94)
T PF00031_consen 35 KLVKVISATTQV-VAGI-NYYIEFEVGET 61 (94)
T ss_dssp EEEEEEEEEEEE-SSSE-EEEEEEEEEEE
T ss_pred eeeeeeEEEEee-cCCc-eEEEEEEEEcc
Confidence 477889998877 8998 66699998765
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=22.86 E-value=2.6e+02 Score=19.19 Aligned_cols=27 Identities=19% Similarity=0.117 Sum_probs=21.4
Q ss_pred cceeeEEecceeecCCCeeeEEEEEEEe
Q 027282 183 RRESNILSTSSRVADDGRLYYLVEHVLK 210 (225)
Q Consensus 183 ~~~a~ll~a~~r~~~dG~~YY~~Ey~v~ 210 (225)
-..+.+.+....+ .+|..+|.|+..++
T Consensus 51 f~~v~l~~~~~~~-~~~~~~~~F~i~~~ 77 (78)
T PF05137_consen 51 FSDVSLSSISRQE-GDGNSLVSFTITAK 77 (78)
T ss_pred ccceEEEEEEeec-cCCCceEEEEEEEE
Confidence 4578888887766 67888999998876
No 23
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=22.66 E-value=74 Score=24.44 Aligned_cols=21 Identities=14% Similarity=0.070 Sum_probs=14.3
Q ss_pred chhHHHHHHHHH-HHHhhhcCC
Q 027282 67 VPRRNAMALILS-SYIFSDFGF 87 (225)
Q Consensus 67 ~~RR~aL~~~~s-a~~~s~~~~ 87 (225)
+.||..|+.+++ ++.+++..|
T Consensus 1 MaRRlwiLslLAVtLtVALAAP 22 (100)
T PF05984_consen 1 MARRLWILSLLAVTLTVALAAP 22 (100)
T ss_pred CchhhHHHHHHHHHHHHHhhcc
Confidence 468988887765 555556665
No 24
>COG4709 Predicted membrane protein [Function unknown]
Probab=21.80 E-value=53 Score=28.67 Aligned_cols=22 Identities=32% Similarity=0.451 Sum_probs=16.2
Q ss_pred CCCcccCCChHHHHHHHHHHHh
Q 027282 151 YKSVEDLGPPKEAGRKVLRQYL 172 (225)
Q Consensus 151 ~~si~dlGsPeev~~~L~~~~~ 172 (225)
..=++|||+|+|+|..+.....
T Consensus 44 ~EI~~~LG~P~eiA~ei~s~~~ 65 (195)
T COG4709 44 EEIAKDLGDPKEIAAEILSERG 65 (195)
T ss_pred HHHHHHhCCHHHHHHHHHHHcc
Confidence 4567899999998776655443
Done!