Query 028765
Match_columns 204
No_of_seqs 115 out of 125
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 16:38:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028765.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028765hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00042 photosystem II oxygen 100.0 1.8E-74 4E-79 507.2 16.1 198 1-204 1-260 (260)
2 PLN00059 PsbP domain-containin 100.0 3.4E-37 7.4E-42 273.2 13.8 153 29-203 59-284 (286)
3 PLN00067 PsbP domain-containin 100.0 6.6E-36 1.4E-40 263.6 13.5 148 51-203 42-263 (263)
4 PF01789 PsbP: PsbP; InterPro 100.0 6.5E-34 1.4E-38 232.1 7.2 126 73-204 2-175 (175)
5 PLN00066 PsbP domain-containin 100.0 5.8E-33 1.3E-37 245.0 12.9 142 49-203 42-258 (262)
6 PLN03152 hypothetical protein; 99.9 7.3E-22 1.6E-26 172.3 7.8 55 141-203 186-240 (241)
7 PF08786 DUF1795: Domain of un 95.7 0.042 9.2E-07 42.5 6.5 57 141-201 73-130 (130)
8 PF05757 PsbQ: Oxygen evolving 82.6 0.38 8.3E-06 42.0 -0.1 45 29-77 10-55 (202)
9 smart00564 PQQ beta-propeller 74.1 4.6 0.0001 23.7 2.9 21 167-187 11-31 (33)
10 PF10518 TAT_signal: TAT (twin 56.2 8.7 0.00019 23.2 1.6 15 52-66 2-16 (26)
11 PF01011 PQQ: PQQ enzyme repea 54.7 11 0.00024 23.6 2.0 23 167-189 5-27 (38)
12 PF07174 FAP: Fibronectin-atta 54.4 29 0.00064 32.3 5.4 18 99-116 116-133 (297)
13 COG5435 Uncharacterized conser 52.7 71 0.0015 27.1 7.0 61 141-203 80-141 (147)
14 PLN00058 photosystem II reacti 49.2 21 0.00045 28.6 3.2 45 50-97 47-91 (103)
15 PF07123 PsbW: Photosystem II 46.6 22 0.00048 29.8 3.1 42 34-77 43-85 (138)
16 PF10738 Lpp-LpqN: Probable li 40.0 2.3E+02 0.0051 24.1 8.6 62 141-204 111-174 (175)
17 smart00456 WW Domain with 2 co 36.4 28 0.0006 20.7 1.7 18 171-188 12-29 (32)
18 PF12318 FAD-SLDH: Membrane bo 33.7 23 0.00049 29.7 1.3 8 52-59 2-9 (168)
19 COG4939 Major membrane immunog 31.4 92 0.002 26.3 4.5 33 145-181 34-66 (147)
20 TIGR00090 iojap_ybeB iojap-lik 31.3 13 0.00029 28.4 -0.4 40 93-149 58-97 (99)
21 PRK11538 ribosome-associated p 30.7 12 0.00026 29.3 -0.8 40 93-149 63-102 (105)
22 PF12599 DUF3768: Protein of u 28.9 54 0.0012 25.4 2.5 23 153-175 28-50 (84)
23 PLN00077 photosystem II reacti 28.4 43 0.00093 27.8 2.0 62 31-95 31-98 (128)
24 TIGR03300 assembly_YfgL outer 28.2 60 0.0013 28.6 3.1 18 170-187 113-130 (377)
25 KOG4649 PQQ (pyrrolo-quinoline 28.0 49 0.0011 31.3 2.5 54 135-189 37-90 (354)
26 cd00201 WW Two conserved trypt 26.9 52 0.0011 19.0 1.7 19 170-188 10-28 (31)
27 TIGR01409 TAT_signal_seq Tat ( 25.8 55 0.0012 19.9 1.7 15 52-66 1-15 (29)
28 cd00216 PQQ_DH Dehydrogenases 25.5 75 0.0016 30.0 3.4 55 135-189 260-328 (488)
29 PLN02729 PSII-Q subunit 24.3 48 0.001 29.8 1.7 49 35-88 35-84 (220)
30 cd06469 p23_DYX1C1_like p23_li 22.8 2.5E+02 0.0054 19.2 4.8 37 149-188 40-76 (78)
31 PF04674 Phi_1: Phosphate-indu 22.2 70 0.0015 29.4 2.4 26 89-114 241-266 (273)
32 TIGR02811 formate_TAT formate 22.1 57 0.0012 23.7 1.5 14 51-64 8-21 (66)
33 PRK11138 outer membrane biogen 22.0 1.1E+02 0.0023 27.6 3.5 52 136-188 84-146 (394)
34 PF10012 DUF2255: Uncharacteri 21.7 2E+02 0.0043 23.3 4.7 44 148-191 13-56 (116)
35 PF10916 DUF2712: Protein of u 21.3 5.2E+02 0.011 22.0 8.5 93 55-175 10-109 (146)
36 PF00397 WW: WW domain; Inter 20.7 1.5E+02 0.0032 18.0 2.9 16 172-187 14-29 (31)
37 PLN00092 photosystem I reactio 20.5 1.4E+02 0.0031 25.0 3.7 63 31-95 40-108 (137)
38 PF07495 Y_Y_Y: Y_Y_Y domain; 20.5 2E+02 0.0044 19.0 3.9 25 145-169 41-65 (66)
39 PRK10882 hydrogenase 2 protein 20.2 1.1E+02 0.0023 28.5 3.2 15 52-66 1-15 (328)
No 1
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=1.8e-74 Score=507.17 Aligned_cols=198 Identities=76% Similarity=1.196 Sum_probs=184.5
Q ss_pred CcchhhhhcccccCCCccccc----ccccccCCCCCceeeeccccccccccccchhHHHHHHHHHHHHHhhccCCCcccc
Q 028765 1 MASTQCFLHHHALSTTPARTS----SSQRHVSNIKPTQIVCRAQKQAVQEDDGSAVSRRLALTVLIGAAAVGSKVSPADA 76 (204)
Q Consensus 1 ma~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~c~a~~~~~~~~~~~~~~RR~aL~~~~~aaa~~~~~~pa~A 76 (204)
||||+|||||++++++. +.+ ++++.+...++++++|++|++. .+.++||++|++++++++++++++|++|
T Consensus 1 ~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~srr~~l~~~~ga~a~~~~~~pa~a 74 (260)
T PLN00042 1 MASTACFLHQSALKSAA-ALASSSSASARAVSASRPSQVVCRAQEED-----NSAVSRRAALALLAGAAAAGAKVSPANA 74 (260)
T ss_pred Ccchhhhhhcccccchh-hhcccccccccccCCCCCcceeeeccccc-----cccccHHHHHHHHHHHHHhhcccCchhh
Confidence 99999999999995443 332 3578899999999999999873 2468999999999999999999999999
Q ss_pred cccccccccCCCCCCCCceeecCCCeEEeccCCCcccccccCCCceEEeccccccccc----------------------
Q 028765 77 AYGESANVFGKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNTN---------------------- 134 (204)
Q Consensus 77 ayge~Anvfg~~k~~~gf~~y~~dGY~flyPsgW~~vke~~~pg~v~ry~D~ie~~eN---------------------- 134 (204)
||||+|||||+||+++||.+|++|||+|+||+||+|++|.++||++++|||+||++||
T Consensus 75 ay~~~anvfg~~k~~~gF~~y~~dgY~FlyP~~W~~~ke~~~~G~dv~f~D~~~~~eNVSV~Ispt~k~sI~dlGsPee~ 154 (260)
