Query 017518
Match_columns 370
No_of_seqs 289 out of 1349
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 09:18:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017518.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017518hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1536 Biotin holocarboxylase 100.0 3.6E-62 7.8E-67 488.0 25.5 333 24-369 281-649 (649)
2 PRK06955 biotin--protein ligas 100.0 1.6E-55 3.4E-60 428.3 28.2 262 92-360 15-295 (300)
3 TIGR00121 birA_ligase birA, bi 100.0 1.1E-55 2.5E-60 415.8 24.7 232 112-358 2-236 (237)
4 COG0340 BirA Biotin-(acetyl-Co 100.0 3.4E-55 7.4E-60 412.0 25.5 233 115-360 1-237 (238)
5 PRK08330 biotin--protein ligas 100.0 2.1E-54 4.6E-59 407.0 26.0 234 108-360 1-235 (236)
6 PRK11886 bifunctional biotin-- 100.0 1.2E-52 2.6E-57 411.1 27.4 250 92-360 64-317 (319)
7 PTZ00275 biotin-acetyl-CoA-car 100.0 2.5E-52 5.3E-57 403.0 25.7 242 107-359 14-282 (285)
8 PRK13325 bifunctional biotin-- 100.0 1.7E-51 3.7E-56 430.9 28.8 256 91-361 65-325 (592)
9 PTZ00276 biotin/lipoate protei 100.0 6.7E-51 1.5E-55 385.3 24.1 227 107-354 4-242 (245)
10 PRK08477 biotin--protein ligas 100.0 1.2E-48 2.6E-53 361.6 23.0 200 111-343 2-204 (211)
11 PRK05935 biotin--protein ligas 100.0 1.6E-41 3.4E-46 309.6 17.0 163 113-289 6-177 (190)
12 PF03099 BPL_LplA_LipB: Biotin 99.9 1.3E-22 2.9E-27 171.2 8.3 119 115-246 2-125 (125)
13 PF02237 BPL_C: Biotin protein 98.6 2.2E-07 4.9E-12 66.3 6.8 48 308-359 1-48 (48)
14 PRK14348 lipoate-protein ligas 93.4 1.5 3.2E-05 41.3 12.1 120 152-287 79-218 (221)
15 TIGR00545 lipoyltrans lipoyltr 91.6 0.62 1.3E-05 46.3 7.6 70 143-226 67-136 (324)
16 PRK14342 lipoate-protein ligas 89.3 8.9 0.00019 35.9 12.6 117 152-287 70-203 (213)
17 TIGR00214 lipB lipoate-protein 88.6 13 0.00028 34.0 13.0 116 152-287 50-183 (184)
18 COG0095 LplA Lipoate-protein l 87.2 1.8 3.8E-05 41.3 6.7 74 141-226 66-141 (248)
19 PRK14345 lipoate-protein ligas 84.7 25 0.00054 33.4 13.0 118 152-288 76-216 (234)
20 PRK14344 lipoate-protein ligas 84.6 27 0.00059 33.0 13.1 117 152-287 88-221 (223)
21 PRK14061 unknown domain/lipoat 84.0 19 0.00042 38.5 13.1 59 155-225 299-361 (562)
22 PRK14343 lipoate-protein ligas 80.3 39 0.00084 32.2 12.4 119 152-288 80-219 (235)
23 PRK14349 lipoate-protein ligas 78.8 55 0.0012 30.9 12.8 119 152-288 65-205 (220)
24 PRK14341 lipoate-protein ligas 76.8 66 0.0014 30.1 12.9 62 215-287 128-211 (213)
25 PRK03822 lplA lipoate-protein 75.5 7.8 0.00017 38.7 6.7 67 143-226 68-138 (338)
26 COG0321 LipB Lipoate-protein l 72.6 87 0.0019 29.5 12.4 63 215-288 134-211 (221)
27 PF14563 DUF4444: Domain of un 62.6 15 0.00032 25.5 3.7 20 328-347 12-31 (42)
28 PF01423 LSM: LSM domain ; In 59.5 28 0.0006 25.7 5.3 33 308-343 6-38 (67)
29 PF10842 DUF2642: Protein of u 57.1 65 0.0014 24.6 6.9 43 302-350 13-55 (66)
30 PF04017 DUF366: Domain of unk 56.0 42 0.00091 30.6 6.6 74 165-250 63-139 (183)
31 cd01731 archaeal_Sm1 The archa 54.9 39 0.00085 25.4 5.5 33 309-344 9-41 (68)
32 PRK14346 lipoate-protein ligas 53.2 2.1E+02 0.0045 27.2 12.5 59 218-287 156-228 (230)
33 smart00651 Sm snRNP Sm protein 52.2 37 0.00081 25.0 5.0 34 308-344 6-39 (67)
34 cd06168 LSm9 The eukaryotic Sm 51.1 36 0.00079 26.4 4.8 33 309-344 9-41 (75)
35 PF01287 eIF-5a: Eukaryotic el 50.8 26 0.00056 26.9 3.9 23 328-350 7-29 (69)
36 PF02107 FlgH: Flagellar L-rin 50.8 34 0.00073 31.1 5.3 38 328-368 98-135 (179)
37 cd01717 Sm_B The eukaryotic Sm 50.5 32 0.0007 26.7 4.5 34 308-344 8-41 (79)
38 cd00600 Sm_like The eukaryotic 50.0 41 0.00089 24.3 4.8 32 309-343 5-36 (63)
39 cd01728 LSm1 The eukaryotic Sm 46.3 50 0.0011 25.5 4.9 34 308-344 10-43 (74)
40 COG2029 Uncharacterized conser 46.1 74 0.0016 28.8 6.5 66 214-288 110-176 (189)
41 PRK00249 flgH flagellar basal 44.9 43 0.00094 31.5 5.2 38 328-368 140-177 (222)
42 cd01726 LSm6 The eukaryotic Sm 44.1 69 0.0015 24.0 5.3 32 309-343 9-40 (67)
43 PRK12698 flgH flagellar basal 43.9 50 0.0011 31.2 5.5 38 328-368 141-178 (224)
44 PRK00737 small nuclear ribonuc 43.1 74 0.0016 24.2 5.4 33 309-344 13-45 (72)
45 PRK14347 lipoate-protein ligas 42.8 2.9E+02 0.0062 25.9 12.1 57 220-287 138-208 (209)
46 cd01732 LSm5 The eukaryotic Sm 42.6 1.6E+02 0.0034 22.8 7.4 33 309-344 12-44 (76)
47 cd01722 Sm_F The eukaryotic Sm 40.4 92 0.002 23.4 5.5 32 309-343 10-41 (68)
48 cd01719 Sm_G The eukaryotic Sm 38.1 80 0.0017 24.2 4.9 32 309-343 9-40 (72)
49 cd01727 LSm8 The eukaryotic Sm 38.0 71 0.0015 24.4 4.7 33 309-344 8-40 (74)
50 PRK12699 flgH flagellar basal 36.9 76 0.0016 30.4 5.6 38 328-368 165-202 (246)
51 PRK12407 flgH flagellar basal 36.9 78 0.0017 29.8 5.6 38 328-368 138-175 (221)
52 PRK12700 flgH flagellar basal 35.3 84 0.0018 29.8 5.6 38 328-368 148-185 (230)
53 smart00333 TUDOR Tudor domain. 35.3 1.4E+02 0.003 20.9 5.6 45 307-354 3-48 (57)
54 PRK12696 flgH flagellar basal 35.2 84 0.0018 29.9 5.6 38 328-368 154-191 (236)
55 cd01729 LSm7 The eukaryotic Sm 35.2 86 0.0019 24.6 4.8 34 308-344 10-43 (81)
56 PRK12697 flgH flagellar basal 34.7 79 0.0017 29.9 5.2 38 328-368 144-181 (226)
57 PRK12701 flgH flagellar basal 34.0 91 0.002 29.6 5.5 38 328-368 147-184 (230)
58 cd01721 Sm_D3 The eukaryotic S 33.3 2.1E+02 0.0046 21.6 7.6 34 308-344 8-41 (70)
59 PRK12788 flgH flagellar basal 31.6 1E+02 0.0022 29.4 5.4 39 327-368 151-189 (234)
60 cd01724 Sm_D1 The eukaryotic S 30.7 2.8E+02 0.0061 22.2 7.7 32 309-343 10-41 (90)
61 PF08863 YolD: YolD-like prote 30.6 2.5E+02 0.0055 21.6 7.8 48 308-355 40-88 (92)
62 COG2063 FlgH Flagellar basal b 29.2 1.4E+02 0.003 28.4 5.8 38 328-368 151-188 (230)
63 PF02736 Myosin_N: Myosin N-te 28.7 1.9E+02 0.0041 19.6 6.1 40 311-354 2-41 (42)
64 cd01733 LSm10 The eukaryotic S 27.8 2.9E+02 0.0063 21.4 7.7 44 308-358 17-60 (78)
65 TIGR00008 infA translation ini 27.4 2.9E+02 0.0062 21.2 6.7 29 327-355 8-36 (68)
66 PRK09618 flgD flagellar basal 27.1 1.8E+02 0.0038 25.6 5.8 79 268-351 47-131 (142)
67 PF07076 DUF1344: Protein of u 26.6 1.2E+02 0.0026 22.8 4.0 31 327-359 6-36 (61)
68 PF09465 LBR_tudor: Lamin-B re 26.4 2.7E+02 0.0058 20.5 7.0 45 307-353 6-51 (55)
69 cd04479 RPA3 RPA3: A subfamily 26.0 2E+02 0.0044 23.3 5.7 33 308-352 13-45 (101)
70 cd01723 LSm4 The eukaryotic Sm 25.2 3.2E+02 0.0068 20.9 8.0 32 309-343 10-41 (76)
71 PF12945 YcgR_2: Flagellar pro 25.1 96 0.0021 23.6 3.5 35 308-344 2-39 (87)
72 PF14326 DUF4384: Domain of un 25.1 3.2E+02 0.007 21.0 6.6 36 307-345 3-38 (83)
73 cd04468 S1_eIF5A S1_eIF5A: Euk 24.4 70 0.0015 24.6 2.4 21 328-349 6-26 (69)
74 TIGR02383 Hfq RNA chaperone Hf 24.2 3.1E+02 0.0068 20.6 6.9 45 299-348 4-48 (61)
75 cd01725 LSm2 The eukaryotic Sm 22.2 2.5E+02 0.0054 21.9 5.3 33 309-344 10-42 (81)
76 PF11095 Gemin7: Gem-associate 22.1 4E+02 0.0088 21.1 6.5 43 297-342 10-53 (80)
77 PTZ00329 eukaryotic translatio 21.9 3.2E+02 0.007 24.4 6.5 38 310-350 21-58 (155)
78 cd04469 S1_Hex1 S1_Hex1: Hex1, 21.0 91 0.002 24.4 2.5 21 328-349 5-25 (75)
79 PRK00395 hfq RNA-binding prote 20.5 4.4E+02 0.0095 20.9 6.9 45 298-347 7-51 (79)
80 cd01720 Sm_D2 The eukaryotic S 20.2 3.7E+02 0.0081 21.4 6.0 37 304-343 8-44 (87)
No 1
>KOG1536 consensus Biotin holocarboxylase synthetase/biotin-protein ligase [Coenzyme transport and metabolism]
Probab=100.00 E-value=3.6e-62 Score=487.98 Aligned_cols=333 Identities=50% Similarity=0.860 Sum_probs=287.0
Q ss_pred hhhhccccccc---ccccccc--cCccccceEEEecCChhHHHH-------HHhhccCCC-cCCCCCC-ceeEEeccccc
Q 017518 24 SLVSANTKPFR---LSASSAA--MDSNSSCMLVLSGKSLAENEI-------AESLKSNST-LKLPDNS-EVSIHLQSEIV 89 (370)
Q Consensus 24 ~~~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~-~~~~~~~-~~~~~~~~~~~ 89 (370)
.++..+.+++. ..+..+. .++...|++++|+.++++.|+ ++.+.++++ ++.||++ ++.|.+.+|..
T Consensus 281 ~~~~~n~~~~~r~~~k~~a~~l~~d~k~~~sl~~~~~~s~~tei~d~~~~~~~~ld~s~~~~k~~D~s~k~~i~~~~E~d 360 (649)
T KOG1536|consen 281 ILLFRNLKPLKRLSEKLLASALECDSKASCSLVLCGFSSAETEIKDTNKEFLKGLDNSNSKLKSPDNSVKFVIILGSEED 360 (649)
T ss_pred hhhhcccchHHHHHHHHHHhhhccccccCceeEEeeccccchhhhhhHHHHHHhhhhhhhhccCCCcceeEEEEeccccc
Confidence 46677766654 3344443 334589999999999999998 888877766 9999998 99999988763
Q ss_pred -----cCCCCCHHHHHhhcccccCCceEEEcccCCCHHHHHHhccccccCCCC--ceeEEEeCcccCcccCCCCeeeccC
Q 017518 90 -----KQESFDVELFMNSLATNRFGRLLIWSPRLPSTHDVVSHSFNSNFCELP--VGAVCVADVQFKGRGRSKNAWESPK 162 (370)
Q Consensus 90 -----~~~~f~~~~~~~~L~t~~~g~~l~~~~~v~STN~~a~~~~~~~~~~~~--~gtvviA~~QTaGRGR~GR~W~Sp~ 162 (370)
..+.||.+.|++.|.+++||+.++|.|.++||++.+.. +...+| .|.+|+|..||+||||.||.|.||.
