Query 025555
Match_columns 251
No_of_seqs 134 out of 212
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 07:02:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025555.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025555hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00066 PsbP domain-containin 100.0 3.7E-68 7.9E-73 481.1 20.0 238 11-250 12-253 (262)
2 PLN00067 PsbP domain-containin 100.0 5.3E-49 1.1E-53 354.4 18.3 197 39-250 41-258 (263)
3 PLN00042 photosystem II oxygen 100.0 7E-45 1.5E-49 328.1 17.9 195 20-249 30-253 (260)
4 PLN00059 PsbP domain-containin 100.0 1.2E-34 2.7E-39 262.0 15.7 138 87-249 107-278 (286)
5 PLN03152 hypothetical protein; 100.0 3.2E-33 7E-38 247.3 12.7 190 40-250 30-235 (241)
6 PF01789 PsbP: PsbP; InterPro 100.0 5E-32 1.1E-36 231.0 11.4 138 86-250 20-169 (175)
7 PF08786 DUF1795: Domain of un 97.1 0.0073 1.6E-07 48.8 10.0 114 113-247 3-124 (130)
8 PF10518 TAT_signal: TAT (twin 85.1 0.82 1.8E-05 28.0 2.1 19 41-59 2-20 (26)
9 COG5435 Uncharacterized conser 76.4 29 0.00062 29.9 9.3 106 112-237 9-123 (147)
10 PF07174 FAP: Fibronectin-atta 76.2 12 0.00026 35.4 7.5 22 109-130 116-137 (297)
11 PRK11615 hypothetical protein; 75.6 38 0.00083 30.1 10.1 109 111-238 49-167 (185)
12 PF14030 DUF4245: Protein of u 61.3 1.1E+02 0.0023 26.4 9.9 104 116-246 63-168 (169)
13 COG3212 Predicted membrane pro 60.5 29 0.00063 29.4 6.1 52 172-237 84-135 (144)
14 PF05757 PsbQ: Oxygen evolving 56.4 2.9 6.3E-05 37.5 -0.6 27 26-52 14-40 (202)
15 PF07009 DUF1312: Protein of u 53.7 40 0.00087 26.9 5.6 40 199-238 31-81 (113)
16 TIGR02811 formate_TAT formate 53.7 10 0.00022 28.2 1.9 13 39-51 7-19 (66)
17 smart00564 PQQ beta-propeller 52.4 18 0.00039 21.6 2.7 24 218-241 9-32 (33)
18 PF03991 Prion_octapep: Copper 50.4 7.5 0.00016 18.0 0.5 6 102-107 2-7 (8)
19 TIGR01409 TAT_signal_seq Tat ( 50.1 15 0.00032 22.7 2.0 18 41-58 1-18 (29)
20 PF10738 Lpp-LpqN: Probable li 43.4 2.2E+02 0.0049 24.8 9.3 108 111-235 32-151 (175)
21 PRK07459 single-stranded DNA-b 41.6 1E+02 0.0022 25.0 6.3 76 135-212 16-94 (121)
22 PRK08763 single-stranded DNA-b 37.3 1.3E+02 0.0027 26.1 6.5 47 166-214 55-103 (164)
23 PRK02888 nitrous-oxide reducta 36.0 51 0.0011 34.4 4.5 14 38-51 6-19 (635)
24 PF01011 PQQ: PQQ enzyme repea 34.8 25 0.00054 22.4 1.4 26 218-243 3-28 (38)
25 PF10399 UCR_Fe-S_N: Ubiquitin 34.1 33 0.00072 23.2 1.9 13 39-51 7-19 (41)
26 KOG4649 PQQ (pyrrolo-quinoline 34.1 45 0.00098 31.9 3.4 41 201-241 41-89 (354)
27 PRK09010 single-stranded DNA-b 31.5 1.6E+02 0.0035 25.7 6.3 45 166-212 57-103 (177)
28 cd06469 p23_DYX1C1_like p23_li 31.2 1.3E+02 0.0028 21.4 4.9 28 215-242 50-77 (78)
29 PRK06752 single-stranded DNA-b 30.4 1.7E+02 0.0036 23.1 5.8 45 166-212 50-96 (112)
30 COG4263 NosZ Nitrous oxide red 30.4 73 0.0016 32.6 4.4 82 38-127 7-108 (637)
31 KOG4141 DNA repair and recombi 29.9 50 0.0011 30.1 2.9 46 112-157 61-113 (222)
32 PF11396 DUF2874: Protein of u 29.9 1.2E+02 0.0025 20.8 4.3 35 173-212 9-44 (61)
33 PLN00064 photosystem II protei 29.5 55 0.0012 28.7 3.0 16 38-53 31-46 (166)
34 PF12712 DUF3805: Domain of un 28.2 3.9E+02 0.0085 23.1 10.3 97 111-235 10-113 (153)
35 PRK06958 single-stranded DNA-b 26.9 1.9E+02 0.0041 25.5 5.9 46 166-213 55-102 (182)
36 smart00456 WW Domain with 2 co 26.4 43 0.00092 20.3 1.3 19 224-242 12-30 (32)
37 PRK13033 formyl peptide recept 26.2 41 0.00089 27.7 1.5 25 190-214 85-111 (133)
38 PF09211 DUF1958: Domain of un 25.7 62 0.0013 24.2 2.3 39 192-230 3-46 (65)
39 PF12318 FAD-SLDH: Membrane bo 25.1 47 0.001 28.6 1.8 8 41-48 2-9 (168)
40 PF05137 PilN: Fimbrial assemb 25.1 71 0.0015 22.7 2.5 31 182-212 43-75 (78)
41 PF10657 RC-P840_PscD: Photosy 25.0 2.4E+02 0.0052 23.9 5.8 79 142-231 42-140 (144)
42 PRK07274 single-stranded DNA-b 24.5 2.5E+02 0.0054 22.9 5.9 44 166-212 50-95 (131)
43 PRK06751 single-stranded DNA-b 24.0 2.5E+02 0.0054 24.4 6.1 45 166-212 50-96 (173)
44 PF15495 Fimbrillin_C: Major f 23.5 1.7E+02 0.0036 22.4 4.4 33 201-233 5-44 (85)
45 PRK07275 single-stranded DNA-b 22.7 3.1E+02 0.0068 23.5 6.4 47 166-214 50-98 (162)
46 PF13964 Kelch_6: Kelch motif 22.4 87 0.0019 20.6 2.4 18 218-235 5-22 (50)
47 PLN00058 photosystem II reacti 22.3 82 0.0018 25.4 2.5 43 11-54 13-62 (103)
48 COG3350 Uncharacterized conser 21.8 61 0.0013 23.4 1.5 11 199-209 21-31 (53)
49 PRK10319 N-acetylmuramoyl-l-al 21.5 1.7E+02 0.0038 27.3 5.0 53 41-104 11-67 (287)
50 PF01344 Kelch_1: Kelch motif; 20.8 1.3E+02 0.0029 19.0 3.0 18 218-235 5-22 (47)
51 PRK05733 single-stranded DNA-b 20.6 3.8E+02 0.0082 23.3 6.6 44 166-212 56-101 (172)
52 COG1036 Archaeal flavoproteins 20.3 95 0.0021 27.6 2.7 58 113-181 128-185 (187)
53 PRK06341 single-stranded DNA-b 20.3 4.6E+02 0.0099 22.7 7.0 45 166-212 56-103 (166)
54 cd00201 WW Two conserved trypt 20.0 1E+02 0.0023 18.1 2.2 19 223-241 10-28 (31)
No 1
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=100.00 E-value=3.7e-68 Score=481.08 Aligned_cols=238 Identities=66% Similarity=1.073 Sum_probs=213.9
Q ss_pred cccccccccccccceeeee---ecCCCCCccccchhhHHHHHHHHHhhhhccCCCCcchhHHHhhhccCCCCCCCCCCCC
Q 025555 11 FLAQISSVENGISRVKAVA---CSTGSDSVDGVMKRRSVLVSGASLISSAVLGFPADGLAVVKQGLLAGRVPGLSEPDEQ 87 (251)
Q Consensus 11 ~~~~~~~~~~~~~~~~~v~---~~~~~~~~~~~~~RR~~L~~~~~~aa~~~~~~p~~~~~~a~~g~~a~~vpg~s~~~~~ 87 (251)
|....+.......+++... |..+.+++...++||.+|+++++++..+++++|+++.|+ +||++||||||+|+||++
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~-~~g~~ag~~~~~s~~~~~ 90 (262)
T PLN00066 12 LAPSRSSRVHSRPACTNRAVRIADEETEDVATAVSRRSALASGAAAASSAVLAFPGEGLAV-KQGLLAGRVPGLSEPDEN 90 (262)
T ss_pred hccccccccccccccccchhhhcchhhhhhcchhhHHHHHHHHHHHHhhhhhcCCcchhhh-hhcccccCCCCCCCcccc
Confidence 3333333333333443333 444556667899999999998888777788999988774 899999999999999999
Q ss_pred CceEEecCCCCCCCCCCCCccccceEEecCCCCcccccccccCCCCceeEEEeCCCCCcEEEEEEeeccccccCCCCCCc
Q 025555 88 GWRTYRRPDDKSGGHGVGWSPIIPYLFSVPQEWDEVPVSIADLGGTEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATI 167 (251)
Q Consensus 88 gf~~y~~p~~~~Gg~g~~~~~i~~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI 167 (251)
||++|++|+.+||||||||++|++|+|+||+||+|++|+++|++|+++|+||.|+.++||+|+|+|+.||+++++++++|
T Consensus 91 g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP~GW~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI 170 (262)
T PLN00066 91 GWRTYRRPEGKSGGHGVGWSEITPYSFKVPQGWEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATI 170 (262)
T ss_pred ceEEEecCccccCcCCCCccccCCeEEECCCCCeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCCh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999876789999
Q ss_pred cccCCHHHHHHhhCccccCccc-ccceeeeeeEEeCCeeeEEEEEcCCceEEEEEEeCCeEEEEEeecCCccccchhhhh
Q 025555 168 EKIGPPEKVINAFGPEVIGENV-EGKVLSMDVEELCGRKYYRYELEPPHVLITATAAGNRLYLFSVTGNGMVFYPTFCNI 246 (251)
Q Consensus 168 ~dLGspeev~~~l~~~l~g~~~-e~~ll~a~~~e~~G~tYY~yEl~~pH~L~saTV~~GkLYtl~v~a~e~rW~k~~~~L 246 (251)
+|||+||+|++.|+++++|.+. +++|+++++++++||+||+||| .+|+|++|||++||||||++++||+||+|++++|
T Consensus 171 ~dLGspeeVi~~l~~~v~g~~~~e~eLl~a~~re~dGktYY~~E~-~rH~LasaTV~~GrLYt~~asape~rW~k~~~~l 249 (262)
