Query gi|254780547|ref|YP_003064960.1| OmpA/MotB [Candidatus Liberibacter asiaticus str. psy62] Match_columns 160 No_of_seqs 126 out of 4755 Neff 8.2 Searched_HMMs 39220 Date Sun May 29 22:30:04 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780547.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK09967 putative outer membra 100.0 1.2E-40 2.8E-45 256.0 12.4 154 1-154 1-158 (160) 2 TIGR02802 Pal_lipo peptidoglyc 100.0 2.8E-41 1.4E-45 259.6 8.1 103 51-153 1-104 (104) 3 PRK10802 peptidoglycan-associa 100.0 2.7E-39 6.9E-44 248.1 13.6 105 49-153 68-173 (173) 4 PRK10510 putative outer membra 100.0 2.6E-37 6.6E-42 236.6 11.8 106 49-154 111-217 (219) 5 COG2885 OmpA Outer membrane pr 100.0 4.9E-36 1.2E-40 229.2 10.1 111 45-155 78-189 (190) 6 PRK10808 outer membrane protei 100.0 2.3E-33 5.8E-38 213.7 10.3 111 47-157 221-343 (347) 7 PRK09038 flagellar motor prote 100.0 5.9E-31 1.5E-35 199.8 8.1 106 48-153 135-244 (285) 8 cd07185 OmpA_C-like Peptidogly 100.0 3E-30 7.6E-35 195.7 9.3 104 50-153 2-106 (106) 9 TIGR03350 type_VI_ompA type VI 100.0 3.4E-30 8.7E-35 195.3 8.5 113 41-153 21-137 (137) 10 PRK06742 flagellar motor prote 100.0 5.4E-29 1.4E-33 188.4 9.5 106 49-154 114-224 (225) 11 PRK09040 hypothetical protein; 100.0 6.1E-29 1.6E-33 188.1 9.0 108 47-154 86-203 (215) 12 PRK06925 flagellar motor prote 100.0 1.2E-28 3.1E-33 186.4 8.4 107 48-154 116-227 (230) 13 PRK07734 motB flagellar motor 100.0 3.1E-28 7.8E-33 184.0 9.3 107 48-154 140-252 (259) 14 PRK08944 motB flagellar motor 100.0 4E-28 1E-32 183.4 9.1 108 50-157 182-294 (305) 15 PRK08126 hypothetical protein; 99.9 1.9E-27 5E-32 179.4 10.7 103 52-154 321-427 (428) 16 PRK08457 motB flagellar motor 99.9 7.5E-28 1.9E-32 181.8 7.5 106 47-155 116-228 (251) 17 PRK07033 hypothetical protein; 99.9 4.6E-27 1.2E-31 177.2 11.2 107 52-158 318-428 (429) 18 PRK09039 hypothetical protein; 99.9 3.6E-27 9.3E-32 177.8 8.8 106 49-154 223-341 (343) 19 PRK06667 motB flagellar motor 99.9 4.8E-27 1.2E-31 177.1 9.3 105 50-154 127-241 (254) 20 COG1360 MotB Flagellar motor p 99.9 2E-26 5E-31 173.6 9.3 105 50-154 132-241 (244) 21 pfam00691 OmpA OmpA family. Th 99.9 3.1E-25 7.9E-30 166.6 8.0 95 53-147 1-97 (97) 22 PRK09041 motB flagellar motor 99.9 8.4E-24 2.2E-28 158.3 9.1 100 52-153 168-273 (317) 23 PRK06778 hypothetical protein; 99.9 7.1E-24 1.8E-28 158.7 8.2 100 52-153 154-257 (289) 24 PRK05996 motB flagellar motor 99.9 3.4E-21 8.6E-26 143.3 9.4 103 52-156 324-430 (431) 25 PRK12799 motB flagellar motor 99.8 5.1E-19 1.3E-23 130.6 9.2 102 51-154 157-264 (424) 26 PRK07034 hypothetical protein; 99.6 2.2E-15 5.5E-20 109.6 7.1 104 51-154 386-503 (565) 27 PRK10834 hypothetical protein; 93.7 0.11 2.7E-06 30.4 4.2 119 1-130 1-123 (239) 28 pfam09476 Pilus_CpaD Pilus bio 91.1 1.3 3.3E-05 24.1 7.9 77 55-136 45-122 (200) 29 PRK13731 conjugal transfer sur 82.5 1.4 3.7E-05 23.8 3.2 27 1-27 1-27 (243) 30 TIGR02522 pilus_cpaD pilus (Ca 81.2 4.7 0.00012 20.8 9.4 76 50-130 45-121 (211) 31 PRK11087 hypothetical protein; 77.3 5.2 0.00013 20.6 4.7 32 1-32 1-33 (238) 32 COG5461 Type IV pili component 75.7 6.9 0.00018 19.9 9.3 72 52-130 55-129 (224) 33 pfam00543 P-II Nitrogen regula 73.6 7 0.00018 19.8 4.5 54 103-156 7-65 (102) 34 PRK10533 putative lipoprotein; 72.4 7.4 0.00019 19.7 4.4 76 1-76 1-78 (171) 35 PRK10665 nitrogen regulatory p 69.1 9.9 0.00025 19.0 4.8 54 103-156 10-68 (112) 36 PRK11917 bifunctional adhesin/ 69.0 5.7 0.00014 20.4 3.2 24 1-24 1-24 (259) 37 PRK13289 nitric oxide dioxygen 62.9 5.5 0.00014 20.4 2.2 29 106-134 370-398 (399) 38 PRK03002 prsA peptidylprolyl i 61.3 8.2 0.00021 19.4 2.8 24 1-24 1-24 (285) 39 pfam02698 DUF218 DUF218 domain 60.3 15 0.00038 18.0 4.6 59 62-128 12-71 (148) 40 KOG0524 consensus 60.1 13 0.00033 18.3 3.7 68 76-157 232-299 (359) 41 PRK11063 metQ DL-methionine tr 57.8 16 0.00042 17.7 6.5 89 1-89 3-109 (271) 42 cd07762 CYTH-like_Pase_1 Uncha 57.3 16 0.00041 17.7 3.8 86 49-156 29-127 (180) 43 PRK02998 prsA peptidylprolyl i 55.9 9.4 0.00024 19.1 2.4 24 1-24 1-25 (283) 44 TIGR00972 3a0107s01c2 phosphat 55.5 16 0.00042 17.7 3.6 53 49-115 163-215 (248) 45 COG4116 Uncharacterized protei 54.3 5 0.00013 20.7 0.7 71 50-127 35-118 (193) 46 COG1908 FrhD Coenzyme F420-red 53.0 20 0.0005 17.2 5.2 52 74-126 48-100 (132) 47 cd06184 flavohem_like_fad_nad_ 52.7 13 0.00032 18.3 2.6 29 103-131 218-246 (247) 48 pfam06925 MGDG_synth Monogalac 47.4 12 0.00031 18.5 1.8 23 106-128 145-167 (169) 49 PRK10494 hypothetical protein; 43.7 28 0.0007 16.4 4.8 62 58-127 98-160 (259) 50 PRK03095 prsA peptidylprolyl i 42.9 22 0.00055 17.0 2.6 20 1-22 1-20 (287) 51 PRK10684 HCP oxidoreductase, N 42.0 24 0.00062 16.7 2.7 32 107-138 217-248 (335) 52 PRK01326 prsA foldase protein 41.5 27 0.00068 16.5 2.9 24 1-24 1-24 (310) 53 pfam02662 FlpD Methyl-viologen 40.1 26 0.00067 16.5 2.6 57 72-129 45-102 (124) 54 COG1735 Php Predicted metal-de 38.8 33 0.00084 15.9 4.9 66 51-129 136-201 (316) 55 pfam04954 SIP Siderophore-inte 38.4 26 0.00066 16.5 2.4 26 104-129 89-115 (118) 56 PRK06193 hypothetical protein; 38.3 34 0.00086 15.9 8.0 81 1-81 1-99 (211) 57 PRK09859 multidrug efflux syst 37.9 34 0.00087 15.9 3.5 23 1-23 1-23 (385) 58 pfam00123 Hormone_2 Peptide ho 36.6 20 0.0005 17.2 1.5 28 88-115 1-28 (28) 59 cd06185 PDR_like Phthalate dio 36.6 26 0.00065 16.6 2.1 25 105-129 187-211 (211) 60 smart00070 GLUCA Glucagon like 36.4 19 0.00049 17.3 1.4 27 88-114 1-27 (27) 61 pfam01187 MIF Macrophage migra 35.8 37 0.00094 15.7 8.0 74 54-127 5-98 (114) 62 PRK09585 anmK anhydro-N-acetyl 35.8 37 0.00094 15.7 3.2 32 97-128 65-96 (366) 63 COG4195 Phage-related replicat 35.0 31 0.0008 16.1 2.4 80 76-158 96-187 (208) 64 TIGR02544 III_secr_YscJ type I 35.0 32 0.00081 16.0 2.4 20 108-127 174-195 (203) 65 PRK05363 putative sulfite oxid 34.7 38 0.00098 15.6 6.1 53 38-98 72-124 (327) 66 PRK10858 nitrogen regulatory p 34.5 39 0.00099 15.5 4.4 53 103-155 10-67 (112) 67 PRK05421 hypothetical