Query gi|254780748|ref|YP_003065161.1| integration host factor, beta subunit [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 100
No_of_seqs 101 out of 3065
Neff 6.7
Searched_HMMs 39220
Date Sun May 29 22:08:33 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780748.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00199 ihfB integration host 99.9 6.3E-27 1.6E-31 192.6 11.4 91 1-91 1-91 (91)
2 PRK10664 transcriptional regul 99.9 1.3E-26 3.4E-31 190.5 11.4 90 1-91 1-90 (90)
3 PRK00285 ihfA integration host 99.9 3.3E-26 8.5E-31 188.0 11.4 95 1-96 4-98 (100)
4 PRK10753 transcriptional regul 99.9 4.9E-26 1.3E-30 186.9 11.1 90 1-91 1-90 (90)
5 COG0776 HimA Bacterial nucleoi 99.9 3.8E-26 9.7E-31 187.7 10.4 92 1-93 2-93 (94)
6 smart00411 BHL bacterial (prok 99.9 4.8E-25 1.2E-29 180.7 11.5 90 1-91 1-90 (90)
7 TIGR00988 hip integration host 99.9 9.1E-26 2.3E-30 185.2 7.7 94 1-94 1-94 (94)
8 pfam00216 Bac_DNA_binding Bact 99.9 1.2E-24 3.1E-29 178.1 11.3 90 1-91 1-90 (90)
9 cd00591 HU_IHF Integration hos 99.9 6.7E-23 1.7E-27 167.1 9.8 87 2-89 1-87 (87)
10 TIGR00987 himA integration hos 99.8 2.3E-20 5.9E-25 150.9 7.6 94 1-95 2-95 (96)
11 TIGR01201 HU_rel DNA-binding p 97.9 3.8E-05 9.7E-10 54.4 6.5 79 2-83 35-118 (198)
12 pfam08006 DUF1700 Protein of u 92.4 0.42 1.1E-05 28.7 5.7 50 1-50 1-52 (181)
13 COG4709 Predicted membrane pro 80.8 4.6 0.00012 22.2 5.3 40 1-40 1-40 (195)
14 COG1712 Predicted dinucleotide 69.7 2.4 6E-05 24.0 1.4 28 41-68 207-235 (255)
15 pfam10025 DUF2267 Uncharacteri 65.0 11 0.00027 19.8 4.0 44 1-45 1-45 (125)
16 PRK10428 putative stress-respo 59.9 16 0.00041 18.7 4.1 29 2-31 35-63 (69)
17 TIGR03069 PS_II_S4 photosystem 50.0 7.3 0.00019 20.9 1.0 44 13-56 192-243 (257)
18 PRK02955 small acid-soluble sp 47.6 9.3 0.00024 20.2 1.3 24 28-51 20-43 (69)
19 TIGR03092 SASP_sspI small, aci 47.5 9.4 0.00024 20.2 1.3 24 28-51 17-40 (65)
20 KOG0193 consensus 43.5 11 0.00027 19.8 1.1 50 5-57 492-541 (678)
21 COG2302 Uncharacterized conser 43.0 9.5 0.00024 20.2 0.7 47 14-60 190-244 (257)
22 PRK08402 replication factor A; 42.4 23 0.0006 17.7 2.7 31 1-32 4-34 (357)
23 pfam08142 AARP2CN AARP2CN (NUC 39.5 9.7 0.00025 20.1 0.3 21 36-56 54-74 (81)
24 smart00785 AARP2CN AARP2CN (NU 36.7 11 0.00029 19.7 0.3 21 36-56 56-76 (83)
25 TIGR00537 hemK_rel_arch methyl 36.0 23 0.00058 17.7 1.8 26 20-45 117-142 (183)
26 TIGR02081 metW methionine bios 33.9 27 0.00068 17.3 1.9 39 30-68 100-141 (205)
27 pfam02001 DUF134 Protein of un 32.8 46 0.0012 15.8 5.0 36 11-47 59-94 (100)
28 pfam01958 DUF108 Domain of unk 32.6 27 0.00068 17.3 1.7 27 42-68 57-84 (92)
29 PRK11426 hypothetical protein; 31.5 48 0.0012 15.7 4.2 39 4-43 72-110 (132)
30 PRK13301 putative L-aspartate 31.2 24 0.00062 17.6 1.3 19 48-66 227-245 (267)
31 TIGR01645 half-pint poly-U bin 30.6 7.5 0.00019 20.8 -1.4 40 13-52 249-289 (791)
32 pfam08812 YtxC YtxC-like famil 30.1 40 0.001 16.2 2.2 33 27-59 67-99 (220)
33 PRK13303 L-aspartate dehydroge 30.0 28 0.00073 17.1 1.5 27 42-68 219-246 (265)
34 KOG0599 consensus 26.4 59 0.0015 15.1 3.8 61 1-63 105-181 (411)
35 pfam06831 H2TH Formamidopyrimi 26.1 60 0.0015 15.1 3.9 33 15-48 60-92 (93)
36 TIGR00577 fpg formamidopyrimid 25.4 61 0.0016 15.0 3.8 27 16-42 205-231 (292)
37 PRK00188 trpD anthranilate pho 24.8 63 0.0016 14.9 3.4 29 1-30 1-29 (339)
38 COG3937 Uncharacterized conser 24.3 64 0.0016 14.9 4.8 35 4-39 27-61 (108)
39 PRK13304 L-aspartate dehydroge 23.5 41 0.001 16.1 1.3 21 48-68 224-244 (265)
40 TIGR00264 TIGR00264 alpha-NAC 23.3 67 0.0017 14.8 3.1 33 6-39 90-122 (125)
41 TIGR01420 pilT_fam twitching m 22.8 57 0.0015 15.2 1.9 64 14-81 39-110 (350)
42 pfam02885 Glycos_trans_3N Glyc 22.6 70 0.0018 14.7 3.1 27 4-31 3-29 (66)
43 PRK13302 putative L-aspartate 21.6 53 0.0013 15.4 1.5 26 42-68 224-250 (271)
44 PRK07738 flagellar protein Fla 21.1 42 0.0011 16.0 1.0 61 14-81 36-98 (113)
45 KOG3314 consensus 21.0 75 0.0019 14.5 2.7 21 14-34 164-184 (194)
46 KOG0444 consensus 20.9 75 0.0019 14.5 3.8 55 1-55 863-923 (1255)
47 COG3140 Uncharacterized protei 20.6 68 0.0017 14.7 1.9 32 14-45 5-36 (60)
48 TIGR01124 ilvA_2Cterm threonin 20.1 72 0.0018 14.6 2.0 23 30-52 206-228 (508)
No 1
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=99.94 E-value=6.3e-27 Score=192.62 Aligned_cols=91 Identities=49% Similarity=0.819 Sum_probs=89.7
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||++++++++++++.++|.|+++|.++|.+|++|+|+|||+|+++.|++|.||||+|||.+.||++++|+|
T Consensus 1 M~K~eli~~ia~~~~~l~~~~~~~iv~~~~~~i~~~l~~g~~V~i~gFGtF~~~~r~~R~gRNP~Tge~i~I~~k~~v~F 80 (91)
T PRK00199 1 MTKSELIERLATRQPHLPAKDVEDAVKTMLEEMADALAQGDRIEIRGFGSFSLHYRPPRVGRNPKTGEKVEVEGKYVPHF 80 (91)
T ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE
T ss_conf 97899999999876998999999999999999999997699299634589999985672450849999899659765787
Q ss_pred CCCHHHHHHHC
Q ss_conf 26989999707
Q gi|254780748|r 81 RAGKNLKERLN 91 (100)
Q Consensus 81 k~sk~lk~~iN 91 (100)
+||+.|+++||
T Consensus 81 kpsk~Lk~~lN 91 (91)
T PRK00199 81 KPGKELRDRVN 91 (91)
T ss_pred CCCHHHHHHHC
T ss_conf 78989998519
No 2
