Query psy8580
Match_columns 274
No_of_seqs 153 out of 346
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 22:27:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2236|consensus 100.0 9.2E-53 2E-57 407.2 14.4 241 2-252 179-433 (483)
2 PF04410 Gar1: Gar1/Naf1 RNA b 100.0 2.5E-43 5.3E-48 300.3 9.1 149 12-163 4-154 (154)
3 PRK13149 H/ACA RNA-protein com 99.7 3.8E-17 8.2E-22 124.8 9.3 71 30-108 1-72 (73)
4 KOG3262|consensus 99.6 1.2E-15 2.5E-20 135.5 3.8 84 24-111 47-130 (215)
5 COG3277 GAR1 RNA-binding prote 99.5 1.4E-13 3.1E-18 111.1 9.1 78 30-111 1-78 (98)
6 COG3881 PRC-barrel domain cont 72.1 8.7 0.00019 34.4 5.3 48 28-76 50-106 (176)
7 PF10587 EF-1_beta_acid: Eukar 53.1 7.7 0.00017 25.3 1.1 8 147-154 4-11 (28)
8 PF08940 DUF1918: Domain of un 48.0 31 0.00067 26.0 3.7 25 67-91 19-43 (58)
9 PRK07594 type III secretion sy 46.2 1.3E+02 0.0029 30.4 9.1 71 26-109 15-85 (433)
10 PRK02118 V-type ATP synthase s 41.6 45 0.00097 33.8 5.0 50 32-81 38-95 (436)
11 PRK03760 hypothetical protein; 40.5 65 0.0014 26.7 5.0 49 59-109 62-115 (117)
12 TIGR00962 atpA proton transloc 35.0 2.6E+02 0.0056 28.9 9.3 68 29-109 23-90 (501)
13 TIGR02546 III_secr_ATP type II 34.5 63 0.0014 32.3 4.7 50 32-81 40-97 (422)
14 CHL00059 atpA ATP synthase CF1 33.4 2.4E+02 0.0053 29.1 8.8 67 30-109 4-70 (485)
15 PF08674 AChE_tetra: Acetylcho 33.2 32 0.00069 23.8 1.7 11 149-159 1-11 (37)
16 PRK05922 type III secretion sy 32.3 2.9E+02 0.0063 28.1 9.0 69 29-109 16-86 (434)
17 TIGR02273 16S_RimM 16S rRNA pr 31.1 1E+02 0.0022 26.4 4.9 31 58-89 102-132 (165)
18 PRK10515 hypothetical protein; 30.8 55 0.0012 26.6 2.9 23 150-172 53-75 (90)
19 TIGR01042 V-ATPase_V1_A V-type 29.9 2.6E+02 0.0057 29.7 8.4 66 33-110 2-67 (591)
20 PRK04192 V-type ATP synthase s 29.3 3.3E+02 0.0072 28.9 9.1 66 32-109 3-68 (586)
21 PRK12766 50S ribosomal protein 28.8 96 0.0021 29.1 4.6 25 126-150 56-80 (232)
22 PF08661 Rep_fac-A_3: Replicat 27.5 86 0.0019 25.1 3.6 56 29-88 20-79 (109)
23 PF10447 EXOSC1: Exosome compo 27.2 17 0.00037 28.6 -0.5 12 223-234 66-77 (82)
24 COG0093 RplN Ribosomal protein 27.1 42 0.00092 28.7 1.8 28 53-82 77-104 (122)
25 PF05239 PRC: PRC-barrel domai 26.6 2.5E+02 0.0054 20.3 5.8 25 57-82 10-35 (79)
26 CHL00060 atpB ATP synthase CF1 26.4 3.7E+02 0.008 27.9 8.7 73 31-109 14-90 (494)
27 TIGR03497 FliI_clade2 flagella 26.3 1E+02 0.0023 30.7 4.7 50 32-81 34-91 (413)
28 TIGR03496 FliI_clade1 flagella 26.3 1.1E+02 0.0023 30.7 4.7 50 32-81 34-91 (411)
29 cd04479 RPA3 RPA3: A subfamily 26.2 1.1E+02 0.0023 24.5 4.0 55 29-88 17-71 (101)
30 PRK09281 F0F1 ATP synthase sub 26.1 3.6E+02 0.0079 27.8 8.6 68 29-109 24-91 (502)
31 PRK13343 F0F1 ATP synthase sub 26.1 4E+02 0.0087 27.6 8.9 69 29-110 24-92 (502)
32 PRK06820 type III secretion sy 26.0 5.3E+02 0.012 26.2 9.6 69 29-110 26-94 (440)
33 PRK06315 type III secretion sy 25.7 4.2E+02 0.0091 27.0 8.8 69 29-109 20-90 (442)
34 KOG2236|consensus 25.6 2.4E+02 0.0052 29.2 7.1 38 153-192 324-362 (483)
35 PRK06002 fliI flagellum-specif 25.5 4E+02 0.0088 27.2 8.7 71 28-108 22-93 (450)
36 TIGR03498 FliI_clade3 flagella 25.3 3.9E+02 0.0085 26.9 8.5 67 34-110 1-69 (418)
37 PTZ00054 60S ribosomal protein 25.0 61 0.0013 28.1 2.5 27 54-82 96-122 (139)
38 TIGR03497 FliI_clade2 flagella 24.7 3.8E+02 0.0083 26.8 8.3 64 34-109 1-66 (413)
39 TIGR03324 alt_F1F0_F1_al alter 24.6 4.2E+02 0.009 27.5 8.7 69 29-110 24-92 (497)
40 PRK07594 type III secretion sy 23.8 1.3E+02 0.0029 30.3 5.0 49 33-81 54-110 (433)
41 PRK09099 type III secretion sy 23.6 4.6E+02 0.01 26.6 8.7 67 30-108 22-91 (441)
42 PRK08472 fliI flagellum-specif 23.6 4.6E+02 0.0099 26.6 8.6 67 30-108 16-85 (434)
43 PF11656 DUF3811: YjbD family 23.1 93 0.002 25.2 3.0 20 150-169 51-70 (87)
44 TIGR03498 FliI_clade3 flagella 22.9 1.3E+02 0.0028 30.2 4.6 50 32-81 36-93 (418)
45 TIGR02546 III_secr_ATP type II 22.8 6.3E+02 0.014 25.3 9.4 68 31-110 4-73 (422)
46 PRK12597 F0F1 ATP synthase sub 22.8 4.9E+02 0.011 26.6 8.7 68 33-109 3-72 (461)
47 TIGR01026 fliI_yscN ATPase Fli 22.7 1.3E+02 0.0027 30.4 4.5 50 32-81 59-116 (440)
48 PRK08972 fliI flagellum-specif 22.0 6E+02 0.013 26.0 9.1 74 25-110 18-92 (444)
49 PRK13828 rimM 16S rRNA-process 21.7 1.6E+02 0.0035 25.3 4.5 32 57-89 86-117 (161)
50 TIGR03496 FliI_clade1 flagella 21.7 5.3E+02 0.011 25.8 8.6 65 34-110 1-67 (411)
51 PF09378 HAS-barrel: HAS barre 21.7 3E+02 0.0065 20.4 5.5 41 33-77 5-47 (91)
52 TIGR03305 alt_F1F0_F1_bet alte 21.5 4.2E+02 0.0092 27.0 8.0 66 34-109 1-67 (449)
53 PRK08927 fliI flagellum-specif 21.3 6.1E+02 0.013 25.9 9.0 72 29-110 14-87 (442)
54 PRK07721 fliI flagellum-specif 21.0 1.4E+02 0.0031 30.0 4.5 50 32-81 55-112 (438)
55 PRK06820 type III secretion sy 20.9 1.7E+02 0.0036 29.8 5.0 47 32-78 61-114 (440)
56 TIGR03305 alt_F1F0_F1_bet alte 20.5 1.9E+02 0.004 29.6 5.2 67 14-82 18-92 (449)
57 KOG2376|consensus 20.4 1.3E+02 0.0027 32.2 4.1 20 238-257 623-642 (652)
58 PF02643 DUF192: Uncharacteriz 20.3 1.3E+02 0.0028 24.3 3.3 51 59-110 51-108 (108)
59 PRK04196 V-type ATP synthase s 20.3 5.7E+02 0.012 26.1 8.6 68 31-109 2-72 (460)
60 PRK05922 type III secretion sy 20.2 1.7E+02 0.0036 29.7 4.8 50 32-81 54-111 (434)
61 KOG3064|consensus 20.1 73 0.0016 30.8 2.1 14 127-140 236-249 (303)
62 PRK04196 V-type ATP synthase s 20.0 2E+02 0.0042 29.3 5.3 50 32-81 39-97 (460)
No 1
>KOG2236|consensus
Probab=100.00 E-value=9.2e-53 Score=407.17 Aligned_cols=241 Identities=35% Similarity=0.556 Sum_probs=185.5
Q ss_pred CCCcccCCCCCCCCCCCCCccccCCCC-ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCC
Q psy8580 2 KSTRNKGELDLGDLPPIEDLQISVPED-QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPV 80 (274)
Q Consensus 2 ~~~rTknEl~~e~LPpi~~l~i~lPe~-~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV 80 (274)
++++|+||+++++|||++.++|+|+++ +|++||.|++|+++.|||++..+..||++|||||++ ||++||.|+||||||
T Consensus 179 ~p~ktr~e~ll~elPpv~~~~i~l~e~~~~~plG~V~svv~~~VII~s~~~~~vlde~Svlf~e-dR~~lG~I~EiFGpV 257 (483)
T KOG2236|consen 179 KPQKTRNEHLLDELPPVEPEEITLEEKGELLPLGKVSSVVDQQVIIESTCNKEVLDEDSVLFLE-DRTALGQIFEIFGPV 257 (483)
T ss_pred cCCCCCCchhhhcCCCCCccceeecCCcceechhHHHHHhhhceEEEeccCcccccccceEEee-ccccchhhhhhhccc
Confidence 478999999999999999999999888 899999999999999999999999999999999999 599999999999999
Q ss_pred CCcEEEEEeCCCcccccccccCCCeeeecCCCCceeeccCcccccccccccCCCCCCCCCCCCCCCCChHHHHHHHHHHH
Q psy8580 81 SGPVYCVRFNSHQHIVDSNIKIDQDVYCAPQTEHTSYVPLPDLIKVKGSDASWERDQEPPPEVVEFSDDEEERRVKRNQL 160 (274)
Q Consensus 81 ~~PyYsVRfns~e~I~~~~l~vG~kVYyvP~~~~t~~V~t~~l~~~KGsDASn~~DEE~pe~e~EFSDDE~E~e~Kr~~K 160 (274)
++|||+||||+.++|...++.+|++|||+| +||+|||+..|++.|||||||.||||++++++||||||||++||+++|
T Consensus 258 ~~P~YvvRFnS~~e~~~~gi~ig~~vy~ap--~~tq~I~~~klkq~kGsDASn~~DeE~p~~e~dfSDDEkEaeak~~kK 335 (483)
T KOG2236|consen 258 KNPYYVVRFNSEEEISFLGICIGEKVYYAP--DFTQEIFTEKLKQGKGSDASNRYDEEIPPREQDFSDDEKEAEAKQMKK 335 (483)
T ss_pred CCceEEEecCchhhhhhhccccCCeeEecC--cchhhhcchhhhhcccccccccccccCChhhhccchHHHHHHHHHHHH
Confidence 999999999999999888999999999998 689999999999999999999999999999999999999999999988
Q ss_pred HhhcCCCCCCC--CCCCCCCCC--CC----CCCCCCCCccccCCcccccchhhHHHhhhcccccccCCCCCCCCCCCccc
Q psy8580 161 RTRNNRNTSST--DGTDPPDVP--PE----PKTRRPTPFEQRMNLRNLLMTASYERRNRINDTATTSRPANKSFTPGSII 232 (274)
Q Consensus 161 ~kkk~k~~~~~--d~~~~~~~~--~~----~~~~r~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (274)
+++++++.... |.+....+- +. .-+.-+-.|+.|--+|++ + |.|.|-+-+.--++--+|.|+++-
T Consensus 336 Qrk~r~~~k~~~nd~~~~~~~~~~ean~~Ssn~p~~~~y~~r~~~~gf------~-rp~s~~~q~pP~~~q~~~~p~~~~ 408 (483)
T KOG2236|consen 336 QRKRRSKVKFSDNDPVKVKTEVEGEANRTSSNQPAPQMYRGRDQNRGF------K-RPRSNHGQKPPQSAQNSFHPSSSD 408 (483)
T ss_pred HhhcccccccccCCCCccccccccccccccccCCcccccCCcccccCC------C-CcccccCCCCCcccccccCccccC
Confidence 64433332222 222111111 00 011111222222222322 1 344455555555566677777653
Q ss_pred ---cCCCCCCCCCC--CCCCCCCCC
Q psy8580 233 ---RAPTLPDIPPL--PLPMSQPSA 252 (274)
Q Consensus 233 ---~~~~~~~~~~~--~~~~~~~~~ 252 (274)
-+|+-+|.||- ..||+||..