protein; 33.8 40 0.001 15.5 4.6 58 51-121 147-204 (254) 68 KOG0739 consensus 33.6 40 0.001 15.4 5.1 99 51-153 192-298 (439) 69 COG4472 Uncharacterized protei 33.1 41 0.001 15.4 3.0 68 50-119 6-87 (88) 70 pfam09961 DUF2195 Uncharacteri 32.8 32 0.00082 16.0 2.1 57 94-158 63-119 (121) 71 cd01525 RHOD_Kc Member of the 32.7 42 0.0011 15.4 2.7 64 46-123 31-95 (105) 72 PRK07609 CDP-6-deoxy-delta-3,4 32.0 35 0.00088 15.8 2.2 26 106-131 309-334 (337) 73 cd06189 flavin_oxioreductase N 31.7 28 0.00072 16.3 1.7 24 105-128 201-224 (224) 74 cd06213 oxygenase_e_transfer_s 31.3 34 0.00087 15.9 2.0 24 105-128 204-227 (227) 75 cd06211 phenol_2-monooxygenase 31.0 35 0.00089 15.8 2.1 23 106-128 216-238 (238) 76 pfam01764 Lipase_3 Lipase (cla 30.6 45 0.0012 15.1 6.3 58 69-139 50-109 (141) 77 cd06212 monooxygenase_like The 30.1 36 0.00091 15.7 2.0 24 105-128 208-231 (232) 78 pfam08085 Entericidin Enterici 29.8 47 0.0012 15.1 2.5 24 1-24 1-24 (42) 79 cd06209 BenDO_FAD_NAD Benzoate 29.6 40 0.001 15.4 2.2 24 105-128 204-227 (228) 80 cd06194 FNR_N-term_Iron_sulfur 28.7 40 0.001 15.4 2.1 24 105-128 198-221 (222) 81 PRK11872 antC anthranilate dio 28.1 48 0.0012 15.0 2.4 26 106-131 313-338 (340) 82 PRK13609 diacylglycerol glucos 27.8 51 0.0013 14.9 3.7 48 107-158 156-213 (388) 83 COG3672 Predicted transglutami 27.1 52 0.0013 14.8 8.6 71 55-125 60-133 (191) 84 PRK12701 flgH flagellar basal 26.8 53 0.0013 14.8 3.5 22 1-22 1-22 (230) 85 TIGR02074 PBP_1a_fam penicilli 26.5 54 0.0014 14.7 3.0 60 51-124 123-183 (700) 86 cd00474 SUI1_eIF1 The SUI1/eIF 26.1 42 0.0011 15.4 1.8 49 66-125 25-76 (77) 87 TIGR01270 Trp_5_monoox tryptop 26.1 54 0.0014 14.7 3.4 54 18-79 403-456 (499) 88 PRK13799 unknown domain/N-carb 25.9 55 0.0014 14.7 7.1 77 59-135 207-308 (591) 89 cd00519 Lipase_3 Lipase (class 25.8 55 0.0014 14.7 6.0 56 71-140 117-173 (229) 90 PHA00691 hypothetical protein 25.7 55 0.0014 14.6 2.5 40 76-117 18-61 (68) 91 cd06210 MMO_FAD_NAD_binding Me 25.6 49 0.0013 14.9 2.0 23 106-128 213-235 (236) 92 cd06198 FNR_like_3 NAD(P) bind 24.9 53 0.0013 14.8 2.1 25 104-128 191-215 (216) 93 cd06217 FNR_iron_sulfur_bindin 24.6 53 0.0014 14.8 2.1 25 104-128 211-235 (235) 94 cd06191 FNR_iron_sulfur_bindin 24.6 56 0.0014 14.6 2.2 23 106-128 209-231 (231) 95 cd06187 O2ase_reductase_like T 24.3 54 0.0014 14.7 2.1 25 104-128 200-224 (224) 96 cd06215 FNR_iron_sulfur_bindin 24.3 58 0.0015 14.5 2.2 25 104-128 207-231 (231) 97 cd06214 PA_degradation_oxidore 24.2 53 0.0014 14.7 2.0 23 106-128 218-240 (241) 98 PRK01741 cell division protein 24.0 45 0.0012 15.1 1.6 21 1-21 1-21 (342) 99 PRK05464 Na(+)-translocating N 23.6 48 0.0012 15.0 1.7 23 107-129 385-407 (408) 100 pfam12000 DUF3495 Domain of un 22.4 64 0.0016 14.3 3.3 50 83-132 21-80 (172) 101 pfam11713 Peptidase_C80 Peptid 22.4 64 0.0016 14.3 4.5 46 78-127 55-111 (160) 102 PRK06437 hypothetical protein; 22.0 65 0.0017 14.2 3.4 48 81-138 3-50 (67) 103 cd06193 siderophore_interactin 21.6 67 0.0017 14.2 2.4 24 105-128 209-233 (235) 104 PRK10523 lipoprotein involved 21.3 68 0.0017 14.1 3.6 28 1-28 1-28 (234) 105 KOG4569 consensus 20.9 69 0.0018 14.1 7.0 55 70-137 159-215 (336) 106 COG1348 NifH Nitrogenase subun 20.5 61 0.0016 14.4 1.7 29 86-114 140-168 (278) 107 TIGR01854 lipid_A_lpxH UDP-2,3 20.5 42 0.0011 15.3 0.9 21 71-91 184-204 (241) 108 pfam03702 UPF0075 Uncharacteri 20.4 71 0.0018 14.0 3.3 34 101-134 265-298 (363) 109 TIGR01618 phage_P_loop phage n 20.3 71 0.0018 14.0 4.0 78 69-147 127-213 (229) 110 cd06196 FNR_like_1 Ferredoxin 20.1 62 0.0016 14.3 1.7 20 106-125 198-217 (218) No 1 >PRK09967 putative outer membrane lipoprotein; Provisional Probab=100.00 E-value=1.2e-40 Score=255.95 Aligned_cols=154 Identities=18% Similarity=0.281 Sum_probs=128.5 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCCC--CCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCC Q ss_conf 90369999999999986502456666656--6554444201256787520310022047522432479999999843025 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTKIS--SPDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEK 78 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~ 78 (160) |.++.+..++.++.+++.|........+. ..........+.+++...+++.|||+||++.|+|+++..|++++.+|++ T Consensus 1 m~k~~~~~~l~~~l~lsgC~s~~~~~t~~~~~~~~~~~~~~t~~~~~~g~~d~V~Fd~d~~~L~~~s~~~L~~~A~~L~~ 80 (160) T PRK09967 1 MIKHLVAPLIFTSLILTGCQSPQGKFTPEQVAAMQSYGFTESAGDWSLGLSDAILFAKNDYKLLPESQQQIQTMAAKLAS 80 (160) T ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEECCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 90789999999999998458999998989988887437522354314489983792699501199899999999999997 Q ss_pred CE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCC-CCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 60-5899997226653333200111337999999998528-9860699997074489899878779842991899997 Q gi|254780547|r 79 HD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARG-ISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 79 ~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~G-i~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) ++ .+|.|+||||++|+++||+.||++||++|++||+..| |+++||.++|||+++|+++|++++||++||||||+|. T Consensus 81 ~p~~~v~I~GHTD~~G~~~yN~~LS~rRA~aV~~~l~~~g~i~~~ri~~~g~Ge~~Pv~~n~t~~gra~NRRVeivit 158 (160) T PRK09967 81 TGLTHARMDGHTDNYGEDSYNEGLSLKRANVVADAWAMGGQIPRSNLTTQGLGKKYPIASNKTAQGRAENRRVAVVIT 158 (160) T ss_pred CCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 899629998747998998999999999999999999853785443589996465673889969899987699899983 No 2 >TIGR02802 Pal_lipo peptidoglycan-associated lipoprotein; InterPro: IPR014169 Members in this entry represent the peptidoglycan-associated lipoprotein (Pal or OprL) protein of the Tol-Pal system. The system appears to be involved both in the maintenance of outer membrane integrity and in the import of certain organic molecules as nutrients. Members of this family contain a hydrodrophobic lipoprotein signal sequence, a conserved N-terminal cleavage and modification site, a poorly conserved low-complexity region, together comprising about 65 amino acids, and a well-conserved C-terminal domain. The entry represents only the conserved C-terminal domain.. Probab=100.00 E-value=2.8e-41 Score=259.55 Aligned_cols=103 Identities=45% Similarity=0.734 Sum_probs=99.9 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEC Q ss_conf 002204752243247999999984302560-5899997226653333200111337999999998528986069999707 Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYG 129 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G 129 (160) .