T Consensus 361 i~~~~~s~nFdl~lY~k~i~tk~~G~~ll~a~V~tST~~ild~----n~s~lpse~g~vvv~~~Q~sGRGRGgN~WlsP~ 436 (649)
T KOG1536|consen 361 ILVADDSPNFDLELYFKSINTKRFGRVLLWAPVLTSTMDILDH----NFSELPSEVGLVVVANIQTSGRGRGGNVWLSPK 436 (649)
T ss_pred cccccCCCCcCHHHHHHHhhhhccCceEEEEeecchHHHHHhh----hhhcCCcccceEEEEeEEeecccCCCCeeecCc
Confidence 46889999999999999999999999999999999987 445666 8999999999999999999999999
Q ss_pred CceeEEEeeeccCC----CCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECC-EEEEEEeeeeeecCCcc
Q 017518 163 GCLMFSFTIQMEDG----RVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNG-IKVGGILCTSTYRTKKF 237 (370)
Q Consensus 163 G~L~fS~~l~~~~~----~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~g-kKlgGILiE~~~~~~~~ 237 (370)
|+++||+++.++.. ..++.+++++.+|+.++++. ..|+|+++++||||||||+++ .||||||+.+.+.++.+
T Consensus 437 G~~~~sf~ism~~ksr~~~~i~~~~~l~~~~~v~~~~~---~pGy~dIpvrIKWPNDlY~~~~lKvgGiLv~st~r~n~f 513 (649)
T KOG1536|consen 437 GCAMSSFTISMPLKSRVVPLIPFVQHLALVAVVEAVRY---APGYPDIPVRIKWPNDLYVNGYLKVGGILVTSTYRSNKF 513 (649)
T ss_pred ceEeEEEEEEeecccccccchHHHHHHHHHHHHHHHhc---CCCCCCCceeeecCccceeeeccccceEEEEeeecCceE
Confidence 99999999987532 23455566666666666654 468999999999999999999 99999999999999999
Q ss_pred eEEEEeccCCCCCCCcchHHHHHHhhhcCCC----CCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEE
Q 017518 238 NVSIGIGLNVNNEEPTTCLNAVLRKLSDSTY----QFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRV 313 (370)
Q Consensus 238 ~vvIGIGINvn~~~p~~~l~~~~~~~~~~~~----~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V 313 (370)
+++|||||||.+..|++||++.+.++++... .+.+|+|++.+++.|+.++..|+++|++.++..|+++|+|.+|+|
T Consensus 514 ~v~iGCGiNVtN~~PT~cLN~ll~~~n~e~~~~~l~~k~EkLiA~~~n~fe~~~k~f~d~G~~silp~YYeyWLHS~Q~V 593 (649)
T KOG1536|consen 514 NVSIGCGINVTNDGPTTCLNDLLDEMNEERNLLHLAIKAEKLIAAVFNKFEKYFKLFMDQGPKSILPLYYEYWLHSNQRV 593 (649)
T ss_pred EEEEeeeeEecCCCCceeHHHHHHhhchhhccccchhhHHHHHHHHHHHHHHHHHHHHhhCHHhHhHHHHHHHhccCcEE
Confidence 9999999999999999999999887765432 458999999999999999999999999999999999999999999
Q ss_pred EEEECCccEEEEeeEEEEEECCCceEEEEeCC------CcEEEEcCCCeeEEeecCeeeecc
Q 017518 314 IVQEKNEDQVVENVVTIQGLTSSGYLLAIGDD------NQMCELHPDGNSLDFFKGLIRRKL 369 (370)
Q Consensus 314 ~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~d------G~~~~v~~dg~Sfd~~~gli~~k~ 369 (370)
.+.+.++. .++.|+|+.|+|+++... +++++++||||+||||++||++|+
T Consensus 594 ~L~d~~e~------vii~~~dD~G~L~~~~~~~~~~~t~kv~~l~PDGNtFDmmknLI~~K~ 649 (649)
T KOG1536|consen 594 ILEDKGEA------VIIGGTDDIGFLQVSGLLLAVGDTNKVYELHPDGNTFDMMKNLIRHKY 649 (649)
T ss_pred eccCCCcc------eEEeeeecccceeeehhcccCCCCCceEEEcCCCcHHHHHHHhhccCC
Confidence 99877643 357889999999998654 599999999999999999999996
No 2
>PRK06955 biotin--protein ligase; Provisional
Probab=100.00 E-value=1.6e-55 Score=428.26 Aligned_cols=262 Identities=25% Similarity=0.299 Sum_probs=213.1
Q ss_pred CCCCHHHHHhhcccccCCceEEEcccCCCHHHHHHhcccccc---CCCCceeEEEeCcccCcccCCCCeeeccCC-ceeE
Q 017518 92 ESFDVELFMNSLATNRFGRLLIWSPRLPSTHDVVSHSFNSNF---CELPVGAVCVADVQFKGRGRSKNAWESPKG-CLMF 167 (370)
Q Consensus 92 ~~f~~~~~~~~L~t~~~g~~l~~~~~v~STN~~a~~~~~~~~---~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G-~L~f 167 (370)
=.++.+.+..+|.+..++..++++++++|||++|++.+.... .+.++|+||+|++||+||||+||+|+||+| +|||
T Consensus 15 ~~l~~~~i~~~~~~~~~~~~i~~~~~v~STN~~a~~~~~~~~~~~~~~~~g~vvvA~~QTaGRGR~GR~W~Sp~G~~L~~ 94 (300)
T PRK06955 15 WRIDRDRLDAHLAAAARAWPLEIVEETGSTNADLMARLKALPRSADALPAPIVRVAYEQTAGRGRQGRPWFAQPGNALLF 94 (300)
T ss_pred CCCCHHHHHhhcccccCCceEEEEeCCCCHHHHHHHHHHhcccccccCCCCeEEEECccccCCCCCcCcccCCCCCcEEE
Confidence 458999999999777678899999999999999976432111 124789999999999999999999999999 6999
Q ss_pred EEeeecc-CCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCc-ceEEEEecc
Q 017518 168 SFTIQME-DGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKK-FNVSIGIGL 245 (370)
Q Consensus 168 S~~l~~~-~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~-~~vvIGIGI 245 (370)
|+++++. ....++.+++++|+||+++|+++.... +.+++||||||||++||||||||+|....++. ..+||||||
T Consensus 95 Si~l~~~~~~~~~~~Lsl~~glAv~~al~~~~~~~---~~~~~iKWPNDIl~~gkKiaGILiE~~~~~~~~~~vVIGIGI 171 (300)
T PRK06955 95 SVACVLPRPVAALAGLSLAVGVALAEALAALPAAL---GQRIALKWPNDLLIAGRKLAGILIETVWATPDATAVVIGIGL 171 (300)
T ss_pred EeEecCCCChHHhhhHHHHHHHHHHHHHHHhhccc---CCceeeeCCceeeECCcEEEEEEEEcccCCCCccEEEEEEEE
Confidence 9999865 345567899999999999999874222 25799999999999999999999998876554 469999999
Q ss_pred CCCCCCCc----chHHH-------H--HHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCE
Q 017518 246 NVNNEEPT----TCLNA-------V--LRKLSDSTYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQR 312 (370)
Q Consensus 246 Nvn~~~p~----~~l~~-------~--~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~ 312 (370)
|||+..+. ++++. . ...+...+..++|++|++.++++|+++|..|.+.||+.+.++|++++++.|+.
T Consensus 172 Nv~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~ll~~ll~~l~~~~~~~~~~g~~~~~~~~~~~~~~~g~~ 251 (300)
T PRK06955 172 NVRRADAVAAEVDALRAREAALARGLPPVALAAACAGANLTDTLAAALNALAPALQAFGADGLAPFAARWHALHAYAGRE 251 (300)
T ss_pred eeCCCccccccccccccccccccccccchhhhhcCCCCCHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhhcCCCe
Confidence 99975321 11110 0 00011134678999999999999999999999999999999999999999999
Q ss_pred EEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEEEcCCCeeEEe
Q 017518 313 VIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDF 360 (370)
Q Consensus 313 V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~ 360 (370)
|++..+++. .++ |+++|||++|+|+|++++| ++.+.+|++++..
T Consensus 252 V~v~~~~~~-~~~--G~~~gId~~G~L~v~~~~g-~~~~~sGeV~~~~ 295 (300)
T PRK06955 252 VVLLEDGAE-LAR--GVAHGIDETGQLLLDTPAG-RQAIAAGDVSLRE 295 (300)
T ss_pred EEEEECCCc-EEE--EEEeeECCCceEEEEeCCC-eEEEEEEEEEEec
Confidence 999765433 233 9999999999999999888 6789999998754
No 3
>TIGR00121 birA_ligase birA, biotin-[acetyl-CoA-carboxylase] ligase region. The protein name suggests that this enzyme transfers biotin only to acetyl-CoA-carboxylase but it also transfers the biotin moiety to other proteins. The apparent orthologs among the eukaryotes are larger proteins that contain a single copy of this domain.
Probab=100.00 E-value=1.1e-55 Score=415.79 Aligned_cols=232 Identities=28% Similarity=0.448 Sum_probs=195.4
Q ss_pred EEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeecc-CCCCcchhHHHHHHHH
Q 017518 112 LIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQME-DGRVVPLLQYVASLAL 190 (370)
Q Consensus 112 l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~-~~~~~~~ls~~~~lAV 190 (370)
++++++++|||+++++++. ...+++++|+|++||+||||+||+|+||+|+||||++++++ +...++.+++++|+||
T Consensus 2 i~~~~~~~STn~~~~~~~~---~~~~~~~vv~A~~QTaGRGR~gr~W~Sp~g~l~~S~~l~~~~~~~~~~~ls~~~~lAv 78 (237)
T TIGR00121 2 VIVLDVIDSTNQYALELAK---EGKLKGDLVVAEYQTAGRGRRGRKWLSPEGGLYFSLILRPDLPKSPAPGLTLVAGIAI 78 (237)
T ss_pred EEEEeecCCHHHHHHHHHh---cCCCCCeEEEEcccCCCCCCCCCcccCCCCceEEEEEECCCCChhHhhhhHHHHHHHH
Confidence 6789999999999998532 33457999999999999999999999999999999999875 3456778999999999
Q ss_pred HHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCc-ceEEEEeccCCCCCCCcchHHH-HHHhhhcCCC
Q 017518 191 TEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKK-FNVSIGIGLNVNNEEPTTCLNA-VLRKLSDSTY 268 (370)
Q Consensus 191 ~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~-~~vvIGIGINvn~~~p~~~l~~-~~~~~~~~~~ 268 (370)
++||+++. .+++||||||||++||||||||+|.....+. ..+||||||||++..++..+.. +++.....+.
T Consensus 79 ~~al~~~~-------~~~~iKWPNDI~~~~kKi~GIL~E~~~~~~~~~~vviGIGiNv~~~~~~~~~~~~a~sl~~~~~~ 151 (237)
T TIGR00121 79 AEVLKELG-------DQVQVKWPNDILLKDKKLGGILTELTGKENRADYVVIGIGINVQNRKPAESLREQAISLSEEAGI 151 (237)
T ss_pred HHHHHHhC-------CCCCCcCCceEEECCeEEEEEEEEcccCCCCcCEEEEEEEEccCCCCCchhhcccceehHHhhCC
Confidence 99999863 4689999999999999999999998765544 5699999999997643332222 2222222356
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcE
Q 017518 269 QFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQM 348 (370)
Q Consensus 269 ~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~ 348 (370)
.++|++|++.++++|+.+|..|.++||+++.++|++++++.|++|++..+++. ++ |++.|||++|+|+|+ ++|.+
T Consensus 152 ~~~~~~ll~~l~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~g~~V~v~~~~~~--~~--G~~~gI~~~G~L~v~-~~~~~ 226 (237)
T TIGR00121 152 DLDRGELIEGFLRNFEENLEWFEQEGIDEILSKWEKLSAHIGREVSLTTGNGE--IE--GIARGIDKDGALLLE-DGGGI 226 (237)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHhhhccCCeEEEEeCCcE--EE--EEEEeECCCceEEEE-eCCeE
Confidence 89999999999999999999999999999999999999999999999876543 33 999999999999999 56778
Q ss_pred EEEcCCCeeE
Q 017518 349 CELHPDGNSL 358 (370)
Q Consensus 349 ~~v~~dg~Sf 358 (370)
+.+.+|++++
T Consensus 227 ~~~~sGev~~ 236 (237)
T TIGR00121 227 KKIISGEISL 236 (237)
T ss_pred EEEEEEEEEE
Confidence 8899998876
No 4
>COG0340 BirA Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
Probab=100.00 E-value=3.4e-55 Score=411.98 Aligned_cols=233 Identities=30% Similarity=0.470 Sum_probs=201.1
Q ss_pred cccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCC-ceeEEEeeeccC-CCCcchhHHHHHHHHHH
Q 017518 115 SPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKG-CLMFSFTIQMED-GRVVPLLQYVASLALTE 192 (370)
Q Consensus 115 ~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G-~L~fS~~l~~~~-~~~~~~ls~~~~lAV~~ 192 (370)
+++++|||++|++.+ ..+.+.+++|+|++||+||||+||+|+||+| +||||+++++.. ...++.+++++|+||++
T Consensus 1 ~~~i~STn~~a~~~~---~~~~~~~~vvvA~~QTaGRGR~GR~W~Sp~G~~l~~S~~l~~~~~~~~~~~lsl~~g~av~~ 77 (238)
T COG0340 1 FDEIDSTNTEAKERA---ASGAPEGTVVVAEEQTAGRGRRGRKWSSPKGGGLYMSLLLRPDLPPAELPSLSLVAGLAVAE 77 (238)
T ss_pred CCccchHHHHHHHHH---HhCCCCCcEEEEeeeccCcCCCCCcccCCCCCCEEEEEEEcCCcChhhcchhHHHHHHHHHH
Confidence 478999999999854 2456788899999999999999999999998 899999999874 46789999999999999
Q ss_pred HHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCC-cceEEEEeccCCCCCCCcc-hHHHHHHhhhcCCCCC
Q 017518 193 AINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTK-KFNVSIGIGLNVNNEEPTT-CLNAVLRKLSDSTYQF 270 (370)
Q Consensus 193 aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~-~~~vvIGIGINvn~~~p~~-~l~~~~~~~~~~~~~~ 270 (370)
||+++. .+++||||||||++|||+||||+|+....+ ...+||||||||++..|+. .+......+......+
T Consensus 78 al~~~~-------~~~~iKWPNDv~~~~kKl~GIL~E~~~~~~~~~~~viGIGINv~~~~~~~~~i~~~atsL~~~~~~~ 150 (238)
T COG0340 78 ALRKFG-------IDVRIKWPNDVLLNGKKLAGILVEAVGDENGLLAVVVGIGINVNNPPPDFEDIGQPATSLQEEGEEI 150 (238)
T ss_pred HHHHhC-------cccCccCCcceeECCcceEEEEEeeeecCCCceEEEEEEEEeeccCCcchhhhhhhhhhHHhhhCCC
Confidence 999873 579999999999999999999999987655 4579999999999876541 2222222222222679
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEE
Q 017518 271 RREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCE 350 (370)
Q Consensus 271 ~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~ 350 (370)
+|++|++.++++|+.+|..|...++.+++++|+++++++|++|++..+++. +.. |++.|||++|+|+++.++|.++.
T Consensus 151 ~r~~l~~~ll~~l~~~~~~~~~~~~~~i~~~~~~~~~~~g~~V~~~~~~~~-~~g--g~a~~id~~G~L~l~~~~g~~~~ 227 (238)
T COG0340 151 DREELLAKLLKELEKYLRQFLREGFAPILARWRARSLSLGKEVRLTLGGGV-IFG--GIAKGIDEDGALLLETDDGEVQT 227 (238)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcChhHHHHHHHHHhccCCCEEEEEeCCCc-Eee--eEEEEECCCceEEEEeCCCeEEE
Confidence 999999999999999999999999999999999999999999999988754 322 69999999999999999999999
Q ss_pred EcCCCeeEEe
Q 017518 351 LHPDGNSLDF 360 (370)
Q Consensus 351 v~~dg~Sfd~ 360 (370)
+.+|+++|+.
T Consensus 228 ~~~Gev~~~~ 237 (238)
T COG0340 228 IYSGEVSLRR 237 (238)
T ss_pred EeccEEEeec
Confidence 9999999874
No 5
>PRK08330 biotin--protein ligase; Provisional
Probab=100.00 E-value=2.1e-54 Score=406.99 Aligned_cols=234 Identities=28% Similarity=0.396 Sum_probs=196.2
Q ss_pred CCceEEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeecc-CCCCcchhHHHH
Q 017518 108 FGRLLIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQME-DGRVVPLLQYVA 186 (370)
Q Consensus 108 ~g~~l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~-~~~~~~~ls~~~ 186 (370)
+|+.++++++++|||++++++. ...++|++|+|++||+||||+||+|+||+|+||||+++++. .+..++.+++++
T Consensus 1 ~g~~i~~~~~v~STn~~~~~~~----~~~~~~~vv~A~~QT~GrGR~gr~W~Sp~G~l~~S~~l~~~~~~~~~~~l~~~~ 76 (236)
T PRK08330 1 IGRNIIYFDEVDSTNEYAKRIA----PDEEEGTVIVADRQTAGHGRKGRAWASPEGGLWMSVILKPKVSPEHLPKLVFLG 76 (236)
T ss_pred CCceEEEEcccCcHHHHHHHHh----cCCCCCEEEEECccccCCCCCCCeeeCCCCCeEEEEEEcCCCCHHHHHHHHHHH
Confidence 3788999999999999999842 34688999999999999999999999999999999999865 334567899999
Q ss_pred HHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccCCCCCCCcchHHHHHHhhhcC
Q 017518 187 SLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNEEPTTCLNAVLRKLSDS 266 (370)
Q Consensus 187 ~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~p~~~l~~~~~~~~~~ 266 (370)
|+||+++|+++ | .+++||||||||++|||+||||+|... ..++||||||||++.|......+++.....