T Consensus 409 ~s~p~pq~qNyppp~p~f~m~~~hP 433 (483)
T KOG2236|consen 409 NSGPSPQQQNYPPPSPSFPMFQPHP 433 (483)
T ss_pred CCCCCcccCCCCCCCCCCCccCCCC
Confidence 45677776542 345664433
No 2
>PF04410 Gar1: Gar1/Naf1 RNA binding region; InterPro: IPR007504 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. This entry represents Gar1 and Naf1. Naf1 is an RNA-binding protein required for the maturation of box H/ACA snoRNPs complex and ribosome biogenesis. During assembly of the H/ACA snoRNPs complex, it associates with the complex, disappearing during maturation of the complex being replaced by GAR1 to yield mature H/ACA snoRNPs complex. Naf1 reveals a striking structural homology with the core domain of archaeal Gar1 [].; GO: 0030515 snoRNA binding, 0031120 snRNA pseudouridine synthesis, 0042254 ribosome biogenesis; PDB: 2EY4_C 3MQK_C 2RFK_C 2HVY_B 3HAY_B 3U28_C 3UAI_C 2EQN_A 2V3M_F.
Probab=100.00 E-value=2.5e-43 Score=300.26 Aligned_cols=149 Identities=38% Similarity=0.642 Sum_probs=83.8
Q ss_pred CCCCCCCCCccccC-CCCceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeC
Q psy8580 12 LGDLPPIEDLQISV-PEDQCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFN 90 (274)
Q Consensus 12 ~e~LPpi~~l~i~l-Pe~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfn 90 (274)
.+++++.+...+++ |+..|++||+|+|+|++.|||++..+..||++||+||++ ||+.||+|+||||||++|||+|||+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~i~~lG~v~~i~~~~vVvk~~~~~~vl~~~s~v~~e-dr~~iG~V~eiFGpV~~P~y~Vr~~ 82 (154)
T PF04410_consen 4 GDGLPPVEPPDVEIGPPEEIKPLGTVSHIVENLVVVKSTPSKQVLDFGSVVCLE-DRTKIGKVDEIFGPVNNPYYSVRFN 82 (154)
T ss_dssp ----SS---TT-B--TTSSEEEEEEEEEEETTEEEEEE-SS-CEEBTT-EEEET-TSBEEEEEEEEESESSS-EEEEE-S
T ss_pred cccCCCCCCCCcccCCCceEEEeeeEEEEeCCcEEEEeCCCCcCCCCCCEEECC-CCCEeEEEeeEeCCCCceEEEEEeC
Confidence 57788886555565 667999999999999999999999888999999999999 6999999999999999999999999
Q ss_pred CCcccccccccCCCeeeecCCCCceeeccCcccccccccccCCCCCCCCCCCCC-CCCChHHHHHHHHHHHHhh
Q psy8580 91 SHQHIVDSNIKIDQDVYCAPQTEHTSYVPLPDLIKVKGSDASWERDQEPPPEVV-EFSDDEEERRVKRNQLRTR 163 (274)
Q Consensus 91 s~e~I~~~~l~vG~kVYyvP~~~~t~~V~t~~l~~~KGsDASn~~DEE~pe~e~-EFSDDE~E~e~Kr~~K~kk 163 (274)
..+++.+.++++|++|||++. |++||++.++...||+||||.+|||++++++ ||||||+|++||+++|++|
T Consensus 83 ~~~~~~~~~~~~g~~vy~~~~--~~~~~~~~~~~~~kg~das~~~d~e~~~~~~~efsdde~e~~~k~~~k~~~ 154 (154)
T PF04410_consen 83 SSEGIKAKSLKVGDKVYYDPD--PTSRFLPEPLKRKKGSDASNKHDEEGPEGERGEFSDDEEEREYKRGRKNKK 154 (154)
T ss_dssp CHHHHHHHCCCTTSEEEEECC---GGGG----------------------------------------------
T ss_pred CccccccccccccceEEECCC--chheeccccccccCCCCcccCCCCCCCCCCCCCcCCCccccccccCCCCCC
Confidence 989998889999999999985 8999999999999999999999999998887 9999999999999998875
No 3
>PRK13149 H/ACA RNA-protein complex component Gar1; Reviewed
Probab=99.71 E-value=3.8e-17 Score=124.82 Aligned_cols=71 Identities=24% Similarity=0.454 Sum_probs=63.4
Q ss_pred eeeceeEEeee-cCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 30 CLPVGKILNIV-DTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 30 I~~LGtV~sIV-e~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
|+++|+|+|+| ++.+|+++ ..++.+|+.||+++ ++.||+|+||||||++||++|++.+.... . .+|++||+
T Consensus 1 Mk~~G~~~h~~~~g~lI~~~---~~~P~~n~~V~~~~-~~~IGkV~dIfGPV~~pY~~Vk~~~~~~~--~--~~g~k~yi 72 (73)
T PRK13149 1 MKRLGKVLHYAPKGKLIIRL---DKQPPIGSVVYDKK-LKKIGKVVDVFGPVKEPYVLVKPDKKDPP--E--LVGEKLYV 72 (73)
T ss_pred CcEeEEEEEEcCCCCEEEEc---CCCCCCCCEeECCC-CCEeEEEEEEECCCCCcEEEEEeCCCCCc--c--ccCCEEEe
Confidence 67899999999 78999998 46999999999985 99999999999999999999999855443 2 79999997
No 4
>KOG3262|consensus
Probab=99.57 E-value=1.2e-15 Score=135.47 Aligned_cols=84 Identities=15% Similarity=0.429 Sum_probs=77.7
Q ss_pred cCCCCceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCC
Q psy8580 24 SVPEDQCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKID 103 (274)
Q Consensus 24 ~lPe~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG 103 (274)
+.|++++++||+++|.|++.+||+.+. ..++++|+.||||| ++.||+|+|||||+++-+++|++. +.|.+.++++|
T Consensus 47 ~gpp~evvelg~flh~Cegd~Vck~~~-~kIPyfNAPIylen-k~qIGKVDEIfG~i~d~~fsIK~~--dgv~assfk~g 122 (215)
T KOG3262|consen 47 QGPPEEVVELGKFLHMCEGDLVCKLTN-KKIPYFNAPIYLEN-KEQIGKVDEIFGPINDVHFSIKPS--DGVQASSFKPG 122 (215)
T ss_pred CCCchhhhhhhhhhhhcCCceEEeecc-ccCCCCCCceeecc-hhhhcchhhhcccccccEEEEecC--CCceeecccCC
Confidence 568889999999999999999999765 57999999999996 999999999999999999999988 77778899999
Q ss_pred CeeeecCC
Q psy8580 104 QDVYCAPQ 111 (274)
Q Consensus 104 ~kVYyvP~ 111 (274)
+++|++|.
T Consensus 123 ~k~fi~p~ 130 (215)
T KOG3262|consen 123 DKLFIDPD 130 (215)
T ss_pred CeEEeccc
Confidence 99999985
No 5
>COG3277 GAR1 RNA-binding protein involved in rRNA processing [Translation, ribosomal structure and biogenesis]
Probab=99.49 E-value=1.4e-13 Score=111.08 Aligned_cols=78 Identities=22% Similarity=0.396 Sum_probs=66.2
Q ss_pred eeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeec
Q psy8580 30 CLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 30 I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
|.+||.|+|+|+..+||.... ..++.+|+.|+++ +.+.||+|.||||||++||.+|+..+... .....+|+.+|+.