T PLN00066 171 EEIGPPEKVISGFGPELIGEPVEEGKVLSMEVAEHSGRTYYQFEL-PPHTLVTATAAGNRVYIFSVTANGLQWKRHYKDL 249 (262)
T ss_pred HHcCCHHHHHHHHHHHhcCCCccccceeEeeeeecCCcEEEEEEE-eCceEEEEEEECCEEEEEEeecchHhhHHHHHHH
Confidence 9999999999999999999998 7899999999999999999999 6899999999999999999999999999999999
Q ss_pred cccc
Q 025555 247 INAE 250 (251)
Q Consensus 247 r~a~ 250 (251)
++.+
T Consensus 250 r~v~ 253 (262)
T PLN00066 250 KRIA 253 (262)
T ss_pred HHHh
Confidence 9763
No 2
>PLN00067 PsbP domain-containing protein 6; Provisional
Probab=100.00 E-value=5.3e-49 Score=354.44 Aligned_cols=197 Identities=29% Similarity=0.530 Sum_probs=171.3
Q ss_pred ccchhhHHHHHHHHHhhhhccCCCCcchhHHHhhhccCCCCCCCCCCCCCceEEe-----cCCCCCCCCCCCCccccceE
Q 025555 39 GVMKRRSVLVSGASLISSAVLGFPADGLAVVKQGLLAGRVPGLSEPDEQGWRTYR-----RPDDKSGGHGVGWSPIIPYL 113 (251)
Q Consensus 39 ~~~~RR~~L~~~~~~aa~~~~~~p~~~~~~a~~g~~a~~vpg~s~~~~~gf~~y~-----~p~~~~Gg~g~~~~~i~~Y~ 113 (251)
....||++|.|++.....+.+..|...++.+..|.+.+..| +++||..|+ +|+.++| +|+||+
T Consensus 41 ~~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~lp~~~-----~~~~~~~f~~~~~~tpalra~-------~i~gY~ 108 (263)
T PLN00067 41 VVIHRRELLLGLALAPLILIAPEPPAEAREVEVGSYLPPSP-----SDPSFVLFKASPKDTPALRAG-------NVQPYQ 108 (263)
T ss_pred chhHHHHHHhhhhhhhhhhccCCchhhhheehhhcccCCCC-----CCCceEEEecCCCCCcccccC-------Ccccce
Confidence 35679999988776544444455555566778888875444 568999996 7789999 899999
Q ss_pred EecCCCCcccccccccCCC---------CceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccc
Q 025555 114 FSVPQEWDEVPVSIADLGG---------TEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEV 184 (251)
Q Consensus 114 F~~P~gW~ev~Vs~~d~~g---------~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l 184 (251)
|+||+||+|++|+++ .+| +|+|++|+|+.++||+|||+|+.|+++ +++++|+|||+||+|+++|++++
T Consensus 109 FlyP~gW~~v~Vs~~-~sGnycqp~c~~p~~dv~F~D~~dgnVSVIVSPV~r~t~--k~~~sIeDlGsPeeVl~~Lg~~v 185 (263)
T PLN00067 109 FILPPTWKQTRVANI-LSGNYCQPKCAEPWVEVKFEDEKQGKVQVVASPLIRLTN--KPNATIEEIGSPEKLIASLGPFV 185 (263)
T ss_pred EeCCCCCcCcccccc-ccCccccccccCCCceEEEeCCCCCCEEEEEeccccccc--CCCCChHHccCHHHHHHHhhHHh
Confidence 999999999999876 444 479999999999999999999999886 47899999999999999999999
Q ss_pred cCccc-ccceeeeeeEEeCCeeeEEEEEcCC------ceEEEEEEeCCeEEEEEeecCCccccchhhhhcccc
Q 025555 185 IGENV-EGKVLSMDVEELCGRKYYRYELEPP------HVLITATAAGNRLYLFSVTGNGMVFYPTFCNIINAE 250 (251)
Q Consensus 185 ~g~~~-e~~ll~a~~~e~~G~tYY~yEl~~p------H~L~saTV~~GkLYtl~v~a~e~rW~k~~~~Lr~a~ 250 (251)
+|.+. +++|++++++++|||+||+|||.+| |+|++|||++||||||++++||+||+|+++.|++.+
T Consensus 186 ~g~~~~~~eLLeAs~re~dGktYY~~E~~tp~a~~gRHnLataTV~~GkLYtf~asanEkRW~K~k~~l~~V~ 258 (263)
T PLN00067 186 TGNSYDPDELLETSVEKIGDQTYYKYVLETPFALTGSHNLAKATAKGNTVVLFVVSASDKQWQSSEKTLKAIL 258 (263)
T ss_pred hcCCCCCcceEEeeeEeeCCeEEEEEEEEecCCCCCceEEEEEEEECCEEEEEEecCCHHHHHHHHHHHHHHH
Confidence 99887 6799999999999999999999865 999999999999999999999999999999999763
No 3
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=100.00 E-value=7e-45 Score=328.13 Aligned_cols=195 Identities=25% Similarity=0.401 Sum_probs=162.3
Q ss_pred ccccceeeeeecCCCCCccccchhhHHHHHHHHHhhhhccCCCCcchhHHHhhhccCCCCCCCCCCCCCceEEecCCCCC
Q 025555 20 NGISRVKAVACSTGSDSVDGVMKRRSVLVSGASLISSAVLGFPADGLAVVKQGLLAGRVPGLSEPDEQGWRTYRRPDDKS 99 (251)
Q Consensus 20 ~~~~~~~~v~~~~~~~~~~~~~~RR~~L~~~~~~aa~~~~~~p~~~~~~a~~g~~a~~vpg~s~~~~~gf~~y~~p~~~~ 99 (251)
....+++++.|++|.++. ..++||.+|++++++++.+..+.|++ +++|+.| +|+|. +.++.||..|.+
T Consensus 30 ~~~~~~~~~~~~~~~~~~-~~~srr~~l~~~~ga~a~~~~~~pa~----aay~~~a-nvfg~-~k~~~gF~~y~~----- 97 (260)
T PLN00042 30 VSASRPSQVVCRAQEEDN-SAVSRRAALALLAGAAAAGAKVSPAN----AAYGESA-NVFGK-PKTNTGFLPYNG----- 97 (260)
T ss_pred cCCCCCcceeeecccccc-ccccHHHHHHHHHHHHHhhcccCchh----hhhcchh-hccCC-CCCCCCCeEeeC-----
Confidence 344578889999987644 45799999999988878778888887 7899999 99996 556899999973
Q ss_pred CCCCCCCccccceEEecCCCCcccccccccCCCCceeEEEeC--CCCCcEEEEEEeeccccccCCCCCCccccCCHHHHH
Q 025555 100 GGHGVGWSPIIPYLFSVPQEWDEVPVSIADLGGTEIDLRFAS--PKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVI 177 (251)
Q Consensus 100 Gg~g~~~~~i~~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d--~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~ 177 (251)
+ +|+|+||++|+++++ .++ +|+|++|+| +.++||+|+|+|+ ++++|+|||+|||++
T Consensus 98 d----------gY~FlyP~~W~~~ke--~~~--~G~dv~f~D~~~~~eNVSV~Ispt--------~k~sI~dlGsPee~l 155 (260)
T PLN00042 98 D----------GFKLLVPSKWNPSKE--REF--PGQVLRFEDNFDATSNLSVMVTPT--------DKKSITDYGSPEEFL 155 (260)
T ss_pred C----------CeEEecCCCCccccc--ccc--CCceEEeeccccccccEEEEEecC--------CcCCHhhcCCHHHHH
Confidence 1 499999999999888 344 466999999 6789999999999 458999999999977
Q ss_pred HhhCccccCcc----------------c-ccceeeeeeEEeCCeeeEEEEEcC---------CceEEEEEEeCCeEEEEE
Q 025555 178 NAFGPEVIGEN----------------V-EGKVLSMDVEELCGRKYYRYELEP---------PHVLITATAAGNRLYLFS 231 (251)
Q Consensus 178 ~~l~~~l~g~~----------------~-e~~ll~a~~~e~~G~tYY~yEl~~---------pH~L~saTV~~GkLYtl~ 231 (251)
+.++. ++|++ + +++|+++++++++|++||+|||.+ +|+||+|||++||||||+
T Consensus 156 ~~vgy-lL~kq~~a~~t~s~~Gf~p~~vata~Lleas~re~dGk~YY~lE~~~~~ad~d~~~RH~LatatV~~GkLYtl~ 234 (260)
T PLN00042 156 SKVSY-LLGKQAYSGETASEGGFDANAVATAAVLESSTQEVGGKPYYYLSVLTRTADGDEGGKHQLITATVSDGKLYICK 234 (260)
T ss_pred HHHHH-HHHhhhccCccccccCcCcccccceeEEEeeeEEeCCeEEEEEEEEEecCCCCCCCceEEEEEEEECCEEEEEE
Confidence 77643 33321 1 358999999999999999999952 399999999999999999
Q ss_pred eecCCccccch-hhhhccc
Q 025555 232 VTGNGMVFYPT-FCNIINA 249 (251)
Q Consensus 232 v~a~e~rW~k~-~~~Lr~a 249 (251)
+++||+||+|+ ++.|+.+
T Consensus 235 aqa~EkRW~K~~~k~l~~v 253 (260)
T PLN00042 235 AQAGDKRWFKGARKFVEGA 253 (260)
T ss_pred ecCchhhhhHHHHHHHHHH
Confidence 99999999998 5567765
No 4
>PLN00059 PsbP domain-containing protein 1; Provisional
Probab=100.00 E-value=1.2e-34 Score=262.00 Aligned_cols=138 Identities=23% Similarity=0.315 Sum_probs=120.6
Q ss_pred CCceEEecCCCCCCCCCCCCccccceEEecCCCCcccccccccCCCCceeEEEeC--CCCCcEEEEEEeeccccccCCCC
Q 025555 87 QGWRTYRRPDDKSGGHGVGWSPIIPYLFSVPQEWDEVPVSIADLGGTEIDLRFAS--PKKGRLFVIVAPVLRFADDLGDD 164 (251)
Q Consensus 87 ~gf~~y~~p~~~~Gg~g~~~~~i~~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d--~~~~~vsVvv~p~~rl~~~~~~~ 164 (251)
+||+.|.++.+ +|+|+||.||.++..+ |.|+.|+| +.+|||+|+|+|+.. .+.
T Consensus 107 ~~l~~y~D~~D-------------GY~FlYP~GWi~V~~~-------G~DVvFrD~Ie~~ENVSV~ISs~ss-----s~~ 161 (286)
T PLN00059 107 PVFREYIDTFD-------------GYSFKYPQNWIQVRGA-------GADIFFRDPVVLDENLSVEFSSPSS-----SKY 161 (286)
T ss_pred cccceeEcCCC-------------CeEEeCCCCCeEeccC-------CCceEEeccCccccceEEEEecCCc-----ccC
Confidence 58999997643 4999999999999953 56999999 788999999998831 146
Q ss_pred CCccccCCHHHHHHhhCccccCcc--------cccceeeeeeEEe-CCeeeEEEEEc-----------------------
Q 025555 165 ATIEKIGPPEKVINAFGPEVIGEN--------VEGKVLSMDVEEL-CGRKYYRYELE----------------------- 212 (251)
Q Consensus 165 ~sI~dLGspeev~~~l~~~l~g~~--------~e~~ll~a~~~e~-~G~tYY~yEl~----------------------- 212 (251)
++|+|||+|++|+++|+..+++++ .+++|+++++|+. ||++||+|||.