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=99.94 E-value=1.3e-26 Score=190.52 Aligned_cols=90 Identities=38% Similarity=0.627 Sum_probs=88.8
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||+++ ++++.+++.++|.|++.|.++|..|++|+|+|||+|+++.|++|.||||+|||.|.||++++|+|
T Consensus 1 M~K~eLi~~ia~~~-~ltk~~a~~~v~~~~~~i~~~l~~g~~V~l~gFGtF~v~~r~aR~grNP~Tge~i~Ipa~~v~~F 79 (90)
T PRK10664 1 MNKSQLIDKIAAGA-DISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTGRNPQTGKEITIAAAKVPSF 79 (90)
T ss_pred CCHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE
T ss_conf 97899999999870-99999999999999999999997799399800589999876672560919998898658654777
Q ss_pred CCCHHHHHHHC
Q ss_conf 26989999707
Q gi|254780748|r 81 RAGKNLKERLN 91 (100)
Q Consensus 81 k~sk~lk~~iN 91 (100)
+||+.||+.||
T Consensus 80 k~sk~LK~~vN 90 (90)
T PRK10664 80 RAGKALKDAVN 90 (90)
T ss_pred CCCHHHHHHHC
T ss_conf 47989998539
No 3
>PRK00285 ihfA integration host factor subunit alpha; Reviewed
Probab=99.94 E-value=3.3e-26 Score=188.01 Aligned_cols=95 Identities=31% Similarity=0.576 Sum_probs=92.1
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||+++ ++++.+++.+||+|+++|.++|..|++|+|+|||+|+++.+++|.||||+|||.+.||++++|+|
T Consensus 4 MtK~eli~~ia~~~-g~s~~~a~~~v~~~~~~i~~~L~~g~~V~i~gFGtF~v~~r~~R~grNP~Tge~i~Ip~r~~v~F 82 (100)
T PRK00285 4 LTKAELAELLFDKV-GLSKREAKELVELFFEEIRDALENGEQVKLSGFGNFQLRDKNQRPGRNPKTGEEIPITARRVVTF 82 (100)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE
T ss_conf 27999999999986-95999999999999999999997699288722389999850661452849998899758765787
Q ss_pred CCCHHHHHHHCCCCCC
Q ss_conf 2698999970786100
Q gi|254780748|r 81 RAGKNLKERLNSPDST 96 (100)
Q Consensus 81 k~sk~lk~~iN~~~~~ 96 (100)
+||+.||+.||+...+
T Consensus 83 kpsk~LK~~Vn~~~~~ 98 (100)
T PRK00285 83 RAGQKLKSRVENAHPK 98 (100)
T ss_pred ECCHHHHHHHHCCCCC
T ss_conf 1599999998460634
No 4
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=99.94 E-value=4.9e-26 Score=186.94 Aligned_cols=90 Identities=36% Similarity=0.570 Sum_probs=88.0
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||+++ ++|+.+++.++|+|+++|.++|.+|++|+|+|||+|+++.|++|.||||+|||.|.||++++|+|
T Consensus 1 MnK~eLi~~ia~~~-~~sk~~~~~~v~~~~~~i~~~L~~g~~V~l~GFGtF~v~~r~aR~grNP~TGe~i~Ipa~~v~~F 79 (90)
T PRK10753 1 MNKTQLIDVIADKA-ELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTGRNPQTGKEIKIAAANVPAF 79 (90)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECEEEEEEEEECCCCCCCCCCCCEEEECCCCCEEE
T ss_conf 97899999999873-98999999999999999999997699199803289999865781350819999898758764677
Q ss_pred CCCHHHHHHHC
Q ss_conf 26989999707
Q gi|254780748|r 81 RAGKNLKERLN 91 (100)
Q Consensus 81 k~sk~lk~~iN 91 (100)
+||+.||++|.
T Consensus 80 kp~k~LK~~vk 90 (90)
T PRK10753 80 VSGKALKDAVK 90 (90)
T ss_pred CCCHHHHHHHC
T ss_conf 26989998639
No 5
>COG0776 HimA Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.94 E-value=3.8e-26 Score=187.65 Aligned_cols=92 Identities=50% Similarity=0.767 Sum_probs=90.0
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.|+++. ++++++++.+||+|++.|.++|.+|++|+|+|||+|+++.|++|.||||+|||.|.||++++|+|
T Consensus 2 mtKseli~~ia~~~-~l~k~~a~~~v~~~~~~i~~aL~~G~~V~l~gFG~F~v~~R~aR~GRNPkTGe~i~I~a~~vp~F 80 (94)
T COG0776 2 MTKSELIDAIAEKA-GLSKKDAEEAVDAFLEEITEALAKGERVELRGFGTFEVRERAARTGRNPKTGEEIKIPAKKVPKF 80 (94)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEECCCCCCCCCCCCCCEEEECCCCCCCC
T ss_conf 87899999999970-98799999999999999999997699489830046676202787787999998686357523355
Q ss_pred CCCHHHHHHHCCC
Q ss_conf 2698999970786
Q gi|254780748|r 81 RAGKNLKERLNSP 93 (100)
Q Consensus 81 k~sk~lk~~iN~~ 93 (100)
+||+.||+++|..
T Consensus 81 k~gK~LK~~vn~~ 93 (94)
T COG0776 81 KPGKALKDAVNGA 93 (94)
T ss_pred CCCHHHHHHHHCC
T ss_conf 8768999988334
No 6
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=99.93 E-value=4.8e-25 Score=180.67 Aligned_cols=90 Identities=46% Similarity=0.710 Sum_probs=88.8
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||+++ ++++++++.++|.|+++|.++|.+|++|+|+|||+|+++.+++|.||||+|||.+.||++++|+|
T Consensus 1 MtK~eli~~ia~~~-~~s~~~~~~~v~~~~~~i~~~L~~~~~v~i~~fG~F~~~~~~~R~grNP~Tge~i~i~~~~~v~F 79 (90)
T smart00411 1 MTKSELIDAIAEKA-GLSKKDAKAAVDAFLEIITEALKKGEKVELRGFGTFEVRERKAREGRNPKTGEEIEIPAKKVPKF 79 (90)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECEEEEEEEEEECCEEEECCCCCCEEEECCCCCEEE
T ss_conf 97899999999986-96999999999999999999996799399340499999970661347879998899758765798
Q ss_pred CCCHHHHHHHC
Q ss_conf 26989999707
Q gi|254780748|r 81 RAGKNLKERLN 91 (100)
Q Consensus 81 k~sk~lk~~iN 91 (100)
+||+.|++.+|
T Consensus 80 k~sk~lk~~iN 90 (90)
T smart00411 80 KPGKALKDAVN 90 (90)
T ss_pred CCCHHHHHHHC
T ss_conf 06989998639
No 7
>TIGR00988 hip integration host factor, beta subunit; InterPro: IPR005685 Integration host factor (IHF) is a heterodimeric protein consisting of alpha (IPR005684 from INTERPRO) and beta subunits. IHF binds the minor groove of DNA in a sequence-specific manner to induce a large bend. This bending stabilises distinct DNA conformations that are required during several bacterial processes, such as recombination, transposition, replication and transcription .; GO: 0003677 DNA binding, 0005694 chromosome.
