Query gi|254780534|ref|YP_003064947.1| acyl carrier protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 85
No_of_seqs 105 out of 1696
Neff 6.9
Searched_HMMs 39220
Date Mon May 30 01:32:23 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780534.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00124 acpP acyl carrier pro 99.9 1.1E-22 2.9E-27 147.9 9.7 81 3-84 1-81 (84)
2 PRK12449 acyl carrier protein; 99.9 2.7E-22 6.8E-27 145.8 9.5 79 3-82 1-79 (80)
3 PTZ00171 acyl carrier protein; 99.9 4.8E-22 1.2E-26 144.4 9.2 82 2-84 67-148 (150)
4 PRK05350 acyl carrier protein; 99.9 3.9E-21 1E-25 139.3 9.7 81 2-83 1-81 (82)
5 PRK08172 acyl carrier protein; 99.8 2.6E-21 6.7E-26 140.3 7.6 74 11-85 1-74 (75)
6 PRK00982 acpP acyl carrier pro 99.8 1.8E-20 4.6E-25 135.6 9.0 78 5-83 1-78 (78)
7 KOG1748 consensus 99.8 4.2E-20 1.1E-24 133.5 5.3 81 3-84 49-129 (131)
8 PRK05883 acyl carrier protein; 99.7 6.5E-17 1.7E-21 115.7 9.1 83 1-84 2-84 (85)
9 COG0236 AcpP Acyl carrier prot 99.6 7.7E-16 2E-20 109.6 7.9 79 4-83 2-80 (80)
10 PRK06508 acyl carrier protein; 99.6 1.7E-15 4.3E-20 107.7 6.4 60 6-66 2-61 (93)
11 TIGR00517 acyl_carrier acyl ca 99.5 3.9E-14 9.9E-19 100.1 5.6 77 5-82 1-77 (77)
12 PRK07639 acyl carrier protein; 99.2 3.9E-11 9.9E-16 83.3 6.8 81 3-83 1-83 (91)
13 PRK09184 acyl carrier protein; 99.2 7.5E-11 1.9E-15 81.7 7.3 81 3-83 2-88 (89)
14 PRK07117 acyl carrier protein; 99.1 2.8E-10 7.1E-15 78.5 8.1 78 3-81 1-78 (79)
15 pfam00550 PP-binding Phosphopa 99.0 1.6E-09 4.2E-14 74.2 7.2 66 11-78 2-67 (67)
16 PRK07081 acyl carrier protein; 99.0 2.2E-09 5.6E-14 73.5 6.8 75 9-84 2-79 (83)
17 smart00823 PKS_PP Phosphopante 98.9 9.2E-09 2.4E-13 70.0 9.5 75 6-81 11-85 (86)
18 PRK05828 acyl carrier protein; 98.6 1.6E-07 4E-12 63.1 7.1 78 4-82 2-79 (80)
19 PRK06060 acyl-CoA synthetase; 98.6 3.3E-07 8.3E-12 61.3 8.0 75 8-83 546-620 (705)
20 PRK05087 D-alanine--poly(phosp 98.5 3.9E-07 1E-11 60.9 6.6 75 7-82 2-78 (78)
21 TIGR03443 alpha_am_amid L-amin 98.3 2.8E-06 7.1E-11 56.1 7.9 76 6-83 847-922 (1389)
22 PRK05691 peptide synthase; Val 98.3 3.4E-06 8.8E-11 55.6 7.8 76 6-85 4240-4315(4334)
23 PRK10252 entF enterobactin syn 98.1 1.3E-05 3.3E-10 52.4 6.7 74 5-82 973-1046(1293)
24 PRK05691 peptide synthase; Val 98.0 2.3E-05 5.9E-10 50.9 7.5 75 5-83 584-658 (4334)
25 TIGR02813 omega_3_PfaA polyket 98.0 3.7E-06 9.4E-11 55.4 3.3 77 4-81 1543-1621(2773)
26 PRK12316 peptide synthase; Pro 97.9 6.5E-05 1.7E-09 48.4 7.7 75 5-83 5060-5134(5154)
27 TIGR02813 omega_3_PfaA polyket 97.8 7.5E-06 1.9E-10 53.7 2.1 70 9-79 1445-1516(2773)
28 PRK12467 peptide synthase; Pro 97.7 0.0002 5E-09 45.8 6.9 75 5-83 1026-1100(3951)
29 KOG1202 consensus 97.0 0.00093 2.4E-08 42.0 4.3 56 12-68 2009-2064(2376)
30 PRK12467 peptide synthase; Pro 96.9 0.0023 5.9E-08 39.8 5.5 69 6-78 3603-3673(3951)
31 TIGR01688 dltC D-alanyl carrie 96.8 0.00092 2.3E-08 42.0 2.8 69 10-79 2-72 (73)
32 pfam07377 DUF1493 Protein of u 96.3 0.0076 1.9E-07 36.8 4.9 58 7-64 3-62 (110)
33 PRK12316 peptide synthase; Pro 95.8 0.032 8.2E-07 33.3 6.3 69 6-79 1015-1083(5154)
34 COG3433 Aryl carrier domain [S 95.6 0.058 1.5E-06 31.9 6.7 70 12-84 3-72 (74)
35 pfam10501 Ribosomal_L50 Riboso 89.1 2 5E-05 23.3 7.9 74 5-80 6-80 (111)
36 KOG1178 consensus 83.4 1.4 3.7E-05 24.1 3.5 55 26-81 614-668 (1032)
37 TIGR02372 4_coum_CoA_lig 4-cou 69.9 2.9 7.3E-05 22.4 1.9 47 36-82 55-110 (416)
38 KOG2452 consensus 67.8 11 0.00028 19.2 4.5 73 8-83 323-396 (881)
39 pfam02201 SWIB SWIB/MDM2 domai 58.2 14 0.00037 18.5 3.7 55 2-56 19-75 (76)
40 smart00151 SWIB SWI complex, B 50.5 23 0.00059 17.4 3.7 55 2-56 19-75 (77)
41 TIGR00855 L12 ribosomal protei 48.8 11 0.00028 19.2 1.8 21 39-59 15-35 (131)
42 pfam03471 CorC_HlyC Transporte 35.3 29 0.00073 16.8 2.2 27 49-78 16-42 (80)
43 PRK13640 cbiO cobalt transport 32.2 46 0.0012 15.7 4.7 56 23-83 226-281 (283)
44 KOG1142 consensus 30.2 4.1 0.0001 21.6 -2.8 39 32-70 197-235 (258)
45 PRK13637 cbiO cobalt transport 28.4 48 0.0012 15.6 2.4 56 23-83 227-282 (287)
46 LOAD_swib consensus 25.1 62 0.0016 14.9 3.0 55 2-56 27-83 (85)
47 PRK13634 cbiO cobalt transport 24.2 64 0.0016 14.9 5.0 57 23-83 215-271 (276)
48 KOG2573 consensus 23.7 66 0.0017 14.8 4.5 56 23-78 219-276 (498)
49 TIGR02432 lysidine_TilS_N tRNA 21.8 62 0.0016 14.9 2.0 23 37-59 7-29 (204)
50 PRK13631 cbiO cobalt transport 21.7 73 0.0019 14.6 4.2 61 22-83 257-317 (320)
51 TIGR00503 prfC peptide chain r 20.6 74 0.0019 14.5 2.1 33 29-61 133-165 (530)
52 TIGR03295 frhA coenzyme F420 h 20.2 78 0.002 14.4 3.0 34 47-81 73-106 (411)
No 1
>CHL00124 acpP acyl carrier protein; Validated
Probab=99.88 E-value=1.1e-22 Score=147.89 Aligned_cols=81 Identities=44% Similarity=0.755 Sum_probs=78.2
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 78589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
||++++++||++||++++ +++++.|+|+++|.+|||+|||+.+|+++.+|++|||+||++++.++.||+++++||++|.
T Consensus 1 mt~~ei~ekV~~ii~e~l-~v~~~~It~ds~f~~DLG~DSLd~vElvm~lE~~F~IeIpded~~~l~TV~d~v~yI~~~l 79 (84)
T CHL00124 1 MTEQDIFEKVQSIVAEQL-GIEKSEVTLDSNFQRDLGADSLDTVELVMAIEEEFDIEIPDEAAEKIATVQEAVDFISQKI 79 (84)
T ss_pred CCHHHHHHHHHHHHHHHH-CCCHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHHH
T ss_conf 988999999999999884-9999986983035661398769999999999999899778899987798999999999988
Q ss_pred HC
Q ss_conf 37
Q gi|254780534|r 83 QT 84 (85)
Q Consensus 83 ~~ 84 (85)
.+
T Consensus 80 ~~ 81 (84)
T CHL00124 80 NA 81 (84)
T ss_pred HC
T ss_conf 61
No 2
>PRK12449 acyl carrier protein; Provisional
Probab=99.88 E-value=2.7e-22 Score=145.82 Aligned_cols=79 Identities=25% Similarity=0.489 Sum_probs=76.5
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 78589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
|++++|++||+++|++++ ++++++|+|+++|.+|||+|||+.+|+++.+|++||++||+++++++.|||++++||.+|.
