Query 026900
Match_columns 231
No_of_seqs 168 out of 234
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 14:17:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026900.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026900hhsearch_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 2.5E-45 5.4E-50 325.7 15.0 161 60-222 70-232 (286)
2 PLN00042 photosystem II oxygen 100.0 1.1E-44 2.3E-49 321.7 16.1 196 1-221 1-223 (260)
3 PF01789 PsbP: PsbP; InterPro 100.0 1.3E-29 2.7E-34 213.5 11.0 121 93-221 17-139 (175)
4 PLN00066 PsbP domain-containin 99.9 1E-26 2.2E-31 207.9 14.2 149 65-221 43-233 (262)
5 PLN00067 PsbP domain-containin 99.9 2.2E-26 4.7E-31 204.6 14.2 145 66-220 42-227 (263)
6 PLN03152 hypothetical protein; 99.7 7.3E-17 1.6E-21 141.0 8.4 140 65-221 29-205 (241)
7 PF12712 DUF3805: Domain of un 85.8 1.1 2.4E-05 37.5 3.9 45 100-144 2-46 (153)
8 PLN00016 RNA-binding protein; 81.4 0.9 2E-05 42.0 1.9 62 5-66 3-68 (378)
9 PF07174 FAP: Fibronectin-atta 78.8 11 0.00023 34.9 7.8 88 101-192 111-214 (297)
10 PRK11615 hypothetical protein; 68.1 59 0.0013 28.4 9.4 100 106-224 47-162 (185)
11 PF08786 DUF1795: Domain of un 55.1 1E+02 0.0022 24.1 9.1 91 110-212 3-100 (130)
12 PF10518 TAT_signal: TAT (twin 50.6 19 0.00041 21.4 2.5 17 67-83 2-18 (26)
13 TIGR03741 PRTRC_E PRTRC system 45.5 49 0.0011 26.2 4.8 38 137-174 24-67 (104)
14 PF08006 DUF1700: Protein of u 44.6 13 0.00029 31.1 1.6 22 151-172 44-65 (181)
15 PF09211 DUF1958: Domain of un 34.1 33 0.00072 25.1 2.0 17 187-204 3-19 (65)
16 PF09478 CBM49: Carbohydrate b 30.2 64 0.0014 23.6 3.1 18 197-214 13-30 (80)
17 PF12559 Inhibitor_I10: Serine 27.2 25 0.00054 25.0 0.4 12 108-119 44-55 (56)
18 PLN00058 photosystem II reacti 26.9 1.1E+02 0.0023 24.2 3.9 19 62-80 44-62 (103)
19 TIGR02811 formate_TAT formate 26.9 66 0.0014 23.3 2.6 14 63-76 5-18 (66)
20 PF10399 UCR_Fe-S_N: Ubiquitin 26.6 63 0.0014 21.4 2.2 15 62-76 4-18 (41)
21 PF00031 Cystatin: Cystatin do 23.7 1.5E+02 0.0032 21.5 4.1 27 184-212 35-61 (94)
No 1
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=2.5e-45 Score=325.73 Aligned_cols=161 Identities=68% Similarity=1.004 Sum_probs=143.6
Q ss_pred cccccccchhHHHHH--HHHHHHHhhhcCCCcccccccccCcccceecCCceeeecCCCceeeccccccEEeeCCCCCcc
Q 026900 60 MAATQFAVPRRNAMA--LILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDE 137 (231)
Q Consensus 60 ~g~~~~~~~RR~aL~--~~~sa~~~s~~~~~~~a~ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~D~~~~~e 137 (231)
..++.+.++||.+|+ ++++.++++..+.+ .|+|.++ ||++|+|+.|||+|+||.||++|.+.|+|++|||+++.+|
T Consensus 70 ~~~~~~~~~rr~~~~~~l~~~~~~~s~~~~~-~a~a~~~-~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~E 147 (286)
T PLN00059 70 DAKQVCAVGRRKSMMMGLLMSGLIVSEANLP-TAFASIP-VFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDE 147 (286)