T Consensus 1 m~~lG~vlh~~~~g~vi~~~~-~~iP~l~~~V~~~-~~k~IG~V~dVfGPv~~PY~~Vkp~~~~~--~~~~~vg~~lYi~ 76 (98)
T COG3277 1 MKRLGKVLHVCGTGMVIVRDN-DRIPPLNAPVYDA-NLKRIGKVVDVFGPVDEPYILVKPDDRDV--KLESLVGDTLYIP 76 (98)
T ss_pred CccceeEEEecCCceEEEeCC-CCCCCCCCeeEec-CCCEEEEEEEEEccCCCCEEEEecccccc--ccccccceEEEec
Confidence 468999999999776666543 5799999999998 58999999999999999999999864433 4567899999999
Q ss_pred CC
Q psy8580 110 PQ 111 (274)
Q Consensus 110 P~ 111 (274)
++
T Consensus 77 ~~ 78 (98)
T COG3277 77 PD 78 (98)
T ss_pred cc
Confidence 75
No 6
>COG3881 PRC-barrel domain containing protein [General function prediction only]
Probab=72.11 E-value=8.7 Score=34.41 Aligned_cols=48 Identities=27% Similarity=0.438 Sum_probs=35.1
Q ss_pred CceeeceeEEeeecCeEEEEeCCCCCCCCCCC---------eEEecCCCeeeEEEEee
Q psy8580 28 DQCLPVGKILNIVDTLVLIKTLKNTPTLDLDS---------VLFLDKGQRSLGKIFDV 76 (274)
Q Consensus 28 ~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gS---------vLclEnDRt~IGkV~EV 76 (274)
+.+++++.|.||-+..|++.......-+..+| ++-.+ |++.+|.|.||
T Consensus 50 h~~lp~~~i~Sig~k~Imi~vp~~~~~~~~ns~~ye~m~mk~~lt~-dG~iLGmveDV 106 (176)
T COG3881 50 HCCLPVKNIVSIGSKMIMIYVPYKGSFIRFNSFTYEIMNMKVILTY-DGTILGMVEDV 106 (176)
T ss_pred eeeeeecceeeeccceEEEeccccceecccCchhhHhhcCceEecc-CCcEeeeeeEE
Confidence 35789999999999999988755433333444 33345 69999999988
No 7
>PF10587 EF-1_beta_acid: Eukaryotic elongation factor 1 beta central acidic region; InterPro: IPR018940 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This region is found in the centre of the beta subunits of Elongation factor-1. More information about these proteins can be found at Protein of the Month: Elongation Factors [].
Probab=53.07 E-value=7.7 Score=25.26 Aligned_cols=8 Identities=75% Similarity=0.937 Sum_probs=3.9
Q ss_pred CChHHHHH
Q psy8580 147 SDDEEERR 154 (274)
Q Consensus 147 SDDE~E~e 154 (274)
||||.|.+
T Consensus 4 SddEeed~ 11 (28)
T PF10587_consen 4 SDDEEEDE 11 (28)
T ss_pred CccccccH
Confidence 56663333
No 8
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=47.97 E-value=31 Score=25.97 Aligned_cols=25 Identities=36% Similarity=0.688 Sum_probs=18.4
Q ss_pred CeeeEEEEeeecCCCCcEEEEEeCC
Q psy8580 67 QRSLGKIFDVIGPVSGPVYCVRFNS 91 (274)
Q Consensus 67 Rt~IGkV~EVFGPV~~PyYsVRfns 91 (274)
-...|.|.||-|+--.|=|.|||..
T Consensus 19 ~~r~GeIveV~g~dG~PPY~VRw~D 43 (58)
T PF08940_consen 19 PDRHGEIVEVRGPDGSPPYLVRWDD 43 (58)
T ss_dssp -EEEEEEEE-S-SSS-S-EEEEETT
T ss_pred CCcEeEEEEEECCCCCCCEEEEecC
Confidence 4578999999999999999999985
No 9
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=46.23 E-value=1.3e+02 Score=30.39 Aligned_cols=71 Identities=20% Similarity=0.271 Sum_probs=48.2
Q ss_pred CCCceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCe
Q psy8580 26 PEDQCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQD 105 (274)
Q Consensus 26 Pe~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~k 105 (274)
|+..+...|+|.+|.+.+|.+.+. -...|.++++++++ .+| ||.|=-..-.+.+-|... .++..|+.
T Consensus 15 ~~~~~~~~G~v~~v~g~~~~~~~~----~~~~ge~~~i~~~~-~~~---eVv~~~~~~~~l~~~~~~-----~gi~~g~~ 81 (433)
T PRK07594 15 PPDGYCRWGRIQDVSATLLNAWLP----GVFMGELCCIKPGE-ELA---EVVGINGSKALLSPFTST-----IGLHCGQQ 81 (433)
T ss_pred CCCccceeeEEEEEECCEEEEEEC----CcCCCCEEEEecCC-eEE---EEEEEcCCeEEEEEccCC-----cCCCCCCE
Confidence 445667889999999999888853 45678888874333 556 555545555555555533 35778999
Q ss_pred eeec
Q psy8580 106 VYCA 109 (274)
Q Consensus 106 VYyv 109 (274)
|+.-
T Consensus 82 V~~t 85 (433)
T PRK07594 82 VMAL 85 (433)
T ss_pred EEeC
Confidence 8874
No 10
>PRK02118 V-type ATP synthase subunit B; Provisional
Probab=41.56 E-value=45 Score=33.80 Aligned_cols=50 Identities=14% Similarity=0.319 Sum_probs=37.2
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....++.-|..|+.|... =+...+|+|+|.|| |+.
T Consensus 38 ~~geVi~~~~~~v~~~~~~~t~Gl~~g~~V~~tg~~~~vpvg~~lLGRV~d~~G~PiD 95 (436)
T PRK02118 38 SLAQVIRLDGDKVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGRRFNGSGKPID 95 (436)
T ss_pred EEEEEEEEcCCEEEEEEecCCcCCCCCCEEEeCCCceEEEcCccccCCEEccCCcccC
Confidence 578999998899988887765555555555543 24568999999999 554
No 11
>PRK03760 hypothetical protein; Provisional
Probab=40.50 E-value=65 Score=26.70 Aligned_cols=49 Identities=16% Similarity=0.267 Sum_probs=31.1
Q ss_pred CeEEecCCCeeeEEEE-----eeecCCCCcEEEEEeCCCcccccccccCCCeeeec
Q psy8580 59 SVLFLDKGQRSLGKIF-----DVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 59 SvLclEnDRt~IGkV~-----EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
++||+..+++++. |. .++.+...-.|++-++.. -+...++++|+.|.+.
T Consensus 62 DiiFld~~g~Vv~-i~~~~P~~~~~~~~~a~~VLEl~aG-~~~~~gi~~Gd~v~~~ 115 (117)
T PRK03760 62 DVIFLDSNRRVVD-FKTLKPWRIYVPKKPARYIIEGPVG-KIRVLKVEVGDEIEWI 115 (117)
T ss_pred EEEEECCCCeEEE-EEeCCCccccCCCccceEEEEeCCC-hHHHcCCCCCCEEEEe
Confidence 5677766666665 42 234444555677777743 2335689999999764
No 12
>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit. The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.
Probab=34.97 E-value=2.6e+02 Score=28.87 Aligned_cols=68 Identities=18% Similarity=0.229 Sum_probs=48.1
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
.+...|+|.+|.+.++.|.+.. -...|.++.++ ++ ..|.|..+-+ .-.+.+-|.+. .++..|+.|+.
T Consensus 23 ~~~~~G~V~~v~g~ii~v~g~~---~~~~ge~~~i~-~~-~~g~Vi~~~~---~~~~~~~~~~~-----~gi~~G~~V~~ 89 (501)
T TIGR00962 23 EMEEVGTVVSVGDGIARVYGLE---NVMSGELIEFE-GG-VQGIALNLEE---DSVGAVIMGDY-----SNIREGSTVKR 89 (501)
T ss_pred eeEEEEEEEEEeCCEEEEECCc---CCCCCCEEEEC-CC-eEEEEEEecC---CeEEEEEecCC-----cCCCCCCeeEe
Confidence 4667899999999999999863 45678888886 45 6775554443 44566666644 35678988876
Q ss_pred c
Q psy8580 109 A 109 (274)
Q Consensus 109 v 109 (274)
-
T Consensus 90 t 90 (501)
T TIGR00962 90 T 90 (501)
T ss_pred c
Confidence 4
No 13
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=34.53 E-value=63 Score=32.27 Aligned_cols=50 Identities=18% Similarity=0.370 Sum_probs=38.1
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....+..-+..|+.|... =+...+|+|+|.|| |+.
T Consensus 40 ~~~eVi~~~~~~~~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrViD~~G~plD 97 (422)
T TIGR02546 40 LLAEVVGFTGDEALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLD 97 (422)
T ss_pred EEEEEEEEcCCcEEEEEccCccCCCCCCEEEECCCCceEEeChhhccCEeCCCCCccc
Confidence 578999999988888887776666677777663 24568999999999 443
No 14
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=33.43 E-value=2.4e+02 Score=29.10 Aligned_cols=67 Identities=16% Similarity=0.183 Sum_probs=48.5
Q ss_pred eeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeec
Q psy8580 30 CLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 30 I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
+...|+|.++.++++.|.+.. -.-.|.++.++ ++ ..| +|+|=-..-.+.+-|.+. .++..|+.|+.-
T Consensus 4 ~~~~G~V~~v~~~ii~v~Gl~---~~~~ge~~~i~-~~-~~g---~vi~~~~~~v~~~~l~~~-----~gi~~G~~V~~t 70 (485)
T CHL00059 4 IVNTGTVLQVGDGIARIYGLD---EVMAGELVEFE-DG-TIG---IALNLESNNVGVVLMGDG-----LMIQEGSSVKAT 70 (485)
T ss_pred eeeeEEEEEEeccEEEEeccc---cCCcCCEEEEC-CC-CEE---EEEEEcCCEEEEEEeeCC-----CCCCCCCEEEEC
Confidence 567899999999999999864 35578888886 34 556 555555666677776644 356789988774
No 15
>PF08674 AChE_tetra: Acetylcholinesterase tetramerisation domain; InterPro: IPR014788 Cholinesterase enzymes are members of the broader alpha/beta hydrolase family and can be dividied into two distinct groups: those that catalyse the hydrolysis of acetylcholine to choline and acetate (acetylcholinesterases 3.1.1.7 from EC) acetylcholine + H2O -> choline + acetate and those that catalyse the conversion of other acylcholines to a choline and a weak acid (cholinesterases 3.1.1.8 from EC) an acylcholine + H2O -> choline + a carboxylate Acetylcholinesterase also acts on a variety of acetic esters and catalyses transacetylations. It is the most intensively studied of the cholinesterase enzymes due to its key physiological role in the turnover of the neurotransmitter acylcholine []. This enzyme is found in, or attached to, cellular or basement membranes of presynaptic cholinergic neurons and postsynaptic cholinoceptive cells within the neuromuscular junction. Signal transmission at the neuromuscular junction involves the release of acylcholine, its interaction with the acycholine receptor and hydrolysis, all occuring in a period of a few milliseconds. Rapid hydrolysis of the newly released aceytlcholine is vital in order to prevent continuous firing of the nerve impulses []. Consistent with its role in this process, acetylcholinesterase has an unusually high turnover number, ensuring that acetylcholine is broken down quickly. There is evidence to suggest that acetylcholinesterase has additional important roles including involvement in neuronal adhesion, the formation of Alzheimer fibrils, and neurite growth [, , ]. The 3D structure of acetylcholinesterase and a cholinesterase have been determined [, ]. These proteins share the 3-layer alpha-beta-alpha sandwich fold common to members of the alpha/beta hydrolase family. Surprisingly, given the high turnover number of acetylcholinesterase, the active site of these enzymes is located at the bottom of a deep and narrow cleft, named the active-site gorge. The acetylcholinesterase tetramerisation domain is found at the C terminus and forms a left handed superhelix. ; GO: 0004091 carboxylesterase activity, 0016020 membrane; PDB: 1VZJ_A.