T Consensus 77 ~~av~~~l~~~----g---~~~~iKWPNDI~~~~kKi~GILiE~~~----~~~viGiGiNv~~~~p~~l~~~atsL~~~~ 145 (236)
T PRK08330 77 ALAVVDTLREF----G---IEGKIKWPNDVLVNYKKIAGVLVEGKG----DFVVLGIGLNVNNEIPDELRETATSMKEVL 145 (236)
T ss_pred HHHHHHHHHHc----C---CCccccCCCeEEECCeEEEEEeEEEeC----CEEEEEEEEecCCCCCcccccccccHHHhh
Confidence 99999999985 2 468999999999999999999999763 268999999999765543211122111123
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCC
Q 017518 267 TYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDN 346 (370)
Q Consensus 267 ~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG 346 (370)
+..++++++++.++++|+.+|+.|.+++ ..+.++|++++.+.|++|++..+++. ..+ |++.|||++|+|+|++++|
T Consensus 146 ~~~~~~~~l~~~l~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~g~~v~~~~~~~~-~~~--G~~~gI~~~G~L~v~~~~g 221 (236)
T PRK08330 146 GREVPLIEVFKRLVENLDRWYKLFLEGP-GEILEEVKGRSMILGKRVKIIGDGEI-LVE--GIAEDIDEFGALILRLDDG 221 (236)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhCC-hHHHHHHHHHHHhcCCeEEEEECCcE-EEE--EEEEEECCCCEEEEEECCC
Confidence 4678999999999999999999998765 78999999999999999999875432 223 8999999999999999999
Q ss_pred cEEEEcCCCeeEEe
Q 017518 347 QMCELHPDGNSLDF 360 (370)
Q Consensus 347 ~~~~v~~dg~Sfd~ 360 (370)
+++.+..+++++.+
T Consensus 222 ~~~~~~~gev~~~~ 235 (236)
T PRK08330 222 TVKKVLYGDVSLRF 235 (236)
T ss_pred CEEEEEEEEEEEec
Confidence 99899999999864
No 6
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=100.00 E-value=1.2e-52 Score=411.10 Aligned_cols=250 Identities=26% Similarity=0.398 Sum_probs=208.7
Q ss_pred CCCCHHHHHhhcccccCCceEEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCC-ceeEEEe
Q 017518 92 ESFDVELFMNSLATNRFGRLLIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKG-CLMFSFT 170 (370)
Q Consensus 92 ~~f~~~~~~~~L~t~~~g~~l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G-~L~fS~~ 170 (370)
..++++.+...+. +..++++++++|||+++++.+ .+.++++||+|++||+||||+||+|+||+| +||||++
T Consensus 64 ~~l~~~~l~~~l~----~~~i~~~~~v~STn~~~~e~~----~~~~~~~vv~A~~Qt~GrGR~gr~W~Sp~g~~L~~S~~ 135 (319)
T PRK11886 64 DLLDPERISSQLP----PGRVTVLPVIDSTNQYLLDRI----AELKSGDLCLAEYQTAGRGRRGRQWFSPFGGNLYLSLY 135 (319)
T ss_pred ccCCHHHHHhhCC----CCeEEEEeCCCCHHHHHHHhh----cCCCCCcEEEECccCCCCCCCCCcccCCCCCCEEEEEE
Confidence 6688888876653 677899999999999998843 456889999999999999999999999999 6999999
Q ss_pred eecc-CCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCC-cceEEEEeccCCC
Q 017518 171 IQME-DGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTK-KFNVSIGIGLNVN 248 (370)
Q Consensus 171 l~~~-~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~-~~~vvIGIGINvn 248 (370)
++++ +...++.+++++|+||++||+++. ..+++||||||||++|||+||||+|.....+ ...+|||||||||
T Consensus 136 ~~~~~~~~~~~~l~l~~~~av~~al~~~~------~~~~~iKWPNDI~~~~kKl~GIL~E~~~~~~~~~~~viGIGiNv~ 209 (319)
T PRK11886 136 WRLNQGPAQAMGLSLVVGIAIAEALRRLG------AIDVGLKWPNDIYLNDRKLAGILVELSGETGDAAHVVIGIGINVA 209 (319)
T ss_pred eCCCCChHHHhhHHHHHHHHHHHHHHHhc------CCCcceeCCceeeECCeeEEEEEEEeccCCCCccEEEEEEEEccC
Confidence 9876 344567899999999999999874 2478999999999999999999999876544 3569999999999
Q ss_pred CCCCcch-HHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEEee
Q 017518 249 NEEPTTC-LNAVLRKLSDSTYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVENV 327 (370)
Q Consensus 249 ~~~p~~~-l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~ 327 (370)
++.+... +......+...+..+++++|++.++++|+.+|..|.+.||+++.++|+++++++|+.|++..+++. ++
T Consensus 210 ~~~~~~~~~~~~~~sl~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~--~~-- 285 (319)
T PRK11886 210 MPDFPEELIDQPWSDLQEAGPTIDRNQLAAELIKQLRAALELFEQEGLAPFLERWKKLDLFLGREVKLIIGDKE--IS-- 285 (319)
T ss_pred CCCCchhhhccceeeHhhcCCCCCHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHhccccCCeEEEEeCCcE--EE--
Confidence 7532221 221112222235679999999999999999999999999999999999999999999999876542 34
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEe
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDF 360 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~ 360 (370)
|++.|||++|+|+|+ ++|.++.+.+|++++..
T Consensus 286 G~~~gi~~~G~L~i~-~~g~~~~~~~gev~~~~ 317 (319)
T PRK11886 286 GIARGIDEQGALLLE-DDGVEKPFNGGEISLRS 317 (319)
T ss_pred EEEEEECCCceEEEE-eCCcEEEEEEeEEEEec
Confidence 999999999999999 67878899999998753
No 7
>PTZ00275 biotin-acetyl-CoA-carboxylase ligase; Provisional
Probab=100.00 E-value=2.5e-52 Score=402.99 Aligned_cols=242 Identities=22% Similarity=0.344 Sum_probs=194.8
Q ss_pred cCCceEEEcccCCCHHHHHHhcccc-ccCCC--Ccee-EEEeCcccCcccCC------CCeeeccCCceeEEEeeecc--
Q 017518 107 RFGRLLIWSPRLPSTHDVVSHSFNS-NFCEL--PVGA-VCVADVQFKGRGRS------KNAWESPKGCLMFSFTIQME-- 174 (370)
Q Consensus 107 ~~g~~l~~~~~v~STN~~a~~~~~~-~~~~~--~~gt-vviA~~QTaGRGR~------GR~W~Sp~G~L~fS~~l~~~-- 174 (370)
.+|..++|+++++|||++|++.... ...+. ++++ ||+|++||+||||+ ||+|+||+|+||||++++++
T Consensus 14 ~~~~~~~~~~~v~STN~~a~~~~~~~~~~g~~~~~~~~vv~A~~QT~GRGR~~~~~~~gR~W~Sp~G~L~~S~~l~~~~~ 93 (285)
T PTZ00275 14 ELNALRLHFDVLDSTQLYCKRNMKRFIQNGKLQDDNMIIVSCNEQTNGIGTRDTKKNQDRIWLSEKGNLFTTFVFLWNRN 93 (285)
T ss_pred hcCcEEEEEcccCcHHHHHHHhHHHHhhcCCcCCCCeEEEEECcccCCCCcCCCCCCCCCEEECCCCceEEEEEEecCCc
Confidence 4689999999999999999883211 11222 4665 66799999999997 99999999999999999743
Q ss_pred CCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecC------C-cceEEEEeccCC
Q 017518 175 DGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRT------K-KFNVSIGIGLNV 247 (370)
Q Consensus 175 ~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~------~-~~~vvIGIGINv 247 (370)
.....+.+++++|+||+++|+.+ +.+++||||||||++||||||||+|..... + ...+||||||||
T Consensus 94 ~~~~~~~Lsl~~alAv~~~L~~~-------~~~~~IKWPNDI~~~~kKiaGILiE~~~~~~~~~~~~~~~~vViGIGINv 166 (285)
T PTZ00275 94 DIEKVKYLAQTCTVAISKTLEYF-------HLVTQIKWINDVLVNYKKIAGCLVHLYYLDDFPNLNSRYVCVMVGIGINV 166 (285)
T ss_pred CHhHhHHHHHHHHHHHHHHHHHh-------CCceeEECCCccccCCcEEEEEEEeeeeccccccccCceeEEEEEEEEec
Confidence 34557789999999999999874 247999999999999999999999987532 2 346899999999
Q ss_pred CCCCCc-------chHHHHHHh-hhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECC
Q 017518 248 NNEEPT-------TCLNAVLRK-LSDSTYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKN 319 (370)
Q Consensus 248 n~~~p~-------~~l~~~~~~-~~~~~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~ 319 (370)
|+..+. +++...... ........++++|++.++++|+.+|..|.+.||+.+.++|+++++++|+.|++..++
T Consensus 167 n~~~~~~~~~~~atSL~~~~~~~~~~~~~~~~~~~ll~~ll~~l~~~~~~~~~~g~~~i~~~~~~~~~~~g~~V~v~~~~ 246 (285)
T PTZ00275 167 TLEDKHNLLNNNYTSIKKELQRDFNTPKSIPSVEQVTEKLIINLKAVINKLRKEGFSSFLDYITPRLLYKDKKVLIDQDN 246 (285)
T ss_pred CCCCCcccccCCcccHHHHhCcccccccCCCCHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHhccCCCEEEEEeCC
Confidence 975322 333322110 000112357999999999999999999999999999999999999999999998765
Q ss_pred ccEEEEeeEEEEEECCCceEEEEeCCCcEEEEcCCCeeEE
Q 017518 320 EDQVVENVVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLD 359 (370)
Q Consensus 320 ~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd 359 (370)
+ .++ |++.|||++|+|+|++++|.++.+.+|++++.
T Consensus 247 ~--~~~--G~~~gId~~G~L~i~~~~G~~~~~~sGev~~~ 282 (285)
T PTZ00275 247 E--LIV--GYLQGLLHDGSLLLLREKNKLVRVNTGHLRLK 282 (285)
T ss_pred C--EEE--EEEEEECCCCeEEEEeCCCCEEEEEEEEEEEc
Confidence 4 334 99999999999999999999889999988764
No 8
>PRK13325 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed
Probab=100.00 E-value=1.7e-51 Score=430.87 Aligned_cols=256 Identities=24% Similarity=0.342 Sum_probs=210.5
Q ss_pred CCCCCHHHHHhhcccccCCceEEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCC-ceeEEE
Q 017518 91 QESFDVELFMNSLATNRFGRLLIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKG-CLMFSF 169 (370)
Q Consensus 91 ~~~f~~~~~~~~L~t~~~g~~l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G-~L~fS~ 169 (370)
.+.+|++.+...|.+. +..+.++++++|||+++++++. .....++|+||+|++||+||||+||+|+||+| +||||+
T Consensus 65 ~~lL~~~~I~~~l~~~--~~~i~~~~~idSTN~~~~~~~~-~~~~~~~g~vvvAe~QTaGRGRrGR~W~Sp~G~~Ly~S~ 141 (592)
T PRK13325 65 LAVFDAEGLRELGERS--GFQTALKHECASSNDEILELAR-IAPDKAHKTICVTHLQSKGRGRQGRKWSHRLGECLMFSF 141 (592)
T ss_pred cccCCHHHHHHhhhcC--CCcEEEEeCCCCHHHHHHHHHh-hccCCCCCeEEEECccCCCCCCCCCcccCCCCCcEEEEe
Confidence 4779999999999644 6789999999999999998432 11235889999999999999999999999999 699999
Q ss_pred eeecc-CCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccCCC
Q 017518 170 TIQME-DGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVN 248 (370)
Q Consensus 170 ~l~~~-~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn 248 (370)
+++++ ....+..+++++|+||+++|+++ | .+++||||||||++||||||||+|....++..++||||||||+
T Consensus 142 ~l~~~~~~~~~~~Lsl~vgvAv~~aL~~~----g---~~v~lKWPNDIl~~gkKlaGILiE~~~~~~~~~vVIGIGINv~ 214 (592)
T PRK13325 142 GWVFDRPQYELGSLSPVAAVACRRALSRL----G---LKTQIKWPNDLVVGRDKLGGILIETVRTGGKTVAVVGIGINFV 214 (592)
T ss_pred eecCCCChhhhhhHHHHHHHHHHHHHHHc----C---CCceEeCcceEEECCceEEEEEEeeeecCCCcEEEEEEEEeeC
Confidence 99876 34567789999999999999975 2 4799999999999999999999998854555679999999998
Q ss_pred CCCC---cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEE
Q 017518 249 NEEP---TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVE 325 (370)
Q Consensus 249 ~~~p---~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~ 325 (370)
.+.. ...+.. +.........++|++|++.++++|+++|..|.+.||.++.++|++++++.|++|++...++. .++
T Consensus 215 ~p~~~~~~~~~~s-L~~~~~~~~~~dr~~ll~~ll~~l~~~l~~~~~~g~~~~~~~w~~~~~~~gk~V~v~~~~~~-~~~ 292 (592)
T PRK13325 215 LPKEVENAASVQS-LFQTASRRGNADAAVLLETLLAELDAVLLQYARDGFAPFVAEYQAANRDHGKAVLLLRDGET-VFE 292 (592)
T ss_pred CCcccccCcChHH-HHhhhccCCCCCHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHhhccCCCeEEEEeCCCc-EEE
Confidence 5321 111111 11111112368999999999999999999999999999999999999999999998754433 233
Q ss_pred eeEEEEEECCCceEEEEeCCCcEEEEcCCCeeEEee
Q 017518 326 NVVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFF 361 (370)
Q Consensus 326 ~~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~ 361 (370)
|++.|||++|+|++++++|. +.+..|++|++..
T Consensus 293 --Gi~~GId~~G~L~l~~~~g~-~~~~sGEVslr~~ 325 (592)
T PRK13325 293 --GTVKGVDGQGVLHLETAEGK-QTVVSGEISLRSD 325 (592)
T ss_pred --EEEEEECCCCEEEEEECCCe-EEEEEEeEEEeec
Confidence 89999999999999998886 7899999998643
No 9
>PTZ00276 biotin/lipoate protein ligase; Provisional
Probab=100.00 E-value=6.7e-51 Score=385.28 Aligned_cols=227 Identities=25% Similarity=0.329 Sum_probs=177.3
Q ss_pred cCCceEEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeecc--CCCCcchhHH
Q 017518 107 RFGRLLIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQME--DGRVVPLLQY 184 (370)
Q Consensus 107 ~~g~~l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~--~~~~~~~ls~ 184 (370)
..|..++++++++|||++|++.. ..+..+|++|+|++||+||||+||+|.||+|+||||+++++. +....+++++
T Consensus 4 ~~~~~i~~~~~v~STN~~ak~~~---~~~~~~~~vviA~~QT~GRGR~gR~W~Sp~g~l~~S~~l~~~~~~~~~~~~lsl 80 (245)
T PTZ00276 4 DVPPNIHFVGEVTSTMDVARTML---AAAGGKPFAVLAESQTAGRGTGGRTWTSPKGNMYFTLCIPQKGVPPELVPVLPL 80 (245)
T ss_pred CCCceEEEEeCCCCHHHHHHHHH---hcCCCCCeEEEECCCCCCCCCCCCcccCCCCCeEEEEEECCCccChhHhhHHHH
Confidence 35778999999999999999843 122457899999999999999999999999999999999764 3345678999
Q ss_pred HHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccCCCCCC--Cc-----chHH
Q 017518 185 VASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNEE--PT-----TCLN 257 (370)
Q Consensus 185 ~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~--p~-----~~l~ 257 (370)
++|+|+++||++++. +.+++||||||||++|||+||||+|+..+ .+||||||||++.. |. ++++
T Consensus 81 ~~alav~~al~~~~~-----~~~~~iKWPNDI~~~~kKiaGILiE~~~~----~vvIGIGINv~~~~~~~~~~~~~~~l~ 151 (245)
T PTZ00276 81 ITGLACRAAIMEVLH-----GAAVHTKWPNDIIYAGKKIGGSLIESEGE----YLIIGIGMNIEVAPPVTDAGRESTMVN 151 (245)
T ss_pred HHHHHHHHHHHHhcc-----CCceEEEcCCeeEECCcEEEEEEEcccCC----EEEEEEEEeeCCCCCCCccccccccHH
Confidence 999999999998742 35799999999999999999999997642 68999999999642 21 2221
Q ss_pred HHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH---HHhccCCCEEEEEECCccEEEEeeEEEEEEC
Q 017518 258 AVLRKLSDSTYQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYY---KTWLHSGQRVIVQEKNEDQVVENVVTIQGLT 334 (370)
Q Consensus 258 ~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~---~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId 334 (370)
..... .....++|++|++.++++|+++|..+.. ++..+.+.|. .++..+++.|. .+++. ++ |++.|||
T Consensus 152 sl~~~--~~~~~~~r~~l~~~ll~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~--~~--G~~~gId 222 (245)
T PTZ00276 152 EIAED--LGVKSVTPQDLAEAVWKHFFDICSDPEL-TREILIESFDAAMDKSLKLHKRTP--TGRDP--EE--LTALSLN 222 (245)
T ss_pred HHHHh--hCCCCCCHHHHHHHHHHHHHHHHHhcCC-chHHHHHHHHHHHhhhhccCeEEE--cCCcE--EE--EEEEEEC
Confidence 11111 0235689999999999999888865422 2457778776 67777777532 23322 23 8999999
Q ss_pred CCceEEEEeCCCcEEEEcCC
Q 017518 335 SSGYLLAIGDDNQMCELHPD 354 (370)
Q Consensus 335 ~~G~L~v~~~dG~~~~v~~d 354 (370)
++|+|+|++++|.++.+.+|
T Consensus 223 ~~G~Lvv~~~~G~~~~~~~~ 242 (245)
T PTZ00276 223 EWGHLIVRRPDGTEEDLMAE 242 (245)
T ss_pred CCCeEEEEECCCCEEEEEhh
Confidence 99999999999999888765
No 10
>PRK08477 biotin--protein ligase; Provisional
Probab=100.00 E-value=1.2e-48 Score=361.56 Aligned_cols=200 Identities=25% Similarity=0.373 Sum_probs=162.6
Q ss_pred eEEEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeeccC-CCCcc--hhHHHHH
Q 017518 111 LLIWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQMED-GRVVP--LLQYVAS 187 (370)
Q Consensus 111 ~l~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~-~~~~~--~ls~~~~ 187 (370)
.++++++++|||+++++++. ....+++++|+|++||+||||+||+|+||+|+||||+++++.. ....+ .+++++|
T Consensus 2 ~i~~~~~v~STn~~~~~~~~--~~~~~~~~vvvA~~QTaGRGR~gR~W~Sp~G~L~~S~~l~~~~~~~~~~~~~lsl~~~ 79 (211)
T PRK08477 2 EIRVFESLDSTQTYLIEKIK--NGELKAPFAIVAKEQTAGIGSRGNSWEGKKGNLFFSFALKESDLPKDLPLQSSSIYFG 79 (211)
T ss_pred eEEEecCCCCHHHHHHHHHH--cCCCCCCEEEEECccCCCCCCCCCcccCCCCCeEEEeecCCCcchhhhhhHHHHHHHH
Confidence 57899999999999998532 1224789999999999999999999999999999999998753 23333 3789999
Q ss_pred HHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccCCCCCCCcchHHHHHHhhhcCC
Q 017518 188 LALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNEEPTTCLNAVLRKLSDST 267 (370)
Q Consensus 188 lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~p~~~l~~~~~~~~~~~ 267 (370)
+||+++|+++ | .+++||||||||++|||+||||+|...+ .+||||||||++.++. . .. .+
T Consensus 80 ~av~~~l~~~----~---~~~~iKWPNDI~~~~kKi~GIL~E~~~~----~vviGiGiNv~~~p~~--~----~~---l~ 139 (211)
T PRK08477 80 FLLKEVLKEL----G---SKVWLKWPNDLYLDDKKIGGVITNKIKN----FIVCGIGLNLKFSPKN--F----AC---LD 139 (211)
T ss_pred HHHHHHHHHh----C---CCeEEcCCCeeEECCcEEEEEEEeecCC----eEEEEEEEeeCCCCCc--c----cc---cc
Confidence 9999999974 2 4799999999999999999999997532 5899999999864321 1 01 13
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 268 YQFRREDVIAAFFNKFETFYDTFINQGFQTLEELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 268 ~~~~r~~Ll~~ll~~~~~~~~~~~~~gf~~l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
..++|++|++.++++|++.|. ...+.++|+ +++..|+.|++..+++ .++ |++.|||++|+|+|+.