T ss_pred chhhhhhhhhhhhhHHHHHHHHHHHHhhcCc-hhhcCCc-ccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCcccc
Confidence 345678999999966 44454444444443 6777655 8999999999999999999999999999999999999999
Q ss_pred ceEEEEeCCCCcCCCCcccCCChHHHHHHHHHHHhhhccccccCCcceeeEEecceeecCCCeeEEEEEEEEEecccCcc
Q 026900 138 NVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVSCVWCWNITQ 217 (231)
Q Consensus 138 NVsV~Vsp~~~~~~~si~dlGsPeeV~~~L~k~~~~~~~st~~~~~~~a~ll~a~~r~~~~G~~YY~~Ey~v~s~a~~n~ 217 (231)
||||+|+||+++++++|+|||+|+||||+|+++++++||+|++|++++++||++.+|++.||++||+|||.|++++++|+
T Consensus 148 NVSV~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~ 227 (286)
T PLN00059 148 NLSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNE 227 (286)
T ss_pred ceEEEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCccccc
Confidence 99999999975568999999999999999999999999999999999999999999986799999999999999999999
Q ss_pred eeehh
Q 026900 218 LLVTR 222 (231)
Q Consensus 218 l~~~~ 222 (231)
|++|+
T Consensus 228 ~~~~~ 232 (286)
T PLN00059 228 LAVMP 232 (286)
T ss_pred ccccc
Confidence 99994
No 2
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=1.1e-44 Score=321.69 Aligned_cols=196 Identities=23% Similarity=0.283 Sum_probs=159.0
Q ss_pred CchhhhhhccccCccccccccccccccCccchhhhhhccCCCccccceeeccccccccccccccccchhHHHHHHHHHH-
Q 026900 1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSS- 79 (231)
Q Consensus 1 ma~~~~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~g~~~~~~~RR~aL~~~~sa- 79 (231)
||+++||+||++++.+...++.+..+. |.....++.+.+|.++. .+.+.++||.+|++++++
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 12445555667777652 134678999999988886
Q ss_pred HHhhhcCCCccccccc---------ccCcccceecCCceeeecCCCcee---eccccccEEeeCCCCCccceEEEEeCCC
Q 026900 80 YIFSDFGFRNTALAQQ---------SVGFREYIDTFDGYSFKYPQNWIQ---VRGAGADIFYRDPYVLDENVSVELSSPS 147 (231)
Q Consensus 80 ~~~s~~~~~~~a~ae~---------~~gf~~y~D~~dGYsf~yP~~W~~---v~~~G~dv~f~D~~~~~eNVsV~Vsp~~ 147 (231)
+..+.+.|+++||+|+ .+||.+|. +|||+|+||++|++ .+++|+|++|+|+++.+|||||+|+|++
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 4447899999999876 69999996 69999999999995 4578999999999999999999999996
Q ss_pred CcCCCCcccCCChHH----HHHHHHHHHhhhccccccCCcc------eeeEEecceeecCCCeeEEEEEEEEEec----c
Q 026900 148 SSRYKSVEDLGPPKE----AGRKVLRQYLTEFMSTRLGVRR------ESNILSTSSRVADDGRLYYLVEVSCVWC----W 213 (231)
Q Consensus 148 ~~~~~si~dlGsPee----V~~~L~k~~~~~~~st~~~~~~------~a~ll~a~~r~~~~G~~YY~~Ey~v~s~----a 213 (231)
+++|+|||+||| |+++|+||++++ +|+.++|+ +++||++++|+ .||++||+|||.+++. .
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 67777675 88999999999 8999999999999875 2
Q ss_pred cCcceeeh
Q 026900 214 NITQLLVT 221 (231)
Q Consensus 214 ~~n~l~~~ 221 (231)
.||+|+..