Probab=99.92 E-value=9.1e-26 Score=185.25 Aligned_cols=94 Identities=49% Similarity=0.771 Sum_probs=92.1
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|+|||||++|+...+.|+.++++.+|..+++.|.++|..|++|+|||||.|+++.|.||+||||+||+.+.+.++++|.|
T Consensus 1 M~kSELI~~i~~~~~~l~~k~VE~~v~~~lE~~~~alA~GdRiE~RGFGsFSl~~R~~R~GRNPkTG~~V~ld~K~VP~F 80 (94)
T TIGR00988 1 MTKSELIERIATEQSHLFAKDVEKAVKTMLEEMIEALARGDRIEIRGFGSFSLHYRAPRTGRNPKTGESVALDGKYVPHF 80 (94)
T ss_pred CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCEEECCCCCCCCCCCCCCCEEEECCCCCCCC
T ss_conf 93378889987407875533389999999999999860798467601442000005788898899887665478042840
Q ss_pred CCCHHHHHHHCCCC
Q ss_conf 26989999707861
Q gi|254780748|r 81 RAGKNLKERLNSPD 94 (100)
Q Consensus 81 k~sk~lk~~iN~~~ 94 (100)
||+|.|+|++|..+
T Consensus 81 K~GK~LRDR~N~~e 94 (94)
T TIGR00988 81 KPGKELRDRLNEGE 94 (94)
T ss_pred CCCCCHHCCCCCCC
T ss_conf 48630110047889
No 8
>pfam00216 Bac_DNA_binding Bacterial DNA-binding protein.
Probab=99.92 E-value=1.2e-24 Score=178.09 Aligned_cols=90 Identities=46% Similarity=0.705 Sum_probs=88.6
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
|||+|||+.||+++ ++++++++.++|.|+++|.++|.+|++|+|+|||+|+++.+++|.||||+|||.++||++++|+|
T Consensus 1 mtK~~li~~ia~~~-~ls~~~~~~~v~~~~~~i~~~L~~~~~v~i~gfG~F~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 79 (90)
T pfam00216 1 MTKKELIKAIAEKT-GLSKKDAEAIVDAFLDVITEALKKGEKVELRGFGTFEVRERKARTGRNPKTGEEIKIPAKKVVKF 79 (90)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCEEEEEEEEECCEEEECCCCCCEEEECCCCCEEE
T ss_conf 97899999999864-96999999999999999999996799498554589999960565428869997899759765898
Q ss_pred CCCHHHHHHHC
Q ss_conf 26989999707
Q gi|254780748|r 81 RAGKNLKERLN 91 (100)
Q Consensus 81 k~sk~lk~~iN 91 (100)
+||+.|++.||
T Consensus 80 k~sk~lk~~iN 90 (90)
T pfam00216 80 KPGKELKEAVN 90 (90)
T ss_pred ECCHHHHHHHC
T ss_conf 06989998639
No 9
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=99.89 E-value=6.7e-23 Score=167.07 Aligned_cols=87 Identities=45% Similarity=0.674 Sum_probs=84.8
Q ss_pred CHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEEC
Q ss_conf 88999999999738999899999999999999999864985120345788862146541025889888994687346762
Q gi|254780748|r 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFR 81 (100)
Q Consensus 2 tK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~Fk 81 (100)
||+|||+.||+++ ++++++++.++|.|++.|.++|.+|++|+|+|||+|+++.+++|.||||+|||.++||++++|+|+
T Consensus 1 TK~dLi~~ia~~~-~~s~~~~~~~v~~~~~~i~~~L~~~~~V~i~~fG~F~~~~~~~r~grNP~Tge~i~i~~~~~v~Fk 79 (87)
T cd00591 1 TKSELIEAIAEKT-GLSKKDAEAAVDAFLDVITEALAKGEKVELPGFGTFEVRERAARTGRNPKTGEEIKIPAKKVVKFK 79 (87)
T ss_pred CHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEEEEECCEEEECCCCCCEEEECCCCCEEEC
T ss_conf 9899999999986-969999999999999999999977996996360799999825624488899988997597667975
Q ss_pred CCHHHHHH
Q ss_conf 69899997
Q gi|254780748|r 82 AGKNLKER 89 (100)
Q Consensus 82 ~sk~lk~~ 89 (100)
||+.||++
T Consensus 80 ~sk~lK~~ 87 (87)
T cd00591 80 PGKALKDA 87 (87)
T ss_pred CCHHHCCC
T ss_conf 08787179
No 10
>TIGR00987 himA integration host factor, alpha subunit; InterPro: IPR005684 Integration host factor (IHF) is a heterodimeric protein consisting of alpha and beta (IPR005685 from INTERPRO) subunits. IHF binds the minor groove of DNA in a sequence-specific manner to induce a large bend. This bending stabilises distinct DNA conformations that are required during several bacterial processes, such as recombination, transposition, replication and transcription .; GO: 0003677 DNA binding, 0005694 chromosome.
Probab=99.82 E-value=2.3e-20 Score=150.93 Aligned_cols=94 Identities=29% Similarity=0.586 Sum_probs=90.4
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEE
Q ss_conf 98899999999973899989999999999999999986498512034578886214654102588988899468734676
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFF 80 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~F 80 (100)
+||.||.+.|.++. ||++.+++++|+.||+.|.++|.+|+.|.|.|||+|.++.+..|.||||+|||.|-|.++.+|.|
T Consensus 2 LT~~~~sE~~f~~~-GLs~~ea~~LVE~~~~~~~~AL~~gE~VKlS~FG~F~~RDK~~R~GRNPKTGEeiPI~~RRV~~F 80 (96)
T TIGR00987 2 LTKAELSEALFREL-GLSKREAKELVELFLEEIRDALERGEQVKLSGFGNFDLRDKTQRPGRNPKTGEEIPITARRVVTF 80 (96)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEE
T ss_conf 50557889999982-88855778999999999999986388465303655210107778765579988788677413532
Q ss_pred CCCHHHHHHHCCCCC
Q ss_conf 269899997078610
Q gi|254780748|r 81 RAGKNLKERLNSPDS 95 (100)
Q Consensus 81 k~sk~lk~~iN~~~~ 95 (100)
+||..||++|.+.+.
T Consensus 81 RP~~~lK~RV~~~~~ 95 (96)
T TIGR00987 81 RPGQKLKDRVEERNA 95 (96)
T ss_pred CCCHHHHHHHHHHCC
T ss_conf 764568899875158
No 11
>TIGR01201 HU_rel DNA-binding protein, putative; InterPro: IPR005902 This family of proteins is related to, but longer than, DNA-binding protein HU. It contains a distinctive domain architecture when compared to HU and related histone-like DNA-binding. Members include, so far, a protein from Bacteroides fragilis and ten from Porphyromonas gingivalis (Bacteroides gingivalis). Both species are oral pathogens. .
Probab=97.90 E-value=3.8e-05 Score=54.40 Aligned_cols=79 Identities=23% Similarity=0.292 Sum_probs=65.8
Q ss_pred CHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCEECCCCCC---EEEECC--CC
Q ss_conf 8899999999973899989999999999999999986498512034578886214654102588988---899468--73
Q gi|254780748|r 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRAARLARAPLAQK---VISVEE--KM 76 (100)
Q Consensus 2 tK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~~rNP~Tge---~i~i~~--~~ 76 (100)
+=.|||+.||+.. .+|..|+.-+||.+..+|...|.+|..|.|-++|+|.+.. .+|- .-+-..| .+.... +.
T Consensus 35 ~~~~~~~~ia~~S-~~s~GDV~~i~~~L~~~l~~eL~~G~~v~lg~~G~FR~~~-~~kg-~~ve~~eGGt~v~~~~~~~~ 111 (198)
T TIGR01201 35 DFEEIAELIAEES-SLSPGDVKGILDRLAYVLRRELASGKTVRLGEIGTFRLSA-TAKG-SGVEEAEGGTEVSAEQVKKA 111 (198)
T ss_pred CHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCEEEEEEE-EECC-CCCCCCCCCCCCCHHHHCCC
T ss_conf 3789999986764-6885689999999999999971379869874732589986-1032-43646677821167652122
Q ss_pred EEEECCC
Q ss_conf 4676269
Q gi|254780748|r 77 VPFFRAG 83 (100)
Q Consensus 77 ~v~Fk~s 83 (100)
.|.|.|.