T Consensus 162 ~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~~~qdr~~~~~w 241 (286)
T PLN00059 162 TSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEW 241 (286)
T ss_pred CChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCccccccccccccccccccc
Confidence 999999999999999998888763 3689999998865 99999999995
Q ss_pred CCceEEEEEEeCCeEEEEEeecCCccccchhhhhccc
Q 025555 213 PPHVLITATAAGNRLYLFSVTGNGMVFYPTFCNIINA 249 (251)
Q Consensus 213 ~pH~L~saTV~~GkLYtl~v~a~e~rW~k~~~~Lr~a 249 (251)
.+|+|++++|.+||||+|.+++||+||.|++++|+.-
T Consensus 242 ~RH~LA~v~V~nGkLYTL~~qtpE~RW~kvk~~f~~V 278 (286)
T PLN00059 242 NRRYLAVLGVENDRLYSIRLQTPEKVFLEEEKDLRRV 278 (286)
T ss_pred ceeeEEEEEEeCCEEEEEEcCCcHHHHHHHHHHHHHH
Confidence 2399999999999999999999999999999999864
No 5
>PLN03152 hypothetical protein; Provisional
Probab=100.00 E-value=3.2e-33 Score=247.26 Aligned_cols=190 Identities=21% Similarity=0.314 Sum_probs=144.3
Q ss_pred cchhhHHHHHHHHHhhhhccCCCCcchhHHHhhhccCCCCCCC-CCCCCCceEEecCCCCCCCCCCCCccccceEEecCC
Q 025555 40 VMKRRSVLVSGASLISSAVLGFPADGLAVVKQGLLAGRVPGLS-EPDEQGWRTYRRPDDKSGGHGVGWSPIIPYLFSVPQ 118 (251)
Q Consensus 40 ~~~RR~~L~~~~~~aa~~~~~~p~~~~~~a~~g~~a~~vpg~s-~~~~~gf~~y~~p~~~~Gg~g~~~~~i~~Y~F~~P~ 118 (251)
..+||.++.-.+.+++.+..+-+.-+.+.+.. .-..-|.++ -.+.+.|..|++. +|++.||+
T Consensus 30 ~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~nt~~w~~~~g~---------------gf~~~~pp 92 (241)
T PLN03152 30 GASRRDFILHTASLCASSLAAQNPLPPSLADP--SKPSKPLLSGIANTKSWFQFYGD---------------GFSIRVPP 92 (241)
T ss_pred cccccceeeehhHHHHhhhhcCCCCCccccCC--CCCCCchheeeecchhhhhhhCC---------------ceEEeCCC
Confidence 45799998877766655333221111111111 111223343 2556778888743 59999999
Q ss_pred CCcccccccccC-CC----------CceeEEEeC-CCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccC
Q 025555 119 EWDEVPVSIADL-GG----------TEIDLRFAS-PKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIG 186 (251)
Q Consensus 119 gW~ev~Vs~~d~-~g----------~g~D~rF~d-~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g 186 (251)
.|+++.+.. |+ .| ..+.+||.+ +.+|+|||+|+|+.+|+++|.++++|+|||+|+||++.|+|. |
T Consensus 93 ~f~di~e~~-~~~~g~~~yg~~akp~~~~aRf~s~D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~vP~--g 169 (241)
T PLN03152 93 SFEDIMEPE-DYNAGLSLYGDKAKPRTFAARFASPDGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFVPG--G 169 (241)
T ss_pred ChhhhcChh-hcccccceecCCCCCcceeeeecCCCCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhCCC--c
Confidence 999998852 33 12 467899999 668999999999999999988999999999999999999875 4
Q ss_pred ccc-ccceeeeeeEEeCCeeeEEEEEcCC--ceEEEEEEeCCeEEEEEeecCCccccchhhhhcccc
Q 025555 187 ENV-EGKVLSMDVEELCGRKYYRYELEPP--HVLITATAAGNRLYLFSVTGNGMVFYPTFCNIINAE 250 (251)
Q Consensus 187 ~~~-e~~ll~a~~~e~~G~tYY~yEl~~p--H~L~saTV~~GkLYtl~v~a~e~rW~k~~~~Lr~a~ 250 (251)
..+ .+++++.+ +|.+||+||+|||... |+|++|||++||||||.++++|+||+|++++|++|+
T Consensus 170 ~~~~saR~iel~-~E~dGKtYY~lEy~v~~RH~LaTVaVsrGKLYTl~aSt~EkRW~Kvk~kfr~aa 235 (241)
T PLN03152 170 ATLYSARTIKVK-EEEGIRTYYFYEFGRDEQHVALVATVNSGKAYIAGATAPESKWDDDGVKLRSAA 235 (241)
T ss_pred ccccccceeeee-eecCCceeEEEEEEeCCcEEEEEEEEcCCeEEEEecCCchhchHHHHHHHHHHH
Confidence 333 45666664 4999999999999754 999999999999999999999999999999999984
No 6
>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=99.97 E-value=5e-32 Score=231.03 Aligned_cols=138 Identities=28% Similarity=0.483 Sum_probs=119.2
Q ss_pred CCCceEEecCCCCCCCCCCCCccccceEEecCCCCcccccccccCCCCceeEEEeCC--CCCcEEEEEEeeccccccCCC
Q 025555 86 EQGWRTYRRPDDKSGGHGVGWSPIIPYLFSVPQEWDEVPVSIADLGGTEIDLRFASP--KKGRLFVIVAPVLRFADDLGD 163 (251)
Q Consensus 86 ~~gf~~y~~p~~~~Gg~g~~~~~i~~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~--~~~~vsVvv~p~~rl~~~~~~ 163 (251)
..||++|.++.. +|+|+||.||+++.+. |.|++|+|+ .++||+|+|.|+. .
T Consensus 20 ~~~~~~y~d~~~-------------~y~f~~P~gW~~~~~~-------G~~v~f~d~~~~~~nvsV~v~p~~-------~ 72 (175)
T PF01789_consen 20 STGFQPYTDSDD-------------GYSFLYPSGWEEVDVS-------GADVVFRDPIDADENVSVVVSPVP-------K 72 (175)
T ss_dssp -SSEEEEEECTT-------------TEEEEEETTEEEEEST-------TEEEEEEETTETTSEEEEEEEE-S-------T
T ss_pred CCCceEEEcCCC-------------CEEEECCCCCeecCCC-------CeEEEEECcccccceEEEEEEecC-------C
Confidence 489999997643 5999999999888873 569999995 5789999999994 3
Q ss_pred CCCccccCCHHHHHHhhCccccCccc---ccceeeeeeEEeCCeeeEEEEEcC-------CceEEEEEEeCCeEEEEEee
Q 025555 164 DATIEKIGPPEKVINAFGPEVIGENV---EGKVLSMDVEELCGRKYYRYELEP-------PHVLITATAAGNRLYLFSVT 233 (251)
Q Consensus 164 ~~sI~dLGspeev~~~l~~~l~g~~~---e~~ll~a~~~e~~G~tYY~yEl~~-------pH~L~saTV~~GkLYtl~v~ 233 (251)
+++|+|||+|++|++.|++.+++.+. +++++++++++.+|++||+|||.. +|+|+++||.+||||+|+++
T Consensus 73 ~~sl~~lGs~~~va~~l~~~~~~~~~~~~~a~li~a~~~~~~g~~yY~~Ey~~~~~~~~~rh~l~~~tv~~g~lY~l~~~ 152 (175)
T PF01789_consen 73 DFSLEDLGSPEEVAERLLNGELASPGSGREAELISASEREVDGKTYYEYEYTVQSPNEGRRHNLAVVTVKNGKLYTLTAQ 152 (175)
T ss_dssp S-SGGGG-SHHHHHHHHHHHCCCHCTSSEEEEEEEEEEEEETTEEEEEEEEEEEETTEEEEEEEEEEEEETTEEEEEEEE
T ss_pred cCchhhcCCHHHHHHHHhhhhcccccCCcceEEEEeeeeecCCccEEEEEEEeccCCCcccEEEEEEEEECCEEEEEEEE
Confidence 34999999999999999998887765 579999999999999999999962 29999999999999999999
Q ss_pred cCCccccchhhhhcccc
Q 025555 234 GNGMVFYPTFCNIINAE 250 (251)
Q Consensus 234 a~e~rW~k~~~~Lr~a~ 250 (251)
++|+||.|++++|++++
T Consensus 153 a~e~~w~k~~~~l~~iv 169 (175)
T PF01789_consen 153 APESRWDKVEPKLRKIV 169 (175)
T ss_dssp EEHHHHHTCHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHH
Confidence 99999999999999864
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=97.05 E-value=0.0073 Score=48.76 Aligned_cols=114 Identities=15% Similarity=0.199 Sum_probs=71.1
Q ss_pred EEecCCCCcccccccccCCCCceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCcccc-c
Q 025555 113 LFSVPQEWDEVPVSIADLGGTEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENVE-G 191 (251)
Q Consensus 113 ~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~e-~ 191 (251)
+|.+|.+|++..+. .+++.|+.....+++|+--. +.++.+++++ .+.-++.+ -..+. =
T Consensus 3 ~~~lP~~~~D~t~n---------v~~~~~~~~~~~slvIsR~~-----l~~g~tl~~~--~~~q~~~l-----~~~l~~~ 61 (130)
T PF08786_consen 3 SLTLPDGWQDRTMN---------VLVLPDSGGSGPSLVISRDP-----LPDGETLEDY--LQRQLAQL-----RKQLPGF 61 (130)
T ss_dssp EEEEETTSEE--BE---------EEEE--BTTB-EEEEEEEE--------TTS-HHHH--HHHHHHHH-----HCCSTT-
T ss_pred eEeCCCcceeceEE---------EEEccCCCCCcceEEEEecc-----CCCCCCHHHH--HHHHHHHH-----HhhCCCc
Confidence 68899999999985 47888876656677764321 1234444443 33333333 22332 2
Q ss_pred ceeeeeeEEeCCeeeEEEEEc--C---C-ceEEEEEEeC-CeEEEEEeecCCccccchhhhhc
Q 025555 192 KVLSMDVEELCGRKYYRYELE--P---P-HVLITATAAG-NRLYLFSVTGNGMVFYPTFCNII 247 (251)
Q Consensus 192 ~ll~a~~~e~~G~tYY~yEl~--~---p-H~L~saTV~~-GkLYtl~v~a~e~rW~k~~~~Lr 247 (251)
++++.+..+.+|++-+.+|+. . + |+...+...+ +++|+|+.+++.......+..+.