T Consensus 216 ~RH~Lata 223 (260)
T PLN00042 216 GKHQLITA 223 (260)
T ss_pred CceEEEEE
Confidence 56776653
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=1.3e-29 Score=213.54 Aligned_cols=121 Identities=41% Similarity=0.623 Sum_probs=104.7
Q ss_pred cccccCcccceecCCceeeecCCCceeeccccccEEeeCCCCCccceEEEEeCCCCcCCCCcccCCChHHHHHHHHHHHh
Q 026900 93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYL 172 (231)
Q Consensus 93 ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~D~~~~~eNVsV~Vsp~~~~~~~si~dlGsPeeV~~~L~k~~~ 172 (231)
+++..||++|.|+++||+|+||.+|+++++.|+|++|+|+++..+||+|+|+|+.. .++|+|||+|++|+++|+++.+
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--cCcceeeh
Q 026900 173 TEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVSCVWCW--NITQLLVT 221 (231)
Q Consensus 173 ~~~~st~~~~~~~a~ll~a~~r~~~~G~~YY~~Ey~v~s~a--~~n~l~~~ 221 (231)
..+ +++++++||++.+|+ .+|++||+|||.+++.. .||.|+.+
T Consensus 95 ~~~-----~~~~~a~li~a~~~~-~~g~~yY~~Ey~~~~~~~~~rh~l~~~ 139 (175)
T PF01789_consen 95 ASP-----GSGREAELISASERE-VDGKTYYEYEYTVQSPNEGRRHNLAVV 139 (175)
T ss_dssp CHC-----TSSEEEEEEEEEEEE-ETTEEEEEEEEEEEETTEEEEEEEEEE
T ss_pred ccc-----cCCcceEEEEeeeee-cCCccEEEEEEEeccCCCcccEEEEEE
Confidence 773 556999999999999 78999999999999864 56666543
No 4
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=99.94 E-value=1e-26 Score=207.90 Aligned_cols=149 Identities=25% Similarity=0.330 Sum_probs=118.2
Q ss_pred ccchhHHHHHHHHHHHHhhhcCCCccccc--------------cc-ccCcccceecC-------------CceeeecCCC
Q 026900 65 FAVPRRNAMALILSSYIFSDFGFRNTALA--------------QQ-SVGFREYIDTF-------------DGYSFKYPQN 116 (231)
Q Consensus 65 ~~~~RR~aL~~~~sa~~~s~~~~~~~a~a--------------e~-~~gf~~y~D~~-------------dGYsf~yP~~ 116 (231)
..++||.+|+.+++++..+.++++..++| ++ ..||++|..+. ..|+|+||.+
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 45799999997766544444555555442 22 47899999875 3599999999
Q ss_pred ceeeccc-----cccEEeeCCCCCccceEEEEeCCC-----CcCCCCcccCCChHHHHHHHHHHHhhhccccccCCccee
Q 026900 117 WIQVRGA-----GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES 186 (231)
Q Consensus 117 W~~v~~~-----G~dv~f~D~~~~~eNVsV~Vsp~~-----~~~~~si~dlGsPeeV~~~L~k~~~~~~~st~~~~~~~a 186 (231)
|.|+.++ |++++||+..+.++||+|+|+|+. ..++++|+|||+||+|++.|++++++.+ .+++
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 1258999999999999999999988662 4689
Q ss_pred eEEecceeecCCCeeEEEEEEE----EEecccCcceeeh
Q 026900 187 NILSTSSRVADDGRLYYLVEVS----CVWCWNITQLLVT 221 (231)
Q Consensus 187 ~ll~a~~r~~~~G~~YY~~Ey~----v~s~a~~n~l~~~ 221 (231)
+||++++++ .||++||+|||. +..+.++|+|..+