T Consensus 112 rv~F~p~ 118 (198)
T TIGR01201 112 RVLFTPE 118 (198)
T ss_pred CEEECCC
T ss_conf 2154223
No 12
>pfam08006 DUF1700 Protein of unknown function (DUF1700). This family contains many hypothetical bacterial proteins and two putative membrane proteins.
Probab=92.36 E-value=0.42 Score=28.72 Aligned_cols=50 Identities=18% Similarity=0.228 Sum_probs=42.0
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCC--CCEEEEE
Q ss_conf 9889999999997389998999999999999999998649851--2034578
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRV--EIRGFGS 50 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V--~i~gfGt 50 (100)
|||.|+.+++.+...+++.+|.+++++.+-+...+++.+|..= -+..+|+
T Consensus 1 M~k~efL~~L~~~L~~lp~~e~~~il~~y~e~f~~~~~~G~se~ei~~~LG~ 52 (181)
T pfam08006 1 MNKIEFLNELESSLKKLPEEERKDILYDYEEHFYEGEEEGKSEEEIIKELGN 52 (181)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
T ss_conf 9899999999998865999999999999999999876689999999988299
No 13
>COG4709 Predicted membrane protein [Function unknown]
Probab=80.75 E-value=4.6 Score=22.16 Aligned_cols=40 Identities=18% Similarity=0.245 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 9889999999997389998999999999999999998649
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANG 40 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~ 40 (100)
|||.|+++++-+...++++++-.++++.+.+.-.++-.+|
T Consensus 1 Mtk~efL~eL~~yL~~Lp~~~r~e~m~dyeehF~~a~~~G 40 (195)
T COG4709 1 MTKTEFLNELEQYLEGLPREERREIMYDYEEHFREAQEAG 40 (195)
T ss_pred CCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 9788999999999871998889999999999998650348
No 14
>COG1712 Predicted dinucleotide-utilizing enzyme [General function prediction only]
Probab=69.70 E-value=2.4 Score=23.99 Aligned_cols=28 Identities=32% Similarity=0.667 Sum_probs=22.9
Q ss_pred CCCCCEE-EEEEEEECCCCCCEECCCCCC
Q ss_conf 8512034-578886214654102588988
Q gi|254780748|r 41 GRVEIRG-FGSFSVRKRAARLARAPLAQK 68 (100)
Q Consensus 41 ~~V~i~g-fGtF~~~~~~~r~~rNP~Tge 68 (100)
..|+++| ||+|+++.+.-...-||+|..
T Consensus 207 Hev~v~g~fG~~~~~~eN~p~~~NPKTSa 235 (255)
T COG1712 207 HEVEVRGAFGTFEIKIENVPLPENPKTSA 235 (255)
T ss_pred EEEEEEECCCEEEEEEECCCCCCCCCHHH
T ss_conf 59999832442899983662788960589
No 15
>pfam10025 DUF2267 Uncharacterized conserved protein (DUF2267). This domain, found in various hypothetical bacterial proteins, has no known function.
Probab=65.04 E-value=11 Score=19.82 Aligned_cols=44 Identities=14% Similarity=0.326 Sum_probs=33.4
Q ss_pred CCHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98899999999973899-9899999999999999999864985120
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKL-NYQDVEKIVNMLLEEMTQALANGGRVEI 45 (100)
Q Consensus 1 MtK~eli~~ia~~~~~l-s~~~~~~~vd~~~~~i~~~L~~~~~V~i 45 (100)
|+-.++++.+.++. ++ ++.++..++.+++.++.+-|.-++...|
T Consensus 1 m~~~~fl~~V~~~~-~~~~r~~A~~a~raVL~tL~~Rl~~~ea~~L 45 (125)
T pfam10025 1 MDYDEFLKEVQERA-GLDSREEAERAARAVLETLADRLSGEEAADL 45 (125)
T ss_pred CCHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf 98999999999880-8998899999999999999988788789999
No 16
>PRK10428 putative stress-response protein; Provisional
Probab=59.93 E-value=16 Score=18.69 Aligned_cols=29 Identities=21% Similarity=0.226 Sum_probs=25.2
Q ss_pred CHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 889999999997389998999999999999
Q gi|254780748|r 2 IKSSLIGTIAKKNPKLNYQDVEKIVNMLLE 31 (100)
Q Consensus 2 tK~eli~~ia~~~~~ls~~~~~~~vd~~~~ 31 (100)
.+.+|+-.|.+++ |+++.+|++-|+.|.+
T Consensus 35 ~re~L~GkiQerY-G~sKeeae~ev~~w~~ 63 (69)
T PRK10428 35 KRDQLVGKIQERY-GYQKDQAEKEVVDWET 63 (69)
T ss_pred CHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_conf 6999987999997-8379999999999986
No 17
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=50.04 E-value=7.3 Score=20.89 Aligned_cols=44 Identities=16% Similarity=0.306 Sum_probs=32.6
Q ss_pred HCCCCCHHHHHHHHHH--------HHHHHHHHHHCCCCCCCEEEEEEEEECC
Q ss_conf 7389998999999999--------9999999986498512034578886214
Q gi|254780748|r 13 KNPKLNYQDVEKIVNM--------LLEEMTQALANGGRVEIRGFGSFSVRKR 56 (100)
Q Consensus 13 ~~~~ls~~~~~~~vd~--------~~~~i~~~L~~~~~V~i~gfGtF~~~~~ 56 (100)
...++|+..+...+.+ ..+--...|+.|+.|.+||+|.|++...
T Consensus 192 ~~~~~SRska~~lI~~g~V~vN~~~v~~~s~~v~~gDiiSvRG~GR~~i~ei 243 (257)
T TIGR03069 192 AGFGLSRSKIVDQIKAGRLRLNWKTVTQPSRELKVGDRLQLRGKGRLEILEL 243 (257)
T ss_pred HHHCCCHHHHHHHHHCCEEEECCEEECCCCCCCCCCCEEEEECCCEEEEEEC
T ss_conf 8866579999999884968989999057875668999999906717999975
No 18
>PRK02955 small acid-soluble spore protein SspI; Provisional
Probab=47.59 E-value=9.3 Score=20.23 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHCCCCCCCEEEEEE
Q ss_conf 999999999864985120345788
Q gi|254780748|r 28 MLLEEMTQALANGGRVEIRGFGSF 51 (100)
Q Consensus 28 ~~~~~i~~~L~~~~~V~i~gfGtF 51 (100)
.+-++|.+++..|+.=.|||+|++
T Consensus 20 elk~tI~daI~sgEEk~LPGLGVl 43 (69)
T PRK02955 20 QLEETIVDAIQSGEEKMLPGLGVL 43 (69)
T ss_pred HHHHHHHHHHHCCCHHCCCCCHHH
T ss_conf 999999999864630137740678
No 19
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=47.51 E-value=9.4 Score=20.20 Aligned_cols=24 Identities=21% Similarity=0.418 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHCCCCCCCEEEEEE
Q ss_conf 999999999864985120345788
Q gi|254780748|r 28 MLLEEMTQALANGGRVEIRGFGSF 51 (100)
Q Consensus 28 ~~~~~i~~~L~~~~~V~i~gfGtF 51 (100)
.+-++|.+++..|+.=.|||+|++
T Consensus 17 elk~tI~daI~sgEEk~LPGLGVl 40 (65)
T TIGR03092 17 QLEATIVDAIQSGEEKMLPGLGVL 40 (65)
T ss_pred HHHHHHHHHHHCCCHHCCCCCHHH
T ss_conf 999999999864730037740678
No 20
>KOG0193 consensus
Probab=43.54 E-value=11 Score=19.83 Aligned_cols=50 Identities=24% Similarity=0.339 Sum_probs=33.8
Q ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCC
Q ss_conf 99999999738999899999999999999999864985120345788862146
Q gi|254780748|r 5 SLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGFGSFSVRKRA 57 (100)
Q Consensus 5 eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~ 57 (100)
++..++| .|+.+=.++.|+.-=+..=-=-|.++..|.|-+||-|.++.+-
T Consensus 492 dIAqQia---qGM~YLHAK~IIHrDLKSnNIFl~~~~kVkIgDFGLatvk~~w 541 (678)
T KOG0193 492 DIAQQIA---QGMDYLHAKNIIHRDLKSNNIFLHEDLKVKIGDFGLATVKTRW 541 (678)
T ss_pred HHHHHHH---HHHHHHHHHHHHHHHCCCCCEEECCCCCEEEECCCCEEEEEEE
T ss_conf 9999998---7650565531443110226468705884898313204542122
No 21
>COG2302 Uncharacterized conserved protein, contains S4-like domain [Function unknown]
Probab=42.99 E-value=9.5 Score=20.17 Aligned_cols=47 Identities=15% Similarity=0.369 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHH--------HHHHHHHHHHCCCCCCCEEEEEEEEECCCCCC
Q ss_conf 389998999999999--------99999999864985120345788862146541
Q gi|254780748|r 14 NPKLNYQDVEKIVNM--------LLEEMTQALANGGRVEIRGFGSFSVRKRAARL 60 (100)
Q Consensus 14 ~~~ls~~~~~~~vd~--------~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r~ 60 (100)
..++|+..+...++. ..+.=...+..|+-+.++|||+|++......+
T Consensus 190 ~~~~SR~~a~~lIe~g~VkVN~k~v~~~s~~v~~GDliSirG~GR~~i~~i~g~T 244 (257)
T COG2302 190 GFGLSRAKAQQLIEKGKVKVNWKVVDKASYEVQEGDLISIRGFGRLKILEINGVT 244 (257)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEECCCCCEECCCCEEEEECCCCEEEEEECCCC
T ss_conf 8765599999987737327712991266633224989998404517898625823
No 22
>PRK08402 replication factor A; Reviewed
Probab=42.42 E-value=23 Score=17.66 Aligned_cols=31 Identities=23% Similarity=0.493 Sum_probs=26.1
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 98899999999973899989999999999999
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEE 32 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~ 32 (100)
.||.++|..|+++. |+|..+++.-++.+.+.