T Consensus 1 M~~~ei~~rv~~ii~~~l-~v~~~~it~es~f~~DLg~DSLd~vElvm~lEdeFgi~IpDe~ae~i~Tv~d~vdYI~~kl 79 (80)
T PRK12449 1 MTRQEIFERLINLIQKQR-SYLSVAITEQTHLKNDLAVDSIELVEFIINVEDEFHLAIPDEDVEDMVFMGDLLDYLVQRL 79 (80)
T ss_pred CCHHHHHHHHHHHHHHHH-CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHHC
T ss_conf 988999999999999882-9999987875324651396589999999999999799788899987787999999999864
No 3
>PTZ00171 acyl carrier protein; Provisional
Probab=99.87 E-value=4.8e-22 Score=144.37 Aligned_cols=82 Identities=40% Similarity=0.681 Sum_probs=78.0
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 87858999999999999836999988487867454206571009999999999838834888985058899999999985
Q gi|254780534|r 2 PNANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 2 ~~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
..+++++++||.+++++++ .+++++|+|+++|.+|||+||||.+|+++++|++||++||++++.++.||+|+++||+++
T Consensus 67 ~lsk~ei~~rV~~vvk~~~-kvd~~kVtpes~F~~DLG~DSLD~vElvm~lEeeF~ieIpDeda~~i~TV~d~v~YI~~~ 145 (150)
T PTZ00171 67 LLSKSDTLTRVLEVVKKFL-KVKADKITPESNFVKDLGADSLDVVELLIAIEQEFNLTIPDHDAEKIKSIQDAIDYIEQN 145 (150)
T ss_pred CCCHHHHHHHHHHHHHHHC-CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHC
T ss_conf 1578999999999998650-588977799765044149767999999999999959817688998678899999999977
Q ss_pred HHC
Q ss_conf 537
Q gi|254780534|r 82 KQT 84 (85)
Q Consensus 82 ~~~ 84 (85)
.++
T Consensus 146 ~~a 148 (150)
T PTZ00171 146 NMA 148 (150)
T ss_pred CCC
T ss_conf 235
No 4
>PRK05350 acyl carrier protein; Provisional
Probab=99.85 E-value=3.9e-21 Score=139.27 Aligned_cols=81 Identities=22% Similarity=0.413 Sum_probs=77.9
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 87858999999999999836999988487867454206571009999999999838834888985058899999999985
Q gi|254780534|r 2 PNANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 2 ~~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
.+|+++|+++|++++++.| +++++.|+|+++|.+|||+||||.++|++.+|+.||++||++++.+++||+|+++||+++
T Consensus 1 m~t~eeI~e~v~~il~e~f-eid~~~Itpea~l~~DL~lDSlD~VdLvv~le~~fG~kI~~E~~~~irTV~D~v~~I~~~ 79 (82)
T PRK05350 1 MQTREQILEMLRAILVELF-EIEPEDITPEANLYEDLDLDSIDAVDLVVKLQELTGKKIKPEEFKSVRTVNDVVNAVEGL 79 (82)
T ss_pred CCCHHHHHHHHHHHHHHHH-CCCHHHCCCCCCHHHCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
T ss_conf 9859999999999999996-899998598640020269634879999999999978988989985776099999999998
Q ss_pred HH
Q ss_conf 53
Q gi|254780534|r 82 KQ 83 (85)
Q Consensus 82 ~~ 83 (85)
.+
T Consensus 80 ~~ 81 (82)
T PRK05350 80 VK 81 (82)
T ss_pred HC
T ss_conf 51
No 5
>PRK08172 acyl carrier protein; Validated
Probab=99.85 E-value=2.6e-21 Score=140.26 Aligned_cols=74 Identities=30% Similarity=0.470 Sum_probs=71.2
Q ss_pred HHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHHCC
Q ss_conf 999999998369999884878674542065710099999999998388348889850588999999999855379
Q gi|254780534|r 11 AVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQTN 85 (85)
Q Consensus 11 ~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~~n 85 (85)
||++||++++ +++++.|+|+++|.+|||+||||.+||++++|++||++||++++++++||+|+++||+++.++.
T Consensus 1 rvk~IiaeqL-~V~~~~i~pea~fv~DLgADSLDlvelvMalEeeF~ieIpded~e~i~TV~Dvv~yie~~l~s~ 74 (75)
T PRK08172 1 RVKKVITSCI-AVDVDSINGQTHLVEDLYADSLDLIDIVFGLSEEFDISCNENDLPDMTTFADICRVVKKSLESR 74 (75)
T ss_pred CHHHHHHHHC-CCCHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf 9799999981-9988765961133540387669999999999999889788889975661999999999987446
No 6
>PRK00982 acpP acyl carrier protein; Provisional
Probab=99.83 E-value=1.8e-20 Score=135.55 Aligned_cols=78 Identities=50% Similarity=0.789 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 5899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
.+++++||++|+++++ +++++.|+|+++|.+|||+|||+.+|+++.+|++||++||++++.+++||+++++||++|+.
T Consensus 1 m~ei~e~v~~Iia~~~-~i~~~~I~~~~~~~~DLg~DSLd~velv~~lEe~F~i~Ipde~~~~~~TV~dlv~yI~~~~a 78 (78)
T PRK00982 1 MSEIEERVKKIIVEQL-GVDEEEVTLEASFVDDLGADSLDTVELVMALEEEFGVEIPDEEAEKIKTVGDAVDYIEEHQA 78 (78)
T ss_pred CHHHHHHHHHHHHHHH-CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHCCC
T ss_conf 9389999999999986-99998879984068774997899999999999996992689999748989999999988329
No 7
>KOG1748 consensus
Probab=99.80 E-value=4.2e-20 Score=133.51 Aligned_cols=81 Identities=38% Similarity=0.640 Sum_probs=76.9
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 78589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
.+++++.+||..+|.++. .+++++++++++|..|||+||||.||+++++|+|||++||++++.++.|++++++||+++.
T Consensus 49 l~k~~v~~RVl~VVk~~d-ki~~~k~~~~s~f~~DLGlDSLD~VEiVMAlEEEFgiEIpd~dAdki~t~~da~~yI~~~~ 127 (131)
T KOG1748 49 LAKKEVVDRVLDVVKKFD-KIDPSKLTTDSDFFKDLGLDSLDTVEIVMALEEEFGIEIPDEDADKIKTVRDAADYIADKP 127 (131)
T ss_pred HHHHHHHHHHHHHHHHHH-CCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHCCHHHHHHHHHHCC
T ss_conf 528999999999999864-1793203504666764187630302130100787597267414566279999999998263
Q ss_pred HC
Q ss_conf 37
Q gi|254780534|r 83 QT 84 (85)
Q Consensus 83 ~~ 84 (85)
++
T Consensus 128 d~ 129 (131)
T KOG1748 128 DV 129 (131)
T ss_pred CC
T ss_conf 33
No 8
>PRK05883 acyl carrier protein; Validated
Probab=99.70 E-value=6.5e-17 Score=115.65 Aligned_cols=83 Identities=22% Similarity=0.312 Sum_probs=78.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHH
Q ss_conf 98785899999999999983699998848786745420657100999999999983883488898505889999999998
Q gi|254780534|r 1 MPNANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRK 80 (85)
Q Consensus 1 M~~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~ 80 (85)
|+.+.+.+..++++|+.+.+ +++++.|+|+++|++|||+|||+++++++.+|++||++|+++++.++.||||+-+||..
T Consensus 2 ~~~~~~~ve~rl~eIL~d~l-~~d~e~ITpd~rLvdDlG~DSl~f~~~vi~ie~~fGi~i~eEdll~~~TVGDl~~~I~~ 80 (85)
T PRK05883 2 MTSSPSTVSAALLSILRDDL-NVDITRVTPDARLVDDVGLDSVAFAVGMVAIEERLGVALSEEDLLSCDTVGDLEAAIAA 80 (85)
T ss_pred CCCCHHHHHHHHHHHHHHHC-CCCHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHH
T ss_conf 77777889999999999980-89888769414655640734799999999999986663589998523609999999974
Q ss_pred HHHC
Q ss_conf 5537
Q gi|254780534|r 81 AKQT 84 (85)
Q Consensus 81 ~~~~ 84 (85)
|...