T Consensus 196 eLl~a~~re-~dGktYY~~E~~rH~LasaTV~~GrLYt~ 233 (262)
T PLN00066 196 KVLSMEVAE-HSGRTYYQFELPPHTLVTATAAGNRVYIF 233 (262)
T ss_pred ceeEeeeee-cCCcEEEEEEEeCceEEEEEEECCEEEEE
Confidence 999999998 899999999993 2334456666554
No 5
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=99.94 E-value=2.2e-26 Score=204.62 Aligned_cols=145 Identities=17% Similarity=0.202 Sum_probs=107.7
Q ss_pred cchhHHHHHHHHHHHHhhhcCCCcc-ccc----------ccccCcccceec-----------CCceeeecCCCceeeccc
Q 026900 66 AVPRRNAMALILSSYIFSDFGFRNT-ALA----------QQSVGFREYIDT-----------FDGYSFKYPQNWIQVRGA 123 (231)
Q Consensus 66 ~~~RR~aL~~~~sa~~~s~~~~~~~-a~a----------e~~~gf~~y~D~-----------~dGYsf~yP~~W~~v~~~ 123 (231)
...||+.|.+++-+.++.....+.+ |.- ....||.-|.-. ..||+|+||.+|++++++
T Consensus 42 ~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~Vs 121 (263)
T PLN00067 42 VIHRRELLLGLALAPLILIAPEPPAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRVA 121 (263)
T ss_pred hhHHHHHHhhhhhhhhhhccCCchhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCcccc
Confidence 3689999776644444443333211 110 113466666422 359999999999998886
Q ss_pred ----c-----------ccEEeeCCCCCccceEEEEeCCCC---cCCCCcccCCChHHHHHHHHHHHhhhccccccCCcce
Q 026900 124 ----G-----------ADIFYRDPYVLDENVSVELSSPSS---SRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRE 185 (231)
Q Consensus 124 ----G-----------~dv~f~D~~~~~eNVsV~Vsp~~~---~~~~si~dlGsPeeV~~~L~k~~~~~~~st~~~~~~~ 185 (231)
| +|++|+|+. ++||+|+|+|+.. .++++|+|||+||+|+++|++.+.++ ++++
T Consensus 122 ~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~-------~~~~ 192 (263)
T PLN00067 122 NILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGN-------SYDP 192 (263)
T ss_pred ccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcC-------CCCC
Confidence 4 899999954 6899999999831 24699999999999999999998864 4788
Q ss_pred eeEEecceeecCCCeeEEEEEEEEEec-ccCcceee
Q 026900 186 SNILSTSSRVADDGRLYYLVEVSCVWC-WNITQLLV 220 (231)
Q Consensus 186 a~ll~a~~r~~~~G~~YY~~Ey~v~s~-a~~n~l~~ 220 (231)
.+||++++|+ .||++||+|||.++.. ..||+|+.
T Consensus 193 ~eLLeAs~re-~dGktYY~~E~~tp~a~~gRHnLat 227 (263)
T PLN00067 193 DELLETSVEK-IGDQTYYKYVLETPFALTGSHNLAK 227 (263)
T ss_pred cceEEeeeEe-eCCeEEEEEEEEecCCCCCceEEEE
Confidence 8999999999 7999999999998754 35555553
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.68 E-value=7.3e-17 Score=141.00 Aligned_cols=140 Identities=21% Similarity=0.207 Sum_probs=92.4
Q ss_pred ccchhHHHHHHHHHHHHhhhcCCC--ccccccc-------------ccCcccceecCCceeeecCCCceeecc-------
Q 026900 65 FAVPRRNAMALILSSYIFSDFGFR--NTALAQQ-------------SVGFREYIDTFDGYSFKYPQNWIQVRG------- 122 (231)