T Consensus 4 ltkEeIiekI~~e~-G~S~eEIeekI~ei~ee 34 (357)
T PRK08402 4 LTKEEIIERIERET-GLSREEIEEEIREIMEE 34 (357)
T ss_pred CCHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_conf 22999999999872-88899999999999986
No 23
>pfam08142 AARP2CN AARP2CN (NUC121) domain. This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU.
Probab=39.48 E-value=9.7 Score=20.11 Aligned_cols=21 Identities=33% Similarity=0.529 Sum_probs=17.3
Q ss_pred HHHCCCCCCCEEEEEEEEECC
Q ss_conf 986498512034578886214
Q gi|254780748|r 36 ALANGGRVEIRGFGSFSVRKR 56 (100)
Q Consensus 36 ~L~~~~~V~i~gfGtF~~~~~ 56 (100)
.|..+.-|.|+|+|.|.+...
T Consensus 54 ~l~~n~lVHIpG~GDfqi~~I 74 (81)
T pfam08142 54 GLNANQLVHIPGVGDFQIEKI 74 (81)
T ss_pred CCCCCCEEEECCCCCEEEEEE
T ss_conf 889999898688476395475
No 24
>smart00785 AARP2CN AARP2CN (NUC121) domain. This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU PUBMED:15112237.
Probab=36.72 E-value=11 Score=19.67 Aligned_cols=21 Identities=33% Similarity=0.550 Sum_probs=17.0
Q ss_pred HHHCCCCCCCEEEEEEEEECC
Q ss_conf 986498512034578886214
Q gi|254780748|r 36 ALANGGRVEIRGFGSFSVRKR 56 (100)
Q Consensus 36 ~L~~~~~V~i~gfGtF~~~~~ 56 (100)
.|..+.-|.|+|+|.|.+...
T Consensus 56 ~l~~n~lVHIpG~GDfqi~~I 76 (83)
T smart00785 56 GLNANQLVHIPGLGDFQISKI 76 (83)
T ss_pred CCCCCCEEEECCCCCEEEEEE
T ss_conf 889999898588476395475
No 25
>TIGR00537 hemK_rel_arch methylase, putative; InterPro: IPR004557 These proteins exhibit homology to the Saccharomyces cerevisiae (yeast) ORF YDR140w (FYV9). No known function has been described for this yeast ORF though the null mutant is viable and exhibits K1 killer toxin hypersensitivity. Members of this entry are weakly related to the yeast ORF YNL063w which is a putative S-adenosyl-methionine-dependent methyltransferase . Members of this entry are found in archaeal, bacterial and eukaryotic lineages.; GO: 0008168 methyltransferase activity.
Probab=35.97 E-value=23 Score=17.74 Aligned_cols=26 Identities=35% Similarity=0.746 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 99999999999999999864985120
Q gi|254780748|r 20 QDVEKIVNMLLEEMTQALANGGRVEI 45 (100)
Q Consensus 20 ~~~~~~vd~~~~~i~~~L~~~~~V~i 45 (100)
++-..++|-|++.+-+.|+.|++|.|
T Consensus 117 kdGr~vidrFldelp~~lk~gGrv~l 142 (183)
T TIGR00537 117 KDGRKVIDRFLDELPEYLKEGGRVQL 142 (183)
T ss_pred CCCHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf 73057888887656888705998999
No 26
>TIGR02081 metW methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In Pseudomonas putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells . .
Probab=33.91 E-value=27 Score=17.31 Aligned_cols=39 Identities=23% Similarity=0.321 Sum_probs=30.4
Q ss_pred HHHHHHHH--HCCCCCCCEEEEEEEEECCCCCCEECC-CCCC
Q ss_conf 99999998--649851203457888621465410258-8988
Q gi|254780748|r 30 LEEMTQAL--ANGGRVEIRGFGSFSVRKRAARLARAP-LAQK 68 (100)
Q Consensus 30 ~~~i~~~L--~~~~~V~i~gfGtF~~~~~~~r~~rNP-~Tge 68 (100)
-+++-|.| .+.--|.|||||=+.++-.=.+.||=| -|++
T Consensus 100 ~~iL~EmLRvg~~aIVSFPNFGyW~~R~~i~~~GRMPkVt~~ 141 (205)
T TIGR02081 100 EEILDEMLRVGRRAIVSFPNFGYWRVRWSILTGGRMPKVTDE 141 (205)
T ss_pred HHHHHHHHHHCCEEEEECCCCCCHHCHHHEECCCCCCCCCCC
T ss_conf 899988776738515605887711010311107858878878
No 27
>pfam02001 DUF134 Protein of unknown function DUF134. This family of archaeal proteins has no known function.
Probab=32.82 E-value=46 Score=15.82 Aligned_cols=36 Identities=22% Similarity=0.339 Sum_probs=30.9
Q ss_pred HHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf 9973899989999999999999999986498512034
Q gi|254780748|r 11 AKKNPKLNYQDVEKIVNMLLEEMTQALANGGRVEIRG 47 (100)
Q Consensus 11 a~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~g 47 (100)
|++. ++|+.....+++.-=..|.++|.+|..+.|.|
T Consensus 59 A~~M-gVSR~Tf~ril~~ARkKvA~aLv~Gk~l~IeG 94 (100)
T pfam02001 59 AKLM-GISRRTVWRLLTSARKKIADALVEGRIIIIKG 94 (100)
T ss_pred HHHC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf 9884-97699999999999999999986798499967
No 28
>pfam01958 DUF108 Domain of unknown function DUF108. This family has no known function. It is found to compose the complete protein in archaebacteria and a single domain in a large C. elegans protein.