T Consensus 81 kv~~ 84 (85)
T PRK05883 81 KVRD 84 (85)
T ss_pred HCCC
T ss_conf 3047
No 9
>COG0236 AcpP Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.64 E-value=7.7e-16 Score=109.64 Aligned_cols=79 Identities=47% Similarity=0.727 Sum_probs=73.1
Q ss_pred CHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 85899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 4 ANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 4 t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
..+.++.+|++++++.+ +.++..++++++|.+|||+|||+.++|++.+|++||++||++++.++.||+++++||.++++
T Consensus 2 ~~~~~~~~i~~ii~e~l-~~~~~~i~~~~~~~~dlg~DSld~veLi~~lE~~f~i~i~~e~~~~~~tv~~l~~~i~~~~~ 80 (80)
T COG0236 2 QMEAIEERVKDIIAEQL-GVDEEEITTEASFVEDLGLDSLDLVELVMALEEEFGIEIPDEELENIKTVGDLVDYIEELLA 80 (80)
T ss_pred CHHHHHHHHHHHHHHHH-CCCCCCCCCCHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHHHC
T ss_conf 46789999999999995-65644488100001033757399999999999996995788999872479999999998639
No 10
>PRK06508 acyl carrier protein; Provisional
Probab=99.60 E-value=1.7e-15 Score=107.71 Aligned_cols=60 Identities=27% Similarity=0.571 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHH
Q ss_conf 8999999999999836999988487867454206571009999999999838834888985
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESAN 66 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~ 66 (85)
.++++||++||++++ ++++++|+|+++|.+|||+||||.+|+++++|++|||+||-+...
T Consensus 2 s~tfdkV~~iIae~l-~Vd~~~Itpes~fi~DLGaDSLD~velVmalEeeFgIeIP~e~~~ 61 (93)
T PRK06508 2 SSTFDKVADIIAETS-EIDRDTITPESHTIDDLGIDSLDFLDIVFAIDKAFGIKLPLEQWT 61 (93)
T ss_pred CHHHHHHHHHHHHHH-CCCHHHCCCCCHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf 328999999999995-899988587532045318533769999999999869736478877
No 11
>TIGR00517 acyl_carrier acyl carrier protein; InterPro: IPR003231 There are two types of fatty acid synthase systems. The type I system is found in metazoans and is carried out by a multifunctional polypeptide with multiple active sites. In contrast, the type II system found in bacteria and plants consists of a set of discrete monofunctional proteins, each encoded by a separate gene. ACP1 is central to both of these pathways because it functions to ferry the pathway intermediates between active site centres or enzymes. ACPs are also critical to the function of other metabolic pathways such as polyketide synthases. The type II fatty acid synthase ACPs are abundant, small, acidic proteins that carry the acyl intermediates attached as thioesters to the terminus of the 4'-phosphopantetheine prosthetic group. This prosthetic group is added post-translationally to apoACP by holo-(acyl carrier protein) synthase (AcpS), which transfers the 4'-phosphopantetheine moiety of CoA to a serine reidue of apoACP. The crystal structures of a number of the type II fatty acid synthase ACPs have been determined. The structures reveal a novel trimeric arrangement of molecules resulting in three active sites , .; GO: 0000036 acyl carrier activity, 0006633 fatty acid biosynthetic process.
Probab=99.49 E-value=3.9e-14 Score=100.11 Aligned_cols=77 Identities=58% Similarity=0.932 Sum_probs=72.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
+++++++++.++.+++ ++++..+++++.|.+|||+|||+.+++++.+|.+||++||++...++.||++.++||..++
T Consensus 1 ~~~~~~~~~~~~~~~l-~~~~~~~~~~~~f~~dlg~dsld~~el~~~le~~f~~~~pd~~a~~~~~v~~~~~~~~~~~ 77 (77)
T TIGR00517 1 NDEIFEKVKAIIAEQL-NVDEDEVTPDARFVEDLGADSLDTVELVMALEEEFDIEIPDEEAEKIATVGDAVDYIEENQ 77 (77)
T ss_pred CCHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCC
T ss_conf 9048899999886402-6530222003456655178603689999998876167576034677776999999863179
No 12
>PRK07639 acyl carrier protein; Provisional
Probab=99.20 E-value=3.9e-11 Score=83.29 Aligned_cols=81 Identities=21% Similarity=0.364 Sum_probs=76.3
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHH--HCCCCHHHHHHHHHH
Q ss_conf 785899999999999983699998848786745420657100999999999983883488898--505889999999998
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESA--NKILTVKDAVDFIRK 80 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~--~~~~Tv~dlv~~I~~ 80 (85)
||++++.+.|+.|+++.+....-+...+++.+.+||++||...++++..+|-..|+.+|++.+ ..+.|||++++|+++
T Consensus 1 Mtre~li~aI~~il~e~m~~~~l~~F~~~aRLNeDLyiDSV~lLqLiv~LE~d~gl~vPe~~i~~~~f~TVg~La~fl~~ 80 (91)
T PRK07639 1 MRREALKNAVLKIMEEKMELKNVTHLEETMRLNQDLYIDSVMMLQLIVYIEMDVKLCVPEDEVDPKAFLTVGSLLDFMEE 80 (91)
T ss_pred CCHHHHHHHHHHHHHHHCCCCCHHHCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHHHHH
T ss_conf 97899999999999987668325341755442046402399999999999862587788577288767669999999997
Q ss_pred HHH
Q ss_conf 553
Q gi|254780534|r 81 AKQ 83 (85)
Q Consensus 81 ~~~ 83 (85)
.+.
T Consensus 81 ~qp 83 (91)
T PRK07639 81 LQP 83 (91)
T ss_pred CCC
T ss_conf 185
No 13
>PRK09184 acyl carrier protein; Provisional
Probab=99.18 E-value=7.5e-11 Score=81.69 Aligned_cols=81 Identities=16% Similarity=0.418 Sum_probs=69.9
Q ss_pred CCHHHHHHHHHHHHHHHHC--CCCHHHCCCCCCHH-HHCCCCHHHHHHHHHHHHHHHCCCC---CHHHHHCCCCHHHHHH
Q ss_conf 7858999999999999836--99998848786745-4206571009999999999838834---8889850588999999
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLT--SVKEDQIVESARFI-EELGADSLDVVELVMIFEEKFSLEI---PEESANKILTVKDAVD 76 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~--~~~~~~i~~ds~l~-~dLg~DSLd~vel~~~lE~~f~i~i---~~~~~~~~~Tv~dlv~ 76 (85)
.+.++....++++|.+.+. .+.|++|.+++.|+ +.||+||+|.+|+++.++++||+++ +++.-..|.+|+.+++
T Consensus 2 ~~m~~L~~elK~lII~~L~Ledi~p~dI~~d~pLFG~GLGLDSIDaLEl~~~i~k~yGv~l~~d~~~~~~if~Sv~~La~ 81 (89)
T PRK09184 2 SMMTALERELAELIVEELNLEDVQPEDIDADAPLYGEGLGLDSIDILEIALVISKRYGFQLRSDNPDNQRIFASLRALSA 81 (89)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCEECCCCHHHHHHHHHHHHHHH
T ss_conf 37999999999999988174669976678986333778673169999999999997090540585558999997999999
Q ss_pred HHHHHHH
Q ss_conf 9998553
Q gi|254780534|r 77 FIRKAKQ 83 (85)
Q Consensus 77 ~I~~~~~ 83 (85)
||+++|.
T Consensus 82 fI~~~rs 88 (89)
T PRK09184 82 YVAAHRT 88 (89)
T ss_pred HHHHHCC
T ss_conf 9998536
No 14
>PRK07117 acyl carrier protein; Validated
Probab=99.13 E-value=2.8e-10 Score=78.51 Aligned_cols=78 Identities=23% Similarity=0.336 Sum_probs=75.2
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 7858999999999999836999988487867454206571009999999999838834888985058899999999985
Q gi|254780534|r 3 NANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 3 ~t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
|++++|++-|++.+.+.++.+++..+.|.-++. |||+||+|.+|++...-++.++.||-..+.+.+++|.+++++.+|
T Consensus 1 M~~e~If~vv~~~~~eviPel~~~~i~~~~sl~-dLGAnSvDRaEIv~~~me~L~l~iP~~ela~~~nIgeL~dlL~~k 78 (79)
T PRK07117 1 MDKQRVFDILVRHIREVLPDLDQHQFQPTDSLK-DLGANSLDRAEIVIMTLESLSLRIPLVEFAGAKNIGELAEVLYAK 78 (79)
T ss_pred CCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHCCCCCHHHHHHHHHHH
T ss_conf 988999999999999977664534688211098-838974889999999999964778778873878789999999854
No 15
>pfam00550 PP-binding Phosphopantetheine attachment site. A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes members not included in Prosite. The inclusion of these members is supported by sequence analysis and functional evidence. The related domain of Listonella anguillarum angR has the attachment serine replaced by an alanine.