Q Consensus 65 ~~~~RR~aL~~~~sa~~~s~~~~~--~~a~ae~-------------~~gf~~y~D~~dGYsf~yP~~W~~v~~------- 122 (231)
+..+||+.+.-.++.++.++.... ..+++++ ...|-.|. ++||+..||-.+..+--
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 556777776655555555544332 2233333 23355554 89999999988874321
Q ss_pred ---------c-cccEEeeCCCCCccceEEEEeCCC-----CcCCCCcccCCChHHHHHHHHHHHhhhccccccCCcceee
Q 026900 123 ---------A-GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESN 187 (231)
Q Consensus 123 ---------~-G~dv~f~D~~~~~eNVsV~Vsp~~-----~~~~~si~dlGsPeeV~~~L~k~~~~~~~st~~~~~~~a~ 187 (231)
+ -..++|.-+ |..|||||+|+|++ ..+.++|+|||+|+|||+.|+ +...++ -+++.++
T Consensus 107 ~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~v-----P~g~~~-~saR~ie 179 (241)
T PLN03152 107 LSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFV-----PGGATL-YSARTIK 179 (241)
T ss_pred cceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhC-----CCcccc-cccceee
Confidence 1 125677754 89999999999985 113899999999999997665 310000 0244444
Q ss_pred EEecceeecCCCeeEEEEEEEEEecccCcceeeh
Q 026900 188 ILSTSSRVADDGRLYYLVEVSCVWCWNITQLLVT 221 (231)
Q Consensus 188 ll~a~~r~~~~G~~YY~~Ey~v~s~a~~n~l~~~ 221 (231)
+ +++ .|||+||+|||.++ .||+|+..
T Consensus 180 l----~~E-~dGKtYY~lEy~v~---~RH~LaTV 205 (241)
T PLN03152 180 V----KEE-EGIRTYYFYEFGRD---EQHVALVA 205 (241)
T ss_pred e----eee-cCCceeEEEEEEeC---CcEEEEEE
Confidence 4 456 89999999999986 78877653
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=85.79 E-value=1.1 Score=37.45 Aligned_cols=45 Identities=16% Similarity=0.447 Sum_probs=25.3
Q ss_pred ccceecCCceeeecCCCceeeccccccEEeeCCCCCccceEEEEe
Q 026900 100 REYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELS 144 (231)
Q Consensus 100 ~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~D~~~~~eNVsV~Vs 144 (231)
..|..++.=|+..||.+|.|.+-..--..|-|+..=+.|..+..-
T Consensus 2 kKfiSpg~WFS~~YP~~W~EfED~E~sflFYnp~~WTGNfRISay 46 (153)
T PF12712_consen 2 KKFISPGAWFSMEYPADWNEFEDGEGSFLFYNPDQWTGNFRISAY 46 (153)
T ss_dssp EEEE-GGG-EEEEE-TT-EEE---TTEEEEE-SSS---EEEEEEE
T ss_pred CcccCCCceEEEecCCCcchhccCCcceEEEChHHhcCceEEEEE
Confidence 457777778999999999998833344557778888999875444
No 8
>PLN00016 RNA-binding protein; Provisional
Probab=81.42 E-value=0.9 Score=42.01 Aligned_cols=62 Identities=16% Similarity=0.170 Sum_probs=48.2
Q ss_pred hhhhccccCccccccccccccccCccchhhhhhccCCCccccceeecccccccccc----cccccc
Q 026900 5 VMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM----AATQFA 66 (231)
Q Consensus 5 ~~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~----g~~~~~ 66 (231)