Probab=32.62 E-value=27 Score=17.30 Aligned_cols=27 Identities=26% Similarity=0.567 Sum_probs=21.8
Q ss_pred CCCCEE-EEEEEEECCCCCCEECCCCCC
Q ss_conf 512034-578886214654102588988
Q gi|254780748|r 42 RVEIRG-FGSFSVRKRAARLARAPLAQK 68 (100)
Q Consensus 42 ~V~i~g-fGtF~~~~~~~r~~rNP~Tge 68 (100)
+|++.| ||.|....+.---.-||+|+.
T Consensus 57 eI~~~g~~G~~~~~i~n~P~~~NPkTS~ 84 (92)
T pfam01958 57 EIEVEGDFGEFVIRVENVPSPDNPKTSA 84 (92)
T ss_pred EEEEEECCEEEEEEEECCCCCCCCCHHH
T ss_conf 9999937589999996763899983088
No 29
>PRK11426 hypothetical protein; Provisional
Probab=31.50 E-value=48 Score=15.69 Aligned_cols=39 Identities=15% Similarity=0.305 Sum_probs=34.6
Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 9999999997389998999999999999999998649851
Q gi|254780748|r 4 SSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALANGGRV 43 (100)
Q Consensus 4 ~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V 43 (100)
++-|..+|+++ ++++.++...+-.++-.+.+.|.-++.|
T Consensus 72 ~d~v~~lA~q~-G~~~~~~~~~LA~~LP~~VD~lTP~G~v 110 (132)
T PRK11426 72 TNAVSDLGQKL-GVDTSTASSLLAEQLPKIIDALSPQGEV 110 (132)
T ss_pred CHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 09999999997-9399999999999837888563989978
No 30
>PRK13301 putative L-aspartate dehydrogenase; Provisional
Probab=31.21 E-value=24 Score=17.56 Aligned_cols=19 Identities=16% Similarity=0.258 Sum_probs=6.5
Q ss_pred EEEEEEECCCCCCEECCCC
Q ss_conf 5788862146541025889
Q gi|254780748|r 48 FGSFSVRKRAARLARAPLA 66 (100)
Q Consensus 48 fGtF~~~~~~~r~~rNP~T 66 (100)
||.|+......----||+|
T Consensus 227 fg~~~~~i~n~p~~~NPkT 245 (267)
T PRK13301 227 LGEMQIELVNAPSPANPKT 245 (267)
T ss_pred CEEEEEEEECCCCCCCCCH
T ss_conf 5279999978718999833
No 31
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family; InterPro: IPR006532 The proteins contain three RNA recognition motifs and have been characterised as poly-pyrimidine tract binding proteins associated with RNA splicing factors , , . In the case of PUF60, in complex with p54, and in the presence of U2AF, it facilitates association of U2 snRNP with pre-mRNA . .
Probab=30.59 E-value=7.5 Score=20.79 Aligned_cols=40 Identities=23% Similarity=0.361 Sum_probs=34.2
Q ss_pred HCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC-EEEEEEE
Q ss_conf 738999899999999999999999864985120-3457888
Q gi|254780748|r 13 KNPKLNYQDVEKIVNMLLEEMTQALANGGRVEI-RGFGSFS 52 (100)
Q Consensus 13 ~~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i-~gfGtF~ 52 (100)
=|++||-.|++.++++|-+++...|.++-...= +|||=.+
T Consensus 249 vHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGfGFiE 289 (791)
T TIGR01645 249 VHPDLSEEDIKSVFEAFGEIVKCKLARAPTGRKHKGFGFIE 289 (791)
T ss_pred ECCCCCCCCCHHHHHHCCCCEEEEECCCCCCCCCCCCCCHH
T ss_conf 16888712121143214864023404677888854310001
No 32
>pfam08812 YtxC YtxC-like family. This family includes proteins similar to B. subtilis YtxC an uncharacterized protein.
Probab=30.07 E-value=40 Score=16.20 Aligned_cols=33 Identities=18% Similarity=0.506 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHCCCCCCCEEEEEEEEECCCCC
Q ss_conf 999999999986498512034578886214654
Q gi|254780748|r 27 NMLLEEMTQALANGGRVEIRGFGSFSVRKRAAR 59 (100)
Q Consensus 27 d~~~~~i~~~L~~~~~V~i~gfGtF~~~~~~~r 59 (100)
..+.+.+.+.|..+..+.+.||=||..+.....
T Consensus 67 ~~I~~~i~~~l~e~~~i~idgFitFRLk~y~~~ 99 (220)
T pfam08812 67 NLIIKKILEFLEENNEINIDGFVTFRLKDYLEE 99 (220)
T ss_pred HHHHHHHHHHHCCCCEEEECCCEEEEHHHHHHH
T ss_conf 999999999973599794600014512999999
No 33
>PRK13303 L-aspartate dehydrogenase; Provisional
Probab=30.05 E-value=28 Score=17.14 Aligned_cols=27 Identities=30% Similarity=0.572 Sum_probs=14.1
Q ss_pred CCCCEE-EEEEEEECCCCCCEECCCCCC
Q ss_conf 512034-578886214654102588988
Q gi|254780748|r 42 RVEIRG-FGSFSVRKRAARLARAPLAQK 68 (100)
Q Consensus 42 ~V~i~g-fGtF~~~~~~~r~~rNP~Tge 68 (100)
+|+..| ||.|..+...--..-||+|+.
T Consensus 219 ~I~v~g~~g~~~~~i~n~p~~~NPkTS~ 246 (265)
T PRK13303 219 EIEARGAFGEFEFEMSGKPLPDNPKTSA 246 (265)
T ss_pred EEEEEECCEEEEEEEECCCCCCCCCHHH
T ss_conf 9999935578999996774899983089
No 34
>KOG0599 consensus
Probab=26.42 E-value=59 Score=15.13 Aligned_cols=61 Identities=21% Similarity=0.384 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH----------------HHCCCCCCCEEEEEEEEECCCCCCEEC
Q ss_conf 988999999999738999899999999999999999----------------864985120345788862146541025
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQA----------------LANGGRVEIRGFGSFSVRKRAARLARA 63 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~----------------L~~~~~V~i~gfGtF~~~~~~~r~~rN 63 (100)
|-|-||-.-+..+- .+|.+++..++..+|+.+.-- |.++.+|.|.+|| |.+..-+..+-|+
T Consensus 105 ~prGELFDyLts~V-tlSEK~tR~iMrqlfegVeylHa~~IVHRDLKpENILlddn~~i~isDFG-Fa~~l~~GekLre 181 (411)
T KOG0599 105 MPRGELFDYLTSKV-TLSEKETRRIMRQLFEGVEYLHARNIVHRDLKPENILLDDNMNIKISDFG-FACQLEPGEKLRE 181 (411)
T ss_pred CCCCHHHHHHHHHE-EECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEECCCCCEEEECCC-EEECCCCCHHHHH
T ss_conf 34512887754314-41178899999999999999987434422368645643156635873254-0212687416888
No 35
>pfam06831 H2TH Formamidopyrimidine-DNA glycosylase H2TH domain. Formamidopyrimidine-DNA glycosylase (Fpg) is a DNA repair enzyme that excises oxidized purines from damaged DNA. This family is the central domain containing the DNA-binding helix-two turn-helix domain.
Probab=26.11 E-value=60 Score=15.09 Aligned_cols=33 Identities=24% Similarity=0.467 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEE
Q ss_conf 8999899999999999999999864985120345
Q gi|254780748|r 15 PKLNYQDVEKIVNMLLEEMTQALANGGRVEIRGF 48 (100)
Q Consensus 15 ~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i~gf 48 (100)
..++..+++.+.+..-.++.+++..|+ -.|++|
T Consensus 60 ~~Ls~~~~~~L~~~i~~vl~~ai~~gG-tti~dy 92 (93)
T pfam06831 60 SSLSKKECEALHTVIKDVLQKAIEMGG-GGIRTF 92 (93)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCC-CCCCCC
T ss_conf 619999999999999999999999499-973018
No 36
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase; InterPro: IPR000191 Formamidopyrimidine-DNA glycosylase (3.2.2.23 from EC) (Fapy-DNA glycosylase) (gene fpg) is a bacterial enzyme involved in DNA repair and which excise oxidized purine bases to release 2,6-diamino-4-hydroxy-5N-methylformamido- pyrimidine (Fapy) and 7,8-dihydro-8-oxoguanine (8-OxoG) residues. In addition to its glycosylase activity, FPG can also nick DNA at apurinic/apyrimidinic sites (AP sites). FPG is a monomeric protein of about 32 Kd which binds and require zinc for its activity. The C-terminal region is the zinc binding site in the enzyme where four conserved and essential cysteines are located ..