Probab=98.98 E-value=1.6e-09 Score=74.19 Aligned_cols=66 Identities=29% Similarity=0.486 Sum_probs=61.2
Q ss_pred HHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHH
Q ss_conf 99999999836999988487867454206571009999999999838834888985058899999999
Q gi|254780534|r 11 AVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFI 78 (85)
Q Consensus 11 ~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I 78 (85)
++++++++.+ +++++.+.++++|. ++|+||+..++++..++++||+++|.+++.+..|++++++|+
T Consensus 2 ~l~~~~~~~l-~~~~~~i~~~~~~~-~lG~DSl~~~~l~~~l~~~~g~~l~~~~l~~~~tv~~l~~~l 67 (67)
T pfam00550 2 RLREIVAEVL-GIPPDEIDPDDDLF-DLGLDSLLAVELLARLEEEFGVEIPPSDLFEHPTLGELAAYL 67 (67)
T ss_pred HHHHHHHHHH-CCCHHHCCCCCCHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHC
T ss_conf 8999999998-92998869998999-959989999999999999988998899998399999999659
No 16
>PRK07081 acyl carrier protein; Provisional
Probab=98.95 E-value=2.2e-09 Score=73.50 Aligned_cols=75 Identities=23% Similarity=0.430 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHC-CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHH--HCCCCHHHHHHHHHHHHHC
Q ss_conf 9999999999836-99998848786745420657100999999999983883488898--5058899999999985537
Q gi|254780534|r 9 FEAVKEVILSQLT-SVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESA--NKILTVKDAVDFIRKAKQT 84 (85)
Q Consensus 9 ~~~v~~ii~~~l~-~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~--~~~~Tv~dlv~~I~~~~~~ 84 (85)
...|++|+.++-. .++.+.|.+++.|. ++|+||+..|+++..+|++|+|+||++.+ ..|.||+.+.+.|.+.+++
T Consensus 2 ~~~iR~iL~~~~~L~v~~~~i~ddaDLy-~aGLsSl~tV~lMLaiEd~FdIeiPd~~L~r~~F~Si~sl~~~v~~l~~~ 79 (83)
T PRK07081 2 KNTIRTILKDVAHLEVPIDSIADGADLY-EAGLSSLATVQLMLAIEDEFDIEIPDEMLNRKLFRSIDALADAVEQLQRA 79 (83)
T ss_pred CHHHHHHHHHHCCCCCCHHHCCCCHHHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_conf 0789999998367777588708843599-83652799999999999982980887883899886599999999999875
No 17
>smart00823 PKS_PP Phosphopantetheine attachment site. Phosphopantetheine (or pantetheine 4' phosphate) is the prosthetic group of acyl carrier proteins (ACP) in some multienzyme complexes where it serves as a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups PUBMED:5321311.
Probab=98.93 E-value=9.2e-09 Score=69.99 Aligned_cols=75 Identities=23% Similarity=0.267 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 8999999999999836999988487867454206571009999999999838834888985058899999999985
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
..+...++..++..+...++..+.++.+|. ++|+|||..+|+...++++||+++|...+.++.|++.+++|+.+.
T Consensus 11 ~~l~~~~~~~~~~~l~~~~~~~i~~~~~f~-~lG~DSl~avel~~~l~~~~g~~l~~~~l~~~pTi~~La~~l~~~ 85 (86)
T smart00823 11 RLLLDLVREQVAAVLGHAAAEAIDPDRPFR-DLGLDSLTAVELRNRLEAATGLRLPATLVFDHPTPAALAEHLAAE 85 (86)
T ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
T ss_conf 999999999999997899764569998989-958871999999999999988997889998299999999999966
No 18
>PRK05828 acyl carrier protein; Validated
Probab=98.60 E-value=1.6e-07 Score=63.09 Aligned_cols=78 Identities=22% Similarity=0.329 Sum_probs=63.4
Q ss_pred CHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 8589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 4 ANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 4 t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
...+|.-++++|-...-..+.-++-....++. .|++||||+..+++.+|.+|||+++++.+.++.++.|++.+|....
T Consensus 2 q~~eILlkIkeIAK~Knf~~~ldes~inkp~r-ELkIDSLDmFsiiVsLE~EF~I~F~DEKLM~lknladLilevK~L~ 79 (80)
T PRK05828 2 QFMEILLKIKEIAKKKNFAVTLDESNINKPYR-ELKIDSLDMFSIIVSLESEFNIEFSDEKLMKLKNLADLILEVKELK 79 (80)
T ss_pred CHHHHHHHHHHHHHHHCCEEECCHHHHCCCHH-HHCCCHHHHHHHHHHHHHHHCEEECHHHHHHHCCHHHHHHHHHHHC
T ss_conf 29999999999998745313405644245168-8586647899999998876280335789985701999999999853
No 19
>PRK06060 acyl-CoA synthetase; Validated
Probab=98.57 E-value=3.3e-07 Score=61.31 Aligned_cols=75 Identities=20% Similarity=0.191 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 9999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 8 VFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 8 i~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
+.+.++.-+++.+...++..|.++.+|. +||+||+..+++...|++.+|+++|...+.++.|+..++.|+.....
T Consensus 546 ~~~~~~~~~a~~lg~~~~~~v~~~~~F~-~lG~dSl~av~l~~rl~~~~g~~l~~~~~f~~pt~~~LA~~l~~~~~ 620 (705)
T PRK06060 546 VVDAVCAEAAKMLGEPDPWSVDQDLAFS-ELGFDSQMTVTLCKRLAAVTGLRLPETVGWDYGSISGLAQYLEAELA 620 (705)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHCCCCCHHHHHHHHHHHHC
T ss_conf 9999999999980898723368897967-85874799999999999986997682463158999999999999854
No 20
>PRK05087 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated
Probab=98.49 E-value=3.9e-07 Score=60.86 Aligned_cols=75 Identities=24% Similarity=0.279 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHH--HCCCCHHHHHHHHHHHH
Q ss_conf 99999999999983699998848786745420657100999999999983883488898--50588999999999855
Q gi|254780534|r 7 DVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESA--NKILTVKDAVDFIRKAK 82 (85)
Q Consensus 7 ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~--~~~~Tv~dlv~~I~~~~ 82 (85)
++.++|..|+.+ +++-+.-.=.+|-++++..=+||+..+++++.+|++|||++|..++ .+..|++.+++.|++.+
T Consensus 2 ~~ke~Vl~IL~e-i~~~D~v~e~~D~~LFe~GlLDSm~tVeLLveie~~fgI~vpvsEf~R~~w~TpnkIi~~v~el~ 78 (78)
T PRK05087 2 DFKEQVLDILAE-LTGEDIVSENMDEDLFEEGILDSMGTVELLVELESRFDIEVPISEFDRDDWNTPNKIVAKVEELR 78 (78)
T ss_pred CHHHHHHHHHHH-HHCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHCC
T ss_conf 579999999999-85741333135552787653788999999999999809856813633986148999999998609
No 21
>TIGR03443 alpha_am_amid L-aminoadipate-semialdehyde dehydrogenase. Members of this protein family are L-aminoadipate-semialdehyde dehydrogenase (EC 1.2.1.31), product of the LYS2 gene. It is also called alpha-aminoadipate reductase. In fungi, lysine is synthesized via aminoadipate. Currently, all members of this family are fungal.
Probab=98.34 E-value=2.8e-06 Score=56.09 Aligned_cols=76 Identities=18% Similarity=0.320 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
.+.+.++.+|-++.+ ...++.|..+.+|+ +||-+||..+.++..+.++||+++|-.++.+..|++.++..|.+.+.
T Consensus 847 t~~E~~l~~iW~~vL-~~~~~~Ig~~d~FF-~LGGhSLla~~l~~~ir~~fgv~l~l~~lf~~PTl~~lA~~Id~~~~ 922 (1389)
T TIGR03443 847 TETEREIRDLWLELL-PNRPATISPDDSFF-DLGGHSILATRMIFELRKKLNVELPLGLIFKSPTIKGFAKEVDRLKK 922 (1389)
T ss_pred CHHHHHHHHHHHHHC-CCCCCEECCCCCHH-HCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHC
T ss_conf 989999999999971-89987018888756-45870999999999999996898559998418889999999997523
No 22
>PRK05691 peptide synthase; Validated
Probab=98.31 E-value=3.4e-06 Score=55.58 Aligned_cols=76 Identities=16% Similarity=0.304 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHHCC
Q ss_conf 89999999999998369999884878674542065710099999999998388348889850588999999999855379
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQTN 85 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~~n 85 (85)
.+++.++.+|-++.| ++ +.|..+.+|+ +||-|||..+.++..+.++||+++|-.++.+..||.+++.+|+..+.+|
T Consensus 4240 t~~E~~L~~iW~evL-~~--~~ig~~d~FF-~lGG~SL~A~rlvari~~~~g~~l~l~~lF~~pTi~~LA~~id~~~~~~ 4315 (4334)
T PRK05691 4240 NELEQTLARIWADVL-KV--ERVGVHDNFF-ELGGHSLLATQIASRVQKALQRNVPLRAMFECSTVEELAEYIEGLQGSA 4315 (4334)
T ss_pred CHHHHHHHHHHHHHC-CC--CCCCCCCCCC-CCCCHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHCCCC
T ss_conf 999999999999973-99--9889999823-0538999999999999998689978999967998999999997146787
No 23
>PRK10252 entF enterobactin synthase subunit F; Provisional
Probab=98.07 E-value=1.3e-05 Score=52.35 Aligned_cols=74 Identities=16% Similarity=0.195 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 589999999999998369999884878674542065710099999999998388348889850588999999999855
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAK 82 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~ 82 (85)
..+++.++.+|-++.| +++ .+..+.+|+ +||-|||..+.++..|+++||+++|-.++.+..||..++.+|....