++..|+.++++++++++.+.+.+..++...++.|+.+.+.......+...|+++|. |++.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VLVt~~~~GatG~i 68 (378)
T PLN00016 3 SSSRLRSSSASSLLSSSSSSSISPALAARAQGSRRASQVAGAAAAAAVEKKKVLIVNTNSGGHAFI 68 (378)
T ss_pred cchhcccccccccCCchhhhhhhHHhhhccccccccccchhhhhhcccccceEEEEeccCCCceeE
Confidence 34567788888888888888888888888888898888855444444456789999 988876
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=78.78 E-value=11 Score=34.94 Aligned_cols=88 Identities=18% Similarity=0.300 Sum_probs=47.3
Q ss_pred cceecCCceeeecCCCceeeccc----cccEEeeCCCCC--------c-cceEEEEeCCCCcCCCCcccCCChHHHHHHH
Q 026900 101 EYIDTFDGYSFKYPQNWIQVRGA----GADIFYRDPYVL--------D-ENVSVELSSPSSSRYKSVEDLGPPKEAGRKV 167 (231)
Q Consensus 101 ~y~D~~dGYsf~yP~~W~~v~~~----G~dv~f~D~~~~--------~-eNVsV~Vsp~~~~~~~si~dlGsPeeV~~~L 167 (231)
++.+...||+|.+|.||.+.+-. |+.+.=+-..+. . ++-+|++...+.+-+.+. --+-.+.+.+|
T Consensus 111 rvdn~~gGFS~vvP~GW~~Sda~~L~yG~alls~~~~~~~~~~~~~p~andt~v~lgrld~kl~a~a--e~dn~kaa~rl 188 (297)
T PF07174_consen 111 RVDNAAGGFSYVVPAGWVESDASHLDYGSALLSKQTGEPPMPGQPPPVANDTSVVLGRLDLKLFASA--EPDNTKAAVRL 188 (297)
T ss_pred cccccccceEEeccCCccccccceeecceeeeccCCCCCCCCCCCCCcCCCceEEeccccccccccc--cCChHHHHHHH
Confidence 34455789999999999986633 555544322222 2 234566665542111111 12334578888
Q ss_pred HHHHhhhccc---cccCCcceeeEEecc
Q 026900 168 LRQYLTEFMS---TRLGVRRESNILSTS 192 (231)
Q Consensus 168 ~k~~~~~~~s---t~~~~~~~a~ll~a~ 192 (231)
+..+=.-+|- || .+++..-|++.
T Consensus 189 ~sdmgeffmp~pg~r--inq~~~~l~~~ 214 (297)
T PF07174_consen 189 ASDMGEFFMPYPGTR--INQETTPLDAN 214 (297)
T ss_pred hccccceeccCCCcc--ccccccccccC
Confidence 7654222222 33 24677777764
No 10
>PRK11615 hypothetical protein; Provisional
Probab=68.08 E-value=59 Score=28.36 Aligned_cols=100 Identities=17% Similarity=0.132 Sum_probs=59.9
Q ss_pred CCceeeecCCCceeeccc-cc----cEEeeCCCCCccceEEEEeCCCCcCCCCcccCCChHHHHHHHHHHHhhhcccccc
Q 026900 106 FDGYSFKYPQNWIQVRGA-GA----DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL 180 (231)
Q Consensus 106 ~dGYsf~yP~~W~~v~~~-G~----dv~f~D~~~~~eNVsV~Vsp~~~~~~~si~dlGsPeeV~~~L~k~~~~~~~st~~ 180 (231)
+...+|-.|.++...... |. --+|-| ..+.=.|+|++-+ .+=++| +..+.+|.+|--..
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 456999999999965544 32 334554 3333335444332 222222 45677777765433
Q ss_pred CCcceeeEEecceeecCCCeeEEEEEEEEEe-----------cccCcceeehhHH
Q 026900 181 GVRRESNILSTSSRVADDGRLYYLVEVSCVW-----------CWNITQLLVTRIF 224 (231)
Q Consensus 181 ~~~~~a~ll~a~~r~~~~G~~YY~~Ey~v~s-----------~a~~n~l~~~~~~ 224 (231)
...-.++.-+.-+ ++|+++++++-.++. ...+|+|+.|.|.