T PLN00042 75 AYGESANVFGKPKTNTGFLPYNGDGFKLLVPSKWNPSKEREFPGQVLRFEDNFDATSNLSVMVTPTDKKSITDYGSPEEF 154 (260)
T ss_pred hhcchhhccCCCCCCCCCeEeeCCCeEEecCCCCccccccccCCceEEeeccccccccEEEEEecCCcCCHhhcCCHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999
Q ss_pred --------------------------------cccccC----CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEE
Q 028765 135 --------------------------------ILEASV----RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICK 178 (204)
Q Consensus 135 --------------------------------ll~a~~----Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~ 178 (204)
||++++ ||+||+|||++++|||||++||+||+|||+|||||||+
T Consensus 155 l~~vgylL~kq~~a~~t~s~~Gf~p~~vata~Lleas~re~dGk~YY~lE~~~~~ad~d~~~RH~LatatV~~GkLYtl~ 234 (260)
T PLN00042 155 LSKVSYLLGKQAYSGETASEGGFDANAVATAAVLESSTQEVGGKPYYYLSVLTRTADGDEGGKHQLITATVSDGKLYICK 234 (260)
T ss_pred HHHHHHHHHhhhccCccccccCcCcccccceeEEEeeeEEeCCeEEEEEEEEEecCCCCCCCceEEEEEEEECCEEEEEE
Confidence 456665 99999999999999999999999999999999999999
Q ss_pred cccCCccccchhhhhhhhhcceeeeC
Q 028765 179 AQAGDKRWFKGTRKYVESTASSFSVA 204 (204)
Q Consensus 179 a~a~ekRW~K~~~~~l~~vv~SFsVa 204 (204)
+|+|||||+|+.+++|++|++||+||
T Consensus 235 aqa~EkRW~K~~~k~l~~v~~SFsVa 260 (260)
T PLN00042 235 AQAGDKRWFKGARKFVEGAASSFSVA 260 (260)
T ss_pred ecCchhhhhHHHHHHHHHHHhceecC
Confidence 99999999999899999999999997
No 2
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=3.4e-37 Score=273.20 Aligned_cols=153 Identities=24% Similarity=0.331 Sum_probs=121.6
Q ss_pred CCCCceeeeccccccccccccchhHHHHHHH--HH-HHHHhhccCCCcccccccccccccCCCCCCCCceee--cCCCeE
Q 028765 29 NIKPTQIVCRAQKQAVQEDDGSAVSRRLALT--VL-IGAAAVGSKVSPADAAYGESANVFGKPKTNTDFLPY--NGDGFK 103 (204)
Q Consensus 29 ~~~~~~~~c~a~~~~~~~~~~~~~~RR~aL~--~~-~~aaa~~~~~~pa~Aayge~Anvfg~~k~~~gf~~y--~~dGY~ 103 (204)
+-.|-.+.|..|... .-++.||.+++ ++ +.+.++....++|+|+ +.||++| +.|||+
T Consensus 59 ~~~~~~~~~~~~~~~-----~~~~~rr~~~~~~l~~~~~~~s~~~~~~a~a~-------------~~~l~~y~D~~DGY~ 120 (286)
T PLN00059 59 PDSPVAINCLTDAKQ-----VCAVGRRKSMMMGLLMSGLIVSEANLPTAFAS-------------IPVFREYIDTFDGYS 120 (286)
T ss_pred CCCCeeeecccchhh-----hhhhhhhhhhHHHHHHHHHHHHhhcCchhhcC-------------CcccceeEcCCCCeE
Confidence 344455788877331 22689998854 32 3334555666677663 3589999 599999
Q ss_pred EeccCCCcccccccCCCceEEeccccccccc-------------------------------------------------
Q 028765 104 LSIPSKWNPSKEREFPGQVLRYEDNFDSNTN------------------------------------------------- 134 (204)
Q Consensus 104 flyPsgW~~vke~~~pg~v~ry~D~ie~~eN------------------------------------------------- 134 (204)
|+||+||++|+ .+++++| |+|+|+..||
T Consensus 121 FlYP~GWi~V~-~~G~DVv--FrD~Ie~~ENVSV~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReae 197 (286)
T PLN00059 121 FKYPQNWIQVR-GAGADIF--FRDPVVLDENLSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREAN 197 (286)
T ss_pred EeCCCCCeEec-cCCCceE--EeccCccccceEEEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceE
Confidence 99999999887 4455555 5699999999
Q ss_pred cccccC-----CCceEEEEEEEecCC---------C-----CCCcceeEEEEEEeCCeEEEEEcccCCccccchhhhhhh
Q 028765 135 ILEASV-----RPPYYFLSVLTRTAD---------G-----DEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVE 195 (204)
Q Consensus 135 ll~a~~-----Gk~YY~lE~~~r~ad---------g-----de~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~~~~~l~ 195 (204)
||++++ ||+||+|||.+++++ . .|..||+|++++|.|||||||++|++|+||.|+ ++.|+
T Consensus 198 LVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~~~qdr~~~~~w~RH~LA~v~V~nGkLYTL~~qtpE~RW~kv-k~~f~ 276 (286)
T PLN00059 198 ILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVENDRLYSIRLQTPEKVFLEE-EKDLR 276 (286)
T ss_pred EEEeeeEEccCCcEEEEEEEEEEcCcccccccccccccccccccceeeEEEEEEeCCEEEEEEcCCcHHHHHHH-HHHHH
Confidence 666764 999999999999973 2 356999999999999999999999999999987 88999
Q ss_pred hhcceeee
Q 028765 196 STASSFSV 203 (204)
Q Consensus 196 ~vv~SFsV 203 (204)
.|++||+|
T Consensus 277 ~V~dSF~V 284 (286)
T PLN00059 277 RVMDSFRV 284 (286)
T ss_pred HHHhheee
Confidence 99999998
No 3
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=6.6e-36 Score=263.56 Aligned_cols=148 Identities=26% Similarity=0.398 Sum_probs=112.4
Q ss_pred hhHHHHHHHHHHHHHhhccCCCccccccccccc-ccCCC-CCCCCceeec-------------CCCeEEeccCCCccccc
Q 028765 51 AVSRRLALTVLIGAAAVGSKVSPADAAYGESAN-VFGKP-KTNTDFLPYN-------------GDGFKLSIPSKWNPSKE 115 (204)
Q Consensus 51 ~~~RR~aL~~~~~aaa~~~~~~pa~Aayge~An-vfg~~-k~~~gf~~y~-------------~dGY~flyPsgW~~vke 115 (204)
...||+.|.+++.+...+-...|. +..-|--. -|=.+ ...-||.-|. -.||+|+||+||+++++
T Consensus 42 ~~~rr~~~~~~~~~~~~~~~~~~~-~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~V 120 (263)
T PLN00067 42 VIHRRELLLGLALAPLILIAPEPP-AEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRV 120 (263)
T ss_pred hhHHHHHHhhhhhhhhhhccCCch-hhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCccc
Confidence 478999998876653332222322 22222110 11111 2334777772 23899999999999999
Q ss_pred c------------cCCCceEEeccccccc--------------cc-----------------------------cccccC