Probab=33.21 E-value=32 Score=23.77 Aligned_cols=11 Identities=45% Similarity=0.465 Sum_probs=9.4
Q ss_pred hHHHHHHHHHH
Q psy8580 149 DEEERRVKRNQ 159 (274)
Q Consensus 149 DE~E~e~Kr~~ 159 (274)
||+|++||..-
T Consensus 1 DEaE~~WK~~F 11 (37)
T PF08674_consen 1 DEAEREWKAEF 11 (37)
T ss_dssp HHHHHHHHHHH
T ss_pred ChHHHHHHHHH
Confidence 89999999863
No 16
>PRK05922 type III secretion system ATPase; Validated
Probab=32.25 E-value=2.9e+02 Score=28.06 Aligned_cols=69 Identities=10% Similarity=0.136 Sum_probs=45.4
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEec--CCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD--KGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE--nDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
.+...|+|.+|.+.+|.+++.. ...|.++.+. +++.+.|.|..+ -.+=.+.+-|... .++..|+.|
T Consensus 16 ~~~~~g~v~~v~g~~i~~~g~~----~~~ge~~~i~~~~~~~~~~eVv~~---~~~~~~l~~~~~~-----~gi~~G~~V 83 (434)
T PRK05922 16 PYRECGLLSRVSGNLLEAQGLS----ACLGELCQISLSKSPPILAEVIGF---HNRTTLLMSLSPI-----HYVALGAEV 83 (434)
T ss_pred cceeeeEEEEEEccEEEEEeCC----CCCCCEEEEecCCCCeeEEEEEEE---eCCeEEEEEccCC-----CCCCCCCEE
Confidence 3457899999999999999963 3478887773 234466644443 3343455555432 357789999
Q ss_pred eec
Q psy8580 107 YCA 109 (274)
Q Consensus 107 Yyv 109 (274)
+.-
T Consensus 84 ~~~ 86 (434)
T PRK05922 84 LPL 86 (434)
T ss_pred EeC
Confidence 875
No 17
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=31.08 E-value=1e+02 Score=26.38 Aligned_cols=31 Identities=19% Similarity=0.317 Sum_probs=26.0
Q ss_pred CCeEEecCCCeeeEEEEeeecCCCCcEEEEEe
Q psy8580 58 DSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRF 89 (274)
Q Consensus 58 gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRf 89 (274)
|--|+.+ ++..||+|.||+-.-.+.+|.|+.
T Consensus 102 G~~V~d~-~~~~lG~V~~v~~~~a~dll~V~~ 132 (165)
T TIGR02273 102 GLEVVTE-EGEELGKVVEILETGANDVLVVRS 132 (165)
T ss_pred CcEEEcC-CCcEEEEEEEEecCCCccEEEEEE
Confidence 4456655 478999999999999999999996
No 18
>PRK10515 hypothetical protein; Provisional
Probab=30.77 E-value=55 Score=26.62 Aligned_cols=23 Identities=17% Similarity=0.281 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCC
Q psy8580 150 EEERRVKRNQLRTRNNRNTSSTD 172 (274)
Q Consensus 150 E~E~e~Kr~~K~kkk~k~~~~~d 172 (274)
|-|+++|+.+..||+.+-..+++
T Consensus 53 ere~~aK~~R~~kK~~~~kp~~~ 75 (90)
T PRK10515 53 EREAEAKKARQLKKKQAYKPDTE 75 (90)
T ss_pred HHHHHHHHHHHHHHHhccCCCcc
Confidence 56788888877777666544444
No 19
>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=29.89 E-value=2.6e+02 Score=29.67 Aligned_cols=66 Identities=11% Similarity=0.204 Sum_probs=43.8
Q ss_pred ceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeecC
Q psy8580 33 VGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCAP 110 (274)
Q Consensus 33 LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyvP 110 (274)
.|+|.+|.+.+|.+.+.. -...|.++... +...+| ||+|=-..--+..-+.+. .++++|+.|+.--
T Consensus 2 ~G~V~~v~G~vV~a~g~~---~~~~gE~v~v~-~~~l~g---EVI~l~~d~a~iq~ye~t-----~Gl~~G~~V~~tg 67 (591)
T TIGR01042 2 YGYIYKVSGPVVVAENMA---GAAMYELVRVG-HDELVG---EIIRLEGDKATIQVYEET-----SGLTVGDPVLRTG 67 (591)
T ss_pred ceEEEEEECCEEEEecCC---CCCcCCEEEEC-CCceEE---EEEEEcCCeEEEEEccCc-----cCCCCCCEEEeCC
Confidence 699999999999999863 34456777765 345777 444444444444444422 4688999998753
No 20
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=29.27 E-value=3.3e+02 Score=28.85 Aligned_cols=66 Identities=20% Similarity=0.288 Sum_probs=46.2
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeec
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
..|+|.+|.+.+|++++... ...|.+|... +...+|.|..+-|-.. +..-|..- .++.+|+.|+.-
T Consensus 3 ~~G~I~~V~Gpvv~~~~~~~---~~~~E~v~v~-~~~l~gEVi~~~~d~a---~iqv~e~T-----~Gl~~G~~V~~t 68 (586)
T PRK04192 3 TKGKIVRVSGPLVVAEGMGG---ARMYEVVRVG-EEGLIGEIIRIEGDKA---TIQVYEET-----SGIKPGEPVEFT 68 (586)
T ss_pred ceeEEEEEECcEEEEEeCCC---CCccCEEEEC-CCcEEEEEEEEeCCce---EEEEecCC-----cCCCCCCEEEeC
Confidence 56999999999999998642 3456666665 4668888877777543 33334422 467889998774
No 21
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=28.81 E-value=96 Score=29.14 Aligned_cols=25 Identities=32% Similarity=0.267 Sum_probs=17.0
Q ss_pred ccccccCCCCCCCCCCCCCCCCChH
Q psy8580 126 VKGSDASWERDQEPPPEVVEFSDDE 150 (274)
Q Consensus 126 ~KGsDASn~~DEE~pe~e~EFSDDE 150 (274)
+++.|+|..-|+|+-++..|+.||+
T Consensus 56 l~~~~~~~~~~~~~~~~~~~~~~~~ 80 (232)
T PRK12766 56 VGGLEVSEETEAEVEDEGGEEEEEE 80 (232)
T ss_pred hccccccccccchhcccccchhhhh
Confidence 4688888888888765555544444
No 22
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=27.49 E-value=86 Score=25.08 Aligned_cols=56 Identities=21% Similarity=0.236 Sum_probs=30.9
Q ss_pred ceeeceeEEeee--cCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcE--EEEE
Q psy8580 29 QCLPVGKILNIV--DTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPV--YCVR 88 (274)
Q Consensus 29 ~I~~LGtV~sIV--e~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~Py--YsVR 88 (274)
.+.-+|+|.++- ++.+++++..+..|- +....+-...++.++||.|-|...- .+|+
T Consensus 20 ~VrivGkv~~~~~~g~~~~l~~~d~~~V~----v~l~~~~~~~~~~~vEviG~V~~~~~~~~i~ 79 (109)
T PF08661_consen 20 TVRIVGKVESVDPDGGSATLSTSDGGQVT----VSLNPPSDEELSKYVEVIGKVNDDGTVLSIR 79 (109)
T ss_dssp EEEEEEEEEEE-TTSSEEEEE-TTS-EEE----EEESS--SS---SEEEEEEEE-TTS-EEEEE
T ss_pred eEEEEEEEeeEcCCCCEEEEEcCCCCEEE----EEeCCCCCCCCCCEEEEEEEEcCCCCceEEE
Confidence 467799999998 888999987653221 1111111123577889999888765 3444
No 23
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=27.22 E-value=17 Score=28.60 Aligned_cols=12 Identities=50% Similarity=0.969 Sum_probs=8.8
Q ss_pred CCCCCCCccccC
Q psy8580 223 NKSFTPGSIIRA 234 (274)
Q Consensus 223 ~~~~~~~~~~~~ 234 (274)
.++|-||+|+||
T Consensus 66 ~~~FrpGDIVrA 77 (82)
T PF10447_consen 66 YDCFRPGDIVRA 77 (82)
T ss_dssp GGT--SSSEEEE
T ss_pred HhccCCCCEEEE
Confidence 678999999997
No 24
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=27.08 E-value=42 Score=28.67 Aligned_cols=28 Identities=18% Similarity=0.438 Sum_probs=20.9
Q ss_pred CCCCCCCeEEecCCCeeeEEEEeeecCCCC
Q psy8580 53 PTLDLDSVLFLDKGQRSLGKIFDVIGPVSG 82 (274)
Q Consensus 53 ~VLd~gSvLclEnDRt~IGkV~EVFGPV~~ 82 (274)
--+|.|+.|.+.+++.+.|. +|||||..
T Consensus 77 i~FddNA~Viin~~g~P~Gt--rI~GPVaR 104 (122)
T COG0093 77 IKFDDNAAVIINPDGEPRGT--RIFGPVAR 104 (122)
T ss_pred EEeCCceEEEECCCCCcccc--eEecchhH
Confidence 45566777777677888885 79999865
No 25
>PF05239 PRC: PRC-barrel domain; InterPro: IPR007903 The PRC-barrel is an all beta barrel domain found in photosynthetic reaction centre subunit H of the purple bacteria. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the C terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [].; PDB: 2QGG_A 3H9N_A 2WJN_H 2PRC_H 5PRC_H 2X5V_H 1DXR_H 1R2C_H 3G7F_H 1PRC_H ....
Probab=26.56 E-value=2.5e+02 Score=20.26 Aligned_cols=25 Identities=24% Similarity=0.506 Sum_probs=19.4
Q ss_pred CCCeEEecCCCeeeEEEEee-ecCCCC
Q psy8580 57 LDSVLFLDKGQRSLGKIFDV-IGPVSG 82 (274)
Q Consensus 57 ~gSvLclEnDRt~IGkV~EV-FGPV~~ 82 (274)
.|.-|+..+ +..||+|.|+ |-+-..