T Consensus 140 ~~~~~~~ll~~l~~~~~~~~~------~~~~~~~~~-~~~~~~~~v~v~~~~~--~~~--g~a~~I~~~G~L~v~~ 204 (211)
T PRK08477 140 IEISDDLLLEGFLQKIEKKIL------WKQIFSKYK-LEFEKSKSFSFHIDGK--LVS--LKDAELLEDGSILING 204 (211)
T ss_pred CcCCHHHHHHHHHHHHHHHHh------HHHHHHHHH-HHHHcCCEEEEEECCE--EEE--EEEeeECCCCeEEECC
Confidence 578999999999999999873 245667788 6668999999987643 444 9999999999999974
No 11
>PRK05935 biotin--protein ligase; Provisional
Probab=100.00 E-value=1.6e-41 Score=309.57 Aligned_cols=163 Identities=23% Similarity=0.311 Sum_probs=126.9
Q ss_pred EEcccCCCHHHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeeccC-CCCcchhHHHHHHHHH
Q 017518 113 IWSPRLPSTHDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQMED-GRVVPLLQYVASLALT 191 (370)
Q Consensus 113 ~~~~~v~STN~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~-~~~~~~ls~~~~lAV~ 191 (370)
+++++++|||+++++++. ....+++++|+|++||+||||+||+|+||+|+||||++++++. ......+..++++|++
T Consensus 6 ~~~~~v~STN~~~~~~~~--~~~~~~~~vv~A~~QTaGRGR~GR~W~Sp~G~L~~Si~l~~~~~~~~~~~~~~l~~~av~ 83 (190)
T PRK05935 6 YEIAETPSTNTTAKEGMH--LWDPYALTVISTREQTAGKGKFGKSWHSSDQDLLASFCFFITVLNIDVSLLFRLGTEAVM 83 (190)
T ss_pred EeCCCCCcHHHHHHHHHh--cCCCCCCEEEEECccCCCCCCCCCeeeCCCCCeEEEEEEccCCCCcCHHHHHHHHHHHHH
Confidence 345899999999998531 1223478999999999999999999999999999999997542 1223445556778999
Q ss_pred HHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccCCCCCC--------CcchHHHHHHhh
Q 017518 192 EAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNEE--------PTTCLNAVLRKL 263 (370)
Q Consensus 192 ~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~--------p~~~l~~~~~~~ 263 (370)
++++.+. ..+++||||||||++|||+||||+|....++...+||||||||++.. +.+++..
T Consensus 84 ~~l~~~~------~~~~~iKWPNDI~~~~kKi~GILiE~~~~~~~~~vVIGIGINv~~~~~~~~~~~~~atsL~~----- 152 (190)
T PRK05935 84 RLGEDLG------ITEAVIKWPNDVLVHGEKLCGVLCETIPVKGGLGVILGIGVNGNTTKDELLGIDQPATSLQE----- 152 (190)
T ss_pred HHHHHhC------CccccccCCCeEEECCcEEEEEEEeccccCCCcEEEEEEeEecCCCchhccccCCCcccHHH-----
Confidence 9998752 13699999999999999999999998765555579999999999641 1223321
Q ss_pred hcCCCCCCHHHHHHHHHHHHHHHHHH
Q 017518 264 SDSTYQFRREDVIAAFFNKFETFYDT 289 (370)
Q Consensus 264 ~~~~~~~~r~~Ll~~ll~~~~~~~~~ 289 (370)
..+..++|+++++.++++|+.+|..
T Consensus 153 -~~~~~~~~~~l~~~l~~~l~~~~~~ 177 (190)
T PRK05935 153 -LLGHPIDLEEQRERLIKHIKHVLIQ 177 (190)
T ss_pred -hhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 2356899999999999999887753
No 12
>PF03099 BPL_LplA_LipB: Biotin/lipoate A/B protein ligase family This entry is just a subset of the Pfam family; InterPro: IPR004143 This domain is found in biotin protein ligase, lipoate-protein ligase A and B. Biotin is covalently attached at the active site of certain enzymes that transfer carbon dioxide from bicarbonate to organic acids to form cellular metabolites. Biotin protein ligase (BPL) is the enzyme responsible for attaching biotin to a specific lysine at the active site of biotin enzymes. Each organism probably has only one BPL. Biotin attachment is a two step reaction that results in the formation of an amide linkage between the carboxyl group of biotin and the epsilon-amino group of the modified lysine []. Lipoate-protein ligase A (LPLA) (octanoyltransferase) catalyses the formation of an amide linkage between lipoic acid and a specific lysine residue in lipoate dependent enzymes [].; GO: 0003824 catalytic activity, 0006464 protein modification process; PDB: 2ARU_A 2C8M_B 2C7I_A 3R07_A 2ARS_A 2ART_A 3FJP_A 3EFR_B 2EAY_B 3EFS_B ....
Probab=99.87 E-value=1.3e-22 Score=171.19 Aligned_cols=119 Identities=39% Similarity=0.573 Sum_probs=89.7
Q ss_pred cccCCCH-HHHHHhccccccCCCCceeEEEeCcccCcccCCCCeeeccCCceeEEEeeeccC----CCCcchhHHHHHHH
Q 017518 115 SPRLPST-HDVVSHSFNSNFCELPVGAVCVADVQFKGRGRSKNAWESPKGCLMFSFTIQMED----GRVVPLLQYVASLA 189 (370)
Q Consensus 115 ~~~v~ST-N~~a~~~~~~~~~~~~~gtvviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~----~~~~~~ls~~~~lA 189 (370)
.++++|| .....+ ..+.+.+++|++||+|| |.|+||+|+|+||++++++. ....+.+...++++
T Consensus 2 g~~~~st~~~~~~~-------~~~~~~v~v~~rqtgG~----~~w~~p~g~l~~s~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (125)
T PF03099_consen 2 GYFQDSTKEELNQE-------ELKEGGVPVARRQTGGR----RVWHSPPGNLYFSLILPPDDPNFPPSDIPSYILLAALA 70 (125)
T ss_dssp ETTBSHHHHHHHHH-------HHHCTTEEEEEESSSSB----EEEEBTTTEEEEEEEEETTTTTHHGGGHHHHHHHHHHH
T ss_pred cCeECHHHHHHHHh-------cCccCCEEEEEEeeCCc----ceeeeCCcEEEEEEEEccccccccchhhhHHHHHHHHH
Confidence 5688999 333333 24566789999999999 99999999999999998753 23455567777888
Q ss_pred HHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEEEeccC
Q 017518 190 LTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLN 246 (370)
Q Consensus 190 V~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvIGIGIN 246 (370)
+.+++..+. .+.++..+.+||||||++++|||||||+|.........++||||+|
T Consensus 71 ~~~~l~~~~--~~~~~~~~~~kw~nDi~~~~kKi~Gil~~~~~~~~~~~~~igig~N 125 (125)
T PF03099_consen 71 VLEALGEFG--PGEPGIDCFIKWPNDIYVNGKKIAGILQERRRGGILHHGSIGIGIN 125 (125)
T ss_dssp HHHHHHHTT--HTTTTSSEEEETTTEEEETTEEEEEEEEEEETTEEEEEEEEESSEE
T ss_pred HHHHhhhhc--cccCCCceEEeCCCCccCCCcEEEEEeEeeeCCcEEEEEEEEEecC
Confidence 888885221 0123578999999999999999999999987633334577888877
No 13
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown. It is found associated with prokaryotic bifunctional transcriptional repressors [] and eukaryotic enzymes involved in biotin utilization [, ]. In Escherichia coli the biotin operon repressor (BirA) is a bifunctional protein. BirA acts both as the acetyl-coA carboxylase biotin holoenzyme synthetase (6.3.4.15 from EC) and as the biotin operon repressor. DNA sequence analysis of mutations indicates that the helix-turn-helix DNA binding region is located at the N terminus while mutations affecting enzyme function, although mapping over a large region, are found mainly in the central part of the protein's primary sequence [].; GO: 0006464 protein modification process; PDB: 3RUX_A 2CGH_A 3L1A_B 3L2Z_A 1HXD_A 1BIB_A 2EWN_B 1BIA_A 2EJ9_A 3FJP_A ....
Probab=98.57 E-value=2.2e-07 Score=66.31 Aligned_cols=48 Identities=25% Similarity=0.380 Sum_probs=42.3
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEEEcCCCeeEE
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLD 359 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd 359 (370)
|+||+|++..+++. ++ |++.|||++|+|+|++++|+++.+.++++++.
T Consensus 1 ~lG~~V~v~~~~~~--~~--G~~~gId~~G~L~v~~~~g~~~~i~sGdv~~r 48 (48)
T PF02237_consen 1 TLGQEVRVETGDGE--IE--GIAEGIDDDGALLVRTEDGSIRTISSGDVSLR 48 (48)
T ss_dssp STTSEEEEEETSCE--EE--EEEEEEETTSEEEEEETTEEEEEESSSEEEEE
T ss_pred CCCCEEEEEECCeE--EE--EEEEEECCCCEEEEEECCCCEEEEEEEEEEeC
Confidence 57999999996653 34 99999999999999999999999999999874
No 14
>PRK14348 lipoate-protein ligase B; Provisional
Probab=93.38 E-value=1.5 Score=41.29 Aligned_cols=120 Identities=15% Similarity=0.101 Sum_probs=72.0
Q ss_pred cCCCCeeeccCCceeEEEeeeccCC-CCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEEC-----CEEEEE
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDG-RVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLN-----GIKVGG 225 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~-~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~-----gkKlgG 225 (370)
.|.|...+--||.|..=.++..... ..+-.+--..--++.++++++ |++ ..+.+..-.||++ ++|||.
T Consensus 79 ~RGG~iTyHGPGQlV~Ypil~L~~~~~~v~~yv~~lE~~vI~~l~~~----gi~--~~~~~~~~GVWv~~~~~~~~KIaa 152 (221)
T PRK14348 79 DRGGDITYHGPGQLVCYPILNLEEFGLGLKEYVHLLEEAVIRVCASY----GVV--AGRLEKATGVWLEGDTSRARKICA 152 (221)
T ss_pred CCCCceEEECCCeEEEEEEEEccccCCCHHHHHHHHHHHHHHHHHHc----CCc--eeecCCCCCEEecCCCCCCCcEEE
Confidence 6888888888887555445543321 112222222233555666553 542 2466788899998 589998
Q ss_pred EeeeeeecCCcceEEEEeccCCCCCC--------------CcchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHH
Q 017518 226 ILCTSTYRTKKFNVSIGIGLNVNNEE--------------PTTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFY 287 (370)
Q Consensus 226 ILiE~~~~~~~~~vvIGIGINvn~~~--------------p~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~ 287 (370)
|=+-... ....=|+.|||+.+. +.||+.+. .+..++.+++...+.++|.+.+
T Consensus 153 IGv~v~r----~vT~HG~ALNv~~dL~~F~~IvPCGl~~~~vTSl~~~------~g~~~~~~~v~~~l~~~f~~~~ 218 (221)
T PRK14348 153 IGVRSSH----YVTMHGLALNVNTDLRYFSYIHPCGFIDKGVTSLQQE------LGHSIDMAEVKERLGRELLAAL 218 (221)
T ss_pred EeEEecc----ceeecceEEEecCChHHhccCccCCCCCCcEEeeHHH------hCCCCCHHHHHHHHHHHHHHHH
Confidence 7554321 112369999998751 12444322 2456788888888888887654
No 15
>TIGR00545 lipoyltrans lipoyltransferase and lipoate-protein ligase. One member of this group of proteins is bovine lipoyltransferase, which transfers the lipoyl group from lipoyl-AMP to the specific Lys of lipoate-dependent enzymes. However, it does not first activate lipoic acid with ATP to create lipoyl-AMP and pyrophosphate. Another member of this group, lipoate-protein ligase A from E. coli, catalyzes both the activation and the transfer of lipoate. Homology between the two is full-length, except for the bovine mitochondrial targeting signal, but is strongest toward the N-terminus.
Probab=91.64 E-value=0.62 Score=46.27 Aligned_cols=70 Identities=21% Similarity=0.266 Sum_probs=44.7
Q ss_pred EeCcccCcccCCCCeeeccCCceeEEEeeeccCCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEE
Q 017518 143 VADVQFKGRGRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIK 222 (370)
Q Consensus 143 iA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkK 222 (370)
++.+.|.| ..=+-.+|++.||++.+.+.. ..... -...-.+++||+++ | +++.+.=+|||.++|||
T Consensus 67 vvRR~sGG-----GaVyhD~g~l~~s~i~~~~~~-~~~~~-~~~~~~i~~aL~~l----G---i~a~~~~rnDl~v~gkK 132 (324)
T TIGR00545 67 LFRRFSGG-----GAVFHDLGNICFSFITPKDGK-EFENA-KIFTRNVIKALNSL----G---VEAELSGRNDLVVDGRK 132 (324)
T ss_pred EEEECCCC-----ceEEEcCCceEEEEEEcCCcc-chhhH-HHHHHHHHHHHHHh----C---CCeEECCCceEEECCEE
Confidence 44555544 333445689999999875321 11111 23344567777665 4 45666678999999999
Q ss_pred EEEE
Q 017518 223 VGGI 226 (370)
Q Consensus 223 lgGI 226 (370)
++|.
T Consensus 133 isGs 136 (324)
T TIGR00545 133 ISGS 136 (324)
T ss_pred EEEE
Confidence 9997
No 16
>PRK14342 lipoate-protein ligase B; Provisional
Probab=89.27 E-value=8.9 Score=35.93 Aligned_cols=117 Identities=16% Similarity=0.179 Sum_probs=67.1
Q ss_pred cCCCCeeeccCCceeEEEeeeccCCCCcchhHHH--HHHHHHHHHHHhhhcCCCCCCcceeE-ecCcEEECCEEEEEEee
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYV--ASLALTEAINYVCSRDGLPCLDIKIK-WPNDLYLNGIKVGGILC 228 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~--~~lAV~~aL~~~~~~~g~~~~~v~IK-WPNDI~v~gkKlgGILi 228 (370)
.|.|...+--||.|..=.++..... ....--|+ .--++.++++++ |+ +..-+ =.--||++++|||-|=+
T Consensus 70 ~RGG~iTyHGPGQLV~YpIl~L~~~-~~~~~~yv~~lE~~vi~~l~~~----gi---~~~~~~~~~GVWv~~~KIaaIGv 141 (213)
T PRK14342 70 DRGGQVTYHGPGQLVMYVLLDLKRL-KLGVRQLVTAIEQTVINTLAEY----GI---EAHAKPDAPGVYVDGKKIASLGL 141 (213)
T ss_pred cCCCceEEECCCeEEEEEEEEcccc-CCCHHHHHHHHHHHHHHHHHHc----CC---ceeecCCCCcCcccCCEEEEEEE
Confidence 6788888888887655445543321 11222222 223455555543 43 22211 01256778899998866
Q ss_pred eeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHH
Q 017518 229 TSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFY 287 (370)
Q Consensus 229 E~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~ 287 (370)
-..- ....=|+.|||+++. | .||+.+ .+..++.+++...+.++|.+.+
T Consensus 142 ~v~r----~vT~HG~AlNv~~dL~~F~~IvPCGl~~~~vTSl~~-------~~~~~~~~~v~~~~~~~f~~~f 203 (213)
T PRK14342 142 RIRR----GCSFHGLALNVNMDLSPFLRINPCGYAGLEMTQLSD-------LGGPATVDEVAPRLLAELLALL 203 (213)
T ss_pred eEec----ceeecceeEecCCCchhhCcEecCCCCCCcEeeHHH-------hCCCCCHHHHHHHHHHHHHHHh
Confidence 5331 123478999999752 1 244432 1346788888888888887765
No 17
>TIGR00214 lipB lipoate-protein ligase B. Involved in lipoate biosynthesis as the main determinant of the lipoyl-protein ligase activity required for lipoylation of enzymes such as alpha-ketoacid dehydrogenases. Involved in activation and re-activation (following denaturation) of lipoyl-protein ligases (calcium ion-dependant process).