Q 028765 116 R------------EFPGQVLRYEDNFDSN--------------TN-----------------------------ILEASV 140 (204)
Q Consensus 116 ~------------~~pg~v~ry~D~ie~~--------------eN-----------------------------ll~a~~ 140 (204)
. ++|+++++|+|+++.. .| |||+++
T Consensus 121 s~~~sGnycqp~c~~p~~dv~F~D~~dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~~~~~~eLLeAs~ 200 (263)
T PLN00067 121 ANILSGNYCQPKCAEPWVEVKFEDEKQGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGNSYDPDELLETSV 200 (263)
T ss_pred cccccCccccccccCCCceEEEeCCCCCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcCCCCCcceEEeee
Confidence 7 4678999999976531 11 888888
Q ss_pred ----CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccchhhhhhhhhcceeee
Q 028765 141 ----RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSV 203 (204)
Q Consensus 141 ----Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~~~~~l~~vv~SFsV 203 (204)
||+||+|||+++++| ++||+||+|||++||||||++|+|||||+|+ +++|++|++||+|
T Consensus 201 re~dGktYY~~E~~tp~a~---~gRHnLataTV~~GkLYtf~asanEkRW~K~-k~~l~~V~dSFsV 263 (263)
T PLN00067 201 EKIGDQTYYKYVLETPFAL---TGSHNLAKATAKGNTVVLFVVSASDKQWQSS-EKTLKAILDSFQA 263 (263)
T ss_pred EeeCCeEEEEEEEEecCCC---CCceEEEEEEEECCEEEEEEecCCHHHHHHH-HHHHHHHHHhccC
Confidence 999999999999998 7999999999999999999999999999995 8899999999987
No 4
>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=6.5e-34 Score=232.15 Aligned_cols=126 Identities=36% Similarity=0.555 Sum_probs=100.4
Q ss_pred cccccccccccccCCCCCCCCceee--cCCCeEEeccCCCcccccccCCCceEEeccccccccc----------------
Q 028765 73 PADAAYGESANVFGKPKTNTDFLPY--NGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNTN---------------- 134 (204)
Q Consensus 73 pa~Aayge~Anvfg~~k~~~gf~~y--~~dGY~flyPsgW~~vke~~~pg~v~ry~D~ie~~eN---------------- 134 (204)
++.++++..+|+++.++.++||++| .++||+|+||+||+ +++++|++.+|+|.++..+|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~y~d~~~~y~f~~P~gW~---~~~~~G~~v~f~d~~~~~~nvsV~v~p~~~~~sl~~ 78 (175)
T PF01789_consen 2 AALAALLSSANVACAAEASTGFQPYTDSDDGYSFLYPSGWE---EVDVSGADVVFRDPIDADENVSVVVSPVPKDFSLED 78 (175)
T ss_dssp --------------STT--SSEEEEEECTTTEEEEEETTEE---EEESTTEEEEEEETTETTSEEEEEEEE-STS-SGGG
T ss_pred ceeEEeeccchhhhcccCCCCceEEEcCCCCEEEECCCCCe---ecCCCCeEEEEECcccccceEEEEEEecCCcCchhh
Confidence 4567778888888888999999999 69999999999997 55569999999999999998
Q ss_pred --------------------------cccccC----CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCc
Q 028765 135 --------------------------ILEASV----RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDK 184 (204)
Q Consensus 135 --------------------------ll~a~~----Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ek 184 (204)
||++++ |++||.|||.+++++ ++.||+|+++||.+||||||++|++|+
T Consensus 79 lGs~~~va~~l~~~~~~~~~~~~~a~li~a~~~~~~g~~yY~~Ey~~~~~~--~~~rh~l~~~tv~~g~lY~l~~~a~e~ 156 (175)
T PF01789_consen 79 LGSPEEVAERLLNGELASPGSGREAELISASEREVDGKTYYEYEYTVQSPN--EGRRHNLAVVTVKNGKLYTLTAQAPES 156 (175)
T ss_dssp G-SHHHHHHHHHHHCCCHCTSSEEEEEEEEEEEEETTEEEEEEEEEEEETT--EEEEEEEEEEEEETTEEEEEEEEEEHH
T ss_pred cCCHHHHHHHHhhhhcccccCCcceEEEEeeeeecCCccEEEEEEEeccCC--CcccEEEEEEEEECCEEEEEEEEcCHH
Confidence 777776 999999999999998 679999999999999999999999999
Q ss_pred cccchhhhhhhhhcceeeeC
Q 028765 185 RWFKGTRKYVESTASSFSVA 204 (204)
Q Consensus 185 RW~K~~~~~l~~vv~SFsVa 204 (204)
||.|+ ++.|+.+++||+|+
T Consensus 157 ~w~k~-~~~l~~iv~SF~v~ 175 (175)
T PF01789_consen 157 RWDKV-EPKLRKIVDSFRVY 175 (175)
T ss_dssp HHHTC-HHHHHHHHHC-EE-
T ss_pred HHHHH-HHHHHHHHhcEEeC
Confidence 99996 88999999999985
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=5.8e-33 Score=245.03 Aligned_cols=142 Identities=28% Similarity=0.402 Sum_probs=116.6
Q ss_pred cchhHHHHHHHHHHHHHhh--ccCCCccccc-cccccc-ccCCCC-CCCCceeec-------C--------CCeEEeccC
Q 028765 49 GSAVSRRLALTVLIGAAAV--GSKVSPADAA-YGESAN-VFGKPK-TNTDFLPYN-------G--------DGFKLSIPS 108 (204)
Q Consensus 49 ~~~~~RR~aL~~~~~aaa~--~~~~~pa~Aa-yge~An-vfg~~k-~~~gf~~y~-------~--------dGY~flyPs 108 (204)
+..++||.+|+.+++++.+ ++-+.++.|+ ||..|. |+|..+ +..||..|. + ..|+|+||+
T Consensus 42 ~~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP~ 121 (262)
T PLN00066 42 ATAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKVPQ 121 (262)
T ss_pred cchhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEECCC
Confidence 5578999999987777444 3444455555 999999 988554 678999993 1 239999999
Q ss_pred CCcccccc----cCCCceEEeccccccccc-----------------------------------------------ccc
Q 028765 109 KWNPSKER----EFPGQVLRYEDNFDSNTN-----------------------------------------------ILE 137 (204)
Q Consensus 109 gW~~vke~----~~pg~v~ry~D~ie~~eN-----------------------------------------------ll~ 137 (204)
||.++.+. .++|+|+||+| +..+| ||+
T Consensus 122 GW~ev~VS~~d~gg~~vd~Rf~~--~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~~~e~eLl~ 199 (262)
T PLN00066 122 GWEEVPVSIADLGGTEIDLRFAS--DKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGEPVEEGKVLS 199 (262)