|||+||++.|++++++.|+..|.||++|| .+|.|+||||++||+|||++|+++||+||++||+..||+++||++++|| T Consensus 1 ~vyF~~D~~~l~~e~~~~l~~hA~~L~~~p~~~V~iEGH~DERGTrEYNlALGeRRA~AV~~yL~~~GV~~~q~~~vSYG 80 (104) T TIGR02802 1 RVYFDFDSSDLKSEAQAILDAHAQYLKKNPSVRVTIEGHTDERGTREYNLALGERRANAVKDYLQAKGVSASQIETVSYG 80 (104) T ss_pred CEECCCCHHHCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECC T ss_conf 94323581431779999999989999867993788863078888877777788999999999999738961100463026 Q ss_pred CCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 448989987877984299189999 Q gi|254780547|r 130 KEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 130 ~~~P~~~~~~~~~~~~NRRVei~i 153 (160) |++|++.++||++|+|||||+|++ T Consensus 81 kErP~~~G~~E~~wakNRR~~~vy 104 (104) T TIGR02802 81 KERPAALGHDEAAWAKNRRAVLVY 104 (104) T ss_pred CCCCCCCCCCHHHHHHCCCCCCCC T ss_conf 656877898857775405310049 No 3 >PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional Probab=100.00 E-value=2.7e-39 Score=248.07 Aligned_cols=105 Identities=45% Similarity=0.736 Sum_probs=100.7 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHCCC-EEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEE Q ss_conf 3100220475224324799999998430256-058999972266533332001113379999999985289860699997 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTS 127 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~-~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g 127 (160) .+.|||+||+++|+++++..|+.++.||+.| ..+|.|+||||++|+++||+.||++||++|++||+..||+++||+++| T Consensus 68 ~~~vyFdfd~~~l~~~~~~~L~~~a~~L~~~p~~~v~i~GhtD~~Gt~eYN~~Ls~rRA~aV~~yL~~~GV~~~ri~~vs 147 (173) T PRK10802 68 NNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADERGTPEYNISLGERRANAVKMYLQGKGVSADQISIVS 147 (173) T ss_pred CCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEE T ss_conf 99799158852169989999999999999889917999874699884999999999999999999998499989968987 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 07448989987877984299189999 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) |||++|++.++++++|++||||||+. T Consensus 148 yGee~P~~~~~~e~~~~~NRR~~~vY 173 (173) T PRK10802 148 YGKEKPAVLGHDEAAYAKNRRAVLVY 173 (173) T ss_pred ECCCCCCCCCCCHHHHHHCCCEEEEC T ss_conf 66657689893988998769778869 No 4 >PRK10510 putative outer membrane lipoprotein; Provisional Probab=100.00 E-value=2.6e-37 Score=236.57 Aligned_cols=106 Identities=26% Similarity=0.415 Sum_probs=101.6 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEE Q ss_conf 31002204752243247999999984302560-58999972266533332001113379999999985289860699997 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLEKHD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTS 127 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g 127 (160) +..|+|++||+.|+|+++..|+.++.+|++++ .+|.|+||||++|+++||+.||++||++|++||+++||+++||.+.| T Consensus 111 p~~I~F~~dsa~l~p~~~~~L~~vA~~L~~yp~~~V~I~GHTD~~G~~~yN~~LS~~RA~aV~~yL~~~GV~~~Ri~~~G 190 (219) T PRK10510 111 PNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVVGYTDSTGSHDLNMRLSQQRADSVASALITQGVDASRIRTQG 190 (219) T ss_pred CCCCEEECCCHHCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEE T ss_conf 88856618852129678999999999999889927999987689671999999999999999999998599956489998 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 074489899878779842991899997 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) |||++|+++|+|+++|++||||||.|. T Consensus 191 ~Ge~~Pia~n~t~~gra~NRRVEI~i~ 217 (219) T PRK10510 191 LGPANPIASNSTAEGKAQNRRVEITLS 217 (219) T ss_pred ECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 766577899939778985398899995 No 5 >COG2885 OmpA Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane] Probab=100.00 E-value=4.9e-36 Score=229.18 Aligned_cols=111 Identities=34% Similarity=0.540 Sum_probs=104.2 Q ss_pred HHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 752031002204752243247999999984302560-5899997226653333200111337999999998528986069 Q gi|254780547|r 45 SSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRM 123 (160) Q Consensus 45 ~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri 123 (160) .......|+|++||+.|+|+++..|+.++.+|++++ .+|.|+||||++|+++||+.||++||++|++||++.||++++| T Consensus 78 ~~~~~~~v~F~~ds~~l~p~~~~~L~~~a~~L~~~p~~~i~V~GHTD~~Gs~~yN~~LS~rRA~aV~~~L~~~Gv~~~~i 157 (190) T COG2885 78 ILNLPNDVLFDFDSSVLKPKAQATLDELAKYLKKNPITRILVEGHTDSTGSDEYNQALSERRAEAVADYLVSQGVVADRI 157 (190) T ss_pred HCCCCCEEEECCCCHHHCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCE T ss_conf 00145406835883443989999999999999878997799975578879867876888999999999999849970117 Q ss_pred EEEEECCCCCCCCCCCHHHHHCCCEEEEEEEE Q ss_conf 99970744898998787798429918999971 Q gi|254780547|r 124 KVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 (160) Q Consensus 124 ~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~ 155 (160) .++|||+++|+++|+|++||++||||||.