Probab=88.61 E-value=13 Score=34.00 Aligned_cols=116 Identities=15% Similarity=0.158 Sum_probs=67.4
Q ss_pred cCCCCeeeccCCceeEEEeeeccCCCCcchhHHH--HHHHHHHHHHHhhhcCCCCCCcceeEecC--cEEECCEEEEEEe
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYV--ASLALTEAINYVCSRDGLPCLDIKIKWPN--DLYLNGIKVGGIL 227 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~--~~lAV~~aL~~~~~~~g~~~~~v~IKWPN--DI~v~gkKlgGIL 227 (370)
.|.|..++--||.|.+=.++..... ....-.|+ .--++.++++++ |+ ... ..|. -||++++|||-|=
T Consensus 50 ~RGG~iTyHGPGQLV~YpIl~L~~~-~~~v~~yv~~lE~~~I~~l~~~----gi---~a~-~~~~~~GVWv~~~KIasIG 120 (184)
T TIGR00214 50 ERGGQVTYHGPGQQVMYVILDLKRF-QLDVRWLVTQLEQTVIITLAEL----GI---EGE-PIADATGVWVEGKKVASLG 120 (184)
T ss_pred CCCCeeEEECCCeEEEEEEEEchhc-CCCHHHHHHHHHHHHHHHHHHc----CC---ceE-EcCCCCeEEecCCEEEEEE
Confidence 4778888888887655556554321 12222333 233566666654 43 221 2233 3677899999876
Q ss_pred eeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHH
Q 017518 228 CTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFY 287 (370)
Q Consensus 228 iE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~ 287 (370)
+-..- ....=|+.|||+.+. | .+|+.+ .+..++.+++...+.++|.+.+
T Consensus 121 v~v~r----~vt~HG~ALNv~~dL~~F~~I~PCGl~~~~vTSl~~-------~~~~~~~~~v~~~~~~~f~~~f 183 (184)
T TIGR00214 121 IRVRR----GCTFHGLALNINMDLSPFSHINPCGYAGREMGSLNQ-------FLPGATVENVAPLLIKAFAELL 183 (184)
T ss_pred EEEec----cEeecceEEEcCCCchHhccEEcCCCCCCcEeeHHH-------HcCCCCHHHHHHHHHHHHHHHh
Confidence 65321 123478999998752 1 234432 1346788888888888887654
No 18
>COG0095 LplA Lipoate-protein ligase A [Coenzyme metabolism]
Probab=87.20 E-value=1.8 Score=41.30 Aligned_cols=74 Identities=22% Similarity=0.220 Sum_probs=48.7
Q ss_pred EEEeCcccCcccCCCCeeeccCCceeEEEeeeccCCC-CcchhHHHHHHHHHHHHHHhhhcCCCCCCc-ceeEecCcEEE
Q 017518 141 VCVADVQFKGRGRSKNAWESPKGCLMFSFTIQMEDGR-VVPLLQYVASLALTEAINYVCSRDGLPCLD-IKIKWPNDLYL 218 (370)
Q Consensus 141 vviA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~~~-~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~-v~IKWPNDI~v 218 (370)
+-++.+.|.|.. =+-..|++.||++.+.+... ..-...-...-.+.++++.+ | +. ....=+|||.+
T Consensus 66 i~vvRR~sGGGa-----V~hd~g~l~~S~i~~~~~~~~~~~~~~~~~~~~~~~~l~~l----g---v~~~~~~~~nDl~v 133 (248)
T COG0095 66 IPVVRRPSGGGA-----VFHDLGNLNYSVITPDEGGLESYETLYKFLLQPVIDALRAL----G---VEGAECPGRNDLVV 133 (248)
T ss_pred CcEEEEcCCCce-----EEecCCcEEEEEEECCCCccccHHHHHHHHHHHHHHHHHHc----C---CCeeccCCCcceeE
Confidence 557788887754 33455689999999764321 11122223455666777665 3 34 56667799999
Q ss_pred CCEEEEEE
Q 017518 219 NGIKVGGI 226 (370)
Q Consensus 219 ~gkKlgGI 226 (370)
+||||+|+
T Consensus 134 ~gkKisG~ 141 (248)
T COG0095 134 DGKKISGS 141 (248)
T ss_pred cCcEEeeH
Confidence 99999996
No 19
>PRK14345 lipoate-protein ligase B; Provisional
Probab=84.66 E-value=25 Score=33.42 Aligned_cols=118 Identities=18% Similarity=0.157 Sum_probs=67.6
Q ss_pred cCCCCeeeccCCceeEEEeeeccCCCCcchhHHH--HHHHHHHHHHHhhhcCCCCCCcce-eEecCcEEEC------CEE
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYV--ASLALTEAINYVCSRDGLPCLDIK-IKWPNDLYLN------GIK 222 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~--~~lAV~~aL~~~~~~~g~~~~~v~-IKWPNDI~v~------gkK 222 (370)
.|.|-..+--||.|..=.++..... ...-.|+ .--++.++++++ |+ +.. .+=.=-||++ ++|
T Consensus 76 dRGG~iTyHGPGQLV~YpIldL~~~--~~v~~yv~~LE~~vI~~l~~~----gi---~a~~~~~~~GVWv~~~~~~~~~K 146 (234)
T PRK14345 76 DRGGKITWHGPGQLVGYPIIKLAEP--LDVVDYVRRLEEALIAVCADL----GL---NAGRVDGRSGVWVPADGGRPDRK 146 (234)
T ss_pred cCCCceeEeCCCeEEEEEEEecCCC--CCHHHHHHHHHHHHHHHHHHc----CC---ceeecCCCCeEEECCCCCCCcce
Confidence 6788888888887555445544321 2222222 233555666654 43 221 1111245665 699
Q ss_pred EEEEeeeeeecCCcceEEEEeccCCCCCC--------------CcchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHH
Q 017518 223 VGGILCTSTYRTKKFNVSIGIGLNVNNEE--------------PTTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFYD 288 (370)
Q Consensus 223 lgGILiE~~~~~~~~~vvIGIGINvn~~~--------------p~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~ 288 (370)
||-|=+-... ....=|+.|||+.+. ..||+.+. .+..++.+++...+.++|.+.+.
T Consensus 147 IaaIGv~v~r----~vT~HG~ALNV~~DL~~F~~IvPCGl~~~~vTSl~~~------~g~~~~~~~v~~~l~~~f~~~f~ 216 (234)
T PRK14345 147 IAAIGIRVSR----GVTMHGFALNCDNDLAAFDAIVPCGISDAGVTTLSAE------LGRTVTVAEVVDPVAAALCDALD 216 (234)
T ss_pred EEEEEeeecc----ceeecceEEEeCCChHHhceEEeCCCCCCcEEehhHh------hCCCCCHHHHHHHHHHHHHHHhC
Confidence 9988664321 123479999999752 12444322 24567888888888888877654
No 20
>PRK14344 lipoate-protein ligase B; Provisional
Probab=84.57 E-value=27 Score=32.96 Aligned_cols=117 Identities=15% Similarity=0.185 Sum_probs=66.7
Q ss_pred cCCCCeeeccCCceeEEEeeeccCCCCcchhHHHH--HHHHHHHHHHhhhcCCCCCCcce-eEecCcEEECCEEEEEEee
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYVA--SLALTEAINYVCSRDGLPCLDIK-IKWPNDLYLNGIKVGGILC 228 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~~--~lAV~~aL~~~~~~~g~~~~~v~-IKWPNDI~v~gkKlgGILi 228 (370)
.|.|...+--||.|..=.++..... ....-.|+. --++.++++++ |+ +.. .+=---||++++|||-|=+
T Consensus 88 ~RGG~iTyHGPGQLV~YpIl~L~~~-~~~v~~yv~~lE~~ii~~l~~~----gi---~~~~~~~~~GVWv~~~KIaaIGv 159 (223)
T PRK14344 88 DRGGEVTHHMPGQLVTYLVLDLRRF-NKDLNWYLRQLEQVLIDVLADL----GI---DGERLDGLTGVWIGNKKVASIGI 159 (223)
T ss_pred CCCceeeEECCCcEEEEEEEEcccc-CCCHHHHHHHHHHHHHHHHHHc----CC---ceeecCCCCcEEcCCCeEEEEeE
Confidence 5788888888888655555554321 111112222 23444555543 43 222 1111346778899998866
Q ss_pred eeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHH
Q 017518 229 TSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFY 287 (370)
Q Consensus 229 E~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~ 287 (370)
-... ....=|+.|||+++. | .||+.+ .+..++.+++...+.++|.+.+
T Consensus 160 ~v~r----~vT~HG~ALNv~~dL~~F~~IvPCGl~~~~vTSl~~-------~~~~~~~~~v~~~l~~~f~~~f 221 (223)
T PRK14344 160 GCRR----WITQHGFSLNVDCDLEGFNKIVPCGLEGCQVGRLSD-------WIPGLNIKEVKPLLKKSLQERF 221 (223)
T ss_pred eEec----ceeecceEEecCCCccccCcEEcCCCCCCcEeeHHH-------HcCCCCHHHHHHHHHHHHHHHh
Confidence 5432 123479999999752 1 234432 1346788888888888887654
No 21
>PRK14061 unknown domain/lipoate-protein ligase A fusion protein; Provisional
Probab=83.98 E-value=19 Score=38.47 Aligned_cols=59 Identities=22% Similarity=0.255 Sum_probs=39.1
Q ss_pred CCeeeccCCceeEEEeeeccCCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEE----CCEEEEE
Q 017518 155 KNAWESPKGCLMFSFTIQMEDGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYL----NGIKVGG 225 (370)
Q Consensus 155 GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v----~gkKlgG 225 (370)
|..=+-..|++.||++.+.+. ...- ...-.|.+||+.+ | +++.+.=-|||.+ +|||++|
T Consensus 299 GGAVYHD~GNlnfSfi~~~~~---~~~~--~~~~~Ii~aL~~L----G---I~ae~sgRNDI~v~~~~~GkKISG 361 (562)
T PRK14061 299 GGAVFHDLGNTCFTFMAGKPE---YDKT--ISTSIVLNALNAL----G---VSAEASGRNDLVVKTAEGDRKVSG 361 (562)
T ss_pred CcEEEEcCCceEEEEEeCCcc---cchH--HHHHHHHHHHHHc----C---CCeEECCCccEEEeeCCCCcEEEE
Confidence 444445667889999875321 1111 1134567788765 4 5677787899999 6999999
No 22
>PRK14343 lipoate-protein ligase B; Provisional
Probab=80.26 E-value=39 Score=32.18 Aligned_cols=119 Identities=16% Similarity=0.132 Sum_probs=67.7
Q ss_pred cCCCCeeeccCCceeEEEeeeccCC-CCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeE-ecCcEEEC-----CEEEE
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDG-RVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIK-WPNDLYLN-----GIKVG 224 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~-~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IK-WPNDI~v~-----gkKlg 224 (370)
.|.|...+--||.|..=.++..... ..+-.+-...--++.++++++ |+ +..-+ =.--||++ ++|||
T Consensus 80 dRGG~iTyHGPGQLV~YpIl~L~~~~~~v~~yv~~lE~~vI~~l~~~----gi---~~~~~~~~~GVwv~~~~~~~~KIa 152 (235)
T PRK14343 80 DRGGQITYHGPGQVVAYLLLDLRRRKLMVRELVTRIEQAVIDTLAAY----NL---ASERKAGAPGIYVASGPHQGAKIA 152 (235)
T ss_pred CCCCceeEeCCCeEEEEEEEEccccCCCHHHHHHHHHHHHHHHHHHc----CC---ceeecCCCCeEEEeCCCCCCCeEE
Confidence 6888888888887555445543321 112222222333556666654 43 22221 11346666 89999
Q ss_pred EEeeeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHH
Q 017518 225 GILCTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFYD 288 (370)
Q Consensus 225 GILiE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~ 288 (370)
-|=+-... ....=|+.|||+++. | .|++.+ .+..++.+++...+.++|.+.+.
T Consensus 153 aIGv~v~r----~vT~HG~ALNv~~DL~~F~~I~PCGl~~~~vTSL~~-------lg~~~~~~~v~~~l~~~f~~~f~ 219 (235)
T PRK14343 153 ALGLKIRN----GCSYHGLSLNVKMDLRPFLAINPCGYAGLETVDMAS-------LGVAADWADVAQTLARRLIANLD 219 (235)
T ss_pred EEeeeeec----ceeecccEEEeCCCchhhCcEECCCCCCCcEeeHHH-------hCCCCCHHHHHHHHHHHHHHHhC
Confidence 87664321 123478899998752 1 234421 24577888888888888877653
No 23
>PRK14349 lipoate-protein ligase B; Provisional
Probab=78.85 E-value=55 Score=30.87 Aligned_cols=119 Identities=14% Similarity=0.104 Sum_probs=67.3
Q ss_pred cCCCCeeeccCCceeEEEeeeccCCCCcchhHHHH--HHHHHHHHHHhhhcCCCCCCccee-EecCcEEEC-----CEEE
Q 017518 152 GRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYVA--SLALTEAINYVCSRDGLPCLDIKI-KWPNDLYLN-----GIKV 223 (370)
Q Consensus 152 GR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~~--~lAV~~aL~~~~~~~g~~~~~v~I-KWPNDI~v~-----gkKl 223 (370)
.|.|...+--||.|..=.++..... ....-.|+. --++.++++++ |++. ..+. +- --||++ .+||
T Consensus 65 ~RGG~iTyHGPGQLV~YpIldL~~~-~~~vr~yv~~LE~~~I~~l~~~----gi~~-a~~~~~~-~GVWv~~~~~~~~KI 137 (220)
T PRK14349 65 DRGGQVTYHGPGQVLAYTLFDLRRA-GLYVREYVDMLEQATLATLREL----GLEQ-ACRKPGA-PGIYVPQPGGELAKI 137 (220)
T ss_pred cCCcceEEeCCCcEEEEEEEEcccC-CCCHHHHHHHHHHHHHHHHHHh----CCcc-eeecCCC-CcEEeCCCCCCCceE
Confidence 5788888888887655455544321 122222332 23555666654 3210 0111 11 135665 4899
Q ss_pred EEEeeeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHH
Q 017518 224 GGILCTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFYD 288 (370)
Q Consensus 224 gGILiE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~ 288 (370)
|-|=+-... ....=|+.|||+++. | .|++.+ .+..++.+++...+.++|.+.|.
T Consensus 138 aaiGv~v~r----~vT~HG~ALNv~~DL~~F~~IvPCGl~~~~vTSl~~-------~g~~~~~~~v~~~l~~~f~~~f~ 205 (220)
T PRK14349 138 AALGVKVRN----GYAYHGLALNIDMDLSPFLGINPCGYEGLRTVDLAA-------CGVRTSVERAGELLAAQLARAHG 205 (220)
T ss_pred EEEeeEEec----ceeecceeEEecCCchhhCcEEcCCCCCCcEeeHHH-------hCCCCCHHHHHHHHHHHHHHHhC
Confidence 987665321 123479999999752 1 234422 24578899999999988877663
No 24
>PRK14341 lipoate-protein ligase B; Provisional
Probab=76.82 E-value=66 Score=30.14 Aligned_cols=62 Identities=23% Similarity=0.251 Sum_probs=41.0
Q ss_pred cEEECC--------EEEEEEeeeeeecCCcceEEEEeccCCCCCC--------------CcchHHHHHHhhhcCCCCCCH
Q 017518 215 DLYLNG--------IKVGGILCTSTYRTKKFNVSIGIGLNVNNEE--------------PTTCLNAVLRKLSDSTYQFRR 272 (370)
Q Consensus 215 DI~v~g--------kKlgGILiE~~~~~~~~~vvIGIGINvn~~~--------------p~~~l~~~~~~~~~~~~~~~r 272 (370)
-||+++ +|||-|=+-... ....=|+.|||+++. +.||+.+ .+..++.