T ss_pred CCeEeecccccCCCCceEEEecc--CCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCCCccccceeE
Confidence 99997776 58999999876 33333 667
Q ss_pred ccC----CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccchhhhhhhhhcceeee
Q 028765 138 ASV----RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSV 203 (204)
Q Consensus 138 a~~----Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~~~~~l~~vv~SFsV 203 (204)
+++ ||+||+||| .||+||+|||++||||||+++++|+||+|+ ++.|+.|++||+|
T Consensus 200 a~~re~dGktYY~~E~----------~rH~LasaTV~~GrLYt~~asape~rW~k~-~~~lr~v~dSF~V 258 (262)
T PLN00066 200 MEVAEHSGRTYYQFEL----------PPHTLVTATAAGNRVYIFSVTANGLQWKRH-YKDLKRIAKSFRV 258 (262)
T ss_pred eeeeecCCcEEEEEEE----------eCceEEEEEEECCEEEEEEeecchHhhHHH-HHHHHHHhhceee
Confidence 666 999999999 189999999999999999999999999998 7889999999997
No 6
>PLN03152 hypothetical protein; Provisional
Probab=99.86 E-value=7.3e-22 Score=172.27 Aligned_cols=55 Identities=33% Similarity=0.485 Sum_probs=52.1
Q ss_pred CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccchhhhhhhhhcceeee
Q 028765 141 RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTRKYVESTASSFSV 203 (204)
Q Consensus 141 Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~~~~~l~~vv~SFsV 203 (204)
||+||+|||.+. +||+|+||||++||||||+++++|+||+|+ +++|+++++||+|
T Consensus 186 GKtYY~lEy~v~-------~RH~LaTVaVsrGKLYTl~aSt~EkRW~Kv-k~kfr~aa~SFsV 240 (241)
T PLN03152 186 IRTYYFYEFGRD-------EQHVALVATVNSGKAYIAGATAPESKWDDD-GVKLRSAAISLTV 240 (241)
T ss_pred CceeEEEEEEeC-------CcEEEEEEEEcCCeEEEEecCCchhchHHH-HHHHHHHHhheee
Confidence 999999999973 699999999999999999999999999998 5669999999998
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=95.68 E-value=0.042 Score=42.50 Aligned_cols=57 Identities=18% Similarity=0.014 Sum_probs=48.8
Q ss_pred CCceEEEEEEEecCCCCCCcceeEEEEEEeC-CeEEEEEcccCCccccchhhhhhhhhccee
Q 028765 141 RPPYYFLSVLTRTADGDEGGKHQLITATVKG-GKLYICKAQAGDKRWFKGTRKYVESTASSF 201 (204)
Q Consensus 141 Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~-GkLYtl~a~a~ekRW~K~~~~~l~~vv~SF 201 (204)
|.+-+.++|.-+... ..-||..++..-+ +++|+|+.++...-...- +..++.+++||
T Consensus 73 ~~~a~~l~~~~~~~g---~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~-~~~~~~i~~Sf 130 (130)
T PF08786_consen 73 GRPARELEYSFRSGG---QPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQ-RAHWEAILKSF 130 (130)
T ss_dssp TEEEEEEEEEEEETT---CEEEEEEEEEEEC-CCEEEEEEEEECCCHHHH-HHHHHHHHCT-
T ss_pred CCCeEEEEEEEeeCC---EEEEEEEEEEEECCCEEEEEEEEcCCCCCHHH-HHHHHHHHhcC
Confidence 889999999988333 6799999999998 999999999998888765 77899999998
No 8
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=82.57 E-value=0.38 Score=41.96 Aligned_cols=45 Identities=33% Similarity=0.348 Sum_probs=0.0
Q ss_pred CCCCceeeeccccccccccccchhHHHHHHHHHHHH-HhhccCCCccccc
Q 028765 29 NIKPTQIVCRAQKQAVQEDDGSAVSRRLALTVLIGA-AAVGSKVSPADAA 77 (204)
Q Consensus 29 ~~~~~~~~c~a~~~~~~~~~~~~~~RR~aL~~~~~a-aa~~~~~~pa~Aa 77 (204)
+.++..++||++... .....+||.+|.++.++ ++.++...++.|+
T Consensus 10 ~~~r~~~~vra~~~~----~~~~~~RRa~l~~l~a~~~~~~~~~~~~~a~ 55 (202)
T PF05757_consen 10 ASRRAGVVVRASQSP----AQQQTSRRAVLGSLLAAALAGGSFAQAAAAA 55 (202)
T ss_dssp --------------------------------------------------
T ss_pred ccccccceeccccCc----ccccccHHHHHHHHHHHHHHhhhcccccccc
Confidence 345666779998732 12357999998844433 3334444444443
No 9
>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=74.11 E-value=4.6 Score=23.70 Aligned_cols=21 Identities=29% Similarity=0.578 Sum_probs=18.3
Q ss_pred EEEeCCeEEEEEcccCCcccc
Q 028765 167 ATVKGGKLYICKAQAGDKRWF 187 (204)
Q Consensus 167 vtV~~GkLYtl~a~a~ekRW~ 187 (204)
++-.+|+||.+++..++.+|.
T Consensus 11 ~~~~~g~l~a~d~~~G~~~W~ 31 (33)
T smart00564 11 VGSTDGTLYALDAKTGEILWT 31 (33)
T ss_pred EEcCCCEEEEEEcccCcEEEE
Confidence 445689999999999999995
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=56.21 E-value=8.7 Score=23.24 Aligned_cols=15 Identities=47% Similarity=0.286 Sum_probs=11.8
Q ss_pred hHHHHHHHHHHHHHh
Q 028765 52 VSRRLALTVLIGAAA 66 (204)
Q Consensus 52 ~~RR~aL~~~~~aaa 66 (204)
.+||..|.+.+++++
T Consensus 2 ~sRR~fLk~~~a~~a 16 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAA 16 (26)
T ss_pred CcHHHHHHHHHHHHH
Confidence 589999988776654
No 11
>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=54.73 E-value=11 Score=23.57 Aligned_cols=23 Identities=26% Similarity=0.397 Sum_probs=19.5
Q ss_pred EEEeCCeEEEEEcccCCccccch
Q 028765 167 ATVKGGKLYICKAQAGDKRWFKG 189 (204)
Q Consensus 167 vtV~~GkLYtl~a~a~ekRW~K~ 189 (204)
+.-.+|.||-|++.+|+..|...
T Consensus 5 ~~~~~g~l~AlD~~TG~~~W~~~ 27 (38)
T PF01011_consen 5 VGTPDGYLYALDAKTGKVLWKFQ 27 (38)
T ss_dssp EETTTSEEEEEETTTTSEEEEEE
T ss_pred EeCCCCEEEEEECCCCCEEEeee
Confidence 34678999999999999999753
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=54.39 E-value=29 Score=32.31 Aligned_cols=18 Identities=28% Similarity=0.704 Sum_probs=14.4
Q ss_pred CCCeEEeccCCCcccccc
Q 028765 99 GDGFKLSIPSKWNPSKER 116 (204)
Q Consensus 99 ~dGY~flyPsgW~~vke~ 116 (204)
..||+|++|.||..|...