T Consensus 973 ~t~~E~~L~~iW~evL-g~~--~igi~dnFF-~LGG~SL~Airl~a~i~~~~g~~l~l~~lf~~pTi~~LA~~l~~~~ 1046 (1293)
T PRK10252 973 KAGSETAIAAAFSQLL-GCE--VQDADADFF-ALGGHSLLAMKLAAQLSRQFARQVTPGQVMVASTVAKLATLLDGEE 1046 (1293)
T ss_pred CCHHHHHHHHHHHHHC-CCC--CCCCCCCHH-HCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHCCC
T ss_conf 9989999999999974-999--878776677-6388389999999999999689878999962899999999874477
No 24
>PRK05691 peptide synthase; Validated
Probab=98.04 E-value=2.3e-05 Score=50.94 Aligned_cols=75 Identities=15% Similarity=0.274 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 5899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
..+++.++.+|.++.+ ++ +.|..+.+|+ +||.|||..+.++..+.++||+.++-.++.+..|+.+++.++.+...
T Consensus 584 ~~~~E~~L~~iw~evL-~~--~~ig~~d~FF-~LGGdSL~A~~lv~~lr~~~g~~l~v~dlF~~pTl~~LA~~~~~~~~ 658 (4334)
T PRK05691 584 GDELQARIAAIWCEQL-KV--EQVAADDHFF-LLGGNSIAATQVVARLRDELGIALNLRQLFEAPTLAAFSAAVARQLA 658 (4334)
T ss_pred CCHHHHHHHHHHHHHH-CC--CCCCCCCCHH-HCCCHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHC
T ss_conf 8889999999999983-98--8779999835-51187999999999999973982259998479979999999986512
No 25
>TIGR02813 omega_3_PfaA polyketide-type polyunsaturated fatty acid synthase PfaA; InterPro: IPR004432 Members of this entry represent PfaA, which is involved in omega-3 polyunsaturated fatty acid biosynthesis, for example PfaA from the eicosapentaenoic acid biosynthesis operon in Photobacterium profundum strain SS9. PfaA is found together with PfaB, PfaC, and PfaD, and the functions of the individual polypeptides have not yet been described. More distant homologues of PfaA, also included in this entry, appear to be involved in polyketide-like biosynthetic mechanisms of polyunsaturated fatty acid biosynthesis; an alternative to the more familiar iterated mechanism of chain extension and desaturation, and like PfaA the more distant homologues are likewise found near genes for homologues of PfaB, PfaC, and/or PfaD..
Probab=98.03 E-value=3.7e-06 Score=55.43 Aligned_cols=77 Identities=17% Similarity=0.301 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC--CCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 858999999999999836999988487867454206571009999999999838--834888985058899999999985
Q gi|254780534|r 4 ANDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFS--LEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 4 t~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~--i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
..++|......++++. ++.+.+-+........|||+||+-+|||+-.+.++.= =++.+||+.+++|.|++|+|..++
T Consensus 1543 d~d~i~~~M~~VVAdK-TGYP~EMLeL~MDMEADLGIDSIKRVEILG~VQd~lP~LPEL~PEDLAE~RTLGEIV~y~~~~ 1621 (2773)
T TIGR02813 1543 DLDEIQSTMMTVVADK-TGYPTEMLELEMDMEADLGIDSIKRVEILGTVQDELPDLPELNPEDLAECRTLGEIVSYMQSK 1621 (2773)
T ss_pred CHHHHHHHHHHHHHCC-CCCCHHHHHCCCCCCCCCCCCCEEEEEEECCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 7788888888875226-788533430121200005876142134411166517787898733588742578999987201
No 26
>PRK12316 peptide synthase; Provisional
Probab=97.90 E-value=6.5e-05 Score=48.44 Aligned_cols=75 Identities=19% Similarity=0.229 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 5899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
..+++.++.+|-++.+ +++ .|..+.+|+ +||-|||..+.++..+..+||++++-.++.+..||.+++..+++..+
T Consensus 5060 ~t~~E~~l~~iw~~vL-~~~--~vg~~DnFF-~lGGdSl~A~rlvsr~~~~~g~~l~~~~lF~~pTia~lA~~l~~~~~ 5134 (5154)
T PRK12316 5060 RSELEQQVAAIWQEVL-QLQ--RVGLDDNFF-ELGGHSLLAIQVVSRIQLELGLELTLQLLFQTPTLGAFVSELAAAGT 5134 (5154)
T ss_pred CCHHHHHHHHHHHHHH-CCC--CCCCCCCCC-CCCCHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHCC
T ss_conf 8999999999999984-989--889999710-15687999999999999970998469998679979999999987404
No 27
>TIGR02813 omega_3_PfaA polyketide-type polyunsaturated fatty acid synthase PfaA; InterPro: IPR004432 Members of this entry represent PfaA, which is involved in omega-3 polyunsaturated fatty acid biosynthesis, for example PfaA from the eicosapentaenoic acid biosynthesis operon in Photobacterium profundum strain SS9. PfaA is found together with PfaB, PfaC, and PfaD, and the functions of the individual polypeptides have not yet been described. More distant homologues of PfaA, also included in this entry, appear to be involved in polyketide-like biosynthetic mechanisms of polyunsaturated fatty acid biosynthesis; an alternative to the more familiar iterated mechanism of chain extension and desaturation, and like PfaA the more distant homologues are likewise found near genes for homologues of PfaB, PfaC, and/or PfaD..
Probab=97.85 E-value=7.5e-06 Score=53.70 Aligned_cols=70 Identities=19% Similarity=0.319 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC--CCCCHHHHHCCCCHHHHHHHHH
Q ss_conf 9999999999836999988487867454206571009999999999838--8348889850588999999999
Q gi|254780534|r 9 FEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFS--LEIPEESANKILTVKDAVDFIR 79 (85)
Q Consensus 9 ~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~--i~i~~~~~~~~~Tv~dlv~~I~ 79 (85)
.....+++++. ++.+.+-+..+.....|||+||+-+|||+-.+.++.= =++.+||+.+++|.|++|.|..
T Consensus 1445 ~~~Ml~VVAdK-TGYP~EMLeL~MDMEADLGIDSIKRVEILG~VQd~lP~LPEL~PEDLAE~RTLGEIVsy~~ 1516 (2773)
T TIGR02813 1445 QNVMLEVVADK-TGYPTEMLELEMDMEADLGIDSIKRVEILGTVQDELPDLPELSPEDLAECRTLGEIVSYMQ 1516 (2773)
T ss_pred HHHHHHHHCCC-CCCCHHHHCCCCCCCCCCCCCCEEEEEEECCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 76665421036-8896112114533000158761421344111554077888987235787557889999861
No 28
>PRK12467 peptide synthase; Provisional
Probab=97.66 E-value=0.0002 Score=45.76 Aligned_cols=75 Identities=16% Similarity=0.267 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 5899999999999983699998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
..+++.++.+|.++.+ ++ +.|..+.+|+ +||-|||..+.++..+.++||++++-.++.+..|+.+++..+....+
T Consensus 1026 ~t~~E~~l~~iw~~vL-~~--~~vg~~d~FF-~lGG~Sl~a~~l~~~~~~~~g~~l~~~~lf~~ptl~~lA~~i~~~~~ 1100 (3951)
T PRK12467 1026 QGELEKILAAVWGDVL-KL--ERIGRDDNFF-ALGGHSLLVTQVISRVRRRLGIQVPLRTLFEHSTLAAFAQVVASESQ 1100 (3951)
T ss_pred CCHHHHHHHHHHHHHC-CC--CCCCCCCCHH-HHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHCCC
T ss_conf 9879999999999974-99--8778988866-60672699999999999984988568988608879999998510277
No 29
>KOG1202 consensus
Probab=97.02 E-value=0.00093 Score=41.96 Aligned_cols=56 Identities=23% Similarity=0.334 Sum_probs=47.7
Q ss_pred HHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCC
Q ss_conf 999999983699998848786745420657100999999999983883488898505
Q gi|254780534|r 12 VKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKI 68 (85)
Q Consensus 12 v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~ 68 (85)
+..-|+..+...+.+.++.+++|. |||+|||..+|+--.+|.+|++-++..++..+
T Consensus 2009 LiatiA~IlGlrD~~~vn~~asLa-DLGlDSLMsvEikQtLER~~dlVLS~qEiRqL 2064 (2376)
T KOG1202 2009 LIATIAHILGLRDLKAVNDDASLA-DLGLDSLMSVEIKQTLEREFDLVLSAQEIRQL 2064 (2376)
T ss_pred HHHHHHHHHCCHHHHHCCCCCCHH-HCCCHHHHHHHHHHHHHHHHCEEEEHHHHHHH
T ss_conf 999998886411475505787255-40615565699999986420205328999998
No 30
>PRK12467 peptide synthase; Provisional
Probab=96.91 E-value=0.0023 Score=39.76 Aligned_cols=69 Identities=22% Similarity=0.330 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHH--HHHCCCCCHHHHHCCCCHHHHHHHH
Q ss_conf 899999999999983699998848786745420657100999999999--9838834888985058899999999
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFE--EKFSLEIPEESANKILTVKDAVDFI 78 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE--~~f~i~i~~~~~~~~~Tv~dlv~~I 78 (85)
.+++.++.+|-++.| +++ .|..+.+|+ +||-|||..+.++..+. .+||+++|-.++.+..||..+..+.