T Consensus 111 --dp~lqvvsnK~i~-i~G~~~qQLDS~~t~~Gqk~~SSvvL~~v~~rl~tlQit 162 (185)
T PRK11615 111 --DPQLQVVTNKAIE-LKGHKLQQLDSIISAKGQTAYSSVVLGKVDNQLLTMQIT 162 (185)
T ss_pred --CcCceeecceeEE-ECCeeeEEeeeeeecCCceEEEEEEEEeeCCeEEEEEEe
Confidence 2244555555555 788889888877554 4578888887653
No 11
>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=55.10 E-value=1e+02 Score=24.12 Aligned_cols=91 Identities=14% Similarity=0.101 Sum_probs=42.6
Q ss_pred eeecCCCceeeccccccEEeeCCCCCccceEEEEeCCCCcCCCCcccCCChHHHHHHHHHHHhhhccccc-------cCC
Q 026900 110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTR-------LGV 182 (231)
Q Consensus 110 sf~yP~~W~~v~~~G~dv~f~D~~~~~eNVsV~Vsp~~~~~~~si~dlGsPeeV~~~L~k~~~~~~~st~-------~~~ 182 (231)
+|..|.+|..... ..+++.|.....-|+.|.-.+++ +=.+.++...+.+++.-..-...+ .-+
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 5777999987542 24555655444455555555554 223556666666655432200000 012
Q ss_pred cceeeEEecceeecCCCeeEEEEEEEEEec
Q 026900 183 RRESNILSTSSRVADDGRLYYLVEVSCVWC 212 (231)
Q Consensus 183 ~~~a~ll~a~~r~~~~G~~YY~~Ey~v~s~ 212 (231)
++.+..++..=+. +|.++|+....+...
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 2355555554333 566777776666554
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=50.56 E-value=19 Score=21.40 Aligned_cols=17 Identities=12% Similarity=0.008 Sum_probs=12.0
Q ss_pred chhHHHHHHHHHHHHhh
Q 026900 67 VPRRNAMALILSSYIFS 83 (231)
Q Consensus 67 ~~RR~aL~~~~sa~~~s 83 (231)
++||+.|-..+++.+..
T Consensus 2 ~sRR~fLk~~~a~~a~~ 18 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAAA 18 (26)
T ss_pred CcHHHHHHHHHHHHHHH
Confidence 68999998776644333
No 13
>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=45.52 E-value=49 Score=26.19 Aligned_cols=38 Identities=16% Similarity=0.151 Sum_probs=25.3
Q ss_pred cceEEEEeCCCCcCCCC------cccCCChHHHHHHHHHHHhhh
Q 026900 137 ENVSVELSSPSSSRYKS------VEDLGPPKEAGRKVLRQYLTE 174 (231)
Q Consensus 137 eNVsV~Vsp~~~~~~~s------i~dlGsPeeV~~~L~k~~~~~ 174 (231)
+++.|+|.|..+.+.++ +-=-|+|+|..+.|...+-..
T Consensus 24 d~l~V~v~P~~~~~~~d~~l~~Pl~L~gTp~ELD~gF~~ai~~~ 67 (104)
T TIGR03741 24 DKLTVTVTPTPKSGAKDGALTKPLVLTGTPAELDAGFAGALGQY 67 (104)
T ss_pred CEEEEEEeeccccccccccccCCeeeccCHHHHHHHHHHHHHhH
Confidence 38999999985322221 223499999998888665443
No 14
>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=44.57 E-value=13 Score=31.11 Aligned_cols=22 Identities=36% Similarity=0.718 Sum_probs=17.8
Q ss_pred CCCcccCCChHHHHHHHHHHHh
Q 026900 151 YKSVEDLGPPKEAGRKVLRQYL 172 (231)
Q Consensus 151 ~~si~dlGsPeeV~~~L~k~~~ 172 (231)
..=+++||+|+++|..+..+..