T Consensus 10 ~g~~V~~~~-G~~iG~V~di~id~~~~ 35 (79)
T PF05239_consen 10 IGKEVIDRD-GEKIGKVKDIVIDPKTG 35 (79)
T ss_dssp TTSEEEETT-SCEEEEEEEEEEETTTT
T ss_pred cCCEEEcCC-CCEEEEEEEEEEeCCCC
Confidence 366788874 8999999999 887443
No 26
>CHL00060 atpB ATP synthase CF1 beta subunit
Probab=26.43 E-value=3.7e+02 Score=27.88 Aligned_cols=73 Identities=11% Similarity=0.158 Sum_probs=51.1
Q ss_pred eeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCC---eeeEEEEeeecCCC-CcEEEEEeCCCcccccccccCCCee
Q psy8580 31 LPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQ---RSLGKIFDVIGPVS-GPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 31 ~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDR---t~IGkV~EVFGPV~-~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
...|+|.+|.+.+|-|.+.. ..++..|.++....+. +..+.+.||.|-.. .=...+-|... .+++.|++|
T Consensus 14 ~~~G~V~~v~G~viev~~~~-~~iP~ig~~~~i~~~~~~~~~~~~~~EVvg~~~~~~v~~~~l~~~-----~gi~~G~~V 87 (494)
T CHL00060 14 KNLGRITQIIGPVLDVAFPP-GKMPNIYNALVVKGRDTAGQEINVTCEVQQLLGNNRVRAVAMSAT-----DGLMRGMEV 87 (494)
T ss_pred ccceEEEEEEccEEEEEecC-CCcCCcCCEEEEccCCCCCccceEEEEEEEEeCCCeEEEEeccCc-----cCCCCCCEE
Confidence 35799999999999999863 4577889988884322 11124558888887 65666666533 357799998
Q ss_pred eec
Q psy8580 107 YCA 109 (274)
Q Consensus 107 Yyv 109 (274)
+.-
T Consensus 88 ~~t 90 (494)
T CHL00060 88 IDT 90 (494)
T ss_pred EeC
Confidence 864
No 27
>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=26.31 E-value=1e+02 Score=30.74 Aligned_cols=50 Identities=20% Similarity=0.439 Sum_probs=37.6
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....++.-+..|+.|... =+...+|+|+|.|| |+.
T Consensus 34 ~~~eVi~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~vpvg~~lLGRVid~~G~plD 91 (413)
T TIGR03497 34 VLAEVVGFKEENVLLMPLGEVEGIGPGSLVIATGRPLAIKVGKGLLGRVLDGLGRPLD 91 (413)
T ss_pred EEEEEEEEcCCeEEEEEccCccCCCCCCEEEEcCCeeEEEcchhhcCCEEcCCCCccc
Confidence 478899998988888887766666667666663 23467999999999 454
No 28
>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=26.27 E-value=1.1e+02 Score=30.69 Aligned_cols=50 Identities=22% Similarity=0.393 Sum_probs=37.5
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....+..-+..|+.|... =+...+|+|+|.|| |+.
T Consensus 34 ~~~eVv~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGrVid~~G~pld 91 (411)
T TIGR03496 34 IEAEVVGFRGDRVLLMPLEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLGRPLD 91 (411)
T ss_pred EEEEEEEecCCEEEEEEccCccCCCCCCEEEECCCccEEEcchhhcCCEECCCCCCcC
Confidence 578999988888888887766556667766653 24568999999999 444
No 29
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=26.24 E-value=1.1e+02 Score=24.46 Aligned_cols=55 Identities=18% Similarity=0.175 Sum_probs=35.4
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEE
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVR 88 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVR 88 (274)
.+.-+|+|.++-++.+++++..... -++.+.+.-...+|++.||.|-|+.- -+|+
T Consensus 17 ~V~ivGkV~~~~~~~~~~~~~Dg~~----v~v~l~~~~~~~~~~~vEViG~V~~~-~~I~ 71 (101)
T cd04479 17 TVRIVGKVEKVDGDSLTLISSDGVN----VTVELNRPLDLPISGYVEVIGKVSPD-LTIR 71 (101)
T ss_pred EEEEEEEEEEecCCeEEEEcCCCCE----EEEEeCCCCCcccCCEEEEEEEECCC-CeEE
Confidence 5677999999987877777765311 11222221135788899999999863 4555
No 30
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=26.14 E-value=3.6e+02 Score=27.83 Aligned_cols=68 Identities=18% Similarity=0.200 Sum_probs=46.9
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
.+...|+|.+|.+.++.|.+.. -...|.++.+. ++ ..|.|. |=-..-.+.+-|.+. .++..|+.|..
T Consensus 24 ~~~~~G~V~~v~g~~v~v~g~~---~~~~ge~~~i~-~~-~~g~Vi---~~~~~~~~~~~~~~~-----~gi~~g~~V~~ 90 (502)
T PRK09281 24 EVEEVGTVISVGDGIARVYGLD---NVMAGELLEFP-GG-VYGIAL---NLEEDNVGAVILGDY-----EDIKEGDTVKR 90 (502)
T ss_pred eeEEEEEEEEEeCCEEEEECcc---ccccCCEEEEC-CC-cEEEEE---EEcCCeEEEEEecCc-----ccccCCCeeee
Confidence 4567899999999999999863 35567887776 35 667544 444444566666544 35678888876
Q ss_pred c
Q psy8580 109 A 109 (274)
Q Consensus 109 v 109 (274)
-
T Consensus 91 ~ 91 (502)
T PRK09281 91 T 91 (502)
T ss_pred c
Confidence 4
No 31
>PRK13343 F0F1 ATP synthase subunit alpha; Provisional
Probab=26.07 E-value=4e+02 Score=27.61 Aligned_cols=69 Identities=19% Similarity=0.268 Sum_probs=47.1
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
.+...|+|.+|.+.++.|.+.. -...|.++.++ ++ ..|. |+|=-.+=...+-|.+. .++..|+.|..
T Consensus 24 ~~~~~G~V~~v~g~i~~v~gl~---~~~~ge~~~i~-~~-~~g~---V~~l~~~~v~~~~l~~~-----~gi~~G~~V~~ 90 (502)
T PRK13343 24 DAREIGRVESVGDGIAFVSGLP---DAALDELLRFE-GG-SRGF---AFNLEEELVGAVLLDDT-----ADILAGTEVRR 90 (502)
T ss_pred eeEEeeEEEEEeCCEEEEeCCC---CCCCCCEEEEC-CC-cEEE---EEEecCCeEEEEEeeCC-----CCCCCCCEeEe
Confidence 4568899999999999998854 23468888876 34 5664 44544555566666543 35678888876
Q ss_pred cC
Q psy8580 109 AP 110 (274)
Q Consensus 109 vP 110 (274)
--
T Consensus 91 tg 92 (502)
T PRK13343 91 TG 92 (502)
T ss_pred cC
Confidence 43
No 32
>PRK06820 type III secretion system ATPase; Validated
Probab=25.98 E-value=5.3e+02 Score=26.20 Aligned_cols=69 Identities=14% Similarity=0.060 Sum_probs=46.4
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
.+...|.|.+|.+.++.+.+. -...|.+++++.++ .+|.|..+-| .=.+.+-|... .++..|+.|+.
T Consensus 26 ~~~~~G~v~~v~g~~~~~~~~----~~~~ge~~~i~~~~-~~~eVv~~~~---~~~~l~~~~~~-----~gi~~g~~v~~ 92 (440)
T PRK06820 26 GLRYRGPIVEIGPTLLRASLP----GVAQGELCRIEPQG-MLAEVVSIEQ---EMALLSPFASS-----DGLRCGQWVTP 92 (440)
T ss_pred ceeEeeEEEEEECcEEEEEEC----CCCcCCEEEEecCC-eEEEEEEEeC---CeEEEEEccCc-----cCCCCCCEEEE
Confidence 356679999999988888753 46678888885333 6665555444 33555555433 36789999987
Q ss_pred cC
Q psy8580 109 AP 110 (274)
Q Consensus 109 vP 110 (274)
--
T Consensus 93 tg 94 (440)
T PRK06820 93 LG 94 (440)
T ss_pred CC
Confidence 54
No 33
>PRK06315 type III secretion system ATPase; Provisional
Probab=25.68 E-value=4.2e+02 Score=26.95 Aligned_cols=69 Identities=14% Similarity=0.223 Sum_probs=47.4
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCC--eeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQ--RSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDR--t~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
.....|+|..|++.+|-+++. ....|.+++.+.++ .++| ||.|=-.+-.+.+-|.+. .++..|+.|
T Consensus 20 ~~~~~G~v~~i~g~~~~~~~~----~~~~ge~~~i~~~~~~~~~~---eVv~~~~~~~~l~~~~~~-----~gi~~g~~V 87 (442)
T PRK06315 20 LTTVVGRITEVVGMLIKAVVP----DVRVGEVCLVKRHGMEPLVT---EVVGFTQNFVFLSPLGEL-----TGVSPSSEV 87 (442)
T ss_pred cceeccEEEEEECCEEEEEEC----CcccCCEEEEecCCCCEEEE---EEEEEcCCeEEEEEccCC-----cCCCCCCEE
Confidence 345679999999999999975 24778877774223 2444 666666666777776644 356778888
Q ss_pred eec
Q psy8580 107 YCA 109 (274)
Q Consensus 107 Yyv 109 (274)
+.-
T Consensus 88 ~~~ 90 (442)
T PRK06315 88 IPT 90 (442)
T ss_pred EeC
Confidence 764
No 34
>KOG2236|consensus
Probab=25.56 E-value=2.4e+02 Score=29.22 Aligned_cols=38 Identities=13% Similarity=0.075 Sum_probs=17.6
Q ss_pred HHHHHHHH-HhhcCCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q psy8580 153 RRVKRNQL-RTRNNRNTSSTDGTDPPDVPPEPKTRRPTPFE 192 (274)
Q Consensus 153 ~e~Kr~~K-~kkk~k~~~~~d~~~~~~~~~~~~~~r~~~~~ 192 (274)
.++++.-| +|||+|++........ -+.+..+-+...|.
T Consensus 324 DEkEaeak~~kKQrk~r~~~k~~~n--d~~~~~~~~~~ean 362 (483)
T KOG2236|consen 324 DEKEAEAKQMKKQRKRRSKVKFSDN--DPVKVKTEVEGEAN 362 (483)
T ss_pred HHHHHHHHHHHHHhhcccccccccC--CCCccccccccccc
Confidence 45555433 3454444433333322 44455555555555
No 35
>PRK06002 fliI flagellum-specific ATP synthase; Validated
Probab=25.54 E-value=4e+02 Score=27.21 Aligned_cols=71 Identities=15% Similarity=0.236 Sum_probs=47.2
Q ss_pred CceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 28 DQCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 28 ~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
......|+|.+|.+.++-+.+... -...|.++.++. ++..+| ||+|=-..=.+.+-|... .++..|+.|
T Consensus 22 ~~~~~~G~v~~v~g~~~~~~g~~~--~~~iGe~~~i~~~~~~~~~---eVv~~~~~~~~l~~~~~~-----~gi~~g~~v 91 (450)
T PRK06002 22 PLVRIGGTVSEVTASHYRVRGLSR--FVRLGDFVAIRADGGTHLG---EVVRVDPDGVTVKPFEPR-----IEIGLGDAV 91 (450)
T ss_pred CccceeEEEEEEeceEEEEEcCcc--CCCCCCEEEEECCCCcEEE---EEEEEeCCeEEEEEccCC-----cCCCCCCEE
Confidence 345678999999998888887521 345677777753 333455 666666665666666543 357788888
Q ss_pred ee
Q psy8580 107 YC 108 (274)
Q Consensus 107 Yy 108 (274)
+.