Probab=25.39 E-value=61 Score=15.01 Aligned_cols=27 Identities=22% Similarity=0.439 Sum_probs=25.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 999899999999999999999864985
Q gi|254780748|r 16 KLNYQDVEKIVNMLLEEMTQALANGGR 42 (100)
Q Consensus 16 ~ls~~~~~~~vd~~~~~i~~~L~~~~~ 42 (100)
.|+.++++.+.+.+.++|.+++..|+.
T Consensus 205 ~L~~~~~~~L~~~i~~vL~~Aie~GGt 231 (292)
T TIGR00577 205 QLSKEECELLHKAIKEVLRKAIEAGGT 231 (292)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 158889999999999999999864897
No 37
>PRK00188 trpD anthranilate phosphoribosyltransferase; Provisional
Probab=24.82 E-value=63 Score=14.94 Aligned_cols=29 Identities=14% Similarity=0.395 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 988999999999738999899999999999
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNMLL 30 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~~ 30 (100)
|+=.++|.++.+. .+||+.++..+++.++
T Consensus 1 M~~~~~i~k~~~g-~~Lt~eEa~~~~~~i~ 29 (339)
T PRK00188 1 MTMKELLNKLLEG-EDLSEEEAEELMDQIM 29 (339)
T ss_pred CCHHHHHHHHHCC-CCCCHHHHHHHHHHHH
T ss_conf 9879999999769-9979999999999998
No 38
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=24.31 E-value=64 Score=14.88 Aligned_cols=35 Identities=26% Similarity=0.452 Sum_probs=28.2
Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 999999999738999899999999999999999864
Q gi|254780748|r 4 SSLIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALAN 39 (100)
Q Consensus 4 ~eli~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~ 39 (100)
++|+..+.++ +.++..++++++|.+...+..+=..
T Consensus 27 ~klvDelVkk-Geln~eEak~~vddl~~q~k~~~~e 61 (108)
T COG3937 27 QKLVDELVKK-GELNAEEAKRFVDDLLRQAKEAQGE 61 (108)
T ss_pred HHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999982-7878999999999999998987602
No 39
>PRK13304 L-aspartate dehydrogenase; Reviewed
Probab=23.53 E-value=41 Score=16.14 Aligned_cols=21 Identities=24% Similarity=0.455 Sum_probs=11.4
Q ss_pred EEEEEEECCCCCCEECCCCCC
Q ss_conf 578886214654102588988
Q gi|254780748|r 48 FGSFSVRKRAARLARAPLAQK 68 (100)
Q Consensus 48 fGtF~~~~~~~r~~rNP~Tge 68 (100)
||.|......-----||+|+.
T Consensus 224 ~g~~~~~i~n~p~~~NPkTS~ 244 (265)
T PRK13304 224 FGTFKTRVENVPCPDNPKTSA 244 (265)
T ss_pred CEEEEEEEECCCCCCCCCHHH
T ss_conf 516999996660889984089
No 40
>TIGR00264 TIGR00264 alpha-NAC homolog; InterPro: IPR005231 Eukaryotic NAC, an abundant heterodimer composed of two homologous subunits, reversibly binds eukaryotic ribosomes and is located in direct proximity to nascent polypeptides as they emerge from the ribosome . Despite being implicated in diverse cellular functions, its role in vivo is still not completely understood. It is thought that NAC may function as a shield protecting the nascent chain from inappropriate interactions with cytosolic factors, and could regulate further translation of the polypeptide through its interaction with the ribosome. Archaeal NAC is a homodimer which appears to be functionally analogous to the eukaryotic form, associating with ribosomes and contacting the nascent polypeptide chain emerging on the ribosome . It has two domains; the NAC domain, which it shares with eukaryotic NAC, and a C-terminal UBA domain also found on the alpha, but not beta, subunit of eukaryotic NAC. The NAC domain forms a six-stranded beta-barrel structure which shows some similarities to the OB fold. This domain appears to be responsible for dimerisation, nucleic acid binding, and nascent polypeptide binding. The UBA domain is typical of ubiquitin or polyubquitin-binding proteins; its physiological role is unclear but it was suggested that it may compete with the proteosome for ubiquitin, thus inhibiting ubiquitin-mediated protein degradation. .
Probab=23.26 E-value=67 Score=14.76 Aligned_cols=33 Identities=6% Similarity=0.187 Sum_probs=26.3
Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 9999999738999899999999999999999864
Q gi|254780748|r 6 LIGTIAKKNPKLNYQDVEKIVNMLLEEMTQALAN 39 (100)
Q Consensus 6 li~~ia~~~~~ls~~~~~~~vd~~~~~i~~~L~~ 39 (100)
=|+.|++++ |.|+.+|.++++.--.=|.++|.+
T Consensus 90 DieLvm~Q~-nvs~E~ArrALeE~gGDlAEAimk 122 (125)
T TIGR00264 90 DIELVMEQA-NVSKEEARRALEEAGGDLAEAIMK 122 (125)
T ss_pred HHHHHHHHC-CCCHHHHHHHHHHCCCHHHHHHHH
T ss_conf 799999765-999889899986318518889875
No 41
>TIGR01420 pilT_fam twitching motility protein; InterPro: IPR006321 These represent the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction . Members of this family may be found in some species that do not have type IV pili but have related structures for DNA uptake and natural transformation. ; GO: 0005524 ATP binding, 0006810 transport.
Probab=22.82 E-value=57 Score=15.20 Aligned_cols=64 Identities=19% Similarity=0.329 Sum_probs=47.6
Q ss_pred CCCCCHHHHHHHHHHHHH----HHHHHHHCCC----CCCCEEEEEEEEECCCCCCEECCCCCCEEEECCCCEEEEC
Q ss_conf 389998999999999999----9999986498----5120345788862146541025889888994687346762
Q gi|254780748|r 14 NPKLNYQDVEKIVNMLLE----EMTQALANGG----RVEIRGFGSFSVRKRAARLARAPLAQKVISVEEKMVPFFR 81 (100)
Q Consensus 14 ~~~ls~~~~~~~vd~~~~----~i~~~L~~~~----~V~i~gfGtF~~~~~~~r~~rNP~Tge~i~i~~~~~v~Fk 81 (100)
.+-|+..++..++..+++ .-.+.+.+.. .+.++|+|+|.+-....|-+. +-.+.+=|.+++.|.
T Consensus 39 ~~plt~~~~~~l~~~~l~~th~~~~~~f~~~~E~Dfs~~~~~~~RfRvN~f~QRg~~----a~vlR~ip~~Ip~fe 110 (350)
T TIGR01420 39 FEPLTPEDTQKLLREILSSTHEKQREEFEENGELDFSFSLPGLARFRVNAFKQRGGV----ALVLRLIPSKIPTFE 110 (350)
T ss_pred CCCCCHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCEEEEECCCCEEEEHHHHHCCHH----HHHHHHCCCCCCCHH
T ss_conf 789898999999998638456577750565066444663067322122032350006----423231153462166
No 42
>pfam02885 Glycos_trans_3N Glycosyl transferase family, helical bundle domain. This family includes anthranilate phosphoribosyltransferase (TrpD), thymidine phosphorylase. All these proteins can transfer a phosphorylated ribose substrate.