T Consensus 62 ~~~~~~~~~l~~~~a~~l~~~~~~~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~~~~~~ 124 (130)
T PF08786_consen 62 QLVERQPITLGGRPARELEYSFRSGGQPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQRAHWE 124 (130)
T ss_dssp EEEEEEEEEETTEEEEEEEEEEEETTCEEEEEEEEEEEC-CCEEEEEEEEECCCHHHHHHHHH
T ss_pred EEEeeEEEEeCCCCeEEEEEEEeeCCEEEEEEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHH
Confidence 666777778888888777764 1 2 8888888888 99999999999887766665543
No 8
>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=85.09 E-value=0.82 Score=28.00 Aligned_cols=19 Identities=37% Similarity=0.564 Sum_probs=13.5
Q ss_pred chhhHHHHHHHHHhhhhcc
Q 025555 41 MKRRSVLVSGASLISSAVL 59 (251)
Q Consensus 41 ~~RR~~L~~~~~~aa~~~~ 59 (251)
++||++|.+.+++++.+.+
T Consensus 2 ~sRR~fLk~~~a~~a~~~~ 20 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAAAAL 20 (26)
T ss_pred CcHHHHHHHHHHHHHHHHh
Confidence 6899999987765554333
No 9
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=76.43 E-value=29 Score=29.86 Aligned_cols=106 Identities=13% Similarity=0.211 Sum_probs=63.6
Q ss_pred eEEecCCCCcccccccccCCCCceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCccccc
Q 025555 112 YLFSVPQEWDEVPVSIADLGGTEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENVEG 191 (251)
Q Consensus 112 Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~e~ 191 (251)
=.|.+|..|++..|. ...+.++.+..++.+|+--. +.......+| -++-+..+-+.|=|-
T Consensus 9 G~l~lP~~w~DrSvN---------vf~~~~~gt~~~sfvIsRd~-----~~~g~~~~~y--~~rql~~l~k~Lpgy---- 68 (147)
T COG5435 9 GTLELPAAWQDRSVN---------VFVSGDNGTSGFSFVISRDP-----LEPGDTFPEY--VQRQLALLRKQLPGY---- 68 (147)
T ss_pred eeEcCcchhccceEE---------EEEecCCCcceeEEEEecCC-----CCCCCcHHHH--HHHHHHHHHhhCCCe----
Confidence 368999999999985 36777777777888885331 1233443333 223333332222222
Q ss_pred ceeeeeeEEeCCe----eeEEEEE---cCC--ceEEEEEEeCCeEEEEEeecCCc
Q 025555 192 KVLSMDVEELCGR----KYYRYEL---EPP--HVLITATAAGNRLYLFSVTGNGM 237 (251)
Q Consensus 192 ~ll~a~~~e~~G~----tYY~yEl---~~p--H~L~saTV~~GkLYtl~v~a~e~ 237 (251)
++..-.+-+++|+ .+|.+-. ..+ |++....-.+.++-||+.+++..
T Consensus 69 ~~~~~~e~~v~~~aa~~~~y~w~~~~~~~r~v~q~~~~i~~g~~vLifT~Tt~~~ 123 (147)
T COG5435 69 ELHHRREIEVGGAAAPLLDYQWTSPEGEQRRVQQRQVFIERGDTVLIFTLTTPGE 123 (147)
T ss_pred EEeeccccccCccccceeEEEeecCCCCCceEEEEEeecccCCeEEEEEecCCCC
Confidence 3333334566663 5666666 222 77777777788888888887653
No 10
>PF07174 FAP: Fibronectin-attachment protein (FAP); InterPro: IPR010801 This family contains bacterial fibronectin-attachment proteins (FAP). Family members are rich in alanine and proline, are approximately 300 long, and seem to be restricted to mycobacteria. These proteins contain a fibronectin-binding motif that allows mycobacteria to bind to fibronectin in the extracellular matrix [].; GO: 0050840 extracellular matrix binding, 0005576 extracellular region
Probab=76.24 E-value=12 Score=35.35 Aligned_cols=22 Identities=27% Similarity=0.410 Sum_probs=16.7
Q ss_pred ccceEEecCCCCcccccccccC
Q 025555 109 IIPYLFSVPQEWDEVPVSIADL 130 (251)
Q Consensus 109 i~~Y~F~~P~gW~ev~Vs~~d~ 130 (251)
+.+|+|.||.||++..-+.-++
T Consensus 116 ~gGFS~vvP~GW~~Sda~~L~y 137 (297)
T PF07174_consen 116 AGGFSYVVPAGWVESDASHLDY 137 (297)
T ss_pred ccceEEeccCCccccccceeec
Confidence 4489999999999877654333
No 11
>PRK11615 hypothetical protein; Provisional
Probab=75.65 E-value=38 Score=30.12 Aligned_cols=109 Identities=17% Similarity=0.140 Sum_probs=63.3
Q ss_pred ceEEecCCCCcccccccccCCCCceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCccc-
Q 025555 111 PYLFSVPQEWDEVPVSIADLGGTEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENV- 189 (251)
Q Consensus 111 ~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~- 189 (251)
..+|.+|.|+.+..-. ....++. --+|.|+....+ |||++- |+ +=++ ++....+| ...+-
T Consensus 49 Kl~FtLPag~sdqsgk-~Gtq~nn-~~vYad~tg~ka-vIVi~g--------D~-~~~~---Ld~la~rl----~~qQr~ 109 (185)
T PRK11615 49 KLSFTLPADMSDQSGK-LGTQANN-MHVYADATGQKA-VIVILG--------DD-TNED---LAVLAKRL----EDQQRS 109 (185)
T ss_pred EEEEEcCCcccccccc-ccccccc-eEEEEcCCCCEE-EEEEeC--------CC-Chhh---HHHHHHHH----HHHHHh
Confidence 7999999999966432 1111122 367888555543 333321 21 1111 23333444 22221
Q ss_pred -cc--ceeeeeeEEeCCeeeEEEEEcC--C----ceEEEEEEeCCeEEEEEeecCCcc
Q 025555 190 -EG--KVLSMDVEELCGRKYYRYELEP--P----HVLITATAAGNRLYLFSVTGNGMV 238 (251)
Q Consensus 190 -e~--~ll~a~~~e~~G~tYY~yEl~~--p----H~L~saTV~~GkLYtl~v~a~e~r 238 (251)
.+ .++.-+.-+++|+..++++-.. . -+=+..+..++||-++-++.|..-
T Consensus 110 rdp~lqvvsnK~i~i~G~~~qQLDS~~t~~Gqk~~SSvvL~~v~~rl~tlQitlpA~n 167 (185)
T PRK11615 110 RDPQLQVVTNKAIELKGHKLQQLDSIISAKGQTAYSSVVLGKVDNQLLTMQITLPADN 167 (185)
T ss_pred hCcCceeecceeEEECCeeeEEeeeeeecCCceEEEEEEEEeeCCeEEEEEEecCCCC
Confidence 12 4555566678999999998642 1 344556778999999999888653
No 12
>PF14030 DUF4245: Protein of unknown function (DUF4245)
Probab=61.29 E-value=1.1e+02 Score=26.38 Aligned_cols=104 Identities=13% Similarity=0.238 Sum_probs=63.2
Q ss_pred cCCCCcccccccccCCC-CceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCccccccee
Q 025555 116 VPQEWDEVPVSIADLGG-TEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENVEGKVL 194 (251)
Q Consensus 116 ~P~gW~ev~Vs~~d~~g-~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~e~~ll 194 (251)
+|++|+.....-...+| ....+-|..+++.=+++.-+.. +.++++..+. +.. -
T Consensus 63 lP~gW~~nSar~~~~~g~~~w~vG~vt~~~~yv~l~Qs~~-----------------~~~~~v~~~~----~~~-----~ 116 (169)
T PF14030_consen 63 LPEGWKANSARRQGVGGVPAWHVGYVTPDGQYVQLTQSDA-----------------PEDTWVASVT----GNA-----R 116 (169)
T ss_pred CCCCceeeeEEecCCCCcceEEEEEEcCCCCEEEEEEcCC-----------------CHHHHHHHhh----CCC-----C
Confidence 78999998886444444 5667888888877666654322 4566666552 222 1
Q ss_pred eeeeEEeCCeeeEEEEEc-CCceEEEEEEeCCeEEEEEeecCCccccchhhhh
Q 025555 195 SMDVEELCGRKYYRYELE-PPHVLITATAAGNRLYLFSVTGNGMVFYPTFCNI 246 (251)
Q Consensus 195 ~a~~~e~~G~tYY~yEl~-~pH~L~saTV~~GkLYtl~v~a~e~rW~k~~~~L 246 (251)
...+++++|++.=.|+=. ..|....... ++--.++.-++++.+..+....|
T Consensus 117 ~~gt~~i~G~~W~~y~~~~~~~~a~v~~~-~~~t~vVtG~A~~~el~~lA~al 168 (169)
T PF14030_consen 117 ETGTRTIGGRTWQVYEGPDDGRDAWVRDL-GDVTVVVTGTASDEELETLAAAL 168 (169)
T ss_pred CCccEEECCEEEEEEECCCCCcEEEEEec-CCcEEEEEecCCHHHHHHHHHhc
Confidence 166788999988888775 2333333333 55555555666666555544433
No 13
>COG3212 Predicted membrane protein [Function unknown]
Probab=60.50 E-value=29 Score=29.37 Aligned_cols=52 Identities=23% Similarity=0.233 Sum_probs=36.7
Q ss_pred CHHHHHHhhCccccCcccccceeeeeeEEeCCeeeEEEEEcCCceEEEEEEeCCeEEEEEeecCCc
Q 025555 172 PPEKVINAFGPEVIGENVEGKVLSMDVEELCGRKYYRYELEPPHVLITATAAGNRLYLFSVTGNGM 237 (251)
Q Consensus 172 speev~~~l~~~l~g~~~e~~ll~a~~~e~~G~tYY~yEl~~pH~L~saTV~~GkLYtl~v~a~e~ 237 (251)
|++++.+....++- +++.+.+-.+.+|+.+|..|+.. .+|+-|.+.+-|..-
T Consensus 84 s~~ea~~iAl~~~~-----G~v~dieLe~~~g~~vYevei~~---------~d~~e~ev~iDA~TG 135 (144)
T COG3212 84 SLEEAKEIALKRVP-----GKVDDIELEEDNGRLVYEVEIVK---------DDGQEYEVEIDAKTG 135 (144)
T ss_pred CHHHHHHHHHHHCC-----CceeEEEEeccCCEEEEEEEEEe---------CCCcEEEEEEecCCC
Confidence 56776665533333 46777777888999999999962 258888888776543
No 14
>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=56.41 E-value=2.9 Score=37.46 Aligned_cols=27 Identities=22% Similarity=0.197 Sum_probs=0.0
Q ss_pred eeeeecCCCCCccccchhhHHHHHHHH
Q 025555 26 KAVACSTGSDSVDGVMKRRSVLVSGAS 52 (251)
Q Consensus 26 ~~v~~~~~~~~~~~~~~RR~~L~~~~~ 52 (251)
..+.|+++....+...+||.+|.++++
T Consensus 14 ~~~~vra~~~~~~~~~~RRa~l~~l~a 40 (202)
T PF05757_consen 14 AGVVVRASQSPAQQQTSRRAVLGSLLA 40 (202)
T ss_dssp ---------------------------
T ss_pred ccceeccccCcccccccHHHHHHHHHH
Confidence 345577765444556789998874443
No 15
>PF07009 DUF1312: Protein of unknown function (DUF1312); InterPro: IPR010739 This family consists of several bacterial proteins of around 120 residues in length. The function of this family is unknown.; PDB: 4ESN_B 1NPP_B 1M1G_D 1NPR_A 1M1H_A 2KPP_A 3LD7_C.