|.. T Consensus 158 ~~~G~G~~~Pia~n~t~~gra~NRRVei~i~~ 189 (190) T COG2885 158 STVGYGEEKPIASNATEEGRAKNRRVEIKISP 189 (190) T ss_pred EEEECCCCCCCCCCCCCHHCCCCCCEEEEEEC T ss_conf 89861645777889780010346747898627 No 6 >PRK10808 outer membrane protein A; Reviewed Probab=100.00 E-value=2.3e-33 Score=213.72 Aligned_cols=111 Identities=27% Similarity=0.453 Sum_probs=101.8 Q ss_pred HHCCEEEEECCCCCCCHHHHHHHHHHHHHHCC--C-EEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 20310022047522432479999999843025--6-05899997226653333200111337999999998528986069 Q gi|254780547|r 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEK--H-DCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRM 123 (160) Q Consensus 47 ~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~--~-~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri 123 (160) .+...|+|+|||++|+|++++.|+.++..|.+ + ..+|.|.||||+.|+++||+.||++||++|++||+++||+++|| T Consensus 221 tl~s~v~F~fdss~l~p~~~~~L~~~~~~l~~~~~~~~~i~v~GhtD~~G~~~yN~~LS~~RA~~V~~~l~~~Gi~~~~i 300 (347) T PRK10808 221 TLKSDVLFNFNKATLKPEGQQALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQALSERRAQSVVDYLISKGIPADKI 300 (347) T ss_pred CCCCCEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHE T ss_conf 12442255157020586689999999999974587765189998369988878879999999999999999869984518 Q ss_pred EEEEECCCCCCCCCCCHHHH---------HCCCEEEEEEEECC Q ss_conf 99970744898998787798---------42991899997136 Q gi|254780547|r 124 KVTSYGKEMPSVYGHDEDAY---------AKNRRAIVFLKGCR 157 (160) Q Consensus 124 ~~~g~G~~~P~~~~~~~~~~---------~~NRRVei~i~~~~ 157 (160) .+.|+||++|+++|.++++| +.||||||.|+|.+ T Consensus 301 ~~~g~Ge~~pva~n~~~~~~~~~~li~c~a~nRRVei~v~g~~ 343 (347) T PRK10808 301 SARGMGESNPVTGNTCDNVKPRAALIDCLAPDRRVEIEVKGIK 343 (347) T ss_pred EEEEECCCCCCCCCCCCCCCCCCCHHHCCCCCCCEEEEEEEEE T ss_conf 9998646688888977022443000102478873899998798 No 7 >PRK09038 flagellar motor protein MotD; Reviewed Probab=99.97 E-value=5.9e-31 Score=199.77 Aligned_cols=106 Identities=20% Similarity=0.389 Sum_probs=98.7 Q ss_pred HCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 031002204752243247999999984302560589999722665--33332--00111337999999998528986069 Q gi|254780547|r 48 VGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVARGISASRM 123 (160) Q Consensus 48 ~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~~Gi~~~ri 123 (160) +.+.++|+.||++|+|++++.|+.++..|+..+.+|.|+||||+. .+..| ||+||..||.+|+.||+..||+++|| T Consensus 135 l~~~~lF~~GSA~L~~~~~~lL~~ia~~L~~~~n~I~I~GHTD~~Pi~~~~~~sNWeLSaaRA~aV~r~L~~~Gi~p~Rl 214 (285) T PRK09038 135 INSSLLFGSGDALLSDEAFAILEKVAEVLKPFPNPIHVEGFTDNVPIATAQFPSNWELSAARAASVVRLLADDGVAPSRL 214 (285) T ss_pred ECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHE T ss_conf 56886868884324987999999999999843872899985788765556678648999999999999999759996787 Q ss_pred EEEEECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 999707448989987877984299189999 Q gi|254780547|r 124 KVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 124 ~~~g~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) .++|||+.+|+++|+|+++|++||||||+| T Consensus 215 ~~~Gygd~~P~~~N~t~egRa~NRRVeIvI 244 (285) T PRK09038 215 AAVGYGEFQPVADNDTAEGRARNRRVVLVI 244 (285) T ss_pred EEEEECCCCCCCCCCCCHHHHHCCCEEEEE T ss_conf 998765787689994800253078769999 No 8 >cd07185 OmpA_C-like Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA. OmpA-like domains (named after the C-terminal domain of Escherichia coli OmpA protein) have been shown to non-covalently associate with peptidoglycan, a network of glycan chains composed of disaccharides, which are crosslinked via short peptide bridges. Well-studied members of this family include the Escherichia coli outer membrane protein OmpA, the Escherichia coli lipoprotein PAL, Neisseria meningitdis RmpM, which interact with the outer membrane, as well as the Escherichia coli motor protein MotB, and the Vibrio flagellar motor proteins PomB and MotY, which interact with the inner membrane. Probab=99.97 E-value=3e-30 Score=195.67 Aligned_cols=104 Identities=35% Similarity=0.553 Sum_probs=99.8 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHCCCE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 1002204752243247999999984302560-589999722665333320011133799999999852898606999970 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) ..|||++||+.|++.+...|+.++.+|+.++ .+|.|.||||+.|+.+||+.||++||++|++||++.|+++++|.+.|| T Consensus 2 ~~v~F~~~s~~l~~~~~~~L~~ia~~l~~~~~~~v~v~GhtD~~G~~~~N~~LS~~RA~~V~~~L~~~Gi~~~ri~~~g~ 81 (106) T cd07185 2 ITIYFDFGSAELTPEAKPLLDKLAEVLKKNPDAKIRIEGHTDSRGSDAYNQELSERRAEAVADYLVSKGVDASRITAVGY 81 (106) T ss_pred EEEEECCCCCEECHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEE T ss_conf 89996899776198899999999999985899379999984899998998999999999999999984999899899997 Q ss_pred CCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 7448989987877984299189999 Q gi|254780547|r 129 GKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 129 G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) |+++|+.++.+++++++||||||++ T Consensus 82 G~~~p~~~~~~~~~~~~NRRVei~~ 106 (106) T cd07185 82 GESRPIASNDTEEGRAKNRRVEIVI 106 (106) T ss_pred CCCCCCCCCCCHHHHHHCCCEEEEC T ss_conf 5557689990988998559889969 No 9 >TIGR03350 type_VI_ompA type VI secretion system OmpA/MotB family protein. The flagellar motor protein MotB and the Gram-negative bacterial outer membrane protein OmpA share a region of sequence homology. This model describes a domain found fused to type VI secretion system homologs of the type IV system protein DotU (see model TIGR03349), with OmpA/MotB homology. Probab=99.96 E-value=3.4e-30 Score=195.34 Aligned_cols=113 Identities=21% Similarity=0.273 Sum_probs=102.9 Q ss_pred HHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCC----CCCHHHHHHHHHHHHHHHHC Q ss_conf 56787520310022047522432479999999843025605899997226653333----20011133799999999852 Q gi|254780547|r 41 QEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRN----SSIALGLRRAYAVFNYFVAR 116 (160) Q Consensus 41 ~~~~~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~----yN~~LS~~RA~aV~~~L~~~ 116 (160) .+...+.++..++|++||+.|+|+++..|++++..|+..+..|.|+||||+.+... .||+||.+||.+|.