Probab=22.59 E-value=70 Score=14.67 Aligned_cols=27 Identities=15% Similarity=0.409 Sum_probs=21.6
Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 9999999997389998999999999999
Q gi|254780748|r 4 SSLIGTIAKKNPKLNYQDVEKIVNMLLE 31 (100)
Q Consensus 4 ~eli~~ia~~~~~ls~~~~~~~vd~~~~ 31 (100)
.++|+++.+. .+|+..++..+++.+++
T Consensus 3 ~~~l~kl~~g-~~Ls~~e~~~~~~~i~~ 29 (66)
T pfam02885 3 KELIKKLLRG-EDLSREEAEALMDAIMS 29 (66)
T ss_pred HHHHHHHHCC-CCCCHHHHHHHHHHHHC
T ss_conf 9999999859-99799999999999986
No 43
>PRK13302 putative L-aspartate dehydrogenase; Provisional
Probab=21.58 E-value=53 Score=15.45 Aligned_cols=26 Identities=19% Similarity=0.362 Sum_probs=15.9
Q ss_pred CCCCEE-EEEEEEECCCCCCEECCCCCC
Q ss_conf 512034-578886214654102588988
Q gi|254780748|r 42 RVEIRG-FGSFSVRKRAARLARAPLAQK 68 (100)
Q Consensus 42 ~V~i~g-fGtF~~~~~~~r~~rNP~Tge 68 (100)
+|+..| ||.|.+....-- .-||+|+.
T Consensus 224 ~I~v~g~~g~~~~~i~n~p-s~NPkTS~ 250 (271)
T PRK13302 224 RIEVDADSARFSMTIENIP-SENPKTGR 250 (271)
T ss_pred EEEEEEEEEEEEEEEEECC-CCCCCCHH
T ss_conf 9999941289999998578-88982089
No 44
>PRK07738 flagellar protein FlaG; Provisional
Probab=21.07 E-value=42 Score=16.04 Aligned_cols=61 Identities=13% Similarity=0.195 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC-EEEEEEEEECCCCCCEECCCCCCEE-EECCCCEEEEC
Q ss_conf 38999899999999999999999864985120-3457888621465410258898889-94687346762
Q gi|254780748|r 14 NPKLNYQDVEKIVNMLLEEMTQALANGGRVEI-RGFGSFSVRKRAARLARAPLAQKVI-SVEEKMVPFFR 81 (100)
Q Consensus 14 ~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i-~gfGtF~~~~~~~r~~rNP~Tge~i-~i~~~~~v~Fk 81 (100)
...+|+.+.+++++.+-+.+.. +..+=++.+ ...|.+.|+ ..+..|||.| .||+...+.+-
T Consensus 36 ~~evskeeLeeaV~kLN~~l~~-~~~~l~F~~~e~~~~~~Vk------VvD~~T~eVIReIPpEe~Ld~~ 98 (113)
T PRK07738 36 TTEVSKEDLEETVDGMNELLEP-SQTHLKFELHEKLNEYYVK------VVDNRTNEVVREIPPKKLLDMY 98 (113)
T ss_pred CCCCCHHHHHHHHHHHHHHHHH-CCCCEEEEEECCCCCEEEE------EEECCCCHHHHHCCCHHHHHHH
T ss_conf 2666999999999999999972-2775389982566848999------9978863788978809999999
No 45
>KOG3314 consensus
Probab=21.03 E-value=75 Score=14.47 Aligned_cols=21 Identities=19% Similarity=0.284 Sum_probs=16.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHH
Q ss_conf 389998999999999999999
Q gi|254780748|r 14 NPKLNYQDVEKIVNMLLEEMT 34 (100)
Q Consensus 14 ~~~ls~~~~~~~vd~~~~~i~ 34 (100)
+++.|+..++++||.+|+.-.
T Consensus 164 npncSke~Akk~veeV~dSCf 184 (194)
T KOG3314 164 NPNCSKEAAKKAVEEVWDSCF 184 (194)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
T ss_conf 997259999999999999874
No 46
>KOG0444 consensus
Probab=20.87 E-value=75 Score=14.45 Aligned_cols=55 Identities=22% Similarity=0.420 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHH---HHHHHHHHHCCC-CCCCEE--EEEEEEEC
Q ss_conf 98899999999973899989999999999---999999986498-512034--57888621
Q gi|254780748|r 1 MIKSSLIGTIAKKNPKLNYQDVEKIVNML---LEEMTQALANGG-RVEIRG--FGSFSVRK 55 (100)
Q Consensus 1 MtK~eli~~ia~~~~~ls~~~~~~~vd~~---~~~i~~~L~~~~-~V~i~g--fGtF~~~~ 55 (100)
|+|.||.+..-.+.+.++..+++++.+.. ++.|..-+.+|+ -|.|+. ||.|.+-.
T Consensus 863 ~mraDLaALFlpRQp~MslaEaEqLmEewNyDLe~ME~FVLEgKKFvrLPeeEfG~FYT~d 923 (1255)
T KOG0444 863 MMRADLAALFLPRQPSMSLAEAEQLMEEWNYDLELMESFVLEGKKFVRLPEEEFGIFYTMD 923 (1255)
T ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHCCCHHCCCCHHHHCEEECCC
T ss_conf 6677789873678999775789999998440278788885547601118879928353053
No 47
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.56 E-value=68 Score=14.73 Aligned_cols=32 Identities=22% Similarity=0.416 Sum_probs=27.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 38999899999999999999999864985120
Q gi|254780748|r 14 NPKLNYQDVEKIVNMLLEEMTQALANGGRVEI 45 (100)
Q Consensus 14 ~~~ls~~~~~~~vd~~~~~i~~~L~~~~~V~i 45 (100)
.++||..+-...|+.+.+.|.+.+..|+.+.|
T Consensus 5 lp~LtHeqQQ~AVE~Iq~lMaeGmSsGEAIa~ 36 (60)
T COG3140 5 LPSLTHEQQQKAVERIQELMAEGMSSGEAIAL 36 (60)
T ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf 55556799999999999999811440069999
No 48
>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic; InterPro: IPR005787 Serine and threonine dehydratases , are functionally and structurally related pyridoxal-phosphate dependent enzymes. L-serine dehydratase () and D-serine dehydratase () catalyze the dehydratation of L-serine (respectively D-serine) into ammonia and pyruvate. Threonine dehydratase () (TDH) catalyzes the dehydratation of threonine into alpha-ketobutarate and ammonia. In Escherichia coli and other microorganisms, two classes of TDH are known to exist. One is involved in the biosynthesis of isoleucine, the other in hydroxamino acid catabolism. Threonine synthase () is also a pyridoxal-phosphate enzyme, it catalyzes the transformation of homoserine-phosphate into threonine. It has been shown that threonine synthase is distantly related to the serine/threonine dehydratases. In all these enzymes, the pyridoxal-phosphate group is attached to a lysine residue. This family describes a form of threonine dehydratase, with two copies of the threonine dehydratase C-terminal domain IPR001721 from INTERPRO. Members with known function participate in isoleucine biosynthesis and are inhibited by isoleucine.; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process.
Probab=20.12 E-value=72 Score=14.59 Aligned_cols=23 Identities=35% Similarity=0.628 Sum_probs=20.6
Q ss_pred HHHHHHHHHCCCCCCCEEEEEEE
Q ss_conf 99999998649851203457888
Q gi|254780748|r 30 LEEMTQALANGGRVEIRGFGSFS 52 (100)
Q Consensus 30 ~~~i~~~L~~~~~V~i~gfGtF~ 52 (100)
-+.|..+|..|+.|.|...|-|.
T Consensus 206 S~am~~sL~AG~~V~L~~VGlFa 228 (508)
T TIGR01124 206 SDAMKQSLEAGERVDLDQVGLFA 228 (508)
T ss_pred HHHHHHHHHCCCCCCCCCCCEEE
T ss_conf 99999998568811377110342
Done!