T Consensus 3603 t~~E~~L~~iW~evL-~~~--~ig~~DnFF-~LGG~SL~A~rlvarir~~~~~g~~l~l~~lf~~pTi~~La~~~ 3673 (3951)
T PRK12467 3603 NEVEQALAGIWQDVL-GVQ--QIGVTDNFF-ELGGDSLRALKVLSKIRAQSDLGLKLKLRDLMSKPTIAELSGYS 3673 (3951)
T ss_pred CHHHHHHHHHHHHHC-CCC--CCCCCCCCC-CCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHCCCCHHHHHCCC
T ss_conf 999999999999982-999--889999800-34487999999999986210379654789985697799985777
No 31
>TIGR01688 dltC D-alanyl carrier protein; InterPro: IPR003230 These proteins are involved in the biosynthesis of D-alanyl-lipoteichoic acid in bacteria..
Probab=96.81 E-value=0.00092 Score=42.00 Aligned_cols=69 Identities=20% Similarity=0.281 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHH--HCCCCHHHHHHHHH
Q ss_conf 99999999983699998848786745420657100999999999983883488898--50588999999999
Q gi|254780534|r 10 EAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESA--NKILTVKDAVDFIR 79 (85)
Q Consensus 10 ~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~--~~~~Tv~dlv~~I~ 79 (85)
+.|..++++ +++-+-=+=.||-.+++..=+||+..|+|+.+++.+|||..|-.++ ..-.|.+.+|+-++
T Consensus 2 ~~VLD~Lae-v~~~d~vKeNpD~elFEeGllDSfgTV~LLLeiqn~fdi~vpi~eFDRdeW~TPNkIv~~le 72 (73)
T TIGR01688 2 EEVLDILAE-VAEDDVVKENPDVELFEEGLLDSFGTVELLLEIQNKFDIDVPISEFDRDEWDTPNKIVEKLE 72 (73)
T ss_pred CCHHHHHHH-HHCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf 502566755-50588513378720023332003679999999875448511232335501146013777305
No 32
>pfam07377 DUF1493 Protein of unknown function (DUF1493). This family consists of several bacterial proteins of around 115 residues in length. Members of this family seem to be found exclusively in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=96.32 E-value=0.0076 Score=36.85 Aligned_cols=58 Identities=19% Similarity=0.291 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHCCC--CHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHH
Q ss_conf 99999999999983699--99884878674542065710099999999998388348889
Q gi|254780534|r 7 DVFEAVKEVILSQLTSV--KEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEES 64 (85)
Q Consensus 7 ei~~~v~~ii~~~l~~~--~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~ 64 (85)
+|..+|.+.+.++.... ....+++++.+..|||++--|..+++....++|+|...+=+
T Consensus 3 ~i~~~i~~fvr~e~g~~l~~~~~lt~~t~L~~Dl~~~gdDa~elm~~ff~~F~Vd~~~f~ 62 (110)
T pfam07377 3 SIEKEILDFVREESGTYLFKKIPLTLNTDLDEDLGIDGDDAEELMEKFFKKFNVDLSNFD 62 (110)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 499999999998728443576545515406987596979999999999998287867787
No 33
>PRK12316 peptide synthase; Provisional
Probab=95.84 E-value=0.032 Score=33.34 Aligned_cols=69 Identities=16% Similarity=0.246 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHH
Q ss_conf 89999999999998369999884878674542065710099999999998388348889850588999999999
Q gi|254780534|r 6 DDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIR 79 (85)
Q Consensus 6 ~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~ 79 (85)
.+++..+.+|.++.+ ++ +.|..+.+|+ .||-||+..+.++..+.+. |+.+...++.+.+|++.++..+.
T Consensus 1015 ~~~e~~l~~iw~~vL-~~--~~vg~~d~Ff-~lGGdSi~a~q~v~~~r~~-g~~l~~~~if~~~ti~~la~~~~ 1083 (5154)
T PRK12316 1015 NAVERTLAEIWQDLL-GV--ERVGLDDNFF-SLGGDSIVSIQVVSRARQA-GLQLSPRDLFQHQNIRSLALAAK 1083 (5154)
T ss_pred CHHHHHHHHHHHHHH-CC--CCCCCCCCHH-HCCCCHHHHHHHHHHHHHC-CCCCCHHHHHHCCCHHHHHHHHH
T ss_conf 789999999999982-98--8657676534-4079517899999999977-88657999973677999998730
No 34
>COG3433 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=95.57 E-value=0.058 Score=31.93 Aligned_cols=70 Identities=16% Similarity=0.225 Sum_probs=57.1
Q ss_pred HHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHHC
Q ss_conf 9999999836999988487867454206571009999999999838834888985058899999999985537
Q gi|254780534|r 12 VKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQT 84 (85)
Q Consensus 12 v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~~ 84 (85)
+++.+.+-+ +..++++.+..||. ++|+||+.+|-++...- +-|..|+-.++.+-.|++.--..+..+.+.
T Consensus 3 Lr~~~~~Ll-~e~~~~l~dqeNLi-~~GLDSiR~M~L~~~wR-~~G~~i~F~~La~~PTl~aW~qLl~~~~~~ 72 (74)
T COG3433 3 LREQIAELL-GESVEELDDQENLI-DYGLDSIRMMALLERWR-KRGADIDFAQLAANPTLAAWWQLLSTRSKQ 72 (74)
T ss_pred HHHHHHHHH-CCCHHHCCCHHHHH-HHCHHHHHHHHHHHHHH-HCCCCCCHHHHHHCCCHHHHHHHHHHCCCC
T ss_conf 899999998-07703048646588-82425999999999999-807766499997375699999999854558
No 35
>pfam10501 Ribosomal_L50 Ribosomal subunit 39S. The 39S ribosomal protein appears to be a subunit of one of the larger mitochondrial 66S or 70S units. Under conditions of ethanol-stress in rats the larger subunit is largely dissociated into its smaller components. In E. coli, in the absence of the enzyme pseudouridine synthase (RluD) synthase, there is an accumulation of 50S and 30S subunits and the appearance of abnormal particles (62S and 39S), with concomitant loss of 70S ribosomes.
Probab=89.14 E-value=2 Score=23.33 Aligned_cols=74 Identities=15% Similarity=0.254 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHH-HHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHH
Q ss_conf 5899999999999983699998848786745420657100-999999999983883488898505889999999998
Q gi|254780534|r 5 NDDVFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLD-VVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRK 80 (85)
Q Consensus 5 ~~ei~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd-~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~ 80 (85)
..++.+.|.+...+ +.+.+......+..+. +..++.+. --.++-++.+.+|..||+..+..+.||+++++|+++
T Consensus 6 ~~~l~~~v~e~~~~-~~~~~~~~~~~~~~~~-~~~l~d~~~KF~~lkrl~~~~Gh~ipd~~l~~~~Tv~~~~~~~e~ 80 (111)
T pfam10501 6 PEELEQIVEESAKE-TLGPPGTGYSWNLGWL-QISLEDLEVKFAFLKRLQQLLGHRIPDYELHSLHTVEDLVEFYEK 80 (111)
T ss_pred HHHHHHHHHHHHHH-HCCCCCCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHCCCHHHHHHHHHH
T ss_conf 89999999999998-3089742002577610-230458899999999999995886781898623779999999998
No 36
>KOG1178 consensus
Probab=83.44 E-value=1.4 Score=24.11 Aligned_cols=55 Identities=25% Similarity=0.295 Sum_probs=47.9
Q ss_pred HHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 88487867454206571009999999999838834888985058899999999985
Q gi|254780534|r 26 DQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 26 ~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
..+.++++|. ++|.||+.++-++..+-.++.++.|-.-..+..|+..+..=+..+
T Consensus 614 ~~~s~d~~fF-~lGgdSi~av~~~~~lr~~~~v~~~~~l~~~l~ti~~~~~~~~~~ 668 (1032)
T KOG1178 614 AIVSPDSSFF-QLGGDSISAVRLSGLLRKKGYVEGPLGLIFKLLTIVNLESGIIRI 668 (1032)
T ss_pred CCCCCCCCHH-HHCCHHHHHHHHHHHHHHHHEECCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 4558886656-534616999999876535313202400133405677899877666
No 37
>TIGR02372 4_coum_CoA_lig 4-coumarate--CoA ligase; InterPro: IPR012743 This entry represents the 4-coumarate--CoA ligase associated with biosynthesis of the 4-hydroxy cinnamyl (also called 4-coumaroyl) chromophore covalently linked to a Cys residue in photoactive yellow protein of Rhodobacter spp. and Ectothiorhodospira halophila. This enzyme is designated 6.2.1.12 from EC and therefore joins a number of plant enzymes linked to lignin biosynthesis with similar names.; GO: 0016207 4-coumarate-CoA ligase activity, 0009698 phenylpropanoid metabolic process.