+||++. T Consensus 21 ~~~v~l~l~~~~lF~~gsa~L~~~~~~~L~~va~~L~~~~~~I~I~GHTD~~~~~~~~~~~N~~LS~~RA~aV~~~L~~~ 100 (137) T TIGR03350 21 GDRSVVRLRGDELFASGSAEVRADFEPLLDRIAKALAAVPGRITVVGHTDNVPIRTSRFPSNWHLSEARAKAVADVLAQG 100 (137) T ss_pred CCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHC T ss_conf 99999995798718899632098799999999999970998599999838987778775104679999999999999972 Q ss_pred CCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 8986069999707448989987877984299189999 Q gi|254780547|r 117 GISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 117 Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) |++++||.+.|||+++|+++|+++++|++||||||+| T Consensus 101 Gi~~~rl~~~g~G~~~P~~~n~~~~~r~~NRRVEI~i 137 (137) T TIGR03350 101 GVPAGRVRAEGRGDSEPIASNATAAGRAQNRRVEIDV 137 (137) T ss_pred CCCHHEEEEEECCCCCCCCCCCCHHHHHHCCEEEEEC T ss_conf 9972408997012778679993977997549089979 No 10 >PRK06742 flagellar motor protein MotS; Reviewed Probab=99.96 E-value=5.4e-29 Score=188.38 Aligned_cols=106 Identities=23% Similarity=0.456 Sum_probs=97.6 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCC--CCCCHHHHHHHHHHHHHHHH-CCCCCEEE Q ss_conf 31002204752243247999999984302560589999722665--333--32001113379999999985-28986069 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSR--NSSIALGLRRAYAVFNYFVA-RGISASRM 123 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~--~yN~~LS~~RA~aV~~~L~~-~Gi~~~ri 123 (160) .+.++|+.||++|+|++++.|+.+++.|+..+..|.|+||||+. .+. ..||+||..||.+|.+||++ .||+++|+ T Consensus 114 ~~~~lF~~Gsa~l~p~~~~~L~~la~~l~~~~~~I~I~GHTD~~pi~~~~~~sNWeLSsaRA~~V~r~l~~~~gi~~~rl 193 (225) T PRK06742 114 VDNLIFDTGDANVKPEAKEIISQLVGFFQSVPNPIVVEGHTDSRPIHNDKFPSNWELSSARAANMIHHLIEVYNVDDKRL 193 (225) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEE T ss_conf 78777689843239669999999999996599708999967887666778886499999999999999998369993148 Q ss_pred EEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 9997074489899878779842991899997 Q gi|254780547|r 124 KVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 124 ~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) .++|||+.+|+.+|+|+++|++||||||+|+ T Consensus 194 ~~~Gygd~~P~~~n~t~e~ra~NRRVeI~i~ 224 (225) T PRK06742 194 AAVGYADTKPVVPNDSPQNWEKNRRVVIYIK 224 (225) T ss_pred EEEEECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 9986557761799949446853796699983 No 11 >PRK09040 hypothetical protein; Provisional Probab=99.96 E-value=6.1e-29 Score=188.10 Aligned_cols=108 Identities=28% Similarity=0.428 Sum_probs=96.5 Q ss_pred HHCCEEEEECCCCCCCHHHHHHHHHHHHHHCC----CEEEEEEEEECCCC----CCCCC--CCHHHHHHHHHHHHHHHHC Q ss_conf 20310022047522432479999999843025----60589999722665----33332--0011133799999999852 Q gi|254780547|r 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEK----HDCDFLIEGHADEL----GSRNS--SIALGLRRAYAVFNYFVAR 116 (160) Q Consensus 47 ~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~----~~~~i~I~GhtD~~----Gs~~y--N~~LS~~RA~aV~~~L~~~ 116 (160) .+...++|+.||+.|.|+++..|++++..|+. ++..|.|+||||+. ++..| ||+||.+||.+|.+||++. T Consensus 86 ~i~~~vlF~~gsa~L~p~~~~~L~~ia~~L~~~~~~~~~~i~V~GhTD~~pi~~~~~~f~sNw~LS~~RA~~V~~~L~~~ 165 (215) T PRK09040 86 GISGSVLFALNSDQLQPEGRELLKSLAGPLAAYLRARDEILMVSGFTDDQPVRAGNRRFADNWELSAQRALTVTRALIDA 165 (215) T ss_pred ECCCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC T ss_conf 60564367689640083269999999999998744798659987348997676778888978999999999999999986 Q ss_pred CCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 89860699997074489899878779842991899997 Q gi|254780547|r 117 GISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 117 Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) ||+++||.+.|||+++|+++|+|+++|++||||||.+= T Consensus 166 gv~~~rl~~~g~G~~~P~~~n~t~~~ra~NRRVeI~~~ 203 (215) T PRK09040 166 GVPASSVFAAAFGSEQPVSSNADEEGRAKNRRVEIAPV 203 (215) T ss_pred CCCHHHEEEEEECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 99978958988657687899949889987698789984 No 12 >PRK06925 flagellar motor protein MotS; Reviewed Probab=99.95 E-value=1.2e-28 Score=186.36 Aligned_cols=107 Identities=25% Similarity=0.410 Sum_probs=97.3 Q ss_pred HCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCC--CCC--CCCHHHHHHHHHHHHHHHH-CCCCCEE Q ss_conf 0310022047522432479999999843025605899997226653--333--2001113379999999985-2898606 Q gi|254780547|r 48 VGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELG--SRN--SSIALGLRRAYAVFNYFVA-RGISASR 122 (160) Q Consensus 48 ~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~G--s~~--yN~~LS~~RA~aV~~~L~~-~Gi~~~r 122 (160) +.+.++|+.||++|+++++..|+.++..|+..+..|.|+||||+.. +.. .||+||..||.+|.+||++ .||+++| T Consensus 116 l~~~~lF~~Gsa~l~~~~~~~L~~ia~~l~~~~~~I~V~GHTD~~p~~~~~~~sNWeLS~aRA~~V~~~li~~~gi~~~r 195 (230) T PRK06925 116 LQEAVLFDTGEADVLKNAEPLLHKIAVLLKTIPNDIQVEGHTDSRPISTYRYPSNWELSAARASSVIRYFTSKEKLDSSR 195 (230) T ss_pred ECCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHH T ss_conf 68987878896534877999999999999739963899874487655556788538999999999999999835998467 Q ss_pred EEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 99997074489899878779842991899997 Q gi|254780547|r 123 MKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 123 i~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) +.++|||+.+|+++|+|+++|++||||||+|. T Consensus 196 l~~~Gygd~~P~~~n~t~e~ra~NRRVeI~i~ 227 (230) T PRK06925 196 FIAVGYADTKPVKDNKTEEHMKENRRVEIVIK 227 (230) T ss_pred EEEEEECCCCCCCCCCCCCHHHCCCCEEEEEE T ss_conf 89987657874899958320321886799984 No 13 >PRK07734 motB flagellar motor protein MotB; Reviewed Probab=99.95 E-value=3.1e-28 Score=184.02 Aligned_cols=107 Identities=21% Similarity=0.402 Sum_probs=96.1 Q ss_pred HCCEEEEECCCCCCCHHHHHHHHHHHHHHC-CCEEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHH-CCCCCE Q ss_conf 031002204752243247999999984302-560589999722665--33332--001113379999999985-289860 Q gi|254780547|r 48 VGDSVFFDTSSYSIRPADIQVLSNLGSWLE-KHDCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVA-RGISAS 121 (160) Q Consensus 48 ~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~-~~~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~-~Gi~~~ 121 (160) +.