T Consensus 92 ~~ 93 (450)
T PRK06002 92 FR 93 (450)
T ss_pred Ee
Confidence 77
No 36
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=25.27 E-value=3.9e+02 Score=26.85 Aligned_cols=67 Identities=15% Similarity=0.294 Sum_probs=42.8
Q ss_pred eeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CC-eeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeecC
Q psy8580 34 GKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQ-RSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCAP 110 (274)
Q Consensus 34 GtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DR-t~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyvP 110 (274)
|+|.+|.+.++-|.+.. .++..|.++.++. ++ .++| ||.|=-..=.+.+-+.+. .++..|+.|+.--
T Consensus 1 G~v~~v~g~~~~v~g~~--~~~~~ge~~~i~~~~~~~~~~---eVv~~~~~~v~l~~~~~~-----~gi~~G~~V~~tg 69 (418)
T TIGR03498 1 GRVTAVTGLLIEVRGLS--RAVRLGDRCAIRARDGRPVLA---EVVGFNGDRVLLMPFEPL-----EGVGLGCAVFARE 69 (418)
T ss_pred CEEEEEECcEEEEEcCC--CccCCCCEEEEEcCCCCEEEE---EEEEEcCCeEEEEEccCC-----cCCCCCCEEEECC
Confidence 78999999999999852 2237888888853 23 4566 444423333344444432 3677899998753
No 37
>PTZ00054 60S ribosomal protein L23; Provisional
Probab=24.96 E-value=61 Score=28.14 Aligned_cols=27 Identities=15% Similarity=0.326 Sum_probs=20.3
Q ss_pred CCCCCCeEEecCCCeeeEEEEeeecCCCC
Q psy8580 54 TLDLDSVLFLDKGQRSLGKIFDVIGPVSG 82 (274)
Q Consensus 54 VLd~gSvLclEnDRt~IGkV~EVFGPV~~ 82 (274)
-.+.|++|.+.++++++|. .|||||..
T Consensus 96 ~F~dNA~VLin~~~~p~GT--RI~GpV~r 122 (139)
T PTZ00054 96 YFEDNAGVIVNPKGEMKGS--AITGPVAK 122 (139)
T ss_pred EeCCcEEEEECCCCCEeee--EEeCchhH
Confidence 4566777777666789996 68999975
No 38
>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=24.69 E-value=3.8e+02 Score=26.82 Aligned_cols=64 Identities=16% Similarity=0.186 Sum_probs=42.9
Q ss_pred eeEEeeecCeEEEEeCCCCCCCCCCCeEEec--CCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeec
Q psy8580 34 GKILNIVDTLVLIKTLKNTPTLDLDSVLFLD--KGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 34 GtV~sIVe~~VVVks~~~~~VLd~gSvLclE--nDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
|+|.+|.+.+|-|.+. -...|.++.+. ++...+| ||.|=...-.+.+-|.+. .++..|+.|+.-
T Consensus 1 G~V~~i~G~~i~v~~~----~~~ige~~~i~~~~~~~~~~---eVi~~~~~~v~l~~~~~t-----~gl~~G~~V~~t 66 (413)
T TIGR03497 1 GKVTRVIGLTIESKGP----KAKIGELCSILTKGGKPVLA---EVVGFKEENVLLMPLGEV-----EGIGPGSLVIAT 66 (413)
T ss_pred CeEEEEECCEEEEEeC----CCCcCCEEEEEeCCCCeEEE---EEEEEcCCeEEEEEccCc-----cCCCCCCEEEEc
Confidence 8899999999999885 24456766663 2345666 455544555666666543 356789988764
No 39
>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha. A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.
Probab=24.57 E-value=4.2e+02 Score=27.53 Aligned_cols=69 Identities=16% Similarity=0.207 Sum_probs=48.3
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
.+...|+|.+|.+.++.|.+.. -...|.++.++ ++ ..| +|+|=-..-.+.+-|.+. .+++.|+.|+.
T Consensus 24 ~~~~~G~V~~v~g~ii~v~gl~---~~~~gEl~~i~-~~-~~g---~Vi~l~~~~v~~~~l~~~-----~gi~~G~~V~~ 90 (497)
T TIGR03324 24 TVQEVGTVESVSTGIARVHGLP---GVGFEELLRFP-GG-LLG---IAFNVDEDEVGVVLLGEY-----SHLQAGDEVER 90 (497)
T ss_pred ceeEEEEEEEEeceEEEEEccC---CCCcCCEEEEC-CC-cEE---EEEEEcCCeEEEEEecCC-----cCCcCCCEEEE
Confidence 4677899999999999999853 35567887775 33 566 555555555666666644 35678998877
Q ss_pred cC
Q psy8580 109 AP 110 (274)
Q Consensus 109 vP 110 (274)
--
T Consensus 91 tg 92 (497)
T TIGR03324 91 TG 92 (497)
T ss_pred CC
Confidence 43
No 40
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=23.79 E-value=1.3e+02 Score=30.34 Aligned_cols=49 Identities=20% Similarity=0.403 Sum_probs=35.8
Q ss_pred ceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 33 VGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 33 LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
+|.|..+-++.+++....+..-+..|+.|+.. =+...+|+|+|.|| |+.
T Consensus 54 ~~eVv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGrVid~~G~pld 110 (433)
T PRK07594 54 LAEVVGINGSKALLSPFTSTIGLHCGQQVMALRRRHQVPVGEALLGRVIDGFGRPLD 110 (433)
T ss_pred EEEEEEEcCCeEEEEEccCCcCCCCCCEEEeCCCccEEEeChhhccCEEcccCCCcC
Confidence 67888888888888887665556666666653 23568999999999 444
No 41
>PRK09099 type III secretion system ATPase; Provisional
Probab=23.65 E-value=4.6e+02 Score=26.63 Aligned_cols=67 Identities=16% Similarity=0.262 Sum_probs=0.0
Q ss_pred eeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEe-cCCCe--eeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 30 CLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFL-DKGQR--SLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 30 I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLcl-EnDRt--~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
+...|+|.+|.+.++.+.+.. ...|.++.+ ..++. .+| ||.|=-..-.+..-|.+. .++..|++|
T Consensus 22 ~~~~G~V~~v~g~~i~~~g~~----~~~ge~~~i~~~~g~~~~~~---eVv~~~~~~~~l~~~~~t-----~gi~~g~~V 89 (441)
T PRK09099 22 VRRTGKVVEVIGTLLRVSGLD----VTLGELCELRQRDGTLLQRA---EVVGFSRDVALLSPFGEL-----GGLSRGTRV 89 (441)
T ss_pred ceEeeEEEEEECCEEEEeccC----CCCCCEEEEecCCCCeeeEE---EEEEEECCEEEEEEccCC-----cCCCCCCEE
Q ss_pred ee
Q psy8580 107 YC 108 (274)
Q Consensus 107 Yy 108 (274)
..
T Consensus 90 ~~ 91 (441)
T PRK09099 90 IG 91 (441)
T ss_pred Ee
No 42
>PRK08472 fliI flagellum-specific ATP synthase; Validated
Probab=23.56 E-value=4.6e+02 Score=26.64 Aligned_cols=67 Identities=18% Similarity=0.240 Sum_probs=0.0
Q ss_pred eeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCC---CeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 30 CLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKG---QRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 30 I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnD---Rt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
....|+|.+|.+.+|.+.+.. ...|.++.++++ ..++| ||+|=-..=.+.+-|.+. .++..|++|
T Consensus 16 ~~~~G~v~~v~g~~v~~~g~~----~~~ge~~~i~~~~~~~~~~~---eVv~~~~~~~~l~~~~~t-----~gl~~G~~V 83 (434)
T PRK08472 16 SPRFGSITKISPTIIEADGLN----PSVGDIVKIESSDNGKECLG---MVVVIEKEQFGISPFSFI-----EGFKIGDKV 83 (434)
T ss_pred ceeeeEEEEEEccEEEEEecC----CCCCCEEEEecCCCCCceEE---EEEEEeCCeEEEEEccCC-----CCCCCCCEE
Q ss_pred ee
Q psy8580 107 YC 108 (274)
Q Consensus 107 Yy 108 (274)
+.
T Consensus 84 ~~ 85 (434)
T PRK08472 84 FI 85 (434)
T ss_pred Ee
No 43
>PF11656 DUF3811: YjbD family (DUF3811); InterPro: IPR020317 This entry contains proteins with no known function.
Probab=23.10 E-value=93 Score=25.20 Aligned_cols=20 Identities=20% Similarity=0.410 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHhhcCCCCC
Q psy8580 150 EEERRVKRNQLRTRNNRNTS 169 (274)
Q Consensus 150 E~E~e~Kr~~K~kkk~k~~~ 169 (274)
|.|.++|+.+..||+.+-..
T Consensus 51 ere~~aKkar~ekkk~k~~p 70 (87)
T PF11656_consen 51 EREKAAKKARAEKKKNKVKP 70 (87)
T ss_pred HHHHHHHHHHHHHHHhccCC
Confidence 67888888888877777654
No 44
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=22.85 E-value=1.3e+02 Score=30.22 Aligned_cols=50 Identities=16% Similarity=0.414 Sum_probs=37.8
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-------CCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-------GQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-------DRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....+..-+..|+.|.... +...+|+|+|.|| |+.
T Consensus 36 ~~~eVv~~~~~~v~l~~~~~~~gi~~G~~V~~tg~~~~i~vg~~lLGRViD~lG~plD 93 (418)
T TIGR03498 36 VLAEVVGFNGDRVLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLGRVINALGEPID 93 (418)
T ss_pred EEEEEEEEcCCeEEEEEccCCcCCCCCCEEEECCCccEEEeChhhcCCEECCCCCccC
Confidence 5789999888888888877666666677776531 3457899999999 443
No 45
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=22.84 E-value=6.3e+02 Score=25.30 Aligned_cols=68 Identities=10% Similarity=0.143 Sum_probs=44.9
Q ss_pred eeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC--CCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeee
Q psy8580 31 LPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK--GQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYC 108 (274)
Q Consensus 31 ~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn--DRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYy 108 (274)
...|+|.+|.+.+|.|... -...|.++.+++ +..++|.|..+-| +=.+.+-|.+. .++..|+.|+.