Probab=53.70 E-value=40 Score=26.89 Aligned_cols=40 Identities=10% Similarity=0.056 Sum_probs=31.3
Q ss_pred EEeCCeeeEEEEEcC-----------CceEEEEEEeCCeEEEEEeecCCcc
Q 025555 199 EELCGRKYYRYELEP-----------PHVLITATAAGNRLYLFSVTGNGMV 238 (251)
Q Consensus 199 ~e~~G~tYY~yEl~~-----------pH~L~saTV~~GkLYtl~v~a~e~r 238 (251)
-..+|+.|+.|.|.. +.-..++-+.+|+++.....+|++-
T Consensus 31 I~~~g~~~~~i~L~~~~~~~~i~i~~~~g~~~i~i~~g~vrv~~s~Cpdki 81 (113)
T PF07009_consen 31 IYVDGKEVKRIPLDKVNEDKTIEIDGDGGYNTIEIKDGKVRVIESDCPDKI 81 (113)
T ss_dssp EEETTEEEEEEETTS-BSEEEEEEETTTCEEEEEEETTEEEEEEESTSS-H
T ss_pred EEECCEEEEEEECCCCCCCEEEEEecCCcEEEEEEECCEEEEEECCCCCcc
Confidence 356889988887654 2556788899999999999999874
No 16
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=53.66 E-value=10 Score=28.17 Aligned_cols=13 Identities=23% Similarity=0.151 Sum_probs=9.9
Q ss_pred ccchhhHHHHHHH
Q 025555 39 GVMKRRSVLVSGA 51 (251)
Q Consensus 39 ~~~~RR~~L~~~~ 51 (251)
...+||.+|.+++
T Consensus 7 ~~~sRR~Flk~lg 19 (66)
T TIGR02811 7 ADPSRRDLLKGLG 19 (66)
T ss_pred CCccHHHHHHHHH
Confidence 4568999998654
No 17
>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=52.41 E-value=18 Score=21.65 Aligned_cols=24 Identities=8% Similarity=0.236 Sum_probs=19.6
Q ss_pred EEEEEeCCeEEEEEeecCCccccc
Q 025555 218 ITATAAGNRLYLFSVTGNGMVFYP 241 (251)
Q Consensus 218 ~saTV~~GkLYtl~v~a~e~rW~k 241 (251)
+-++-.+|+||.+.+...+.+|..
T Consensus 9 v~~~~~~g~l~a~d~~~G~~~W~~ 32 (33)
T smart00564 9 VYVGSTDGTLYALDAKTGEILWTY 32 (33)
T ss_pred EEEEcCCCEEEEEEcccCcEEEEc
Confidence 334557899999999999999974
No 18
>PF03991 Prion_octapep: Copper binding octapeptide repeat; InterPro: IPR020949 Prion protein (PrP-c) [, , ] is a small glycoprotein found in high quantity in the brain of animals infected with certain degenerative neurological diseases, such as sheep scrapie and bovine spongiform encephalopathy (BSE), and the human dementias Creutzfeldt-Jacob disease (CJD) and Gerstmann-Straussler syndrome (GSS). PrP-c is encoded in the host genome and is expressed both in normal and infected cells. During infection, however, the PrP-c molecule become altered (conformationally rather than at the amino acid level) to an abnormal isoform, PrP-sc. In detergent-treated brain extracts from infected individuals, fibrils composed of polymers of PrP-sc, namely scrapie-associated fibrils or prion rods, can be evidenced by electron microscopy. The precise function of the normal PrP isoform in healthy individuals remains unknown. Several results, mainly obtained in transgenic animals, indicate that PrP-c might play a role in long-term potentiation, in sleep physiology, in oxidative burst compensation (PrP can fix four Cu2+ through its octarepeat domain), in interactions with the extracellular matrix (PrP-c can bind to the precursor of the laminin receptor, LRP), in apoptosis and in signal transduction (costimulation of PrP-c induces a modulation of Fyn kinase phosphorylation) []. The normal isoform, PrP-c, is anchored at the cell membrane, in rafts, through a glycosyl phosphatidyl inositol (GPI); its half-life at the cell surface is 5 h, after which the protein is internalised through a caveolae-dependent mechanism and degraded in the endolysosome compartment. Conversion between PrP-c and PrP-sc occurs likely during the internalisation process. This repeat is found at the amino terminus of mammalian prion proteins. It has been shown to bind to copper [].
Probab=50.43 E-value=7.5 Score=17.95 Aligned_cols=6 Identities=67% Similarity=1.692 Sum_probs=4.4
Q ss_pred CCCCCc
Q 025555 102 HGVGWS 107 (251)
Q Consensus 102 ~g~~~~ 107 (251)
||+||-
T Consensus 2 hgG~Wg 7 (8)
T PF03991_consen 2 HGGGWG 7 (8)
T ss_pred CCCcCC
Confidence 678884
No 19
>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=50.09 E-value=15 Score=22.72 Aligned_cols=18 Identities=28% Similarity=0.283 Sum_probs=12.1
Q ss_pred chhhHHHHHHHHHhhhhc
Q 025555 41 MKRRSVLVSGASLISSAV 58 (251)
Q Consensus 41 ~~RR~~L~~~~~~aa~~~ 58 (251)
++||.+|...+.+++.+.
T Consensus 1 ~sRR~Flk~~~~~~a~~~ 18 (29)
T TIGR01409 1 LSRRDFLKGAAAAGAAAG 18 (29)
T ss_pred CchhhhHHHHHHHHHHHh
Confidence 479999987765444433
No 20
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=43.35 E-value=2.2e+02 Score=24.77 Aligned_cols=108 Identities=15% Similarity=0.188 Sum_probs=53.9
Q ss_pred ceEEecCCCCcccccccccCCCCceeEEEeC---CCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCc
Q 025555 111 PYLFSVPQEWDEVPVSIADLGGTEIDLRFAS---PKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGE 187 (251)
Q Consensus 111 ~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d---~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~ 187 (251)
.-++-.|+||+...-.+ ....-..+.... ...-|..|+|..+.. +| +|+|+++.- +.-+ .
T Consensus 32 ~v~lP~P~GW~~~~~~~--~~~a~~vi~~~~~~~~~~Pnavv~V~kL~G---~~----------Dp~e~l~~a-~~d~-~ 94 (175)
T PF10738_consen 32 TVSLPTPPGWEPAPDPN--PPWAYAVIVDPQADGGFPPNAVVTVSKLTG---DF----------DPAEALEHA-PADA-Q 94 (175)
T ss_pred EEeccCCcCcccCCCCC--CCceEEEEEeccccCCCCCceEEEEEeccC---CC----------CHHHHHHhc-hhhH-h
Confidence 36777899999876432 111111122222 334567777766532 22 488887633 2100 1
Q ss_pred cccc-ceeeeeeEEeCCeeeEEEE--EcCC------ceEEEEEEeCCeEEEEEeecC
Q 025555 188 NVEG-KVLSMDVEELCGRKYYRYE--LEPP------HVLITATAAGNRLYLFSVTGN 235 (251)
Q Consensus 188 ~~e~-~ll~a~~~e~~G~tYY~yE--l~~p------H~L~saTV~~GkLYtl~v~a~ 235 (251)
.+.+ +.++.+.-+.+|-.=+..| |..+ ++-+.+.-.++..|++.+++.
T Consensus 95 ~l~g~~~~~~s~~~~~GfpS~~i~GtY~~~g~~~~~~~r~VV~~~~~~~Ylvqltvt 151 (175)
T PF10738_consen 95 NLPGFRELDGSPSDFSGFPSSQIEGTYDKDGMRLHTSQRTVVIPGDDQRYLVQLTVT 151 (175)
T ss_pred hCcCcccccCCccccCCCceeEEEEEEeeCCEEeEeEEEEEEEeCCCcEEEEEEEee
Confidence 1111 2344444555664444443 2211 344555555888898877554
No 21
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=41.59 E-value=1e+02 Score=24.99 Aligned_cols=76 Identities=16% Similarity=0.110 Sum_probs=41.6
Q ss_pred eeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeC-CeeeEEEEE
Q 025555 135 IDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELC-GRKYYRYEL 211 (251)
Q Consensus 135 ~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~-G~tYY~yEl 211 (251)
+++|+-.....-++..|+-..++.+.-.+=-+|.-+|..-|.+...... |..+ +++|-.-+-.+.+ |+++|..|+
T Consensus 16 Pelr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~~~~~l~K--G~~V~V~G~l~~~~~~d~d~G~~r~~~ei 93 (121)
T PRK07459 16 PEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKK--GSLIGITGSLKFDRWTDRNTGEDRSKPVI 93 (121)
T ss_pred CEEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHHHHHHHHHcCC--CCEEEEEEEEEecceEcCCCCeEEEEEEE
Confidence 4566644433334444443333322100113577888776666555443 6664 6666444444555 999999998
Q ss_pred c
Q 025555 212 E 212 (251)
Q Consensus 212 ~ 212 (251)
.
T Consensus 94 ~ 94 (121)
T PRK07459 94 R 94 (121)
T ss_pred E
Confidence 5
No 22
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=37.29 E-value=1.3e+02 Score=26.07 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=30.8
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEcCC
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELEPP 214 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~~p 214 (251)
+|.-+|..-|++...+.. |..+ +++|-.-+-.+.+|+++|..|+...