T Consensus 128 GVWv~~~~~~~~~~~KIaaIGv~v~r----~vT~HG~ALNv~~dL~~F~~IvPCGl~~~~vTSl~~-------~g~~~~~ 196 (213)
T PRK14341 128 GVWVRRPDKGSGAEDKIAAIGVRLRR----WVSFHGISINVEPDLSHFSGIVPCGISEHGVTSLVD-------LGLPVTM 196 (213)
T ss_pred eEEecCccCCCCCCCcEEEEeeeEec----ceeccceEEEecCChhhhCcEecCCCCCCcEeeHHH-------hCCCCCH
Confidence 678873 799988665321 123478999998751 1344432 2456788
Q ss_pred HHHHHHHHHHHHHHH
Q 017518 273 EDVIAAFFNKFETFY 287 (370)
Q Consensus 273 ~~Ll~~ll~~~~~~~ 287 (370)
+++...++++|++.|
T Consensus 197 ~~v~~~l~~~f~~~f 211 (213)
T PRK14341 197 DDVDAALKKAFEKVF 211 (213)
T ss_pred HHHHHHHHHHHHHHh
Confidence 888888888887654
No 25
>PRK03822 lplA lipoate-protein ligase A; Provisional
Probab=75.47 E-value=7.8 Score=38.74 Aligned_cols=67 Identities=21% Similarity=0.289 Sum_probs=43.4
Q ss_pred EeCcccCcccCCCCeeeccCCceeEEEeeeccCCCCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEEC---
Q 017518 143 VADVQFKGRGRSKNAWESPKGCLMFSFTIQMEDGRVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLN--- 219 (370)
Q Consensus 143 iA~~QTaGRGR~GR~W~Sp~G~L~fS~~l~~~~~~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~--- 219 (370)
++++.|.|. =.++ ..|++.||++.+.+. ... . ...-.|.+||+++ | +++.+.=.|||.++
T Consensus 68 vvRR~SGGG----AVyh-D~Gnl~~s~i~~~~~---~~~-~-~~~~~ii~aL~~l----G---i~a~~~~rnDi~v~~~~ 130 (338)
T PRK03822 68 LARRSSGGG----AVFH-DLGNTCFTFMAGKPE---YDK-T-ISTSIVLNALNSL----G---VSAEASGRNDLVVKTAE 130 (338)
T ss_pred EEEECCCCc----eEEE-cCCCcEEEEEeCCCc---cCH-H-HHHHHHHHHHHHc----C---CceeECCCccEEEecCC
Confidence 455666552 2444 458999999875322 111 1 1234677888765 4 56778888999995
Q ss_pred -CEEEEEE
Q 017518 220 -GIKVGGI 226 (370)
Q Consensus 220 -gkKlgGI 226 (370)
|||++|-
T Consensus 131 g~kKisGs 138 (338)
T PRK03822 131 GDRKVSGS 138 (338)
T ss_pred CCcEEEEE
Confidence 6999993
No 26
>COG0321 LipB Lipoate-protein ligase B [Coenzyme metabolism]
Probab=72.63 E-value=87 Score=29.54 Aligned_cols=63 Identities=21% Similarity=0.236 Sum_probs=40.9
Q ss_pred cEEECC-EEEEEEeeeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHH
Q 017518 215 DLYLNG-IKVGGILCTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAF 279 (370)
Q Consensus 215 DI~v~g-kKlgGILiE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~l 279 (370)
-||+++ +|||-|=+-... ....=|+.|||+++. | .+++.+ -+..++.+++-..+
T Consensus 134 GVwV~~~~KIAaiGirirr----~vs~HGlALNv~~DL~~F~~I~PCG~~~~~~tsl~d-------~~~~v~~~~V~~~l 202 (221)
T COG0321 134 GVWVEEERKIAAIGIRIRR----GVTFHGLALNVNMDLSPFNRIVPCGYAGMEVTSLSD-------LGPPVTVDEVAKAL 202 (221)
T ss_pred eEEecCCceEEEEEEEEec----ccceeeeEEeccCCchhccceeccccCCCceeEHHH-------hCCCCcHHHHHHHH
Confidence 367775 999977664321 123479999999762 1 233332 23457888888888
Q ss_pred HHHHHHHHH
Q 017518 280 FNKFETFYD 288 (370)
Q Consensus 280 l~~~~~~~~ 288 (370)
.++|.+.+.
T Consensus 203 ~~~~~~~l~ 211 (221)
T COG0321 203 VAAFAKLLG 211 (221)
T ss_pred HHHHHHHhC
Confidence 888877654
No 27
>PF14563 DUF4444: Domain of unknown function (DUF4444); PDB: 3BFM_A.
Probab=62.56 E-value=15 Score=25.48 Aligned_cols=20 Identities=25% Similarity=0.197 Sum_probs=13.3
Q ss_pred EEEEEECCCceEEEEeCCCc
Q 017518 328 VTIQGLTSSGYLLAIGDDNQ 347 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~ 347 (370)
|++.|+|++-.++++++++.
T Consensus 12 GtFlGvDE~FGmLLr~~~~T 31 (42)
T PF14563_consen 12 GTFLGVDEDFGMLLRDDDTT 31 (42)
T ss_dssp EEEEEE-TT--EEEE-SS-E
T ss_pred eeEEeeccccceEEEeCCcc
Confidence 89999999999999987653
No 28
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=59.50 E-value=28 Score=25.73 Aligned_cols=33 Identities=24% Similarity=0.163 Sum_probs=27.7
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
..|++|++...++.. +. |++.++|+...|.+.+
T Consensus 6 ~~g~~V~V~l~~g~~-~~--G~L~~~D~~~Nl~L~~ 38 (67)
T PF01423_consen 6 LIGKRVRVELKNGRT-YR--GTLVSFDQFMNLVLSD 38 (67)
T ss_dssp TTTSEEEEEETTSEE-EE--EEEEEEETTEEEEEEE
T ss_pred hCCcEEEEEEeCCEE-EE--EEEEEeechheEEeee
Confidence 359999999988754 44 9999999999999875
No 29
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=57.13 E-value=65 Score=24.59 Aligned_cols=43 Identities=19% Similarity=0.159 Sum_probs=30.5
Q ss_pred HHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEE
Q 017518 302 YYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCE 350 (370)
Q Consensus 302 y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~ 350 (370)
|...--+.|++|.+....+. +. |+..++.+| ++.++.. |+...
T Consensus 13 yq~lq~liG~~vvV~T~~g~--v~--G~L~~V~pD-hIvl~~~-~~~~~ 55 (66)
T PF10842_consen 13 YQTLQSLIGQRVVVQTTRGS--VR--GILVDVKPD-HIVLEEN-GTPFF 55 (66)
T ss_pred HHHHHHhcCCEEEEEEcCCc--EE--EEEEeecCC-EEEEEeC-CcEEE
Confidence 34444578999999987654 33 899999999 6777654 54433
No 30
>PF04017 DUF366: Domain of unknown function (DUF366); InterPro: IPR007162 This is an archaeal family of unknown function.; PDB: 2DDZ_E.
Probab=55.95 E-value=42 Score=30.65 Aligned_cols=74 Identities=26% Similarity=0.377 Sum_probs=39.0
Q ss_pred eeEEEeeeccCC---CCcchhHHHHHHHHHHHHHHhhhcCCCCCCcceeEecCcEEECCEEEEEEeeeeeecCCcceEEE
Q 017518 165 LMFSFTIQMEDG---RVVPLLQYVASLALTEAINYVCSRDGLPCLDIKIKWPNDLYLNGIKVGGILCTSTYRTKKFNVSI 241 (370)
Q Consensus 165 L~fS~~l~~~~~---~~~~~ls~~~~lAV~~aL~~~~~~~g~~~~~v~IKWPNDI~v~gkKlgGILiE~~~~~~~~~vvI 241 (370)
-+..|++...+. ......|-+...-+.+.|.+. | .. ..+==.|||++|||+.=-....+. ...-|
T Consensus 63 dmlhFIvEhFD~~dl~~~~~rQRLlv~i~kE~L~~~----g---v~-~~R~GDDLy~~~~KLSVSIAt~s~----vS~kI 130 (183)
T PF04017_consen 63 DMLHFIVEHFDSPDLKLAYLRQRLLVAIIKEVLEEY----G---VK-LRREGDDLYVNGRKLSVSIATASP----VSTKI 130 (183)
T ss_dssp EEEEEEEEE-S---HHHHHHHHHHHHHHHHHHHHTT----T------EEEETTEEEETTEE-EEEEEEEET----TEEEE
T ss_pred cceEEEEeeCCCCcHHHHHHHHHHHHHHHHHHHHhc----C---Cc-eeecccceeECCCEEEEEEEecCc----chheE
Confidence 466677753221 122233444444555666543 3 22 344668999999998633333222 23457
Q ss_pred EeccCCCCC
Q 017518 242 GIGLNVNNE 250 (370)
Q Consensus 242 GIGINvn~~ 250 (370)
=+||||...
T Consensus 131 H~GiNV~~~ 139 (183)
T PF04017_consen 131 HFGINVSSE 139 (183)
T ss_dssp EEEEESS-T
T ss_pred EEeEeeccc
Confidence 789999875
No 31
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=54.93 E-value=39 Score=25.35 Aligned_cols=33 Identities=15% Similarity=0.144 Sum_probs=27.6
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
.|++|.|...++.. +. |+..++|+...|++.+.
T Consensus 9 ~~~~V~V~l~~g~~-~~--G~L~~~D~~mNlvL~~~ 41 (68)
T cd01731 9 LNKPVLVKLKGGKE-VR--GRLKSYDQHMNLVLEDA 41 (68)
T ss_pred cCCEEEEEECCCCE-EE--EEEEEECCcceEEEeeE
Confidence 68999999887654 44 99999999999999764
No 32
>PRK14346 lipoate-protein ligase B; Provisional
Probab=53.24 E-value=2.1e+02 Score=27.23 Aligned_cols=59 Identities=15% Similarity=0.137 Sum_probs=38.1
Q ss_pred ECCEEEEEEeeeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHH
Q 017518 218 LNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKF 283 (370)
Q Consensus 218 v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~ 283 (370)
.+++|||-|=+-... ....=|+.|||+++. | .|++. +.+..++.+++...+.++|
T Consensus 156 ~~~~KIaAiGv~v~r----~vT~HG~ALNv~~DL~~F~~IvPCGl~~~~vTSL~-------~lg~~~~~~~v~~~l~~~f 224 (230)
T PRK14346 156 RGLGKIAALGIKVSR----HCTYHGVALNVAMDLEPFSRINPCGYAGLQTVDLS-------TIGVQTTWDEAASVLGQQL 224 (230)
T ss_pred cccceEEEEeeEEec----ceeecceeEEcCCChhhhCcEECCCCCCCceeeHH-------HhCCCCCHHHHHHHHHHHH
Confidence 345799987665321 123479999999752 1 23442 2246788888888888888
Q ss_pred HHHH
Q 017518 284 ETFY 287 (370)
Q Consensus 284 ~~~~ 287 (370)
.+.+
T Consensus 225 ~~~~ 228 (230)
T PRK14346 225 ARYL 228 (230)
T ss_pred HHHh
Confidence 7654
No 33
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=52.22 E-value=37 Score=24.96 Aligned_cols=34 Identities=26% Similarity=0.278 Sum_probs=27.6
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
..|++|++...++.. +. |++.++|+...+.+.+.
T Consensus 6 ~~~~~V~V~l~~g~~-~~--G~L~~~D~~~NlvL~~~ 39 (67)
T smart00651 6 LIGKRVLVELKNGRE-YR--GTLKGFDQFMNLVLEDV 39 (67)
T ss_pred hCCcEEEEEECCCcE-EE--EEEEEECccccEEEccE
Confidence 368999999887653 44 99999999999998753
No 34
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=51.10 E-value=36 Score=26.41 Aligned_cols=33 Identities=6% Similarity=0.037 Sum_probs=27.8
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
+|++|+|...++.. + .|++.++|..+.+++.+.
T Consensus 9 l~~~v~V~l~dgR~-~--~G~l~~~D~~~NivL~~~ 41 (75)
T cd06168 9 LGRTMRIHMTDGRT-L--VGVFLCTDRDCNIILGSA 41 (75)
T ss_pred cCCeEEEEEcCCeE-E--EEEEEEEcCCCcEEecCc
Confidence 79999999887764 3 399999999999998754
No 35
>PF01287 eIF-5a: Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; InterPro: IPR020189 A five-stranded beta-barrel was first noted as a common structure among four proteins binding single-stranded nucleic acids (staphylococcal nuclease and aspartyl-tRNA synthetase) or oligosaccharides (B subunits of enterotoxin and verotoxin-1), and has been termed the oligonucleotide/oligosaccharide binding motif, or OB fold, a five-stranded beta-sheet coiled to form a closed beta-barrel capped by an alpha helix located between the third and fourth strands []. Two ribosomal proteins, S17 and S1, are members of this class, and have different variations of the OB fold theme. Comparisons with other OB fold nucleic acid binding proteins suggest somewhat different mechanisms of nucleic acid recognition in each case []. There are many nucleic acid-binding proteins that contain domains with this OB-fold structure, including anticodon-binding tRNA synthetases, ssDNA-binding proteins (CDC13, telomere-end binding proteins), phage ssDNA-binding proteins (gp32, gp2.5, gpV), cold shock proteins, DNA ligases, RNA-capping enzymes, DNA replication initiators and RNA polymerase subunit RBP8 []. This entry represents the RNA-binding domain of translation elongation factor IF5A [].; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0043022 ribosome binding, 0006452 translational frameshifting, 0045901 positive regulation of translational elongation, 0045905 positive regulation of translational termination; PDB: 1IZ6_B 3CPF_A 1KHI_A 1BKB_A 1XTD_A 3ER0_A 3HKS_B 1X6O_A 2EIF_A 1EIF_A.
Probab=50.84 E-value=26 Score=26.90 Aligned_cols=23 Identities=17% Similarity=0.420 Sum_probs=20.3
Q ss_pred EEEEEECCCceEEEEeCCCcEEE
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCE 350 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~ 350 (370)
+++.+|+++|+|.+.+++|..++
T Consensus 7 yqli~I~~Dg~lsLMde~get~e 29 (69)
T PF01287_consen 7 YQLIDIDGDGFLSLMDEDGETRE 29 (69)
T ss_dssp EEEEEEETTTEEEEEETTS-EEE
T ss_pred EEEEEEccCcEEEEEcCCCCeec
Confidence 78999999999999999998877
No 36
>PF02107 FlgH: Flagellar L-ring protein; InterPro: IPR000527 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins [].; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009427 bacterial-type flagellum basal body, distal rod, L ring
Probab=50.81 E-value=34 Score=31.05 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=29.6
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
++++++.|+|.|+|+. +.....-++.-+-.++|.||+.
T Consensus 98 a~Vv~VlpNGnL~I~G---~k~i~vn~e~~~i~lsGiVRp~ 135 (179)
T PF02107_consen 98 ARVVEVLPNGNLVIEG---EKQIRVNGEEQYIRLSGIVRPE 135 (179)
T ss_pred EEEEEECCCCcEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7999999999999984 3344445667777899999874
No 37
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=50.52 E-value=32 Score=26.71 Aligned_cols=34 Identities=15% Similarity=0.020 Sum_probs=27.9
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
++|++|.|...++.. + .|++.++|....|++.+.
T Consensus 8 ~l~~~V~V~l~dgR~-~--~G~L~~~D~~~NlVL~~~ 41 (79)
T cd01717 8 LINYRLRVTLQDGRQ-F--VGQFLAFDKHMNLVLSDC 41 (79)
T ss_pred HcCCEEEEEECCCcE-E--EEEEEEEcCccCEEcCCE
Confidence 479999998887764 3 399999999999998653
No 38
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=49.96 E-value=41 Score=24.30 Aligned_cols=32 Identities=19% Similarity=0.139 Sum_probs=26.5
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|++...++.. +. |++.++|+...+.+.+
T Consensus 5 ~g~~V~V~l~~g~~-~~--G~L~~~D~~~Ni~L~~ 36 (63)
T cd00600 5 VGKTVRVELKDGRV-LE--GVLVAFDKYMNLVLDD 36 (63)
T ss_pred CCCEEEEEECCCcE-EE--EEEEEECCCCCEEECC
Confidence 68999999887653 44 9999999999998865
No 39
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=46.28 E-value=50 Score=25.55 Aligned_cols=34 Identities=9% Similarity=0.202 Sum_probs=27.6
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
.++++|.|...++.. + .|+..|+|+.+.|++.+.
T Consensus 10 ~l~k~v~V~l~~gr~-~--~G~L~~fD~~~NlvL~d~ 43 (74)
T cd01728 10 DLDKKVVVLLRDGRK-L--IGILRSFDQFANLVLQDT 43 (74)
T ss_pred hcCCEEEEEEcCCeE-E--EEEEEEECCcccEEecce
Confidence 368999999877654 3 399999999999998753
No 40
>COG2029 Uncharacterized conserved protein [Function unknown]
Probab=46.09 E-value=74 Score=28.80 Aligned_cols=66 Identities=23% Similarity=0.333 Sum_probs=35.2
Q ss_pred CcEEECCEEEEEEeeeeeecCCcceEEEEeccCCCCC-CCcchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHH
Q 017518 214 NDLYLNGIKVGGILCTSTYRTKKFNVSIGIGLNVNNE-EPTTCLNAVLRKLSDSTYQFRREDVIAAFFNKFETFYD 288 (370)
Q Consensus 214 NDI~v~gkKlgGILiE~~~~~~~~~vvIGIGINvn~~-~p~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~~~~ 288 (370)
.|+|++|+|+.=-..-.. ....-|=+||||... .|. .+++ . +.+.+ ..+..++...+..++.+-++
T Consensus 110 DDly~~grKLtVsIat~s----~vs~kiHlGiNV~t~g~p~--V~~i-g-L~dlg-~~Di~~~m~~va~~yv~Eie 176 (189)
T COG2029 110 DDLYVEGRKLTVSIATVS----PVSSKIHLGINVKTEGVPD--VDAI-G-LEDLG-YGDILEFMERVAVAYVREIE 176 (189)
T ss_pred CceeecCcEEEEEEEecC----CcceeEEEeEeeecccCCC--CCcc-c-ccccC-CCCHHHHHHHHHHHHHHHHH
Confidence 799999999853333222 223347789999874 342 1111 1 11112 24666666666555544443
No 41
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=44.87 E-value=43 Score=31.51 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=29.9
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++++|.++|.|+|+. +....--+|.-+-.++|.||+.