T Consensus 4 ~~~G~V~~v~g~~v~v~~~----~~~~ge~~~i~~~~~~~~~~eVi~~~~---~~~~l~~~~~~-----~gl~~G~~V~~ 71 (422)
T TIGR02546 4 RVRGRVTEVSGTLLKAVLP----GARVGELCLIRRRDPSQLLAEVVGFTG---DEALLSPLGEL-----HGISPGSEVIP 71 (422)
T ss_pred ceeEEEEEEECcEEEEEEC----CCCCCCEEEEeeCCCCeEEEEEEEEcC---CcEEEEEccCc-----cCCCCCCEEEE
Confidence 4579999999999999753 244677777742 3457776665555 33445555433 35778999887
Q ss_pred cC
Q psy8580 109 AP 110 (274)
Q Consensus 109 vP 110 (274)
--
T Consensus 72 tg 73 (422)
T TIGR02546 72 TG 73 (422)
T ss_pred CC
Confidence 53
No 46
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=22.81 E-value=4.9e+02 Score=26.62 Aligned_cols=68 Identities=16% Similarity=0.298 Sum_probs=43.8
Q ss_pred ceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CCeeeEEEEeeecCCCC-cEEEEEeCCCcccccccccCCCeeeec
Q psy8580 33 VGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQRSLGKIFDVIGPVSG-PVYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 33 LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DRt~IGkV~EVFGPV~~-PyYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
.|+|.+|.+.+|.|.+..+. ....|.++.+++ +... +.||.|-+.. =.+.+-|... .++..|+.|+.-
T Consensus 3 ~G~V~~i~g~vi~v~g~~~~-~~~ige~~~i~~~~~~~---~~eVv~~l~~~~v~l~~~~~~-----~gl~~G~~V~~t 72 (461)
T PRK12597 3 IGRIIKIRGDVVDVEFEEGA-LPPINQALTVHDDGGPT---LLEVKQHLDETTVRAIALGST-----SGLARGDEVRNT 72 (461)
T ss_pred ccEEEEEECcEEEEEECCCC-CcCccCEEEEecCCCcE---EEEEEEEcCCCeEEEEEecCc-----cCCCCCCEEEeC
Confidence 59999999999999986432 367788877743 2333 4466666333 2334444322 367889988764
No 47
>TIGR01026 fliI_yscN ATPase FliI/YscN family. This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.
Probab=22.75 E-value=1.3e+02 Score=30.45 Aligned_cols=50 Identities=18% Similarity=0.413 Sum_probs=36.2
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|.++-++.+++....+..=|..|+.|... =+...+|+|+|.|| |+.
T Consensus 59 ~~~eVi~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGRVid~~G~plD 116 (440)
T TIGR01026 59 LVAEVVGFNGEFVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLGKPID 116 (440)
T ss_pred EEEEEEEecCCEEEEEEccCCcCCCCCCEEEeCCCccEEEcChhhhhceecCCCcccC
Confidence 467888888888888887665555556666553 24568999999999 444
No 48
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=21.95 E-value=6e+02 Score=26.02 Aligned_cols=74 Identities=14% Similarity=0.143 Sum_probs=48.2
Q ss_pred CCCCceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CCeeeEEEEeeecCCCCcEEEEEeCCCcccccccccCC
Q psy8580 25 VPEDQCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQRSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKID 103 (274)
Q Consensus 25 lPe~~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DRt~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG 103 (274)
+|.-.....|+|..|++.+|-+.+. -.-.|.++.++. +..++ .||.|=-.+=.+..-|.+. .++..|
T Consensus 18 ~~~~~~~~~G~v~~v~g~~i~~~g~----~~~ige~~~i~~~~~~~~---~EVv~~~~~~~~l~~~~~~-----~gi~~g 85 (444)
T PRK08972 18 VPPFRAVASGKLVRVVGLTLEATGC----RAPVGSLCSIETMAGELE---AEVVGFDGDLLYLMPIEEL-----RGVLPG 85 (444)
T ss_pred cCCCCcceeeEEEEEEcCEEEEeeC----CCCCCCEEEEecCCCcEE---EEEEEecCCEEEEEECCCc-----CCCCCC
Confidence 4444567789999999999999885 256677777742 23344 4777755553333333322 367889
Q ss_pred CeeeecC
Q psy8580 104 QDVYCAP 110 (274)
Q Consensus 104 ~kVYyvP 110 (274)
+.|+.--
T Consensus 86 ~~V~~tg 92 (444)
T PRK08972 86 ARVTPLG 92 (444)
T ss_pred CEEEECC
Confidence 9998753
No 49
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=21.70 E-value=1.6e+02 Score=25.28 Aligned_cols=32 Identities=16% Similarity=0.125 Sum_probs=26.2
Q ss_pred CCCeEEecCCCeeeEEEEeeecCCCCcEEEEEe
Q psy8580 57 LDSVLFLDKGQRSLGKIFDVIGPVSGPVYCVRF 89 (274)
Q Consensus 57 ~gSvLclEnDRt~IGkV~EVFGPV~~PyYsVRf 89 (274)
.|--|+.+ ++..||+|.+|+-.-.+..|.|+.
T Consensus 86 iG~~V~d~-~g~~lG~V~~V~~~ga~dvlvV~~ 117 (161)
T PRK13828 86 IGLAAVDT-GGALLGRVKAVHNFGAGDILEIAP 117 (161)
T ss_pred cCCEEEeC-CCCEEEEEEEEccCCCccEEEEEE
Confidence 35566666 478999999999988899999984
No 50
>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=21.66 E-value=5.3e+02 Score=25.82 Aligned_cols=65 Identities=9% Similarity=0.131 Sum_probs=42.7
Q ss_pred eeEEeeecCeEEEEeCCCCCCCCCCCeEEec-CCC-eeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCeeeecC
Q psy8580 34 GKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-KGQ-RSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDVYCAP 110 (274)
Q Consensus 34 GtV~sIVe~~VVVks~~~~~VLd~gSvLclE-nDR-t~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kVYyvP 110 (274)
|+|.+|.+.+|.|.+. -...|.++.+. +++ ..+|.|..+ -..-.+.+-|.+. .++..|+.|+.-.
T Consensus 1 G~v~~v~g~~v~v~g~----~~~~ge~~~i~~~~~~~~~~eVv~~---~~~~v~l~~~~~t-----~gl~~G~~V~~tg 67 (411)
T TIGR03496 1 GRVTRVVGLVLEAVGL----RAPVGSRCEIESSDGDPIEAEVVGF---RGDRVLLMPLEDV-----EGLRPGARVFPLE 67 (411)
T ss_pred CEEEEEECcEEEEEeC----CCCcCCEEEEEcCCCCeEEEEEEEe---cCCEEEEEEccCc-----cCCCCCCEEEECC
Confidence 7899999999999986 35567777663 123 466755544 3343455555433 3577899998753
No 51
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=21.65 E-value=3e+02 Score=20.43 Aligned_cols=41 Identities=7% Similarity=0.265 Sum_probs=26.7
Q ss_pred ceeEEeeecCeEEEEeCCCCCCCCCCCeEEecCC--CeeeEEEEeee
Q psy8580 33 VGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKG--QRSLGKIFDVI 77 (274)
Q Consensus 33 LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEnD--Rt~IGkV~EVF 77 (274)
+|..++ -+-.+++... ..+..|+.|..+.+ ..++|.|.++.
T Consensus 5 iG~~s~-~~~~f~~~~~---~~v~~GeyV~i~~~~~~~vlG~V~~i~ 47 (91)
T PF09378_consen 5 IGETSS-NEFEFIVEPS---KDVRVGEYVVIEYDDGEKVLGMVTSIS 47 (91)
T ss_dssp -EEEEE-ETTEEEEEE----TT-BTTEEEEES----TTEEEEEEEEE
T ss_pred cCceeE-eeEEEEEeCC---CCCCcCeEEEEEEechhhhhhhhheeE
Confidence 355554 5555666664 37889999999844 78999998875
No 52
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=21.52 E-value=4.2e+02 Score=27.04 Aligned_cols=66 Identities=12% Similarity=0.164 Sum_probs=44.0
Q ss_pred eeEEeeecCeEEEEeCCCCCCCCCCCeEEecCCCeeeEEEEeeecCCCCc-EEEEEeCCCcccccccccCCCeeeec
Q psy8580 34 GKILNIVDTLVLIKTLKNTPTLDLDSVLFLDKGQRSLGKIFDVIGPVSGP-VYCVRFNSHQHIVDSNIKIDQDVYCA 109 (274)
Q Consensus 34 GtV~sIVe~~VVVks~~~~~VLd~gSvLclEnDRt~IGkV~EVFGPV~~P-yYsVRfns~e~I~~~~l~vG~kVYyv 109 (274)
|.|.+|.+.+|-|.-.. ..+...+.|...++.+.++ ||.|.+..= ...+-|... .+++.|+.|+.-
T Consensus 1 G~i~~i~g~vvdv~f~~--~~p~i~~~l~~~~~~~~~~---EVv~~l~~~~v~l~~l~~t-----~Gi~~G~~V~~t 67 (449)
T TIGR03305 1 GHVVAVRGSIVDVRFDG--ELPAIHSVLRAGREGEVVV---EVLSQLDAHHVRGIALTPT-----QGLARGMPVRDS 67 (449)
T ss_pred CeEEEEEcCEEEEEeCC--CCcchhheEEecCCCcEEE---eeeeEecCCeEEEEEccCc-----ccCCCCCEEEec
Confidence 78999999999999853 3777888888763345555 566644333 344444432 357789988764
No 53
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=21.31 E-value=6.1e+02 Score=25.89 Aligned_cols=72 Identities=11% Similarity=0.189 Sum_probs=47.7
Q ss_pred ceeeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CC-eeeEEEEeeecCCCCcEEEEEeCCCcccccccccCCCee
Q psy8580 29 QCLPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQ-RSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIKIDQDV 106 (274)
Q Consensus 29 ~I~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DR-t~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~vG~kV 106 (274)
.....|+|.+|.+.+|.|.+... -...|.++.++. ++ .++|.|..+-| .=.+.+-|... .++..|+.|
T Consensus 14 ~~~~~g~v~~i~g~~i~v~g~~~--~~~~ge~~~i~~~~~~~~~~eVv~~~~---~~~~l~~~~~~-----~gi~~g~~V 83 (442)
T PRK08927 14 TLVIYGRVVAVRGLLVEVAGPIH--ALSVGARIVVETRGGRPVPCEVVGFRG---DRALLMPFGPL-----EGVRRGCRA 83 (442)
T ss_pred cceeeeEEEEEEccEEEEEecCC--CCCcCCEEEEEcCCCCEEEEEEEEEcC---CeEEEEEccCc-----cCCCCCCEE
Confidence 45678999999999999999632 246788877743 34 46664444444 43555555433 357789998
Q ss_pred eecC
Q psy8580 107 YCAP 110 (274)
Q Consensus 107 YyvP 110 (274)
+.--
T Consensus 84 ~~tg 87 (442)
T PRK08927 84 VIAN 87 (442)
T ss_pred EeCC
Confidence 8753
No 54
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=21.01 E-value=1.4e+02 Score=30.02 Aligned_cols=50 Identities=16% Similarity=0.377 Sum_probs=37.2
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-------CCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-------GQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-------DRt~IGkV~EVFG-PV~ 81 (274)
.+|.|..+-++.+++....+..-+..|+.|.... +...+|+|+|.|| |+.