T Consensus 55 ~Vv~fgk~Ae~v~~~L~K--Gs~V~VeGrL~~~~y~dkdG~kr~~~eIva~ 103 (164)
T PRK08763 55 RVKFFGKLGEIAGEYLRK--GSQCYIEGSIRYDKFTGQDGQERYVTEIVAD 103 (164)
T ss_pred EEEEehHHHHHHHHhcCC--CCEEEEEEEEEeceeECCCCCEEEEEEEEEe
Confidence 456677776666655444 6654 6666433444578999999999643
No 23
>PRK02888 nitrous-oxide reductase; Validated
Probab=35.95 E-value=51 Score=34.45 Aligned_cols=14 Identities=29% Similarity=0.337 Sum_probs=10.2
Q ss_pred cccchhhHHHHHHH
Q 025555 38 DGVMKRRSVLVSGA 51 (251)
Q Consensus 38 ~~~~~RR~~L~~~~ 51 (251)
...++||.+|..+|
T Consensus 6 ~~~~~rr~~~~~~~ 19 (635)
T PRK02888 6 PSGLSRRQFLGTAA 19 (635)
T ss_pred cCCccHHHhhhHHH
Confidence 35679999996544
No 24
>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=34.77 E-value=25 Score=22.43 Aligned_cols=26 Identities=8% Similarity=0.133 Sum_probs=21.5
Q ss_pred EEEEEeCCeEEEEEeecCCccccchh
Q 025555 218 ITATAAGNRLYLFSVTGNGMVFYPTF 243 (251)
Q Consensus 218 ~saTV~~GkLYtl~v~a~e~rW~k~~ 243 (251)
+-++..+|.||.+.+..++..|+...
T Consensus 3 v~~~~~~g~l~AlD~~TG~~~W~~~~ 28 (38)
T PF01011_consen 3 VYVGTPDGYLYALDAKTGKVLWKFQT 28 (38)
T ss_dssp EEEETTTSEEEEEETTTTSEEEEEES
T ss_pred EEEeCCCCEEEEEECCCCCEEEeeeC
Confidence 33457899999999999999998654
No 25
>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=34.12 E-value=33 Score=23.23 Aligned_cols=13 Identities=23% Similarity=0.125 Sum_probs=7.4
Q ss_pred ccchhhHHHHHHH
Q 025555 39 GVMKRRSVLVSGA 51 (251)
Q Consensus 39 ~~~~RR~~L~~~~ 51 (251)
...+||.+|..+.
T Consensus 7 ~~~~RRdFL~~at 19 (41)
T PF10399_consen 7 VDPTRRDFLTIAT 19 (41)
T ss_dssp ---HHHHHHHHHH
T ss_pred CCchHHHHHHHHH
Confidence 4568999995443
No 26
>KOG4649 consensus PQQ (pyrrolo-quinoline quinone) repeat protein [Secondary metabolites biosynthesis, transport and catabolism]
Probab=34.11 E-value=45 Score=31.88 Aligned_cols=41 Identities=12% Similarity=0.156 Sum_probs=35.1
Q ss_pred eCCeeeEEEEEcCC--------ceEEEEEEeCCeEEEEEeecCCccccc
Q 025555 201 LCGRKYYRYELEPP--------HVLITATAAGNRLYLFSVTGNGMVFYP 241 (251)
Q Consensus 201 ~~G~tYY~yEl~~p--------H~L~saTV~~GkLYtl~v~a~e~rW~k 241 (251)
..|..|+.=++..+ -+++.+.+.+|+||.+.+.++++-|.-
T Consensus 41 ~sG~~~We~ilg~RiE~sa~vvgdfVV~GCy~g~lYfl~~~tGs~~w~f 89 (354)
T KOG4649|consen 41 QSGNLIWEAILGVRIECSAIVVGDFVVLGCYSGGLYFLCVKTGSQIWNF 89 (354)
T ss_pred CCCcEEeehhhCceeeeeeEEECCEEEEEEccCcEEEEEecchhheeee
Confidence 46888888777644 788999999999999999999999974
No 27
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=31.47 E-value=1.6e+02 Score=25.71 Aligned_cols=45 Identities=20% Similarity=0.341 Sum_probs=29.6
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.|+-+|..-|++...+.. |..+ +..|-.-+-.+.+|++.|.+|+.
T Consensus 57 ~V~~fgk~Ae~~~~~L~K--Gs~V~VeGrL~~~~yedkdG~~r~~~eVv 103 (177)
T PRK09010 57 RVVLFGKLAEVAGEYLRK--GSQVYIEGQLRTRKWTDQSGQDRYTTEVV 103 (177)
T ss_pred EEEEehhHHHHHHHhcCC--CCEEEEEEEEEeccccCCCCCEEEEEEEE
Confidence 567778776665555443 6664 56654333346789999999985
No 28
>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=31.21 E-value=1.3e+02 Score=21.37 Aligned_cols=28 Identities=11% Similarity=-0.011 Sum_probs=24.0
Q ss_pred ceEEEEEEeCCeEEEEEeecCCccccch
Q 025555 215 HVLITATAAGNRLYLFSVTGNGMVFYPT 242 (251)
Q Consensus 215 H~L~saTV~~GkLYtl~v~a~e~rW~k~ 242 (251)
.+-+++++.+|+|-+.-..+...+|.+.
T Consensus 50 ~e~~~~~~~~~~l~i~L~K~~~~~W~~L 77 (78)
T cd06469 50 DEKSSAKIGNGVLVFTLVKKEPGIWEAL 77 (78)
T ss_pred ccccEEEEeCCEEEEEEEeCCCCccccc
Confidence 6678999999999999888888899864
No 29
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=30.44 E-value=1.7e+02 Score=23.11 Aligned_cols=45 Identities=16% Similarity=0.272 Sum_probs=27.8
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.+.-+|.+-|.+...... |..+ ++.|-.-+-.+.+|+++|..|+.
T Consensus 50 ~v~~wg~~Ae~~~~~l~K--G~~V~V~G~l~~~~~~~~~G~~~~~~ei~ 96 (112)
T PRK06752 50 NCVVWRKSAENVTEYCTK--GSLVGITGRIHTRNYEDDQGKRIYITEVV 96 (112)
T ss_pred EEEEehHHHHHHHHhcCC--CCEEEEEEEEEeCccCCCCCcEEEEEEEE
Confidence 355667655544433333 6654 56665444456789999999985
No 30
>COG4263 NosZ Nitrous oxide reductase [Energy production and conversion]
Probab=30.39 E-value=73 Score=32.57 Aligned_cols=82 Identities=21% Similarity=0.202 Sum_probs=39.3
Q ss_pred cccchhhHHHHHHH--HHhhhhcc-CCCC----c--chhHHHhhhccCCCCCCCCCCCCCceEEecCCCCCCCCCCCC--
Q 025555 38 DGVMKRRSVLVSGA--SLISSAVL-GFPA----D--GLAVVKQGLLAGRVPGLSEPDEQGWRTYRRPDDKSGGHGVGW-- 106 (251)
Q Consensus 38 ~~~~~RR~~L~~~~--~~aa~~~~-~~p~----~--~~~~a~~g~~a~~vpg~s~~~~~gf~~y~~p~~~~Gg~g~~~-- 106 (251)
.+..+||++|...| ++|+...+ ..+. . .+|.++.+..|+.+| +-.=+.|+.|- +|||-|--
T Consensus 7 ~~~~~rr~~lg~~a~~~aa~a~~~g~a~~~~~a~t~~aa~~~~~~~a~~~~---pgeldeyy~f~-----s~g~~ge~rv 78 (637)
T COG4263 7 KSRLNRRQFLGTTALMGAAGAVGAGGALTGSGATTTPAAAAEESGSAYEVP---PGELDEYYGFW-----SGGHSGEIRV 78 (637)
T ss_pred ccccchhhhhhhHHHhhhhhccccCcccccccccccccccccccCcccccC---CCcccceEEEe-----cCCCccceEE
Confidence 45778999987654 22221111 1111 1 233344455555565 11234555554 36664321
Q ss_pred ----cc-----ccceEEecCCCCccccccc
Q 025555 107 ----SP-----IIPYLFSVPQEWDEVPVSI 127 (251)
Q Consensus 107 ----~~-----i~~Y~F~~P~gW~ev~Vs~ 127 (251)
|+ |+-|.=.--.||-...+|+
T Consensus 79 ~g~psmre~mripvfn~dsatgwg~tnesk 108 (637)
T COG4263 79 VGAPSMREMMRIPVFNRDSATGWGQTNESK 108 (637)
T ss_pred ecCcchhhhhccccccccccccccccchhh
Confidence 11 2234444446888777764
No 31
>KOG4141 consensus DNA repair and recombination protein RAD52/RAD22 [Replication, recombination and repair]
Probab=29.94 E-value=50 Score=30.13 Aligned_cols=46 Identities=20% Similarity=0.437 Sum_probs=28.6
Q ss_pred eEEecCCCCcccccccccCC--C-----CceeEEEeCCCCCcEEEEEEeeccc
Q 025555 112 YLFSVPQEWDEVPVSIADLG--G-----TEIDLRFASPKKGRLFVIVAPVLRF 157 (251)
Q Consensus 112 Y~F~~P~gW~ev~Vs~~d~~--g-----~g~D~rF~d~~~~~vsVvv~p~~rl 157 (251)
.+..|=+||.-+...|.=+| | +.+.+.|.|+.++.+.|.+.-+.|.
T Consensus 61 ~~v~yIegw~vI~lANeiFGyNGWs~sI~~~~vd~~d~~~~k~~vg~~a~VrV 113 (222)
T KOG4141|consen 61 QSVCYIEGWRVINLANEIFGYNGWSSSITSVNVDFVDEEEGKFSVGVSAIVRV 113 (222)
T ss_pred ceeEEecchHHHHHHHHHhCcCcccccceeeecceeccccCeEEEeEEEEEEE
Confidence 55555566655544432222 1 3567999999888888877666553
No 32
>PF11396 DUF2874: Protein of unknown function (DUF2874); InterPro: IPR021533 This bacterial family of proteins are probable periplasmic proteins with unknown function. There are between one and four copies of this domain per sequence. ; PDB: 3DUE_A 3U1W_B 3DB7_A 4DSD_A 3ELG_A.
Probab=29.85 E-value=1.2e+02 Score=20.83 Aligned_cols=35 Identities=34% Similarity=0.471 Sum_probs=23.7
Q ss_pred HHHHHHhhCccccCccc-ccceeeeeeEEeCCeeeEEEEEc
Q 025555 173 PEKVINAFGPEVIGENV-EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 173 peev~~~l~~~l~g~~~-e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
|+.|...|-.. . ...+.+++..+..+..||..|+.
T Consensus 9 P~~v~~~i~~~-----yp~~~i~~v~~~~~~~~~~Y~v~l~ 44 (61)
T PF11396_consen 9 PAAVKNAIKKN-----YPGAKIKEVEKETDPGGKYYEVELK 44 (61)
T ss_dssp -HHHHHHHHHH-----STTSEEEEEEEEEETTEEEEEEEET
T ss_pred CHHHHHHHHHH-----CCCCeEEEEEEEEcCCCCEEEEEEE
Confidence 77777766322 2 34677777777777799999997
No 33
>PLN00064 photosystem II protein Psb27; Provisional
Probab=29.52 E-value=55 Score=28.66 Aligned_cols=16 Identities=19% Similarity=0.310 Sum_probs=11.1
Q ss_pred cccchhhHHHHHHHHH
Q 025555 38 DGVMKRRSVLVSGASL 53 (251)
Q Consensus 38 ~~~~~RR~~L~~~~~~ 53 (251)
....+||++|..+.++
T Consensus 31 ~~~~~rr~~~~~~~~~ 46 (166)
T PLN00064 31 RNHLLRREFLSLATTI 46 (166)
T ss_pred hhhhHHHHHHHHHHHH
Confidence 4566899998865433
No 34
>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=28.24 E-value=3.9e+02 Score=23.06 Aligned_cols=97 Identities=19% Similarity=0.215 Sum_probs=46.5
Q ss_pred ceEEecCCCCcccccccccCCCCceeEEEeCCC--CCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCcc
Q 025555 111 PYLFSVPQEWDEVPVSIADLGGTEIDLRFASPK--KGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGEN 188 (251)
Q Consensus 111 ~Y~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~--~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~ 188 (251)
=|+..||.+|.|.--. - + -.-|.||. ++|+++.. ... + +..-..+++..-..+-.|..