T Consensus 116 ~gGFS~vvP~GW~~Sda~ 133 (297)
T PF07174_consen 116 AGGFSYVVPAGWVESDAS 133 (297)
T ss_pred ccceEEeccCCccccccc
Confidence 558999999999965543
No 13
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=52.74 E-value=71 Score=27.06 Aligned_cols=61 Identities=15% Similarity=0.103 Sum_probs=38.6
Q ss_pred CCceEEEEEEEecCCCCCCcceeEEEEEEeCC-eEEEEEcccCCccccchhhhhhhhhcceeee
Q 028765 141 RPPYYFLSVLTRTADGDEGGKHQLITATVKGG-KLYICKAQAGDKRWFKGTRKYVESTASSFSV 203 (204)
Q Consensus 141 Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~G-kLYtl~a~a~ekRW~K~~~~~l~~vv~SFsV 203 (204)
|..=-..+|.-..+ +.|++|=+.+.+.|.+| ++.+|+..+. +--.-..++..++++.||..
T Consensus 80 ~~aa~~~~y~w~~~-~~~~r~v~q~~~~i~~g~~vLifT~Tt~-~~ftp~q~~~~~~~I~Sf~p 141 (147)
T COG5435 80 GAAAPLLDYQWTSP-EGEQRRVQQRQVFIERGDTVLIFTLTTP-GEFTPSQKKAWEQVIQSFVP 141 (147)
T ss_pred ccccceeEEEeecC-CCCCceEEEEEeecccCCeEEEEEecCC-CCCCHHHHHHHHHHHHhcCC
Confidence 55544445554443 34577777777777665 5566665554 44444568889999999963
No 14
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=49.22 E-value=21 Score=28.61 Aligned_cols=45 Identities=27% Similarity=0.144 Sum_probs=22.8
Q ss_pred chhHHHHHHHHHHHHHhhccCCCcccccccccccccCCCCCCCCceee
Q 028765 50 SAVSRRLALTVLIGAAAVGSKVSPADAAYGESANVFGKPKTNTDFLPY 97 (204)
Q Consensus 50 ~~~~RR~aL~~~~~aaa~~~~~~pa~Aayge~Anvfg~~k~~~gf~~y 97 (204)
+...||.++...+ ++++.+....+.|.+.|. .-|.|+.++-|-|.
T Consensus 47 ~~~gRR~~mfaaa-Aaav~s~a~~A~a~~~ep--k~Gt~eAKKkYa~i 91 (103)
T PLN00058 47 STTMRRDLMFTAA-AAAVCSLAKVAMAEEEEP--KRGTEAAKKKYAQV 91 (103)
T ss_pred chhhHHHHHHHHH-HHHHHhhhHHHhhcccCC--CCCCHHHHhcccce
Confidence 4566776665433 333444445555544331 34666655555543
No 15
>PF07123 PsbW: Photosystem II reaction centre W protein (PsbW); InterPro: IPR009806 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 []. This family represents the low molecular weight transmembrane protein PsbW found in PSII, where it is a subunit of the oxygen-evolving complex. PsbW appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of PsbW, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 2 PsbW.; GO: 0015979 photosynthesis, 0009507 chloroplast, 0009523 photosystem II
Probab=46.61 E-value=22 Score=29.85 Aligned_cols=42 Identities=33% Similarity=0.360 Sum_probs=21.7
Q ss_pred eeeeccccccccccc-cchhHHHHHHHHHHHHHhhccCCCccccc
Q 028765 34 QIVCRAQKQAVQEDD-GSAVSRRLALTVLIGAAAVGSKVSPADAA 77 (204)
Q Consensus 34 ~~~c~a~~~~~~~~~-~~~~~RR~aL~~~~~aaa~~~~~~pa~Aa 77 (204)
.++|..++.....+. .+......+| +++++++.+...||.|.
T Consensus 43 ~v~cs~~~~~~~~~~~~~~~~~~a~~--~aa~~a~~a~a~PA~AL 85 (138)
T PF07123_consen 43 RVRCSAEKKPSTVAAVNSQKGMGAAL--LAAAAATAATASPALAL 85 (138)
T ss_pred ceEEEeccCccchhhhhhhcchhHHH--HHHHHHHHhhcCcHHHH
Confidence 589999977432211 1112233333 33333334557899886
No 16
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=40.04 E-value=2.3e+02 Score=24.05 Aligned_cols=62 Identities=11% Similarity=0.053 Sum_probs=38.6
Q ss_pred CCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEE--EcccCCccccchhhhhhhhhcceeeeC
Q 028765 141 RPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYIC--KAQAGDKRWFKGTRKYVESTASSFSVA 204 (204)
Q Consensus 141 Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl--~a~a~ekRW~K~~~~~l~~vv~SFsVa 204 (204)
|-+=+.+|-.-+. ||-..-..+.+.|.-.++..|.+ ++++.+..=... ...++.+.+.|+|+
T Consensus 111 GfpS~~i~GtY~~-~g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~qa~~~-~~a~~aI~~g~~It 174 (175)
T PF10738_consen 111 GFPSSQIEGTYDK-DGMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQAVAL-ADATEAIDEGFTIT 174 (175)
T ss_pred CCceeEEEEEEee-CCEEeEeEEEEEEEeCCCcEEEEEEEeeccccchhhh-hhHHHHHHcCCEec
Confidence 7787888854444 43222234455555578888875 455555555444 34588999999874
No 17
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=36.39 E-value=28 Score=20.67 Aligned_cols=18 Identities=22% Similarity=0.606 Sum_probs=16.1
Q ss_pred CCeEEEEEcccCCccccc
Q 028765 171 GGKLYICKAQAGDKRWFK 188 (204)
Q Consensus 171 ~GkLYtl~a~a~ekRW~K 188 (204)
+|+.|-++..+++.+|.+
T Consensus 12 ~g~~yy~n~~t~~s~W~~ 29 (32)
T smart00456 12 DGRPYYYNHETKETQWEK 29 (32)
T ss_pred CCCEEEEECCCCCEEcCC
Confidence 489999999999999975
No 18
>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=33.67 E-value=23 Score=29.74 Aligned_cols=8 Identities=50% Similarity=0.609 Sum_probs=5.9
Q ss_pred hHHHHHHH
Q 028765 52 VSRRLALT 59 (204)
Q Consensus 52 ~~RR~aL~ 59 (204)
.+||.+|+
T Consensus 2 ~sRR~~L~ 9 (168)
T PF12318_consen 2 LSRRRLLA 9 (168)
T ss_pred CcHHHHHH
Confidence 47888883
No 19
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=31.42 E-value=92 Score=26.35 Aligned_cols=33 Identities=24% Similarity=0.348 Sum_probs=26.1
Q ss_pred EEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEccc
Q 028765 145 YFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQA 181 (204)
Q Consensus 145 Y~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a 181 (204)
|+.||. |.|+.|-..+.+++|.+||+--|+.-=
T Consensus 34 Y~~~y~----~fDd~gwk~f~~iti~dGKiv~~~ydy 66 (147)
T COG4939 34 YQGHYE----SFDDHGWKAFVTITIQDGKIVACTYDY 66 (147)
T ss_pred eeeeec----cccccCccceEEEEEeCCEEEEEEeee
Confidence 666665 556678889999999999998887643
No 20