T Consensus 55 ~~~EVi~~~~~~~~l~~~~~~~gl~~g~~V~~tg~~~~v~vg~~llGRv~d~~G~plD 112 (438)
T PRK07721 55 IKAEVVGFKDEHVLLMPYTEVAEIAPGCLVEATGKPLEVKVGSGLIGQVLDALGEPLD 112 (438)
T ss_pred EEEEEEEEcCCEEEEEEccCccCCCCCCEEEECCCccEEEechhhcCCEECcCCCccC
Confidence 4678888888888888877666666677776631 3457999999999 555
No 55
>PRK06820 type III secretion system ATPase; Validated
Probab=20.93 E-value=1.7e+02 Score=29.76 Aligned_cols=47 Identities=17% Similarity=0.301 Sum_probs=34.8
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeec
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIG 78 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFG 78 (274)
.+|.|..+-++.+++....+..-+..|+.|... =+...+|+|+|.||
T Consensus 61 ~~~eVv~~~~~~~~l~~~~~~~gi~~g~~v~~tg~~~~v~vg~~llGrv~d~~G 114 (440)
T PRK06820 61 MLAEVVSIEQEMALLSPFASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLG 114 (440)
T ss_pred eEEEEEEEeCCeEEEEEccCccCCCCCCEEEECCCCcEEEechhhcCCEECccC
Confidence 468888888888888877665555566666553 24568999999999
No 56
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=20.51 E-value=1.9e+02 Score=29.55 Aligned_cols=67 Identities=22% Similarity=0.281 Sum_probs=39.4
Q ss_pred CCCCCCCccccCCCCceeeceeEE-eeecCeEEEEeCCCCCCCCCCCeEEec-------CCCeeeEEEEeeecCCCC
Q psy8580 14 DLPPIEDLQISVPEDQCLPVGKIL-NIVDTLVLIKTLKNTPTLDLDSVLFLD-------KGQRSLGKIFDVIGPVSG 82 (274)
Q Consensus 14 ~LPpi~~l~i~lPe~~I~~LGtV~-sIVe~~VVVks~~~~~VLd~gSvLclE-------nDRt~IGkV~EVFGPV~~ 82 (274)
+||.+-++ +.+..+. ..++.|. |+-++.+.+-....+.-+..|+.|... =+...+|+|.|.||..-.
T Consensus 18 ~~p~i~~~-l~~~~~~-~~~~EVv~~l~~~~v~l~~l~~t~Gi~~G~~V~~tg~~~~VpVg~~lLGRVlD~~G~PiD 92 (449)
T TIGR03305 18 ELPAIHSV-LRAGREG-EVVVEVLSQLDAHHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTID 92 (449)
T ss_pred CCcchhhe-EEecCCC-cEEEeeeeEecCCeEEEEEccCcccCCCCCEEEecCCceEEEcChhhcCCEEccCccccC
Confidence 57777773 2333221 1233444 466777777766555455556655552 245689999999996543
No 57
>KOG2376|consensus
Probab=20.43 E-value=1.3e+02 Score=32.21 Aligned_cols=20 Identities=45% Similarity=0.718 Sum_probs=11.1
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q psy8580 238 PDIPPLPLPMSQPSAPPPRF 257 (274)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~~~ 257 (274)
|.++--+-|.+++.+|-|+-
T Consensus 623 ~~~~~s~~p~~~~~a~~P~~ 642 (652)
T KOG2376|consen 623 PSTSKSPRPLSQTVAPGPRQ 642 (652)
T ss_pred cCCCCCCCCCCCCCCCCchh
Confidence 33333333666777777765
No 58
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=20.35 E-value=1.3e+02 Score=24.27 Aligned_cols=51 Identities=20% Similarity=0.187 Sum_probs=25.8
Q ss_pred CeEEecCCCeeeEEEEee-ecCCC------CcEEEEEeCCCcccccccccCCCeeeecC
Q psy8580 59 SVLFLDKGQRSLGKIFDV-IGPVS------GPVYCVRFNSHQHIVDSNIKIDQDVYCAP 110 (274)
Q Consensus 59 SvLclEnDRt~IGkV~EV-FGPV~------~PyYsVRfns~e~I~~~~l~vG~kVYyvP 110 (274)
.++|+..|++++.....+ =+... .--|++-++.. .+...++++|++|-+.|
T Consensus 51 Di~fld~~g~Vv~i~~~~~P~~~~~~~~~~~a~~vLE~~aG-~~~~~~i~~Gd~v~~~~ 108 (108)
T PF02643_consen 51 DIAFLDSDGRVVKIERMVPPWRTYPCPSYKPARYVLELPAG-WFEKLGIKVGDRVRIEP 108 (108)
T ss_dssp EEEEE-TTSBEEEEEEEE-TT--S-EEECCEECEEEEEETT-HHHHHT--TT-EEE---
T ss_pred EEEEECCCCeEEEEEccCCCCccCCCCCCCccCEEEEcCCC-chhhcCCCCCCEEEecC
Confidence 467775567777766655 22221 12566666633 23456899999997654
No 59
>PRK04196 V-type ATP synthase subunit B; Provisional
Probab=20.32 E-value=5.7e+02 Score=26.08 Aligned_cols=68 Identities=10% Similarity=0.237 Sum_probs=45.5
Q ss_pred eeceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-CC-eeeEEEEeeecCCCCcEEEEEeCCCccccccccc-CCCeee
Q psy8580 31 LPVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-GQ-RSLGKIFDVIGPVSGPVYCVRFNSHQHIVDSNIK-IDQDVY 107 (274)
Q Consensus 31 ~~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-DR-t~IGkV~EVFGPV~~PyYsVRfns~e~I~~~~l~-vG~kVY 107 (274)
...|+|.+|.+.+|.+.+.. -...|.++.++. ++ ..+|.|..+=| .=.+.+-|.+. .++. .|+.|+
T Consensus 2 ~~yg~V~~i~g~~v~v~g~~---~~~~ge~~~i~~~~~~~~~geVi~~~~---~~~~l~~~~~t-----~gl~i~G~~V~ 70 (460)
T PRK04196 2 KEYRTVSEIKGPLLFVEGVE---GVAYGEIVEIELPNGEKRRGQVLEVSE---DKAVVQVFEGT-----TGLDLKDTKVR 70 (460)
T ss_pred ceeEEEEEEECcEEEEeccC---CCCCCCEEEEEcCCCCEEEEEEEEEeC---CeEEEEEccCC-----CCCCCCCCEEE
Confidence 35799999999999999863 346677777742 23 36776655544 44555555543 3577 688887
Q ss_pred ec
Q psy8580 108 CA 109 (274)
Q Consensus 108 yv 109 (274)
.-
T Consensus 71 ~t 72 (460)
T PRK04196 71 FT 72 (460)
T ss_pred eC
Confidence 74
No 60
>PRK05922 type III secretion system ATPase; Validated
Probab=20.21 E-value=1.7e+02 Score=29.75 Aligned_cols=50 Identities=16% Similarity=0.371 Sum_probs=37.4
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCCCCCeEEecC-------CCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLDLDSVLFLDK-------GQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd~gSvLclEn-------DRt~IGkV~EVFG-PV~ 81 (274)
.+|.|..+-++.+++....+..-+..|+.|.... +...+|+|+|.|| |+.
T Consensus 54 ~~~eVv~~~~~~~~l~~~~~~~gi~~G~~V~~~~~~~~v~vg~~llGrv~d~~G~pld 111 (434)
T PRK05922 54 ILAEVIGFHNRTTLLMSLSPIHYVALGAEVLPLRRPPSLHLSDHLLGRVLDGFGNPLD 111 (434)
T ss_pred eEEEEEEEeCCeEEEEEccCCCCCCCCCEEEeCCCCcEEEcChhhcCCEeCCCCCccC
Confidence 3688888888888888877666666677776631 3457999999999 544
No 61
>KOG3064|consensus
Probab=20.07 E-value=73 Score=30.79 Aligned_cols=14 Identities=29% Similarity=0.378 Sum_probs=9.0
Q ss_pred cccccCCCCCCCCC
Q psy8580 127 KGSDASWERDQEPP 140 (274)
Q Consensus 127 KGsDASn~~DEE~p 140 (274)
.-+|.||..|+|-.
T Consensus 236 ~~~~~~~~s~~d~d 249 (303)
T KOG3064|consen 236 DDSDESDDSDEDSD 249 (303)
T ss_pred chhhhhhhcccccc
Confidence 44667777777643
No 62
>PRK04196 V-type ATP synthase subunit B; Provisional
Probab=20.00 E-value=2e+02 Score=29.34 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=36.7
Q ss_pred eceeEEeeecCeEEEEeCCCCCCCC-CCCeEEe-------cCCCeeeEEEEeeec-CCC
Q psy8580 32 PVGKILNIVDTLVLIKTLKNTPTLD-LDSVLFL-------DKGQRSLGKIFDVIG-PVS 81 (274)
Q Consensus 32 ~LGtV~sIVe~~VVVks~~~~~VLd-~gSvLcl-------EnDRt~IGkV~EVFG-PV~ 81 (274)
.+|.|..+-++.+++....+..-+. .|+.|.. .=+...+|+|+|.|| |+.
T Consensus 39 ~~geVi~~~~~~~~l~~~~~t~gl~i~G~~V~~tg~~~~V~vg~~lLGRVvD~~G~PlD 97 (460)
T PRK04196 39 RRGQVLEVSEDKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPID 97 (460)
T ss_pred EEEEEEEEeCCeEEEEEccCCCCCCCCCCEEEeCCCccEEEcCcccccCEECccCCCcc
Confidence 5789999999888888766655555 5655554 335678999999999 554
Done!