T Consensus 10 WFS~~YP~~W~EfED~-E-----~-sflFYnp~~WTGNfRISa--yk~------~-----~~~ygk~~i~~EL~en~~a~ 69 (153)
T PF12712_consen 10 WFSMEYPADWNEFEDG-E-----G-SFLFYNPDQWTGNFRISA--YKG------G-----SAQYGKECIRQELKENPSAK 69 (153)
T ss_dssp -EEEEE-TT-EEE----T-----T-EEEEE-SSS---EEEEEE--EE-------------STTHHHHHHHHHHHH-TT-E
T ss_pred eEEEecCCCcchhccC-C-----c-ceEEEChHHhcCceEEEE--Eec------c-----cccchHHHHHHHHHhCCCcc
Confidence 3999999999987632 1 2 47888866 57766544 421 1 01124555544444445543
Q ss_pred -cc----cceeeeeeEEeCCeeeEEEEEcCCceEEEEEEeCCeEEEEEeecC
Q 025555 189 -VE----GKVLSMDVEELCGRKYYRYELEPPHVLITATAAGNRLYLFSVTGN 235 (251)
Q Consensus 189 -~e----~~ll~a~~~e~~G~tYY~yEl~~pH~L~saTV~~GkLYtl~v~a~ 235 (251)
++ +-.++.+..+.+|. ||+=-+ =+|-.++..|.|.-+.+
T Consensus 70 ~vkvg~~~caYs~E~f~eeg~-~YtsH~-------Wvtg~~~~sfeCSFTv~ 113 (153)
T PF12712_consen 70 LVKVGNWECAYSKEMFQEEGA-YYTSHL-------WVTGEGDVSFECSFTVP 113 (153)
T ss_dssp EEEETTEEEEEEEEEEEETTE-EEEEEE-------EEEEETTEEEEEEEEEE
T ss_pred eEEeccEEEEEEhhhhhccCe-eEEEEE-------EEEecCceEEEEEEEcc
Confidence 22 13455666666764 443322 24556666666665544
No 35
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=26.88 E-value=1.9e+02 Score=25.55 Aligned_cols=46 Identities=17% Similarity=0.357 Sum_probs=29.0
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEcC
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELEP 213 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~~ 213 (251)
.|.-+|..-|.+...+.. |..+ +..|-.-+-.+.+|+++|.+|+..
T Consensus 55 ~V~~fGk~AE~v~~~LkK--Gs~V~VeGrL~~~~yeDkdG~kr~~~eVvA 102 (182)
T PRK06958 55 RVAFFGRLAEIVGEYLKK--GSSVYIEGRIRTRKWQGQDGQDRYSTEIVA 102 (182)
T ss_pred EEEEehHHHHHHHHHhCC--CCEEEEEEEEEeCceECCCCcEEEEEEEEE
Confidence 345666665555544343 6554 555544444568999999999864
No 36
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=26.42 E-value=43 Score=20.26 Aligned_cols=19 Identities=11% Similarity=0.209 Sum_probs=15.7
Q ss_pred CCeEEEEEeecCCccccch
Q 025555 224 GNRLYLFSVTGNGMVFYPT 242 (251)
Q Consensus 224 ~GkLYtl~v~a~e~rW~k~ 242 (251)
+|+.|-++..+.+++|.+-
T Consensus 12 ~g~~yy~n~~t~~s~W~~P 30 (32)
T smart00456 12 DGRPYYYNHETKETQWEKP 30 (32)
T ss_pred CCCEEEEECCCCCEEcCCC
Confidence 4888888999999999763
No 37
>PRK13033 formyl peptide receptor-like 1 inhibitory protein; Reviewed
Probab=26.22 E-value=41 Score=27.70 Aligned_cols=25 Identities=36% Similarity=0.640 Sum_probs=18.1
Q ss_pred ccceeeeeeEEeCC--eeeEEEEEcCC
Q 025555 190 EGKVLSMDVEELCG--RKYYRYELEPP 214 (251)
Q Consensus 190 e~~ll~a~~~e~~G--~tYY~yEl~~p 214 (251)
++++..+-++-.|| +-||.|++..|
T Consensus 85 ~g~vk~avv~ikdgg~~~yytfdltrp 111 (133)
T PRK13033 85 QGDVKKAVVRIKDGGPRDYYTFDLTRP 111 (133)
T ss_pred CCCcceEEEEeecCCCCccEEEeccCc
Confidence 45655566665555 89999999877
No 38
>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=25.73 E-value=62 Score=24.18 Aligned_cols=39 Identities=26% Similarity=0.393 Sum_probs=25.3
Q ss_pred ceeeeeeEEeCCeeeEE----EEEcCCceE-EEEEEeCCeEEEE
Q 025555 192 KVLSMDVEELCGRKYYR----YELEPPHVL-ITATAAGNRLYLF 230 (251)
Q Consensus 192 ~ll~a~~~e~~G~tYY~----yEl~~pH~L-~saTV~~GkLYtl 230 (251)
+||+.-+.++||++||. |.......= -...+.+|+|++-
T Consensus 3 KvLskG~h~IdGk~y~v~kDlYd~VpK~~~~~~~~v~dg~v~vd 46 (65)
T PF09211_consen 3 KVLSKGEHTIDGKKYYVKKDLYDVVPKGKKPYKLKVKDGKVHVD 46 (65)
T ss_dssp EEE-SEEEEETTEEEEESS-EEEEEETT--GSEEEEETTEEEEE
T ss_pred ccccCccEEECCEEEEecCChhhhccCCCccceEEEeCCEEEEe
Confidence 57888999999999984 443322222 3667778888763
No 39
>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=25.11 E-value=47 Score=28.65 Aligned_cols=8 Identities=38% Similarity=0.750 Sum_probs=6.5
Q ss_pred chhhHHHH
Q 025555 41 MKRRSVLV 48 (251)
Q Consensus 41 ~~RR~~L~ 48 (251)
++||++|+
T Consensus 2 ~sRR~~L~ 9 (168)
T PF12318_consen 2 LSRRRLLA 9 (168)
T ss_pred CcHHHHHH
Confidence 58999993
No 40
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=25.08 E-value=71 Score=22.72 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=22.0
Q ss_pred ccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 182 PEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 182 ~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
..|-..+. +..+.+++..+.+|..+|.|++.
T Consensus 43 ~~L~~~~~f~~v~l~~~~~~~~~~~~~~~F~i~ 75 (78)
T PF05137_consen 43 RNLEQSPFFSDVSLSSISRQEGDGNSLVSFTIT 75 (78)
T ss_pred HHHhhCCCccceEEEEEEeeccCCCceEEEEEE
Confidence 44444554 45777777777788999999985
No 41
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=24.96 E-value=2.4e+02 Score=23.93 Aligned_cols=79 Identities=15% Similarity=0.287 Sum_probs=46.2
Q ss_pred CCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhCccccCccc---ccce-eeeeeEEeCCeeeEEEEEcCC---
Q 025555 142 PKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFGPEVIGENV---EGKV-LSMDVEELCGRKYYRYELEPP--- 214 (251)
Q Consensus 142 ~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~~~l~g~~~---e~~l-l~a~~~e~~G~tYY~yEl~~p--- 214 (251)
+..+.|++-|+|... =..|-+-.|+++.+...-|---+ |.+| ++.+.+..|...=|-.+|..+
T Consensus 42 D~~g~Lql~i~pasG----------rrkLspt~emi~~l~~geIel~VLttqpDIai~l~~kVldnEnRYViDFD~RGvk 111 (144)
T PF10657_consen 42 DRYGKLQLTISPASG----------RRKLSPTPEMIDKLISGEIELFVLTTQPDIAINLQQKVLDNENRYVIDFDKRGVK 111 (144)
T ss_pred ccCCceEEEEecCCC----------ccccCCcHHHHHHHhcCceEEEEEccCCCeeechhhhhhcccceEEEeccCCcce
Confidence 556789999999943 13344677888877331111111 3333 455666666666677777532
Q ss_pred -------------ceEEEEEEeCCeEEEEE
Q 025555 215 -------------HVLITATAAGNRLYLFS 231 (251)
Q Consensus 215 -------------H~L~saTV~~GkLYtl~ 231 (251)
|.=.+|-+ ++++|++.
T Consensus 112 wTMRdipVfy~~~~~~l~Vei-d~r~YtL~ 140 (144)
T PF10657_consen 112 WTMRDIPVFYNSLTRQLCVEI-DRRTYTLD 140 (144)
T ss_pred eEeecCceEEccCCcEEEEEE-CCeEEehH
Confidence 44444444 68899874
No 42
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=24.48 E-value=2.5e+02 Score=22.91 Aligned_cols=44 Identities=16% Similarity=0.308 Sum_probs=28.7
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.|.-+|..-+.+...... |..+ +++|-.-+- +.+|+++|.+|+.
T Consensus 50 ~v~~fg~~Ae~v~~~l~K--G~~V~V~Grl~~~~y-~kdG~~~~~~evi 95 (131)
T PRK07274 50 NVVLWGKLAETLASYASK--GSLISIDGELRTRKY-EKDGQTHYVTEVL 95 (131)
T ss_pred EEEEehHHHHHHHHHcCC--CCEEEEEEEEEeccC-ccCCcEEEEEEEE
Confidence 345667655555444343 6664 666654444 7899999999985
No 43
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=24.05 E-value=2.5e+02 Score=24.44 Aligned_cols=45 Identities=13% Similarity=0.202 Sum_probs=28.5
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.|.-+|..-|.+...... |..+ ++.|-.-+-.+.+|++.|.+|+.