Probab=69.90 E-value=2.9 Score=22.41 Aligned_cols=47 Identities=32% Similarity=0.392 Sum_probs=35.0
Q ss_pred HHCCCCHHHHHHHHHHHHHHHCCCCCH-HHH--------HCCCCHHHHHHHHHHHH
Q ss_conf 420657100999999999983883488-898--------50588999999999855
Q gi|254780534|r 36 EELGADSLDVVELVMIFEEKFSLEIPE-ESA--------NKILTVKDAVDFIRKAK 82 (85)
Q Consensus 36 ~dLg~DSLd~vel~~~lE~~f~i~i~~-~~~--------~~~~Tv~dlv~~I~~~~ 82 (85)
+.||+|||+.++|+..+.+=|.++=.. ||+ ..+.-+++.+++|..+.
T Consensus 55 e~lg~DSL~rL~L~~av~~FF~Ls~tg~EDyllv~rtlqGWidRig~~~dLia~~s 110 (416)
T TIGR02372 55 ETLGLDSLARLDLVSAVADFFDLSETGVEDYLLVERTLQGWIDRIGEMVDLIADRS 110 (416)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_conf 32441358888899998875423206863057752023457899989999999777
No 38
>KOG2452 consensus
Probab=67.79 E-value=11 Score=19.19 Aligned_cols=73 Identities=30% Similarity=0.348 Sum_probs=58.5
Q ss_pred HHHHHHHHHHHHHCCCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 99999999999836999988487867454206571009999999999838-83488898505889999999998553
Q gi|254780534|r 8 VFEAVKEVILSQLTSVKEDQIVESARFIEELGADSLDVVELVMIFEEKFS-LEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 8 i~~~v~~ii~~~l~~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~-i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
..++++++-...+. ...++..++.|.+ -|+-|.|++.++..+..-.| .++..+++-.-.|.|+.++.+-++..
T Consensus 323 t~~~~~~iw~~il~--kv~~v~~~tdff~-sga~s~dv~rlveeik~~~~g~ele~~~iy~~~t~g~~i~~~ir~lr 396 (881)
T KOG2452 323 TAEAVRSVWQRILP--KVLEVEDSTDFFK-SGAASVDVVRLVEEVKELCDGLELENEDVYMASTFGDFIQLLVRKLR 396 (881)
T ss_pred HHHHHHHHHHHHCC--CCEEECCCCHHHH-CCCCCHHHHHHHHHHHHHCCCCEECCCCEEECCCHHHHHHHHHHHCC
T ss_conf 99999999987532--0044135502766-58740309999999986477411126856642530246999998703
No 39
>pfam02201 SWIB SWIB/MDM2 domain. This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2.
Probab=58.23 E-value=14 Score=18.49 Aligned_cols=55 Identities=13% Similarity=0.227 Sum_probs=44.2
Q ss_pred CCCHHHHHHHHHHHHHHHHC--CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 87858999999999999836--99998848786745420657100999999999983
Q gi|254780534|r 2 PNANDDVFEAVKEVILSQLT--SVKEDQIVESARFIEELGADSLDVVELVMIFEEKF 56 (85)
Q Consensus 2 ~~t~~ei~~~v~~ii~~~l~--~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f 56 (85)
++|..++..++-+.|.++=- .-+...|.+|..|..-+|-+++...++--.+..+|
T Consensus 19 ~~sR~~v~k~iw~YIK~n~Lqdp~~kr~I~cD~~L~~lf~~~~i~~f~i~k~l~~Hf 75 (76)
T pfam02201 19 ELSRTEVVKKLWQYIKEHNLQDPKNKRIILCDEKLKSIFGGDRVGFFEMSKLLSSHF 75 (76)
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCCCCCEECCCHHHHHHCCCCEECHHHHHHHHHHHC
T ss_conf 667999999999999982799876778775678999971999014542999988545
No 40
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=50.51 E-value=23 Score=17.36 Aligned_cols=55 Identities=13% Similarity=0.271 Sum_probs=44.4
Q ss_pred CCCHHHHHHHHHHHHHHHHCC--CCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 878589999999999998369--9998848786745420657100999999999983
Q gi|254780534|r 2 PNANDDVFEAVKEVILSQLTS--VKEDQIVESARFIEELGADSLDVVELVMIFEEKF 56 (85)
Q Consensus 2 ~~t~~ei~~~v~~ii~~~l~~--~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f 56 (85)
.+|..++..++-+.|.++--. .+...|.+|..|..=+|-+.+.+.+|--.+..+|
T Consensus 19 ~~sR~~v~k~lw~YIK~n~Lqdp~nkr~I~cD~~L~~lfg~~~~~~f~~~k~L~~H~ 75 (77)
T smart00151 19 EMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHL 75 (77)
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCCCCCEECCCHHHHHHCCCCCEEHHHHHHHHHHHC
T ss_conf 666999999999999981798876676765689999863999620214999998672
No 41
>TIGR00855 L12 ribosomal protein L7/L12; InterPro: IPR000206 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This family of large subunit ribosomal proteins is called the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain . The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.
Probab=48.80 E-value=11 Score=19.16 Aligned_cols=21 Identities=38% Similarity=0.577 Sum_probs=17.6
Q ss_pred CCCHHHHHHHHHHHHHHHCCC
Q ss_conf 657100999999999983883
Q gi|254780534|r 39 GADSLDVVELVMIFEEKFSLE 59 (85)
Q Consensus 39 g~DSLd~vel~~~lE~~f~i~ 59 (85)
++.=|...||+-.+|++||++
T Consensus 15 ~~tvlE~~eLvK~~EE~FGVs 35 (131)
T TIGR00855 15 SLTVLELSELVKALEEKFGVS 35 (131)
T ss_pred CCCHHHHHHHHHHHHHHCCCC
T ss_conf 680333889999875412884
No 42
>pfam03471 CorC_HlyC Transporter associated domain. This small domain is found in a family of proteins with the pfam01595 domain and two CBS domains with this domain found at the C-terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.