+.++|+.||+.|+|+++..|..++..|. .++..|.|+||||+. .+..| ||+||..||.+|.+||+. .|++++ T Consensus 140 l~~~~lF~~GsA~l~~~~~~lL~~ia~~l~~~~~~~I~V~GHTD~~Pi~~~~~~sNWeLSaaRA~sV~~~L~~~~gi~~~ 219 (259) T PRK07734 140 ILDNILFDSGKADVRLEDLPLAKEMSNLLVSNPPRNITISGHTDNVPIANAQFASNWELSVMRAVNFMQVLLENKELDPE 219 (259) T ss_pred ECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 53776668898756977999999999999857996389998557766667767644899999999999999981699956 Q ss_pred EEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 699997074489899878779842991899997 Q gi|254780547|r 122 RMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 122 ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) ++.+.|||+.+|+++|+|+++|++||||||+|= T Consensus 220 rl~v~G~gd~~Pi~~n~t~egra~NRRVeI~il 252 (259) T PRK07734 220 KFSAKGYGEYKPIASNDTAEGRAKNRRVEVLIL 252 (259) T ss_pred EEEEEEECCCCCCCCCCCCCHHHCCCCEEEEEE T ss_conf 799998557874899969201421786799995 No 14 >PRK08944 motB flagellar motor protein MotB; Reviewed Probab=99.95 E-value=4e-28 Score=183.38 Aligned_cols=108 Identities=23% Similarity=0.329 Sum_probs=97.7 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHH-CCCCCEEEE Q ss_conf 1002204752243247999999984302560589999722665--33332--001113379999999985-289860699 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVA-RGISASRMK 124 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~-~Gi~~~ri~ 124 (160) +..+|+.||+.|+|.+++.|+.++..|+..+.+|.|+||||+. .+..| ||+||..||.+|+.||+. .|++++||. T Consensus 182 d~~lF~~GSa~l~p~~~~lL~~ia~~l~~~~n~I~I~GHTD~~p~~~~~~~sNWeLSaaRA~~v~r~L~~~~gi~~~rl~ 261 (305) T PRK08944 182 EKGSFPSGSAFLQPKFKPLVRKIGELLKDVPGIITVSGHTDNMPISSELYRSNWDLSSARAVAVAHELLKVKGFDPSRLK 261 (305) T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEE T ss_conf 87675788642487689999999999973896279974157776655567874899999999999999980698943489 Q ss_pred EEEECCCCCCCCCCCHHHHHCCCEEEEEEEECC Q ss_conf 997074489899878779842991899997136 Q gi|254780547|r 125 VTSYGKEMPSVYGHDEDAYAKNRRAIVFLKGCR 157 (160) Q Consensus 125 ~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~~~ 157 (160) ++|||+.+|+++|+++++|++||||||+|---+ T Consensus 262 v~G~ad~~Pl~~n~t~e~ra~NRRVeI~il~~~ 294 (305) T PRK08944 262 VVGMADTQPLVPNDSPENRARNRRVEISIEQGK 294 (305) T ss_pred EEEECCCCCCCCCCCHHHHHCCCCEEEEEECCC T ss_conf 998657874899978013411887799993798 No 15 >PRK08126 hypothetical protein; Provisional Probab=99.95 E-value=1.9e-27 Score=179.38 Aligned_cols=103 Identities=20% Similarity=0.309 Sum_probs=96.9 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHHCCCCCEEEEEEE Q ss_conf 02204752243247999999984302560589999722665--33332--001113379999999985289860699997 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVARGISASRMKVTS 127 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g 127 (160) -+|..||+.|+|++.+.|.+++..|++-+-+|.|+||||+. .+..| ||.||..||.+|.++|...|++++||.+.| T Consensus 321 ~lF~sGsA~l~p~~~pll~rIa~~l~~~~G~I~V~GHTDn~Pi~s~~f~SNw~LS~aRA~~V~~~L~~~~~~~~R~~a~G 400 (428) T PRK08126 321 AMFAPGGATVNPAMGPLINKIAREIARVPGKVTVTGHTDNQPIRSAQFASNLVLSEERATQVAQMLQSAGVPASRLEAVG 400 (428) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEE T ss_conf 88787761106447999999999983799818998858998887888797499999999999999985599976368872 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 074489899878779842991899997 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) +|+++|+++|+|++||++||||||+|. T Consensus 401 ~gd~~Pia~N~T~~gRa~NRRVEI~l~ 427 (428) T PRK08126 401 KGDADPVGDNRTPQGRAQNRRVEITVA 427 (428) T ss_pred ECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 178899999989556753582478950 No 16 >PRK08457 motB flagellar motor protein MotB; Reviewed Probab=99.95 E-value=7.5e-28 Score=181.79 Aligned_cols=106 Identities=24% Similarity=0.391 Sum_probs=92.5 Q ss_pred HHCCEEEEECCCCCCC-HHHHHHHHHHHHHHCCC--EEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHHCCCC Q ss_conf 2031002204752243-24799999998430256--0589999722665--33332--0011133799999999852898 Q gi|254780547|r 47 SVGDSVFFDTSSYSIR-PADIQVLSNLGSWLEKH--DCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVARGIS 119 (160) Q Consensus 47 ~~~~~v~F~~~s~~L~-~~~~~~L~~ia~~l~~~--~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~~Gi~ 119 (160) .+.+.++|+.||++|. +.....|+.++..|+.. ..+|.|+||||+. .+..| ||+||..||.+|..||+..||+ T Consensus 116 ~l~~~~lF~~GsA~l~~~~~~~~L~~ia~il~~lp~~~~I~V~GHTD~~Pi~~~~f~SNWELSaaRA~~V~r~Li~~Gi~ 195 (251) T PRK08457 116 KLPSNLLFENGSAEIINQDMMLYLKRIAKIIQKLPKRVKIEVRGYTDNSPLNKTRYKSSYELAANRAYNVMKVLIQYGIN 195 (251) T ss_pred EECCCCCCCCCCCEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC T ss_conf 80687545798801168039999999999998489974599871589997777888873999999999999999985998 Q ss_pred CEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEEE Q ss_conf 606999970744898998787798429918999971 Q gi|254780547|r 120 ASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 (160) Q Consensus 120 ~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~ 155 (160) |+||.++|||+.+|+++| ++|++||||||+|.- T Consensus 196 p~Rl~a~Gygd~~Pi~~N---e~ra~NRRVeI~i~~ 228 (251) T PRK08457 196 PNRLSFSSYGSNNPIAPN---ENRLKNNRVEIFFKV 228 (251) T ss_pred HHHEEEEEECCCCCCCCC---CCHHHCCCEEEEEEC T ss_conf 789789853278879899---765563957999942 No 17 >PRK07033 hypothetical protein; Provisional Probab=99.95 E-value=4.6e-27 Score=177.24 Aligned_cols=107 Identities=23% Similarity=0.238 Sum_probs=98.7 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCCC--CCHHHHHHHHHHHHHHHHCCCCCEEEEEEE Q ss_conf 02204752243247999999984302560589999722665--33332--001113379999999985289860699997 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRNS--SIALGLRRAYAVFNYFVARGISASRMKVTS 127 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~y--N~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g 127 (160) -+|+.||++|++++...|.+++..|++-+.+|.|+||||+. .+..| ||+||..||.+|.++|...|++++|+.