T Consensus 140 a~V~~VlpNGnLvI~G---~K~i~vN~e~~~i~lsGiVRP~ 177 (222)
T PRK00249 140 VTVTQVLPNGNLVIRG---EKEVRVNQGTEFLRVSGVVRPR 177 (222)
T ss_pred EEEEEECCCCcEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3334445677788899999874
No 42
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=44.13 E-value=69 Score=23.97 Aligned_cols=32 Identities=13% Similarity=0.036 Sum_probs=26.6
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|.|+..++.. +. |+..++|+.=.|.+.+
T Consensus 9 ~~~~V~V~Lk~g~~-~~--G~L~~~D~~mNlvL~~ 40 (67)
T cd01726 9 IGRPVVVKLNSGVD-YR--GILACLDGYMNIALEQ 40 (67)
T ss_pred CCCeEEEEECCCCE-EE--EEEEEEccceeeEEee
Confidence 79999999987764 44 9999999988888765
No 43
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=43.94 E-value=50 Score=31.17 Aligned_cols=38 Identities=16% Similarity=0.318 Sum_probs=29.9
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++++|.++|.|+|+. +....--+|.-+--++|.||+.
T Consensus 141 a~V~~VlpNGnL~I~G---eK~i~vN~~~e~I~lsGvVRP~ 178 (224)
T PRK12698 141 ANVMQVLPNGNLVIRG---EKWISINNGDEFIRLTGIVRSQ 178 (224)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3334445677788899999875
No 44
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=43.13 E-value=74 Score=24.22 Aligned_cols=33 Identities=18% Similarity=0.137 Sum_probs=27.2
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
.|++|.|...++.. +. |+..|+|+.-.+++.+.
T Consensus 13 ~~k~V~V~lk~g~~-~~--G~L~~~D~~mNlvL~d~ 45 (72)
T PRK00737 13 LNSPVLVRLKGGRE-FR--GELQGYDIHMNLVLDNA 45 (72)
T ss_pred CCCEEEEEECCCCE-EE--EEEEEEcccceeEEeeE
Confidence 69999999877654 44 99999999999988763
No 45
>PRK14347 lipoate-protein ligase B; Provisional
Probab=42.83 E-value=2.9e+02 Score=25.86 Aligned_cols=57 Identities=16% Similarity=0.247 Sum_probs=37.1
Q ss_pred CEEEEEEeeeeeecCCcceEEEEeccCCCCCC-------C-------cchHHHHHHhhhcCCCCCCHHHHHHHHHHHHHH
Q 017518 220 GIKVGGILCTSTYRTKKFNVSIGIGLNVNNEE-------P-------TTCLNAVLRKLSDSTYQFRREDVIAAFFNKFET 285 (370)
Q Consensus 220 gkKlgGILiE~~~~~~~~~vvIGIGINvn~~~-------p-------~~~l~~~~~~~~~~~~~~~r~~Ll~~ll~~~~~ 285 (370)
++|||-|=+-..- ....=|+.+||+.+. | .||+.+ .+..++.+++...++++|.+
T Consensus 138 ~~KIaaiGv~v~r----~vT~HG~AlNv~~dL~~F~~IvPCGl~~~~vTSl~~-------~g~~~~~~~v~~~l~~~f~~ 206 (209)
T PRK14347 138 FAKIAAIGVRVRK----WVTYHGVAINISTDLSKFSGIIPCGLENSLVTSLNQ-------LGIHVEMSEFDKIIQTEFNK 206 (209)
T ss_pred CceEEEEeEEEec----ceeecceEEEeCCCccccCcEECCCCCCCcEeeHHH-------hCCCCCHHHHHHHHHHHHHH
Confidence 6899988665331 123478999998752 1 244432 24577888888888888866
Q ss_pred HH
Q 017518 286 FY 287 (370)
Q Consensus 286 ~~ 287 (370)
.+
T Consensus 207 ~f 208 (209)
T PRK14347 207 IF 208 (209)
T ss_pred Hh
Confidence 43
No 46
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=42.65 E-value=1.6e+02 Score=22.84 Aligned_cols=33 Identities=15% Similarity=0.190 Sum_probs=26.4
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
.|++|.|...++.. +. |+++|+|+.=.|++.+.
T Consensus 12 ~~~~V~V~l~~gr~-~~--G~L~g~D~~mNlvL~da 44 (76)
T cd01732 12 IGSRIWIVMKSDKE-FV--GTLLGFDDYVNMVLEDV 44 (76)
T ss_pred CCCEEEEEECCCeE-EE--EEEEEeccceEEEEccE
Confidence 58999998877654 44 99999999888887653
No 47
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=40.43 E-value=92 Score=23.38 Aligned_cols=32 Identities=25% Similarity=0.155 Sum_probs=26.7
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|.|...++.. +. |+..++|+.=.+.+.+
T Consensus 10 ~g~~V~V~Lk~g~~-~~--G~L~~~D~~mNi~L~~ 41 (68)
T cd01722 10 TGKPVIVKLKWGME-YK--GTLVSVDSYMNLQLAN 41 (68)
T ss_pred CCCEEEEEECCCcE-EE--EEEEEECCCEEEEEee
Confidence 79999999987764 44 9999999988888865
No 48
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=38.08 E-value=80 Score=24.19 Aligned_cols=32 Identities=9% Similarity=0.137 Sum_probs=26.4
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|.|...++.. +. |+..|+|+.-.|++.+
T Consensus 9 i~k~V~V~L~~g~~-~~--G~L~~~D~~mNlvL~~ 40 (72)
T cd01719 9 MDKKLSLKLNGNRK-VS--GILRGFDPFMNLVLDD 40 (72)
T ss_pred CCCeEEEEECCCeE-EE--EEEEEEcccccEEecc
Confidence 79999998877653 43 9999999999998865
No 49
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=38.03 E-value=71 Score=24.44 Aligned_cols=33 Identities=18% Similarity=0.207 Sum_probs=26.9
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
++++|.|...++.. + .|+..|.|....+++.+.
T Consensus 8 l~~~V~V~l~dgr~-~--~G~L~~~D~~~NlvL~~~ 40 (74)
T cd01727 8 LNKTVSVITVDGRV-I--VGTLKGFDQATNLILDDS 40 (74)
T ss_pred cCCEEEEEECCCcE-E--EEEEEEEccccCEEccce
Confidence 68999998877654 3 399999999999988753
No 50
>PRK12699 flgH flagellar basal body L-ring protein; Reviewed
Probab=36.89 E-value=76 Score=30.43 Aligned_cols=38 Identities=24% Similarity=0.290 Sum_probs=29.1
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
++++++.++|.|+|+.+ ....--+|.-+-.++|.||+.
T Consensus 165 vtVv~VLPNGNLvI~Ge---K~i~vN~~~e~IrlsGvVRP~ 202 (246)
T PRK12699 165 VTVVDILPNGNLLVSGE---KQIGINQGHEFIRLSGVINPI 202 (246)
T ss_pred EEEEEECCCCCEEEEEE---EEEEECCCeEEEEEEEEEChh
Confidence 78999999999999843 333334667788889999874
No 51
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=36.88 E-value=78 Score=29.84 Aligned_cols=38 Identities=21% Similarity=0.338 Sum_probs=29.6
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++..+.++|.|+|+. +....--+|.-+-.++|.||+.
T Consensus 138 a~V~~VlpNGnL~I~G---eK~i~vN~e~e~i~~sGvVRP~ 175 (221)
T PRK12407 138 VAVHQVLPNGVLVIRG---EKWLTLNQGDEYMRVTGLVRAD 175 (221)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3333444677788889999864
No 52
>PRK12700 flgH flagellar basal body L-ring protein; Reviewed
Probab=35.31 E-value=84 Score=29.80 Aligned_cols=38 Identities=21% Similarity=0.326 Sum_probs=29.5
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++.++-++|.|+|+. +....--+|.-+--++|.||+.
T Consensus 148 a~V~~VlpNGNLvI~G---eK~i~vN~~~e~irlsGiVRP~ 185 (230)
T PRK12700 148 TTVIGVLPNGNLQIAG---EKQIAINRGSEYVRFSGVVDPR 185 (230)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3333334667788889999874
No 53
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=35.27 E-value=1.4e+02 Score=20.87 Aligned_cols=45 Identities=11% Similarity=0.099 Sum_probs=30.6
Q ss_pred ccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCC-CcEEEEcCC
Q 017518 307 LHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDD-NQMCELHPD 354 (370)
Q Consensus 307 ~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~d-G~~~~v~~d 354 (370)
+..|+.|.+.. .++.... |+|.++++++...|.=.| |....+..+
T Consensus 3 ~~~G~~~~a~~-~d~~wyr--a~I~~~~~~~~~~V~f~D~G~~~~v~~~ 48 (57)
T smart00333 3 FKVGDKVAARW-EDGEWYR--ARIIKVDGEQLYEVFFIDYGNEEVVPPS 48 (57)
T ss_pred CCCCCEEEEEe-CCCCEEE--EEEEEECCCCEEEEEEECCCccEEEeHH
Confidence 34688888877 3444444 899999997777776444 776665543
No 54
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=35.23 E-value=84 Score=29.90 Aligned_cols=38 Identities=16% Similarity=0.219 Sum_probs=29.8
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++.++.++|.|+|+. +....--+|.-+-.++|.||+.
T Consensus 154 a~V~~VLPNGNLvI~G---~k~v~vN~e~~~i~lsGvVRP~ 191 (236)
T PRK12696 154 ARVVRVLPGGLMQVEG---ARETRVNDETQYIVVSGLVRPR 191 (236)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3333344777788899999874
No 55
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.22 E-value=86 Score=24.59 Aligned_cols=34 Identities=12% Similarity=0.089 Sum_probs=27.3
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
++|++|.|...++.. +. |+..++|+...|++.+.
T Consensus 10 ~i~k~V~V~l~~gr~-~~--G~L~~~D~~mNlvL~~~ 43 (81)
T cd01729 10 YVDKKIRVKFQGGRE-VT--GILKGYDQLLNLVLDDT 43 (81)
T ss_pred hcCCeEEEEECCCcE-EE--EEEEEEcCcccEEecCE
Confidence 379999998877654 33 99999999999998653
No 56
>PRK12697 flgH flagellar basal body L-ring protein; Reviewed
Probab=34.70 E-value=79 Score=29.93 Aligned_cols=38 Identities=26% Similarity=0.441 Sum_probs=29.1
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
++++.+-++|.|+|+. +....--+|.-+--++|.||+.
T Consensus 144 v~V~~VlpNGnL~I~G---eK~i~vN~e~e~IrlsGvVRP~ 181 (226)
T PRK12697 144 VTVTNVLPNGNLVVSG---EKQMLINQGNEFVRFSGVVNPN 181 (226)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 7899999999999984 3333334667788889999874
No 57
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=34.02 E-value=91 Score=29.58 Aligned_cols=38 Identities=21% Similarity=0.389 Sum_probs=29.4
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++.++-++|.|+|+. +....--+|.-+--++|.||+.
T Consensus 147 v~V~~VlpNGnL~I~G---eK~v~vN~e~e~i~lsGvVRP~ 184 (230)
T PRK12701 147 VTVAKVLANGNMVVQG---EKWVRINQGNEFVRLSGIVRPQ 184 (230)
T ss_pred EEEEEECCCCCEEEEE---EEEEEECCCeEEEEEEEEECHH
Confidence 7899999999999984 3333334667788889999874
No 58
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=33.34 E-value=2.1e+02 Score=21.57 Aligned_cols=34 Identities=15% Similarity=0.013 Sum_probs=27.5
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
..|+.|.|+..++. .+. |++.++|+.-.+.+++.
T Consensus 8 ~~g~~V~VeLk~g~-~~~--G~L~~~D~~MNl~L~~~ 41 (70)
T cd01721 8 AEGHIVTVELKTGE-VYR--GKLIEAEDNMNCQLKDV 41 (70)
T ss_pred CCCCEEEEEECCCc-EEE--EEEEEEcCCceeEEEEE
Confidence 37999999988765 444 99999999888888753
No 59
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=31.58 E-value=1e+02 Score=29.38 Aligned_cols=39 Identities=15% Similarity=0.100 Sum_probs=30.5
Q ss_pred eEEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 327 VVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 327 ~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
.+++.++-++|.|+|+. +....--+|.-+-.++|.||+.
T Consensus 151 aa~V~~VLPNGNLvI~G---~kev~vN~e~~~i~vsGvVRP~ 189 (234)
T PRK12788 151 AAIVVDVLPNGNLLISG---SQEVRVNYEMRVLNVGGIVRPL 189 (234)
T ss_pred EEEEEEEcCCCCEEEEE---EEEEEECCCEEEEEEEEEECHH
Confidence 37899999999999984 3334445777888899999875
No 60
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=30.72 E-value=2.8e+02 Score=22.18 Aligned_cols=32 Identities=25% Similarity=0.205 Sum_probs=26.8
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|+|+..++.. +. |++.++|+.=.+.+++
T Consensus 10 ~g~~V~VeLKng~~-~~--G~L~~vD~~MNl~L~~ 41 (90)
T cd01724 10 TNETVTIELKNGTI-VH--GTITGVDPSMNTHLKN 41 (90)
T ss_pred CCCEEEEEECCCCE-EE--EEEEEEcCceeEEEEE
Confidence 79999999988764 44 9999999988888875
No 61
>PF08863 YolD: YolD-like protein; InterPro: IPR014962 These proteins are functionally uncharacterised. However it has been predicted that these proteins are functionally equivalent to the UmuD subunit of polymerase V from Gram-negative bacteria [].
Probab=30.58 E-value=2.5e+02 Score=21.63 Aligned_cols=48 Identities=15% Similarity=0.097 Sum_probs=29.7
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCc-eEEEEeCCCcEEEEcCCC
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSG-YLLAIGDDNQMCELHPDG 355 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G-~L~v~~~dG~~~~v~~dg 355 (370)
..++.|++..-.++...+-.|+|..||+.. .|.+.++++..+.+.-++
T Consensus 40 ~~~~~v~ity~~~g~~~~~~G~I~~id~~~~~l~~~~~~~~~~~I~~~~ 88 (92)
T PF08863_consen 40 QENQPVTITYYEDGYYQSVTGTIHKIDEINRTLKLKDEDGETEKIPFDD 88 (92)
T ss_pred cCCCEEEEEEEECCeeEEEEEEEEEEcCCCCEEEEEeCCCCEEEEEhhh
Confidence 456777776533332333459999999875 555666567766665443
No 62
>COG2063 FlgH Flagellar basal body L-ring protein [Cell motility and secretion]
Probab=29.23 E-value=1.4e+02 Score=28.39 Aligned_cols=38 Identities=16% Similarity=0.324 Sum_probs=28.1
Q ss_pred EEEEEECCCceEEEEeCCCcEEEEcCCCeeEEeecCeeeec
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMCELHPDGNSLDFFKGLIRRK 368 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd~~~gli~~k 368 (370)
+++.+|.++|.|+|+.+ +.+.+. .|..+--++|.||+-
T Consensus 151 a~V~~VLpNGNL~I~G~--Kev~vN-~~~e~i~vsGvVRP~ 188 (230)
T COG2063 151 ATVVQVLPNGNLVIEGE--KEVRVN-GEKEIIRVSGVVRPD 188 (230)
T ss_pred EEEEEEcCCCCEEEEEE--EEEEEC-CceEEEEEeeeEccc
Confidence 78999999999999853 234444 556666778888863
No 63
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=28.66 E-value=1.9e+02 Score=19.59 Aligned_cols=40 Identities=18% Similarity=0.126 Sum_probs=29.1
Q ss_pred CEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEEEcCC
Q 017518 311 QRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCELHPD 354 (370)
Q Consensus 311 q~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~~d 354 (370)
+.|.+.++.+..+ .|.|+..+. +.+.|+..+|+...+..|
T Consensus 2 ~~vWvpD~~egfv---~g~I~~~~g-~~vtV~~~~G~~~tv~~d 41 (42)
T PF02736_consen 2 KWVWVPDPKEGFV---KGEIIEEEG-DKVTVKTEDGKEVTVKKD 41 (42)
T ss_dssp TEEEEEESSSSEE---EEEEEEEES-SEEEEEETTTEEEEEEGG
T ss_pred CEEEEeCCcccEE---EEEEEEEcC-CEEEEEECCCCEEEeCCC
Confidence 4677877777654 378887754 567888888998887655
No 64
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=27.80 E-value=2.9e+02 Score=21.43 Aligned_cols=44 Identities=18% Similarity=0.185 Sum_probs=32.5
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEEEcCCCeeE
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCELHPDGNSL 358 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sf 358 (370)
..|+.|.|+..++.. +. |++.++|+.=.+.+.+. ..+.+++...