Probab=35.34 E-value=29 Score=16.81 Aligned_cols=27 Identities=26% Similarity=0.285 Sum_probs=20.9
Q ss_pred HHHHHHHHCCCCCHHHHHCCCCHHHHHHHH
Q ss_conf 999999838834888985058899999999
Q gi|254780534|r 49 VMIFEEKFSLEIPEESANKILTVKDAVDFI 78 (85)
Q Consensus 49 ~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I 78 (85)
+..+++.||+.+|++ ++.|++.++-.-
T Consensus 16 l~dl~~~~~~~l~~~---~~~TigG~i~~~ 42 (80)
T pfam03471 16 LDDLNELLGLDLPEE---DYDTLAGLVLEL 42 (80)
T ss_pred HHHHHHHHCCCCCCC---CCEEHHHHHHHH
T ss_conf 999999879799986---520599999998
No 43
>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=32.17 E-value=46 Score=15.67 Aligned_cols=56 Identities=21% Similarity=0.354 Sum_probs=46.2
Q ss_pred CCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 9998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 23 VKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 23 ~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
-.|.++-.+..+....|++.=..+++...+.+. |+.+|.. +.|+.+++.++.+..+
T Consensus 226 G~p~evf~~~~~l~~~~l~~P~~~~l~~~L~~~-g~~~~~~----~~t~eel~~~l~~~~~ 281 (283)
T PRK13640 226 GSPVEIFPKVELLKRIGLDIPFVYKLKLKLKEK-GISVPQE----INTEEKLVQYLCQLNS 281 (283)
T ss_pred CCHHHHHCCHHHHHHCCCCCCHHHHHHHHHHHC-CCCCCCC----CCCHHHHHHHHHHHHC
T ss_conf 778998579999997799999699999999974-9999988----7899999999998752
No 44
>KOG1142 consensus
Probab=30.19 E-value=4.1 Score=21.55 Aligned_cols=39 Identities=21% Similarity=0.449 Sum_probs=31.1
Q ss_pred CCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCC
Q ss_conf 674542065710099999999998388348889850588
Q gi|254780534|r 32 ARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILT 70 (85)
Q Consensus 32 s~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~T 70 (85)
..|..-=.-|-|++-++-+.||..|+++||.....++.+
T Consensus 197 C~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf~sd~~~~ 235 (258)
T KOG1142 197 CKLAKHRKSDTVEVRDIQLHLERNFNMEIPGFSSDEKRS 235 (258)
T ss_pred HHHHHHCCCCCCCHHHEEEEEECCCCCCCCCCCCCCCCC
T ss_conf 999875166753101001122101465478756555545
No 45
>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=28.41 E-value=48 Score=15.59 Aligned_cols=56 Identities=21% Similarity=0.328 Sum_probs=37.6
Q ss_pred CCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 9998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 23 VKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 23 ~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
-.|.++=.+..+....|++.=....+...+. +.|+.+|+. ..|+.++++-+.+..+
T Consensus 227 Gtp~evf~~~~~l~~~~l~~P~~~~l~~~L~-~~g~~~~~~----~~t~~e~~~~l~~~l~ 282 (287)
T PRK13637 227 GTPREVFKEVDTLESIGLAVPQVTYLVRKLR-KKGFNIPDD----IFTIEEAKEELLKYLR 282 (287)
T ss_pred CCHHHHHCCHHHHHHCCCCCCHHHHHHHHHH-HCCCCCCCC----CCCHHHHHHHHHHHHH
T ss_conf 7889987698899876999991999999999-759999988----6689999999999997
No 46
>LOAD_swib consensus
Probab=25.07 E-value=62 Score=14.95 Aligned_cols=55 Identities=7% Similarity=0.177 Sum_probs=43.0
Q ss_pred CCCHHHHHHHHHHHHHHHHCC--CCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 878589999999999998369--9998848786745420657100999999999983
Q gi|254780534|r 2 PNANDDVFEAVKEVILSQLTS--VKEDQIVESARFIEELGADSLDVVELVMIFEEKF 56 (85)
Q Consensus 2 ~~t~~ei~~~v~~ii~~~l~~--~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f 56 (85)
.++..++..++-+.|.++--. -+...|.+|..|..=+|-+.+...++.-.+..+|
T Consensus 27 ~~sR~~v~k~iw~YIK~~nLqdp~nkr~I~~D~~L~~lf~~~~v~~f~~~k~l~~H~ 83 (85)
T LOAD_swib 27 ELTRPEIVKALWQYIKEHNLQDPKNKREIICDDKLKKIFGKKRVLMFSMIKLLSLHL 83 (85)
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCCCCCEECCCHHHHHHHCCCCCCEECHHHHHHHHC
T ss_conf 777999999999999982798876788882678999981999755000999988553
No 47
>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=24.24 E-value=64 Score=14.86 Aligned_cols=57 Identities=21% Similarity=0.347 Sum_probs=43.3
Q ss_pred CCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 9998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 23 VKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 23 ~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
-.|.+|-.+..+....|++-=..+.+...++++.|+.+|.. .-|+.++++.|.+..+
T Consensus 215 G~p~evf~~p~~l~~~~l~~P~~~~l~~~L~~~~g~~~~~~----~~t~ee~~~~i~~~~~ 271 (276)
T PRK13634 215 GTPREIFSHPDELEAIGLDLPETVKFKRALEEKFGISFPKP----TLTLEELAHEVVQVLR 271 (276)
T ss_pred CCHHHHHCCHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCC----CCCHHHHHHHHHHHHH
T ss_conf 78999972999999779999969999999989659999988----8899999999999997
No 48
>KOG2573 consensus
Probab=23.65 E-value=66 Score=14.79 Aligned_cols=56 Identities=20% Similarity=0.361 Sum_probs=45.0
Q ss_pred CCHHHCCCCC--CHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHH
Q ss_conf 9998848786--7454206571009999999999838834888985058899999999
Q gi|254780534|r 23 VKEDQIVESA--RFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFI 78 (85)
Q Consensus 23 ~~~~~i~~ds--~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I 78 (85)
.+...++.|. .+.++||.||=-.-+++-+--.-.|-.|++-|+.++.+..+-|-=+
T Consensus 219 ~dk~~l~ed~~~~~~e~l~~d~~ka~~Iiea~k~SMG~diS~~Dl~Ni~~fa~rV~~l 276 (498)
T KOG2573 219 VDKEKLNEDGLHELLEDLGVDSEKAQEIIEAAKNSMGQDISPADLENIRKFAERVSDL 276 (498)
T ss_pred HCHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 0464326421267999945757899999997762047878777899899999999889
No 49
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase; InterPro: IPR012795 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This domain is found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain architecture of this protein is variable; some, including characterised proteins of Escherichia coli and Bacillus subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family. It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016879 ligase activity forming carbon-nitrogen bonds, 0008033 tRNA processing, 0005737 cytoplasm.
Probab=21.80 E-value=62 Score=14.93 Aligned_cols=23 Identities=22% Similarity=0.492 Sum_probs=20.3
Q ss_pred HCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 20657100999999999983883
Q gi|254780534|r 37 ELGADSLDVVELVMIFEEKFSLE 59 (85)
Q Consensus 37 dLg~DSLd~vel~~~lE~~f~i~ 59 (85)
..|.||+.++-++..+...++++
T Consensus 7 SGG~DS~aLL~~L~~~~~~~~~~ 29 (204)
T TIGR02432 7 SGGVDSMALLHLLLKLQPKLKIS 29 (204)
T ss_pred ECCHHHHHHHHHHHHHHHHCCCC
T ss_conf 28642799999999976632787
No 50
>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=21.66 E-value=73 Score=14.56 Aligned_cols=61 Identities=11% Similarity=0.098 Sum_probs=48.0
Q ss_pred CCCHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 99998848786745420657100999999999983883488898505889999999998553
Q gi|254780534|r 22 SVKEDQIVESARFIEELGADSLDVVELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKAKQ 83 (85)
Q Consensus 22 ~~~~~~i~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~~~ 83 (85)
.-.|.+|=-+.++....|++-=..+++...|.++ |+.++..-...-.|+.++++.|.+..+
T Consensus 257 ~Gtp~eiF~~~~~l~~~~l~~P~~~~l~~~L~~~-g~~~~~~~~~~~~~~~~l~~~~~~~~~ 317 (320)
T PRK13631 257 TGTPYEIFTDQHIINSTSIQVPRVIQVINDLIKK-DPKYKKLYQKQPRTIEQLADAINEFIK 317 (320)
T ss_pred ECCHHHHHCCHHHHHHCCCCCCCHHHHHHHHHHC-CCCCHHHCCCCCCCHHHHHHHHHHHHC
T ss_conf 7588998659999997799999299999999973-998333047886469999999999862
No 51
>TIGR00503 prfC peptide chain release factor 3; InterPro: IPR004548 Peptide chain release factor 3 increases the formation of ribosomal termination complexes and stimulates activity of RF-1 and RF-2. It binds to guanine nucleotides and has a strong preference for UGA stop codons. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis sp. (strain PCC 6803), and in Staphylococcus aureus.; GO: 0005525 GTP binding, 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm.
Probab=20.63 E-value=74 Score=14.52 Aligned_cols=33 Identities=24% Similarity=0.351 Sum_probs=28.8
Q ss_pred CCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf 878674542065710099999999998388348
Q gi|254780534|r 29 VESARFIEELGADSLDVVELVMIFEEKFSLEIP 61 (85)
Q Consensus 29 ~~ds~l~~dLg~DSLd~vel~~~lE~~f~i~i~ 61 (85)
+|=-+|.+-|.=||++-+||+-.+|+++++..-
T Consensus 133 ~PI~TF~NKLDR~~~~P~ELlDEvE~~L~~~~~ 165 (530)
T TIGR00503 133 LPILTFINKLDRDIRDPLELLDEVENELKINCA 165 (530)
T ss_pred CCHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEE
T ss_conf 744335232065435537888888877064113
No 52
>TIGR03295 frhA coenzyme F420 hydrogenase, subunit alpha. This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. This protein is a member of the Nickel-dependent hydrogenase superfamily represented by Pfam model, pfam00374.
Probab=20.24 E-value=78 Score=14.39 Aligned_cols=34 Identities=12% Similarity=0.240 Sum_probs=20.0
Q ss_pred HHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf 99999999838834888985058899999999985
Q gi|254780534|r 47 ELVMIFEEKFSLEIPEESANKILTVKDAVDFIRKA 81 (85)
Q Consensus 47 el~~~lE~~f~i~i~~~~~~~~~Tv~dlv~~I~~~ 81 (85)
--+.++|+.||+++|+. ...++.+-....+|++|
T Consensus 73 As~~AvE~a~gi~vP~~-a~~lR~L~~~~e~iqsH 106 (411)
T TIGR03295 73 ASVEAIEDSIDCEVPKD-GLLLRELTGCANRLHSH 106 (411)
T ss_pred HHHHHHHHHHCCCCCHH-HHHHHHHHHHHHHHHHH
T ss_conf 99999999829988978-99999999999999999
Done!