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=31.30 E-value=13 Score=28.40 Aligned_cols=40 Identities=15% Similarity=0.321 Sum_probs=27.4
Q ss_pred CceeecCCCeEEeccCCCcccccccCCCceEEeccccccccccccccCCCceEEEEE
Q 028765 93 DFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNTNILEASVRPPYYFLSV 149 (204)
Q Consensus 93 gf~~y~~dGY~flyPsgW~~vke~~~pg~v~ry~D~ie~~eNll~a~~Gk~YY~lE~ 149 (204)
|..|...+|+. +++|. ..|+.++++| |=..+.+.||.||-
T Consensus 58 ~~~~~~~EG~~---~~~Wi---llD~g~ivVH-----------if~~e~R~~Y~LE~ 97 (99)
T TIGR00090 58 GLKPLGVEGLE---EGDWV---LVDLGDVVVH-----------IFQPEAREFYDLEK 97 (99)
T ss_pred CCCcccccCCC---CCCEE---EEECCCEEEE-----------eCChHHhhhcCHhh
Confidence 34445555654 78998 8999999988 22334788888773
No 21
>PRK11538 ribosome-associated protein; Provisional
Probab=30.71 E-value=12 Score=29.29 Aligned_cols=40 Identities=15% Similarity=0.301 Sum_probs=27.8
Q ss_pred CceeecCCCeEEeccCCCcccccccCCCceEEeccccccccccccccCCCceEEEEE
Q 028765 93 DFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNTNILEASVRPPYYFLSV 149 (204)
Q Consensus 93 gf~~y~~dGY~flyPsgW~~vke~~~pg~v~ry~D~ie~~eNll~a~~Gk~YY~lE~ 149 (204)
|..++..+|+. .++|. ..|+.++++| |=..+.+.||.||=
T Consensus 63 ~~~~~~~eG~~---~~~Wi---llD~g~ivVH-----------if~~e~Re~Y~LE~ 102 (105)
T PRK11538 63 GLLPLGVEGEN---AADWI---VVDLGDVIVH-----------VMQEESRRLYELEK 102 (105)
T ss_pred CCCCCcccCCC---CCCEE---EEeCCCEEEE-----------cCCHHHHhhcCHHh
Confidence 44555555654 68998 8999999998 22333788888873
No 22
>PF12599 DUF3768: Protein of unknown function (DUF3768); InterPro: IPR022243 This family of proteins is found in bacteria. Proteins in this family are typically between 108 and 129 amino acids in length. There are two conserved sequence motifs: NDP and RVLT.
Probab=28.93 E-value=54 Score=25.36 Aligned_cols=23 Identities=30% Similarity=0.543 Sum_probs=20.1
Q ss_pred cCCCCCCcceeEEEEEEeCCeEE
Q 028765 153 TADGDEGGKHQLITATVKGGKLY 175 (204)
Q Consensus 153 ~adgde~~RH~L~tvtV~~GkLY 175 (204)
++++|.+|-|.+.++.+.+-++|
T Consensus 28 ~~dNDP~gEHDFG~v~~~g~~vf 50 (84)
T PF12599_consen 28 TPDNDPYGEHDFGAVEFDGEKVF 50 (84)
T ss_pred CCCCCCcccccceEEEECCEEEE
Confidence 58899999999999999877765
No 23
>PLN00077 photosystem II reaction centre W protein; Provisional
Probab=28.36 E-value=43 Score=27.79 Aligned_cols=62 Identities=19% Similarity=0.305 Sum_probs=33.1
Q ss_pred CCceeeeccccccccccccchhHHHHHHHHHHHHHhhccCCCccccc-----cccccc-ccCCCCCCCCce
Q 028765 31 KPTQIVCRAQKQAVQEDDGSAVSRRLALTVLIGAAAVGSKVSPADAA-----YGESAN-VFGKPKTNTDFL 95 (204)
Q Consensus 31 ~~~~~~c~a~~~~~~~~~~~~~~RR~aL~~~~~aaa~~~~~~pa~Aa-----yge~An-vfg~~k~~~gf~ 95 (204)
|...++|..++.+...+ ....-..+.+++++++..+.+.||.|. ++|.+. .||-..+.=||+
T Consensus 31 ~~~~v~Cs~e~k~~~~~---~~~~~~~asl~a~~~a~~a~a~PA~AlVDeRlsteGtGl~lGlsn~~LgwI 98 (128)
T PLN00077 31 RSERVRCSYEKKAANKA---DVNKLAGASLLVTSAATMAYAHPAFALVDERMSTEGTGLSLGLSNNLLGWI 98 (128)
T ss_pred cCCceEEecccCccccc---ccccchhHHHHHHHHHHHhccccHHHHHhHhhcCCCccccccccCchhhHH
Confidence 34579999997743221 122222344444444455788998885 455555 345444333433
No 24
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=28.21 E-value=60 Score=28.63 Aligned_cols=18 Identities=22% Similarity=0.521 Sum_probs=9.2
Q ss_pred eCCeEEEEEcccCCcccc
Q 028765 170 KGGKLYICKAQAGDKRWF 187 (204)
Q Consensus 170 ~~GkLYtl~a~a~ekRW~ 187 (204)
.+|+||-|+..+++.+|.
T Consensus 113 ~~g~l~ald~~tG~~~W~ 130 (377)
T TIGR03300 113 EKGEVIALDAEDGKELWR 130 (377)
T ss_pred CCCEEEEEECCCCcEeee
Confidence 345555555555555554
No 25
>KOG4649 consensus PQQ (pyrrolo-quinoline quinone) repeat protein [Secondary metabolites biosynthesis, transport and catabolism]
Probab=27.99 E-value=49 Score=31.28 Aligned_cols=54 Identities=11% Similarity=0.076 Sum_probs=37.5
Q ss_pred cccccCCCceEEEEEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccch
Q 028765 135 ILEASVRPPYYFLSVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKG 189 (204)
Q Consensus 135 ll~a~~Gk~YY~lE~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~ 189 (204)
-+|.++|+.|+.=++..|..-.. ----+++.+.-.+|+||-|...++++-|.-.
T Consensus 37 avd~~sG~~~We~ilg~RiE~sa-~vvgdfVV~GCy~g~lYfl~~~tGs~~w~f~ 90 (354)
T KOG4649|consen 37 AVDPQSGNLIWEAILGVRIECSA-IVVGDFVVLGCYSGGLYFLCVKTGSQIWNFV 90 (354)
T ss_pred EecCCCCcEEeehhhCceeeeee-EEECCEEEEEEccCcEEEEEecchhheeeee
Confidence 46777799998776655543210 0012346666788999999999999999644
No 26
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=26.91 E-value=52 Score=19.04 Aligned_cols=19 Identities=16% Similarity=0.571 Sum_probs=16.5
Q ss_pred eCCeEEEEEcccCCccccc
Q 028765 170 KGGKLYICKAQAGDKRWFK 188 (204)
Q Consensus 170 ~~GkLYtl~a~a~ekRW~K 188 (204)
.+|+.|-.+..+++.+|.+
T Consensus 10 ~~g~~yy~n~~t~~s~W~~ 28 (31)
T cd00201 10 PDGRVYYYNHNTKETQWED 28 (31)
T ss_pred CCCCEEEEECCCCCEeCCC
Confidence 4589999999999999975
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=25.79 E-value=55 Score=19.87 Aligned_cols=15 Identities=40% Similarity=0.262 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHHh
Q 028765 52 VSRRLALTVLIGAAA 66 (204)
Q Consensus 52 ~~RR~aL~~~~~aaa 66 (204)
++||..|...+.+++
T Consensus 1 ~sRR~Flk~~~~~~a 15 (29)
T TIGR01409 1 LSRRDFLKGAAAAGA 15 (29)
T ss_pred CchhhhHHHHHHHHH
Confidence 378988877665543
No 28
>cd00216 PQQ_DH Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller.