T Consensus 17 l~g~~V~VeLKng~~-~~--G~L~~vD~~MNl~L~~~----~~~~~~~~~~ 60 (78)
T cd01733 17 LQGKVVTVELRNETT-VT--GRIASVDAFMNIRLAKV----TIIDRNGKQV 60 (78)
T ss_pred CCCCEEEEEECCCCE-EE--EEEEEEcCCceeEEEEE----EEEcCCCcee
Confidence 379999999887753 44 99999999988888753 2445565544
No 65
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=27.44 E-value=2.9e+02 Score=21.20 Aligned_cols=29 Identities=7% Similarity=-0.007 Sum_probs=22.3
Q ss_pred eEEEEEECCCceEEEEeCCCcEEEEcCCC
Q 017518 327 VVTIQGLTSSGYLLAIGDDNQMCELHPDG 355 (370)
Q Consensus 327 ~G~i~GId~~G~L~v~~~dG~~~~v~~dg 355 (370)
.|.+...-++|...|+.+||..+.-+.-|
T Consensus 8 ~G~V~e~L~~~~f~V~l~ng~~vla~i~G 36 (68)
T TIGR00008 8 EGKVTESLPNAMFRVELENGHEVLAHISG 36 (68)
T ss_pred EEEEEEECCCCEEEEEECCCCEEEEEecC
Confidence 48889999999999999888765444444
No 66
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=27.08 E-value=1.8e+02 Score=25.62 Aligned_cols=79 Identities=15% Similarity=0.159 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHHHH--HHHHHHHHHHhhChHHHH---HHHHHHhccCCCEEEEEECCccEEEEeeEEEEEEC-CCceEEE
Q 017518 268 YQFRREDVIAAFFN--KFETFYDTFINQGFQTLE---ELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLT-SSGYLLA 341 (370)
Q Consensus 268 ~~~~r~~Ll~~ll~--~~~~~~~~~~~~gf~~l~---~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId-~~G~L~v 341 (370)
.+.+-.++++++.. .+|..... +..+..+. .......-+.|+.|.+...+++. ++ |++.+|. .+|.-.+
T Consensus 47 ~P~D~tefiaQlAQfs~lEq~~~~--n~~l~~l~~~~~~~~~a~slVGk~V~~~~~~g~~-~t--G~V~~V~~~~g~~~~ 121 (142)
T PRK09618 47 NPMEDKEFIAQMAQFSSLEQMTNM--NKSMEKLVSSSDGLTKYSELIGKEVEWEGEDGEI-VS--GTVTSVKQKDGDYPL 121 (142)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhhHHHHHHHHHhCCEEEEEeCCCCE-EE--EEEEEEEEcCCcEEE
Confidence 45677777776643 22222111 12222221 11223445789999997655543 34 7888886 4554332
Q ss_pred EeCCCcEEEE
Q 017518 342 IGDDNQMCEL 351 (370)
Q Consensus 342 ~~~dG~~~~v 351 (370)
...||+.+.+
T Consensus 122 ~~v~G~~~~l 131 (142)
T PRK09618 122 VLDNGTWIVA 131 (142)
T ss_pred EEECCEEEec
Confidence 2345665544
No 67
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=26.64 E-value=1.2e+02 Score=22.81 Aligned_cols=31 Identities=23% Similarity=0.318 Sum_probs=22.0
Q ss_pred eEEEEEECCCceEEEEeCCCcEEEEcCCCeeEE
Q 017518 327 VVTIQGLTSSGYLLAIGDDNQMCELHPDGNSLD 359 (370)
Q Consensus 327 ~G~i~GId~~G~L~v~~~dG~~~~v~~dg~Sfd 359 (370)
.|+|..||+.. +-+..+||+.+.+ |.+..|+
T Consensus 6 eG~I~~id~~~-~titLdDGksy~l-p~ef~~~ 36 (61)
T PF07076_consen 6 EGTIKSIDPET-MTITLDDGKSYKL-PEEFDFD 36 (61)
T ss_pred eEEEEEEcCCc-eEEEecCCCEEEC-CCccccc
Confidence 38999999984 5556789998777 4444443
No 68
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=26.39 E-value=2.7e+02 Score=20.54 Aligned_cols=45 Identities=18% Similarity=0.139 Sum_probs=28.7
Q ss_pred ccCCCEEEEEECCccEEEEeeEEEEEECCCceE-EEEeCCCcEEEEcC
Q 017518 307 LHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYL-LAIGDDNQMCELHP 353 (370)
Q Consensus 307 ~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L-~v~~~dG~~~~v~~ 353 (370)
+..|+.|.+.-++...-+. |.|.+.|....+ .|.=+||...++--
T Consensus 6 ~~~Ge~V~~rWP~s~lYYe--~kV~~~d~~~~~y~V~Y~DGtel~lke 51 (55)
T PF09465_consen 6 FAIGEVVMVRWPGSSLYYE--GKVLSYDSKSDRYTVLYEDGTELELKE 51 (55)
T ss_dssp S-SS-EEEEE-TTTS-EEE--EEEEEEETTTTEEEEEETTS-EEEEEC
T ss_pred ccCCCEEEEECCCCCcEEE--EEEEEecccCceEEEEEcCCCEEEecc
Confidence 3579999999998776555 899999885444 45667777655543
No 69
>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=25.98 E-value=2e+02 Score=23.29 Aligned_cols=33 Identities=15% Similarity=0.210 Sum_probs=21.6
Q ss_pred cCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEEEc
Q 017518 308 HSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCELH 352 (370)
Q Consensus 308 ~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~v~ 352 (370)
+.||.|++. |++..++.+ .+.+++.||....+.
T Consensus 13 f~gk~V~iv-----------GkV~~~~~~-~~~~~~~Dg~~v~v~ 45 (101)
T cd04479 13 FVGKTVRIV-----------GKVEKVDGD-SLTLISSDGVNVTVE 45 (101)
T ss_pred hCCCEEEEE-----------EEEEEecCC-eEEEEcCCCCEEEEE
Confidence 468888874 667777765 566676776444443
No 70
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=25.17 E-value=3.2e+02 Score=20.94 Aligned_cols=32 Identities=9% Similarity=0.024 Sum_probs=26.1
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
.|++|.|+..++.. +. |++.++|+.=.+.+.+
T Consensus 10 ~g~~V~VeLkng~~-~~--G~L~~~D~~mNi~L~~ 41 (76)
T cd01723 10 QNHPMLVELKNGET-YN--GHLVNCDNWMNIHLRE 41 (76)
T ss_pred CCCEEEEEECCCCE-EE--EEEEEEcCCCceEEEe
Confidence 79999999887654 44 9999999987777764
No 71
>PF12945 YcgR_2: Flagellar protein YcgR; PDB: 2RDE_B 1YLN_A 3KYG_A.
Probab=25.13 E-value=96 Score=23.62 Aligned_cols=35 Identities=14% Similarity=0.288 Sum_probs=21.9
Q ss_pred cCCCEEEEEE-CCc-c-EEEEeeEEEEEECCCceEEEEeC
Q 017518 308 HSGQRVIVQE-KNE-D-QVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 308 ~~Gq~V~v~~-~~~-~-~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
..|++|.++- .+. . ..+. -++.|++++.+|.+..+
T Consensus 2 ~iG~~i~i~i~~~~~~~~~y~--S~v~g~~~~~~l~i~~P 39 (87)
T PF12945_consen 2 KIGQKIEIEITNPTGEKGRYK--SRVIGIDDDRYLIISMP 39 (87)
T ss_dssp -TT-EEEEEEE-TTS-EEEEE--EEEEEEETTTEEEEE--
T ss_pred CCCCEEEEEEECCCCceEEEE--EEEEEECCCCEEEEEcC
Confidence 4689999866 222 2 2233 68999999999999765
No 72
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=25.08 E-value=3.2e+02 Score=21.02 Aligned_cols=36 Identities=11% Similarity=0.139 Sum_probs=22.9
Q ss_pred ccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCC
Q 017518 307 LHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDD 345 (370)
Q Consensus 307 ~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~d 345 (370)
+..|++|++.-..+... -..+..+|++|.+.+.-++
T Consensus 3 ~~~Ge~v~~~~~~~~~~---Yl~l~~~~~~G~v~~L~Pn 38 (83)
T PF14326_consen 3 YRVGERVRFRVTSNRDG---YLYLFYIDADGKVTLLFPN 38 (83)
T ss_pred ccCCCEEEEEEEeCCCe---EEEEEEECCCCCEEEEecC
Confidence 34688888865433221 2467888888888776544
No 73
>cd04468 S1_eIF5A S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=24.39 E-value=70 Score=24.60 Aligned_cols=21 Identities=19% Similarity=0.428 Sum_probs=17.6
Q ss_pred EEEEEECCCceEEEEeCCCcEE
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMC 349 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~ 349 (370)
-+.++|++ |+|-+.+++|..+
T Consensus 6 YqLidI~d-GflsLm~e~G~~k 26 (69)
T cd04468 6 YQLIDIDD-GFLSLMDDDGETR 26 (69)
T ss_pred EEEEeecC-CeEEEEcCCCCcc
Confidence 35789988 9999999999754
No 74
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=24.21 E-value=3.1e+02 Score=20.58 Aligned_cols=45 Identities=16% Similarity=0.116 Sum_probs=29.7
Q ss_pred HHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcE
Q 017518 299 EELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQM 348 (370)
Q Consensus 299 ~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~ 348 (370)
.+.+.+..-..+.+|++..-++.+. . |.+.|.|.. .++++ .+|+.
T Consensus 4 Qd~fln~~r~~~~~Vti~L~nG~~l-~--G~I~~fD~f-tVll~-~~g~q 48 (61)
T TIGR02383 4 QDQFLNTLRKERIPVTVFLVNGVQL-K--GVIESFDNF-TVLLE-SQGKQ 48 (61)
T ss_pred HHHHHHHHHHcCCcEEEEEeCCcEE-E--EEEEEEeee-EEEEE-ECCcE
Confidence 3445555556788899988877653 3 899999975 44444 34543
No 75
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=22.20 E-value=2.5e+02 Score=21.89 Aligned_cols=33 Identities=18% Similarity=0.158 Sum_probs=27.2
Q ss_pred CCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeC
Q 017518 309 SGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGD 344 (370)
Q Consensus 309 ~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~ 344 (370)
.|++|+|+..++.. +. |+..++|+.=.+.+.+.
T Consensus 10 ~g~~V~VeLKng~~-~~--G~L~~vD~~MNi~L~n~ 42 (81)
T cd01725 10 VGKEVTVELKNDLS-IR--GTLHSVDQYLNIKLTNI 42 (81)
T ss_pred CCCEEEEEECCCcE-EE--EEEEEECCCcccEEEEE
Confidence 79999999987764 44 99999999888888753
No 76
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins. Gemin7 interacts with several Sm proteins of spliceosomal small nuclear ribonucleoproteins, especially SmE []. Gem-associated protein 7 is found in the nucleoplasm, in nuclear "gems" (Gemini of Cajal bodies), and in the cytoplasm. Three transcript variants encoding the same protein have been found for this gene [].; GO: 0032797 SMN complex; PDB: 1Y96_D.
Probab=22.09 E-value=4e+02 Score=21.08 Aligned_cols=43 Identities=12% Similarity=0.112 Sum_probs=28.5
Q ss_pred HHHHHHHHHh-ccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEE
Q 017518 297 TLEELYYKTW-LHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAI 342 (370)
Q Consensus 297 ~l~~~y~~~~-~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~ 342 (370)
.++++|.+.+ ...|++|.+..-++.. +. |++.+.|.++.-...
T Consensus 10 ~LRerfLr~l~~~~gk~v~f~l~e~t~-V~--a~F~a~d~~~~~f~V 53 (80)
T PF11095_consen 10 FLRERFLRSLLAMVGKPVEFTLHENTT-VS--ARFGACDIDVSNFQV 53 (80)
T ss_dssp HHHHHHHHHHHHCTTSEEEEEEGGG-E-EE--EEEEEE-TTS-EEEE
T ss_pred HHHHHHHHHHHHhcCCceEEEEeCCeE-EE--EEEEEecCchheEEh
Confidence 4566676555 4679999998765543 44 899999998876653
No 77
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=21.85 E-value=3.2e+02 Score=24.36 Aligned_cols=38 Identities=21% Similarity=0.107 Sum_probs=27.4
Q ss_pred CCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCcEEE
Q 017518 310 GQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQMCE 350 (370)
Q Consensus 310 Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~~~~ 350 (370)
++...+..+.+++.+ |+|...-.+|.+.|+..||..+.
T Consensus 21 ~~~rel~~~eegq~~---g~V~~~LGn~~f~V~c~dG~~rL 58 (155)
T PTZ00329 21 GEKRELVFKEEGQEY---AQVLRMLGNGRLEAYCFDGVKRL 58 (155)
T ss_pred cceeeeccCCCCcEE---EEEEEEcCCCEEEEEECCCCEEE
Confidence 344555555555543 78999999999999998886543
No 78
>cd04469 S1_Hex1 S1_Hex1: Hex1, S1-like RNA-binding domain. Hex1 protein is the major component of the Woronin body in filamentous fungi. The Woronin body is a dense vesicle and plays a vital role in filamentous fungi cell integrity. When cell damage occurs, Woronin bodies seal the septal pore to prevent further cytoplasmic bleeding. Hex1 protein self-assembles to form the solid core of the Woronin body vesicle. The Hex1 sequence and structure are similar to eukaryotic initiation factor 5A (eIF5A), suggesting they share a common ancestor during evolution. All members of the EF superfamily to which Hex1 belongs, contain an S1 domain, which has been shown to bind RNA or single-stranded DNA and often interacts with the ribosome.
Probab=20.98 E-value=91 Score=24.41 Aligned_cols=21 Identities=10% Similarity=0.314 Sum_probs=17.2
Q ss_pred EEEEEECCCceEEEEeCCCcEE
Q 017518 328 VTIQGLTSSGYLLAIGDDNQMC 349 (370)
Q Consensus 328 G~i~GId~~G~L~v~~~dG~~~ 349 (370)
-++++| ++|+|-+.+++|..+
T Consensus 5 YqLidI-~DG~lsLM~e~G~~k 25 (75)
T cd04469 5 YRVLDI-QDGSIVAMTETGDVK 25 (75)
T ss_pred EEEEEe-cCCeEEEEcCCCCcc
Confidence 357889 789999999999754
No 79
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=20.46 E-value=4.4e+02 Score=20.87 Aligned_cols=45 Identities=11% Similarity=0.144 Sum_probs=30.0
Q ss_pred HHHHHHHHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEeCCCc
Q 017518 298 LEELYYKTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIGDDNQ 347 (370)
Q Consensus 298 l~~~y~~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~~dG~ 347 (370)
+.+.+....-..+..|++..-++-+. . |.+.|.|.. .++++ .+|+
T Consensus 7 lQd~fLn~lr~~~~~VtifL~NG~~l-~--G~I~~fD~f-tVll~-~~gk 51 (79)
T PRK00395 7 LQDPFLNALRKERVPVTIYLVNGIKL-Q--GQIESFDNF-VVLLR-NTGK 51 (79)
T ss_pred hHHHHHHHHHHcCCCEEEEEeCCcEE-E--EEEEEEccE-EEEEE-ECCc
Confidence 44555666666788899988877653 3 899999974 34444 3453
No 80
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=20.23 E-value=3.7e+02 Score=21.43 Aligned_cols=37 Identities=5% Similarity=0.205 Sum_probs=28.4
Q ss_pred HHhccCCCEEEEEECCccEEEEeeEEEEEECCCceEEEEe
Q 017518 304 KTWLHSGQRVIVQEKNEDQVVENVVTIQGLTSSGYLLAIG 343 (370)
Q Consensus 304 ~~~~~~Gq~V~v~~~~~~~~~~~~G~i~GId~~G~L~v~~ 343 (370)
+.++..|++|.|...++... .|++.++|..=.|++++
T Consensus 8 ~~~~~~~~~V~V~lr~~r~~---~G~L~~fD~hmNlvL~d 44 (87)
T cd01720 8 TQAVKNNTQVLINCRNNKKL---LGRVKAFDRHCNMVLEN 44 (87)
T ss_pred HHHHcCCCEEEEEEcCCCEE---EEEEEEecCccEEEEcc
Confidence 34444689999998877643 38999999988888765
Done!