T Consensus 50 ~~v~wgk~Ae~~~~~l~K--G~~V~VeGrL~~r~yedkdG~~~~~~eVv 96 (173)
T PRK06751 50 NCVIWRKQAENVANYLKK--GSLAGVDGRLQTRNYEGQDGKRVYVTEVL 96 (173)
T ss_pred EEEEeCcHHHHHHHHcCC--CCEEEEEEEEEeCccCCCCCcEEEEEEEE
Confidence 456677765555444333 6654 55554444445789999999985
No 44
>PF15495 Fimbrillin_C: Major fimbrial subunit protein type IV, Fimbrillin, C-terminal
Probab=23.48 E-value=1.7e+02 Score=22.45 Aligned_cols=33 Identities=24% Similarity=0.301 Sum_probs=26.2
Q ss_pred eCCeeeEEEEEcC-----C--ceEEEEEEeCCeEEEEEee
Q 025555 201 LCGRKYYRYELEP-----P--HVLITATAAGNRLYLFSVT 233 (251)
Q Consensus 201 ~~G~tYY~yEl~~-----p--H~L~saTV~~GkLYtl~v~ 233 (251)
.+|..||.+.+.- + ..+.--.|-+|..|.+.++
T Consensus 5 ~~G~~YY~~~I~h~d~~~~~~~~~~~y~IvRNn~Y~l~I~ 44 (85)
T PF15495_consen 5 ENGVCYYYYWINHNDNNNPATMGQGEYGIVRNNVYKLTIT 44 (85)
T ss_pred eCCEEEEEEEecCCCCCcccccccceeceEeccEEEEEEE
Confidence 5899999999963 1 3455568899999999986
No 45
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=22.72 E-value=3.1e+02 Score=23.51 Aligned_cols=47 Identities=13% Similarity=0.240 Sum_probs=30.1
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEcCC
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELEPP 214 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~~p 214 (251)
.+.-+|..-|.+...... |..+ ++.|-.-+=.+.+|++.|..|+...
T Consensus 50 ~vv~wgk~Ae~~~~~l~K--G~~V~VeGrl~~r~y~dkdG~k~~~~evva~ 98 (162)
T PRK07275 50 NCVIWRQQAENLANWAKK--GALIGVTGRIQTRNYENQQGQRVYVTEVVAD 98 (162)
T ss_pred EEEEEcHHHHHHHHHcCC--CCEEEEEEEEEeceEECCCCCEEEEEEEEEe
Confidence 356677776665554343 6654 6666544445678999999998643
No 46
>PF13964 Kelch_6: Kelch motif
Probab=22.38 E-value=87 Score=20.56 Aligned_cols=18 Identities=28% Similarity=0.558 Sum_probs=14.0
Q ss_pred EEEEEeCCeEEEEEeecC
Q 025555 218 ITATAAGNRLYLFSVTGN 235 (251)
Q Consensus 218 ~saTV~~GkLYtl~v~a~ 235 (251)
.++++-+|++|++.-..+
T Consensus 5 ~s~v~~~~~iyv~GG~~~ 22 (50)
T PF13964_consen 5 HSAVVVGGKIYVFGGYDN 22 (50)
T ss_pred CEEEEECCEEEEECCCCC
Confidence 456778889999987666
No 47
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=22.34 E-value=82 Score=25.42 Aligned_cols=43 Identities=23% Similarity=0.351 Sum_probs=24.0
Q ss_pred cccccccccccccceeeeeecCCCC-------CccccchhhHHHHHHHHHh
Q 025555 11 FLAQISSVENGISRVKAVACSTGSD-------SVDGVMKRRSVLVSGASLI 54 (251)
Q Consensus 11 ~~~~~~~~~~~~~~~~~v~~~~~~~-------~~~~~~~RR~~L~~~~~~a 54 (251)
-++++++ ..++++...++.+...+ ..++...||.++..+++++
T Consensus 13 ~~~~~~~-~~~rr~l~Vv~Aak~~~~e~v~~~~~e~~~gRR~~mfaaaAaa 62 (103)
T PLN00058 13 AVAKLPS-ATGGRRLSVVRASTSDNTPSLEVKEQQSTTMRRDLMFTAAAAA 62 (103)
T ss_pred HHhccCC-cccCceEEEEEccccccccceeeccccchhhHHHHHHHHHHHH
Confidence 4566664 44555666666554422 1235667888876555443
No 48
>COG3350 Uncharacterized conserved protein [Function unknown]
Probab=21.84 E-value=61 Score=23.37 Aligned_cols=11 Identities=27% Similarity=0.597 Sum_probs=9.0
Q ss_pred EEeCCeeeEEE
Q 025555 199 EELCGRKYYRY 209 (251)
Q Consensus 199 ~e~~G~tYY~y 209 (251)
.+.+|+|||+=
T Consensus 21 ~~Y~GktYYFc 31 (53)
T COG3350 21 SSYGGKTYYFC 31 (53)
T ss_pred EEeCCEEEEEe
Confidence 46899999974
No 49
>PRK10319 N-acetylmuramoyl-l-alanine amidase I; Provisional
Probab=21.48 E-value=1.7e+02 Score=27.29 Aligned_cols=53 Identities=23% Similarity=0.270 Sum_probs=26.2
Q ss_pred chhhHHHHHHHHHhhhhccCCCCcchhHHHhhhccCCCCCCCCC----CCCCceEEecCCCCCCCCCC
Q 025555 41 MKRRSVLVSGASLISSAVLGFPADGLAVVKQGLLAGRVPGLSEP----DEQGWRTYRRPDDKSGGHGV 104 (251)
Q Consensus 41 ~~RR~~L~~~~~~aa~~~~~~p~~~~~~a~~g~~a~~vpg~s~~----~~~gf~~y~~p~~~~Gg~g~ 104 (251)
..||.+|..+.++++........ ...+..-..++.++| .+......-+| ||||
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~IvIDp-----GHGG 67 (287)
T PRK10319 11 TSRRQVLKAGLAALTLSGMSQAI------AKEEPLKTSNGHSKPKAKKSGGKRVVMLDP-----GHGG 67 (287)
T ss_pred HHHHHHHHHHHHHHHhhcchhhh------hhhhhhccccCCCCCCCccCCCCeEEEEEC-----CCCC
Confidence 46888877665554333222211 112111122444333 45566777777 6776
No 50
>PF01344 Kelch_1: Kelch motif; InterPro: IPR006652 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding; PDB: 2XN4_A 2WOZ_A 3II7_A 4ASC_A 1U6D_X 1ZGK_A 2FLU_X 2VPJ_A 2DYH_A 1X2R_A ....
Probab=20.76 E-value=1.3e+02 Score=19.04 Aligned_cols=18 Identities=22% Similarity=0.431 Sum_probs=15.2
Q ss_pred EEEEEeCCeEEEEEeecC
Q 025555 218 ITATAAGNRLYLFSVTGN 235 (251)
Q Consensus 218 ~saTV~~GkLYtl~v~a~ 235 (251)
.++++.+|++|++.=...
T Consensus 5 ~~~~~~~~~iyv~GG~~~ 22 (47)
T PF01344_consen 5 HAAVVVGNKIYVIGGYDG 22 (47)
T ss_dssp EEEEEETTEEEEEEEBES
T ss_pred CEEEEECCEEEEEeeecc
Confidence 578899999999987666
No 51
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=20.64 E-value=3.8e+02 Score=23.31 Aligned_cols=44 Identities=25% Similarity=0.377 Sum_probs=27.5
Q ss_pred CccccCCHHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGPPEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGspeev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.|.-+|..-|.+...+.. |..+ ++.|-.-+- +.+|+++|.+|+.
T Consensus 56 ~Vv~fgk~Ae~v~~~l~K--Gs~V~VeGrLr~~~y-~kdG~~r~~~eVv 101 (172)
T PRK05733 56 RVSLFGKVAEIAGEYLRK--GSQVYIEGKLQTREW-EKDGIKRYTTEIV 101 (172)
T ss_pred EEEEehHHHHHHHHHhCC--CCEEEEEEEEEeCcE-ecCCEEEEEEEEE
Confidence 456677665555444343 6654 565543333 3789999999996
No 52
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=20.33 E-value=95 Score=27.57 Aligned_cols=58 Identities=26% Similarity=0.502 Sum_probs=39.7
Q ss_pred EEecCCCCcccccccccCCCCceeEEEeCCCCCcEEEEEEeeccccccCCCCCCccccCCHHHHHHhhC
Q 025555 113 LFSVPQEWDEVPVSIADLGGTEIDLRFASPKKGRLFVIVAPVLRFADDLGDDATIEKIGPPEKVINAFG 181 (251)
Q Consensus 113 ~F~~P~gW~ev~Vs~~d~~g~g~D~rF~d~~~~~vsVvv~p~~rl~~~~~~~~sI~dLGspeev~~~l~ 181 (251)
.|.+|.+.++-.|.....+|..+.+|-.+.+-+|+ .||+ .-..|+=|-+|+++.+.|.
T Consensus 128 vyivP~D~k~G~V~t~~~gGk~~el~vR~vDvenv-------~kl~----~megi~Vl~~P~~I~e~f~ 185 (187)
T COG1036 128 VYIVPVDYKEGTVETTLPGGKKLELRVRKVDVENV-------EKLA----QMEGIEVLAKPEDILEIFG 185 (187)
T ss_pred EEEecccccCCeEEEcCCCCcEEEEEEeecchHHH-------HHHH----hccCeEEecCHHHHHHHHh
Confidence 46799999999987665566666666655443332 3333 3467888889999999884
No 53
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=20.30 E-value=4.6e+02 Score=22.72 Aligned_cols=45 Identities=20% Similarity=0.276 Sum_probs=29.3
Q ss_pred CccccCC-HHHHHHhhCccccCccc--ccceeeeeeEEeCCeeeEEEEEc
Q 025555 166 TIEKIGP-PEKVINAFGPEVIGENV--EGKVLSMDVEELCGRKYYRYELE 212 (251)
Q Consensus 166 sI~dLGs-peev~~~l~~~l~g~~~--e~~ll~a~~~e~~G~tYY~yEl~ 212 (251)
.|.-+|. ..+++...+.. |..+ ++.|-.-+-.+.+|++.|.+|+.
T Consensus 56 ~Vv~fg~~~Ae~~~~~LkK--G~~V~VeGrL~~r~w~dkdG~~r~~~eIi 103 (166)
T PRK06341 56 RVVIFNEGLCKVAEQYLKK--GAKVYIEGQLQTRKWTDQSGVERYSTEVV 103 (166)
T ss_pred EEEEeChHHHHHHHHhcCC--CCEEEEEEEEEeCcEECCCCCEEEEEEEE
Confidence 4566775 55666554443 6664 56654444456789999999986
No 54
>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=20.02 E-value=1e+02 Score=18.08 Aligned_cols=19 Identities=11% Similarity=0.293 Sum_probs=15.1
Q ss_pred eCCeEEEEEeecCCccccc
Q 025555 223 AGNRLYLFSVTGNGMVFYP 241 (251)
Q Consensus 223 ~~GkLYtl~v~a~e~rW~k 241 (251)
.+|+.|-.+..+.+++|.+
T Consensus 10 ~~g~~yy~n~~t~~s~W~~ 28 (31)
T cd00201 10 PDGRVYYYNHNTKETQWED 28 (31)
T ss_pred CCCCEEEEECCCCCEeCCC
Confidence 3488888888888888875
Done!