Probab=25.54 E-value=75 Score=30.04 Aligned_cols=55 Identities=18% Similarity=0.226 Sum_probs=36.5
Q ss_pred cccccCCCceEEEEEEEe------cC------CC--CCCcceeEEEEEEeCCeEEEEEcccCCccccch
Q 028765 135 ILEASVRPPYYFLSVLTR------TA------DG--DEGGKHQLITATVKGGKLYICKAQAGDKRWFKG 189 (204)
Q Consensus 135 ll~a~~Gk~YY~lE~~~r------~a------dg--de~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~ 189 (204)
-||+++|+.=++++.... .+ +. -.++.+.++-+.-.+|+||-|.+.+++.+|...
T Consensus 260 Ald~~tG~~~W~~~~~~~~~~~~~~~s~p~~~~~~~~~g~~~~~V~~g~~~G~l~ald~~tG~~~W~~~ 328 (488)
T cd00216 260 ALDADTGKVKWFYQTTPHDLWDYDGPNQPSLADIKPKDGKPVPAIVHAPKNGFFYVLDRTTGKLISARP 328 (488)
T ss_pred EEcCCCCCEEEEeeCCCCCCcccccCCCCeEEeccccCCCeeEEEEEECCCceEEEEECCCCcEeeEeE
Confidence 466777988888764311 00 00 013445666666679999999999999999753
No 29
>PLN02729 PSII-Q subunit
Probab=24.29 E-value=48 Score=29.80 Aligned_cols=49 Identities=22% Similarity=0.352 Sum_probs=26.2
Q ss_pred eeeccccccccccccchhHHHHHHHHHHHHHhhccCCCccccccccccccc-CCC
Q 028765 35 IVCRAQKQAVQEDDGSAVSRRLALTVLIGAAAVGSKVSPADAAYGESANVF-GKP 88 (204)
Q Consensus 35 ~~c~a~~~~~~~~~~~~~~RR~aL~~~~~aaa~~~~~~pa~Aayge~Anvf-g~~ 88 (204)
+-|+-..+- +++....+||.+|.+++++.+.++- +.++.+|+-.|. |.|
T Consensus 35 ~l~~~~~~~--~~~~~~~~rr~~lgl~a~~l~~~s~---~~~~~A~~~~i~~~~P 84 (220)
T PLN02729 35 FLCKKAENF--QEDSFQTTRRLALGLASIALIGNSG---NGVSLAEDNGFWLDGP 84 (220)
T ss_pred Hhhhhhhhc--ccchhhhhHHHHHHHHHHHHhcchh---hhHHHhcccCceeCCC
Confidence 456555431 2234478999999777655443333 344555543343 444
No 30
>cd06469 p23_DYX1C1_like p23_like domain found in proteins similar to dyslexia susceptibility 1 (DYX1) candidate 1 (C1) protein, DYX1C1. The human gene encoding this protein is a positional candidate gene for developmental dyslexia (DD), it is located on 15q21.3 by the DYX1 DD susceptibility locus (15q15-21). Independent association studies have reported conflicting results. However, association of short-term memory, which plays a role in DD, with a variant within the DYX1C1 gene has been reported. Most proteins belonging to this group contain a C-terminal tetratricopeptide repeat (TPR) protein binding region.
Probab=22.79 E-value=2.5e+02 Score=19.22 Aligned_cols=37 Identities=14% Similarity=0.073 Sum_probs=26.5
Q ss_pred EEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccc
Q 028765 149 VLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFK 188 (204)
Q Consensus 149 ~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K 188 (204)
+..++++ .=..+=+++.+.+|+|-+.-......+|..
T Consensus 40 ~~~~l~~---~I~~e~~~~~~~~~~l~i~L~K~~~~~W~~ 76 (78)
T cd06469 40 FELDLAA---PIDDEKSSAKIGNGVLVFTLVKKEPGIWEA 76 (78)
T ss_pred EEEeCcc---cccccccEEEEeCCEEEEEEEeCCCCcccc
Confidence 3345665 235666899999999888777777778964
No 31
>PF04674 Phi_1: Phosphate-induced protein 1 conserved region; InterPro: IPR006766 This entry represents a family of conserved plant proteins. A conserved region in these proteins was identified in a phosphate-induced protein of unknown function [].
Probab=22.20 E-value=70 Score=29.45 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=18.8
Q ss_pred CCCCCceeecCCCeEEeccCCCcccc
Q 028765 89 KTNTDFLPYNGDGFKLSIPSKWNPSK 114 (204)
Q Consensus 89 k~~~gf~~y~~dGY~flyPsgW~~vk 114 (204)
.+-..|..+--.|=+||+|.=|+|..
T Consensus 241 ~tGaSyN~~G~~gRkfLlpa~wdP~t 266 (273)
T PF04674_consen 241 ATGASYNANGVNGRKFLLPALWDPET 266 (273)
T ss_pred CCCceeeccccCCceEEeecccCCCc
Confidence 34445555556789999999999853
No 32
>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=22.12 E-value=57 Score=23.73 Aligned_cols=14 Identities=36% Similarity=0.045 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHHHH
Q 028765 51 AVSRRLALTVLIGA 64 (204)
Q Consensus 51 ~~~RR~aL~~~~~a 64 (204)
..+||..|.+++++
T Consensus 8 ~~sRR~Flk~lg~~ 21 (66)
T TIGR02811 8 DPSRRDLLKGLGVG 21 (66)
T ss_pred CccHHHHHHHHHHH
Confidence 46899888765543
No 33
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=22.03 E-value=1.1e+02 Score=27.59 Aligned_cols=52 Identities=15% Similarity=0.287 Sum_probs=0.0
Q ss_pred ccccCCCceEEEEEEE-----------ecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccc
Q 028765 136 LEASVRPPYYFLSVLT-----------RTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFK 188 (204)
Q Consensus 136 l~a~~Gk~YY~lE~~~-----------r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K 188 (204)
||+++|+.-+.+++.- ....+.-...-.+. +.-.+|+||-|.+.+++.+|.+
T Consensus 84 ld~~tG~~~W~~~~~~~~~~~~~~~~~~~~~~~~v~~~~v~-v~~~~g~l~ald~~tG~~~W~~ 146 (394)
T PRK11138 84 LDADTGKEIWSVDLSEKDGWFSKNKSALLSGGVTVAGGKVY-IGSEKGQVYALNAEDGEVAWQT 146 (394)
T ss_pred EECCCCcEeeEEcCCCcccccccccccccccccEEECCEEE-EEcCCCEEEEEECCCCCCcccc
No 34
>PF10012 DUF2255: Uncharacterized protein conserved in bacteria (DUF2255); InterPro: IPR016888 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.70 E-value=2e+02 Score=23.31 Aligned_cols=44 Identities=16% Similarity=0.299 Sum_probs=32.6
Q ss_pred EEEEecCCCCCCcceeEEEEEEeCCeEEEEEcccCCccccchhh
Q 028765 148 SVLTRTADGDEGGKHQLITATVKGGKLYICKAQAGDKRWFKGTR 191 (204)
Q Consensus 148 E~~~r~adgde~~RH~L~tvtV~~GkLYtl~a~a~ekRW~K~~~ 191 (204)
++...-+||...++-.-|=+++.||.||+=...-.+.+|++.+.