++| T Consensus 318 ~lF~sGsa~l~~~~~~ll~~ia~~l~~~~g~i~V~GHTDn~Pi~s~~f~SNw~LS~aRA~~V~~~l~~~~~~~~R~~a~G 397 (429) T PRK07033 318 GLFASASTSVRDRYQPVLLRVADALNQVKGNVLVTGYSDNRPIRTARFPSNWHLSQARAQAVRALLAARLGDPERVTAEG 397 (429) T ss_pred CCCCCCCHHHCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEE T ss_conf 88788661008668999999999984799808998838998887788897599999999999999986499977379976 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEEEECCC Q ss_conf 0744898998787798429918999971368 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFLKGCRA 158 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i~~~~~ 158 (160) +|+++|+++|+|+++|++||||||+|=..-| T Consensus 398 ~gd~~Pia~N~t~~gRa~NRRVEI~ll~~p~ 428 (429) T PRK07033 398 RGDSDPVAPNDSPEGRARNRRVEITLMVAPG 428 (429) T ss_pred ECCCCCCCCCCCHHHHHHCCCEEEEEECCCC T ss_conf 3788888989882347546817999963899 No 18 >PRK09039 hypothetical protein; Validated Probab=99.94 E-value=3.6e-27 Score=177.81 Aligned_cols=106 Identities=27% Similarity=0.442 Sum_probs=94.5 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHCC-----C---EEEEEEEEECCCC-----CCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 310022047522432479999999843025-----6---0589999722665-----33332001113379999999985 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLEK-----H---DCDFLIEGHADEL-----GSRNSSIALGLRRAYAVFNYFVA 115 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~-----~---~~~i~I~GhtD~~-----Gs~~yN~~LS~~RA~aV~~~L~~ 115 (160) +..|+|+.||++|.|+++..|++++..+.+ | +.-|.|+||||+. |...+||+||..||.+|..||+. T Consensus 223 ~SevLF~~gsa~l~~~gk~~l~~ia~~l~~i~~~Ip~~i~wilrVeGHTD~~pi~~~~~f~sNweLS~~RA~sV~~~L~~ 302 (343) T PRK09039 223 QSEVLFPTGSAELNPEGQAEIAKLAAALIQLAKEIPPEINWVLRVDGHTDNVPLSGTGRFRDNWELSSARAISVVKYLIA 302 (343) T ss_pred CCCCCCCCCCCHHCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 03323168840106658999999999999987637501461377504577878888999997599999999999999997 Q ss_pred CCCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 289860699997074489899878779842991899997 Q gi|254780547|r 116 RGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 116 ~Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) .|+||+|+.+.|||+.+|++++++++++++||||||.+. T Consensus 303 ~gv~~~rl~a~G~g~~~Pl~~~~t~e~ra~NRRIEiklt 341 (343) T PRK09039 303 LGVPANRLVAAGFGEYQPLDPGDTPEARARNRRIELKLT 341 (343) T ss_pred CCCCHHHEEEECCCCCCCCCCCCCHHHHHHCCCEEEEEC T ss_conf 699888936520466788999959657973795579827 No 19 >PRK06667 motB flagellar motor protein MotB; Validated Probab=99.94 E-value=4.8e-27 Score=177.13 Aligned_cols=105 Identities=24% Similarity=0.385 Sum_probs=92.6 Q ss_pred CEEEEECCCCCCC-HHHHHHHHHHHHHHCC---CEEEEEEEEECCCCCC-----CCCCCHHHHHHHHHHHHHHHHCC-CC Q ss_conf 1002204752243-2479999999843025---6058999972266533-----33200111337999999998528-98 Q gi|254780547|r 50 DSVFFDTSSYSIR-PADIQVLSNLGSWLEK---HDCDFLIEGHADELGS-----RNSSIALGLRRAYAVFNYFVARG-IS 119 (160) Q Consensus 50 ~~v~F~~~s~~L~-~~~~~~L~~ia~~l~~---~~~~i~I~GhtD~~Gs-----~~yN~~LS~~RA~aV~~~L~~~G-i~ 119 (160) +.++|+.|+++|. +++++.|..++..+.. .+..|.|+||||+.-. ...||+||..||.+|..||++.| |+ T Consensus 127 ~~~lF~~gsa~l~~~~~~~~l~~l~~il~~~~~~~~~I~VeGHTD~~pi~~~~~~~sNWeLSsaRA~~V~~~l~~~g~i~ 206 (254) T PRK06667 127 SDAFFYPGSADVKLEENRDLIQKLASFIGFLDLAGYNFRIEGHTDNVDVNPEGAWKSNWELSGARAVNMLEYILNYEDQS 206 (254) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 68561799731264748999999999998456757428999437877668788888628899999999999999817999 Q ss_pred CEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 60699997074489899878779842991899997 Q gi|254780547|r 120 ASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 120 ~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) +.|+.+.|||+.+|+++|+|+++|++||||||+|- T Consensus 207 ~~rl~v~Gygd~~P~~~n~t~e~ra~NRRVeI~Il 241 (254) T PRK06667 207 ESWFEVSGFGGSRPLATDDTPEGRAYNRRIDIVIL 241 (254) T ss_pred CCEEEEEEECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 54599985458876899959668840897699995 No 20 >COG1360 MotB Flagellar motor protein [Cell motility and secretion] Probab=99.94 E-value=2e-26 Score=173.56 Aligned_cols=105 Identities=29% Similarity=0.443 Sum_probs=96.1 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHCCCEE-EEEEEEECCCC---CCCCCCCHHHHHHHHHHHHHHHHCC-CCCEEEE Q ss_conf 10022047522432479999999843025605-89999722665---3333200111337999999998528-9860699 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDC-DFLIEGHADEL---GSRNSSIALGLRRAYAVFNYFVARG-ISASRMK 124 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~-~i~I~GhtD~~---Gs~~yN~~LS~~RA~aV~~~L~~~G-i~~~ri~ 124 (160) +..+|+.+++.+.++.+..|.+++..|...+. .|.|+||||++ ++...||+||..||.+|.++|++.| ++++++. T Consensus 132 ~~~~F~~gsa~~~~~~~~~l~~ia~~l~~~~~~~I~I~GHTDn~p~~~~~~sNWeLS~aRA~~v~~~L~~~g~~~~~~~~ 211 (244) T COG1360 132 DSLMFASGSAVVQPEFRDLLLKIAKLLADIPNGNIRIEGHTDNVPIKGSFYSNWELSAARAQSVVRVLINGGLVEAKRLS 211 (244) T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEE T ss_conf 44464677521276679999999999872679828998658997667788850888999999999999974899856689 Q ss_pred EEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 997074489899878779842991899997 Q gi|254780547|r 125 VTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 125 ~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) +.|||+++|+++|+|+++|++||||||.|. T Consensus 212 ~~G~gd~~Pva~n~t~~~ra~NRRVeI~i~ 241 (244) T COG1360 212 VVGYADTRPLADNDTAEGRAKNRRVEILIL 241 (244) T ss_pred EEECCCCCCCCCCCCHHHHHHCCEEEEEEE T ss_conf 971254776788988134765783799983 No 21 >pfam00691 OmpA OmpA family. The Pfam entry also includes MotB and related proteins which are not included in the Prosite family. Probab=99.92 E-value=3.1e-25 Score=166.63 Aligned_cols=95 Identities=36% Similarity=0.531 Sum_probs=90.9 Q ss_pred EEECCCCCCCHHHHHHHHHHHHHHCCC--EEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECC Q ss_conf 220475224324799999998430256--058999972266533332001113379999999985289860699997074 Q gi|254780547|r 53 FFDTSSYSIRPADIQVLSNLGSWLEKH--DCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGK 130 (160) Q Consensus 53 ~F~~~s~~L~~~~~~~L~~ia~~l~~~--~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~ 130 (160) +|++||+.