T Consensus 44 eeii~~LG~P~~iA~~i~~~~~ 65 (181)
T PF08006_consen 44 EEIIAELGSPKEIAREILAEYS 65 (181)
T ss_pred HHHHHHcCCHHHHHHHHHHhhh
Confidence 4567899999999998877653
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=34.06 E-value=33 Score=25.06 Aligned_cols=17 Identities=35% Similarity=0.724 Sum_probs=13.9
Q ss_pred eEEecceeecCCCeeEEE
Q 026900 187 NILSTSSRVADDGRLYYL 204 (231)
Q Consensus 187 ~ll~a~~r~~~~G~~YY~ 204 (231)
+||++.+.+ +||++||.
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 99999983
No 16
>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=30.18 E-value=64 Score=23.57 Aligned_cols=18 Identities=17% Similarity=0.241 Sum_probs=15.7
Q ss_pred CCCeeEEEEEEEEEeccc
Q 026900 197 DDGRLYYLVEVSCVWCWN 214 (231)
Q Consensus 197 ~~G~~YY~~Ey~v~s~a~ 214 (231)
.+|++||+|++.++..+.
T Consensus 13 ~~g~~y~qy~v~I~N~~~ 30 (80)
T PF09478_consen 13 ENGQTYTQYDVTITNNGS 30 (80)
T ss_pred eCCEEEEEEEEEEEECCC
Confidence 588999999999998764
No 17
>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=27.25 E-value=25 Score=24.99 Aligned_cols=12 Identities=33% Similarity=0.874 Sum_probs=4.0
Q ss_pred ceeeecCCCcee
Q 026900 108 GYSFKYPQNWIQ 119 (231)
Q Consensus 108 GYsf~yP~~W~~ 119 (231)
..+..||++|.+
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 18
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=26.87 E-value=1.1e+02 Score=24.20 Aligned_cols=19 Identities=21% Similarity=0.128 Sum_probs=13.4
Q ss_pred cccccchhHHHHHHHHHHH
Q 026900 62 ATQFAVPRRNAMALILSSY 80 (231)
Q Consensus 62 ~~~~~~~RR~aL~~~~sa~ 80 (231)
.+....+||++|...++++
T Consensus 44 ~~e~~~gRR~~mfaaaAaa 62 (103)
T PLN00058 44 EQQSTTMRRDLMFTAAAAA 62 (103)
T ss_pred cccchhhHHHHHHHHHHHH
Confidence 4467789999987665544
No 19
>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=26.85 E-value=66 Score=23.30 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=10.3
Q ss_pred ccccchhHHHHHHH
Q 026900 63 TQFAVPRRNAMALI 76 (231)
Q Consensus 63 ~~~~~~RR~aL~~~ 76 (231)
....++||++|.++
T Consensus 5 ~~~~~sRR~Flk~l 18 (66)
T TIGR02811 5 QKADPSRRDLLKGL 18 (66)
T ss_pred ccCCccHHHHHHHH
Confidence 34567999998844
No 20
>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=26.61 E-value=63 Score=21.38 Aligned_cols=15 Identities=13% Similarity=0.273 Sum_probs=7.2
Q ss_pred cccccchhHHHHHHH
Q 026900 62 ATQFAVPRRNAMALI 76 (231)
Q Consensus 62 ~~~~~~~RR~aL~~~ 76 (231)
.+....+||++|...
T Consensus 4 ~~~~~~~RRdFL~~a 18 (41)
T PF10399_consen 4 NEPVDPTRRDFLTIA 18 (41)
T ss_dssp ------HHHHHHHHH
T ss_pred CCCCCchHHHHHHHH
Confidence 344567899999644
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=23.71 E-value=1.5e+02 Score=21.49 Aligned_cols=27 Identities=19% Similarity=0.281 Sum_probs=21.4
Q ss_pred ceeeEEecceeecCCCeeEEEEEEEEEec
Q 026900 184 RESNILSTSSRVADDGRLYYLVEVSCVWC 212 (231)
Q Consensus 184 ~~a~ll~a~~r~~~~G~~YY~~Ey~v~s~ 212 (231)
+-.+|+++.+.. +.|. -|.+++.+..+
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 477889998888 8998 56699998765
Done!