T Consensus 13 ~iap~r~DG~t~~~p~~IW~V~vdd~lYVRs~~G~~s~Wy~~A~ 56 (116)
T PF10012_consen 13 HIAPFREDGKTLRTPTWIWVVRVDDDLYVRSYNGRNSRWYRAAL 56 (116)
T ss_pred EeccccCCCcccCCCeeEEEEEECCEEEEEecCCCcCHHHHHHh
Confidence 33334456544455567788889999999999999999998753
No 35
>PF10916 DUF2712: Protein of unknown function (DUF2712); InterPro: IPR020208 This entry represents a group of uncharacterised proteins.
Probab=21.33 E-value=5.2e+02 Score=22.03 Aligned_cols=93 Identities=23% Similarity=0.295 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhhccCCCcccccccccccccCCCCCCCCceeecCCCeEEeccCCCcccccccCCCceEEeccccccccc
Q 028765 55 RLALTVLIGAAAVGSKVSPADAAYGESANVFGKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNTN 134 (204)
Q Consensus 55 R~aL~~~~~aaa~~~~~~pa~Aayge~Anvfg~~k~~~gf~~y~~dGY~flyPsgW~~vke~~~pg~v~ry~D~ie~~eN 134 (204)
|.+|++++++. +++.++++.|+ ...=+|.|.+|..-. -..-|- ||+..-....+
T Consensus 10 ~~~~a~~~~~~-~~a~~~~~~As-------------------dn~i~F~F~i~~~~a----nsys~~--ryRqTt~t~n~ 63 (146)
T PF10916_consen 10 RLILAAAIGIS-VFAFVSHAAAS-------------------DNNIPFSFTIKPNQA----NSYSGS--RYRQTTSTNNP 63 (146)
T ss_pred HHHHHHHHHHH-HHhhhhhhhhc-------------------ccCCceEEEeCCccc----ccccCc--eeeccCCCCCc
Confidence 45555555444 33566666665 244589999987663 223332 33332222211
Q ss_pred ----cccccC-CCceEEEEEEEecCCCCCC--cceeEEEEEEeCCeEE
Q 028765 135 ----ILEASV-RPPYYFLSVLTRTADGDEG--GKHQLITATVKGGKLY 175 (204)
Q Consensus 135 ----ll~a~~-Gk~YY~lE~~~r~adgde~--~RH~L~tvtV~~GkLY 175 (204)
|-..+| -.+||+|=+.+ .+++.. ..-....|.-..|.-|
T Consensus 64 WKV~l~~StEGkGTi~tfwL~~--yn~~~~~~~~S~~~~v~qG~~~~Y 109 (146)
T PF10916_consen 64 WKVNLTYSTEGKGTIYTFWLGH--YNKNNGASKASKTHNVKQGSGYRY 109 (146)
T ss_pred cEEeccccccccceEEEEeeeh--ccCCCCccccceeEEeeecCCcee
Confidence 444455 45788776643 344333 2223344444446555
No 36
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=20.73 E-value=1.5e+02 Score=17.99 Aligned_cols=16 Identities=25% Similarity=0.773 Sum_probs=15.3
Q ss_pred CeEEEEEcccCCcccc
Q 028765 172 GKLYICKAQAGDKRWF 187 (204)
Q Consensus 172 GkLYtl~a~a~ekRW~ 187 (204)
|+.|=.+..+++..|.
T Consensus 14 g~~YY~N~~t~~s~W~ 29 (31)
T PF00397_consen 14 GRPYYYNHETGESQWE 29 (31)
T ss_dssp SEEEEEETTTTEEESS
T ss_pred CCEEEEeCCCCCEEeC
Confidence 9999999999999996
No 37
>PLN00092 photosystem I reaction center subunit V (PsaG); Provisional
Probab=20.50 E-value=1.4e+02 Score=25.01 Aligned_cols=63 Identities=24% Similarity=0.350 Sum_probs=30.6
Q ss_pred CCceeeeccccccccccccchhHHHHHHHHHHHHHhhccCCCccccc-----cccccc-ccCCCCCCCCce
Q 028765 31 KPTQIVCRAQKQAVQEDDGSAVSRRLALTVLIGAAAVGSKVSPADAA-----YGESAN-VFGKPKTNTDFL 95 (204)
Q Consensus 31 ~~~~~~c~a~~~~~~~~~~~~~~RR~aL~~~~~aaa~~~~~~pa~Aa-----yge~An-vfg~~k~~~gf~ 95 (204)
+...++|...+.+++.+..+...--..| ++++.++.....||.|. ++|.+. -||-..+.=||+
T Consensus 40 ~~g~v~Cs~e~k~~~~~~~~~~g~~asl--~Aaa~a~a~~a~PA~AlVDeRlsteGTGlplGlsn~~LgwI 108 (137)
T PLN00092 40 KKGRVRCSMEEKPSVQDKSSNMGMGASL--MAAACAVAMSASPAMALVDERMSTEGTGLPFGLSNNLLGWI 108 (137)
T ss_pred cCceeEEecccCccccccccccchhHHH--HHHHHHHHhhcCcHHHHHHHhhcCCCccccccccCcchhhH
Confidence 4457999995433332222222222222 23333344566888875 555555 345444333433
No 38
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=20.48 E-value=2e+02 Score=19.02 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=15.9
Q ss_pred EEEEEEEecCCCCCCcceeEEEEEE
Q 028765 145 YFLSVLTRTADGDEGGKHQLITATV 169 (204)
Q Consensus 145 Y~lE~~~r~adgde~~RH~L~tvtV 169 (204)
|+|++..+..+|+......-+.++|
T Consensus 41 Y~l~V~a~~~~~~~~~~~~~l~i~I 65 (66)
T PF07495_consen 41 YTLEVRAKDNNGKWSSDEKSLTITI 65 (66)
T ss_dssp EEEEEEEEETTS-B-SS-EEEEEEE
T ss_pred EEEEEEEECCCCCcCcccEEEEEEE
Confidence 8999999988876555545555554
No 39
>PRK10882 hydrogenase 2 protein HybA; Provisional
Probab=20.22 E-value=1.1e+02 Score=28.54 Aligned_cols=15 Identities=27% Similarity=0.224 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHHh
Q 028765 52 VSRRLALTVLIGAAA 66 (204)
Q Consensus 52 ~~RR~aL~~~~~aaa 66 (204)
++||..|.+++++++
T Consensus 1 ~~RR~fl~~~~~~~~ 15 (328)
T PRK10882 1 MNRRNFLKAASAGAL 15 (328)
T ss_pred CCHHHHHHHHHHHHH
Confidence 469989887655533
Done!