|+++++..|+.++.+|+.+ ..+|.|+||||..|+..||+.||.+||++|++||++.||+++||.+.|||+ T Consensus 1 ~F~~~s~~L~~~~~~~L~~~a~~l~~~~~~~~v~I~GhtD~~g~~~~N~~LS~~RA~~V~~~L~~~Gv~~~ri~~~g~G~ 80 (97) T pfam00691 1 LFDPGSAELTAEARETLDRLAEVLKAPELKIAIKIEGHTDSRGSAKYNWELSARRAQAVANYLVNHGIPPSRISVEGYGE 80 (97) T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECC T ss_conf 99998121398999999999999971899728999999899998889999999999999999998599978989988757 Q ss_pred CCCCCCCCCHHHHHCCC Q ss_conf 48989987877984299 Q gi|254780547|r 131 EMPSVYGHDEDAYAKNR 147 (160) Q Consensus 131 ~~P~~~~~~~~~~~~NR 147 (160) ++|+.++.+++++++|| T Consensus 81 ~~Pi~~~~~~~~r~~NR 97 (97) T pfam00691 81 SQPLASNDSDEGRAKNR 97 (97) T ss_pred CCCCCCCCCHHHHHHCC T ss_conf 68889992999997475 No 22 >PRK09041 motB flagellar motor protein MotB; Validated Probab=99.90 E-value=8.4e-24 Score=158.32 Aligned_cols=100 Identities=22% Similarity=0.261 Sum_probs=90.5 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCC---CC-C-CCCHHHHHHHHHHHHHHHHCCCCCEEEE-E Q ss_conf 022047522432479999999843025605899997226653---33-3-2001113379999999985289860699-9 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELG---SR-N-SSIALGLRRAYAVFNYFVARGISASRMK-V 125 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~G---s~-~-yN~~LS~~RA~aV~~~L~~~Gi~~~ri~-~ 125 (160) .+|+.||+.|+|.+++.|..++..|+..+.+|.|+||||++. +. . .||+||..||.+|+.+|+..||+++||. + T Consensus 168 ~mF~sGSA~l~p~~~~lL~~Ia~vL~~~~n~I~I~GHTD~~P~~~~~~~~SNWeLSaaRA~aarr~L~~~Gl~~~Ri~~V 247 (317) T PRK09041 168 PMFATGSAEVEPYMRDILREIAPVLNDVPNRISLSGHTDATPYAGGEKGYSNWELSADRANASRRELVAGGMDEGKVLRV 247 (317) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHEEEE T ss_conf 67678866458889999999999997257856998755877756788889951558999999999999849997687899 Q ss_pred EEECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 9707448989987877984299189999 Q gi|254780547|r 126 TSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 126 ~g~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) +||++.+|+.+++... +.||||||+| T Consensus 248 ~G~AD~~Pl~~~dP~~--a~NRRI~I~v 273 (317) T PRK09041 248 VGLASTMLLDKKDPLN--PVNRRISIVV 273 (317) T ss_pred EEECCCCCCCCCCCCC--CCCCCEEEEE T ss_conf 9835677589999876--5468579999 No 23 >PRK06778 hypothetical protein; Validated Probab=99.90 E-value=7.1e-24 Score=158.75 Aligned_cols=100 Identities=21% Similarity=0.305 Sum_probs=89.4 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCC-CCCHHHHHHHHHHHHHHHHCCCCCEEE-EEEE Q ss_conf 02204752243247999999984302560589999722665--3333-200111337999999998528986069-9997 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRN-SSIALGLRRAYAVFNYFVARGISASRM-KVTS 127 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~-yN~~LS~~RA~aV~~~L~~~Gi~~~ri-~~~g 127 (160) .+|+.||+.|+|.++..|..++..|+..+.+|.|+||||+. .+.. .||+||..||.+|+.+|+..|++++|| .+.| T Consensus 154 ~mF~~GSa~l~p~~~~lL~~ia~vL~~~~n~I~I~GHTD~~Pi~~~~ySNWELSa~RA~avrr~L~~~Gl~~~ri~~V~G 233 (289) T PRK06778 154 NMFERGSAQIMPFFKRLLVELAPVFDSLDNKIIITGHTDAMAYKNNIYNNWNLSGDRALSARRVLEEAGMPEDKVMQVSA 233 (289) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHEEEEEE T ss_conf 78288987568789999999999986289538997405777777888996066899999999999985999768889998 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 07448989987877984299189999 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) |++..|+.+++.. .+.||||||+| T Consensus 234 ~Ad~~p~~~~dP~--~~~NRRI~I~v 257 (289) T PRK06778 234 MADQMLLDAKNPQ--SAGNRRIEIMV 257 (289) T ss_pred ECCCCCCCCCCCC--CCCCCCEEEEE T ss_conf 4577778999987--65468579999 No 24 >PRK05996 motB flagellar motor protein MotB; Validated Probab=99.85 E-value=3.4e-21 Score=143.28 Aligned_cols=103 Identities=22% Similarity=0.364 Sum_probs=92.5 Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC--CCCCC-CCHHHHHHHHHHHHHHHHCCCCCEEE-EEEE Q ss_conf 02204752243247999999984302560589999722665--33332-00111337999999998528986069-9997 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL--GSRNS-SIALGLRRAYAVFNYFVARGISASRM-KVTS 127 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~--Gs~~y-N~~LS~~RA~aV~~~L~~~Gi~~~ri-~~~g 127 (160) -+|+.||+.++|.....|..|+..|...+.+|.|.||||++ .+..| ||+||..||++.+..|+..|++++|| .++| T Consensus 324 ~MF~~GSA~p~p~~~~lL~~Ia~vL~~~pn~I~I~GHTDa~Pf~~~~y~NWeLSa~RA~aARr~L~~gGl~~~RI~rV~G 403 (431) T PRK05996 324 GMFAIGSAVPRAELVLAMEKIGQLLAEQPGAVIIRGHTDARPFKSATYDNWRLSTARAQMAYYMLVRGGLDEKRILRVEG 403 (431) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHEEEEEE T ss_conf 88477977568899999999999996389817998756887777889984211189999999999985998546667887 Q ss_pred ECCCCCCCCCCCHHHHHCCCEEEEEEEEC Q ss_conf 07448989987877984299189999713 Q gi|254780547|r 128 YGKEMPSVYGHDEDAYAKNRRAIVFLKGC 156 (160) Q Consensus 128 ~G~~~P~~~~~~~~~~~~NRRVei~i~~~ 156 (160) |+..+|+.+.+... +.||||||.||.- T Consensus 404 ~ADr~p~~~~dP~a--~~NRRIeILlr~~ 430 (431) T PRK05996 404 YADRRPKLPNDPNA--AANRRIEILIQAK 430 (431) T ss_pred ECCCCCCCCCCCCC--CCCCEEEEEEECC T ss_conf 13567688899988--6457489997058 No 25 >PRK12799 motB flagellar motor protein MotB; Reviewed Probab=99.79 E-value=5.1e-19 Score=130.63 Aligned_cols=102 Identities=22% Similarity=0.326 Sum_probs=90.4 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCC----CCCCC-CCHHHHHHHHHHHHHHHHCCCCCEEE-E Q ss_conf 002204752243247999999984302560589999722665----33332-00111337999999998528986069-9 Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADEL----GSRNS-SIALGLRRAYAVFNYFVARGISASRM-K 124 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~----Gs~~y-N~~LS~~RA~aV~~~L~~~Gi~~~ri-~ 124 (160) +-+|+.||+.|.|.++..|..++..|++-+.+|.|.||||+. |...| ||+||..||++.+..|+..|++.++| . T Consensus 157 RPMF~~GSA~l~Py~rdIL~aIApvLn~vPNkIsISGHTDA~PYa~G~~gYSNWELSADRANAARReLvaGGm~e~KvlR 236 (424) T PRK12799 157 RPMFKMGSAQVEPYMRDILRAIAPILNDIPNKLSLSGHTDDLPYARGERGYSNWELSADRANASRRELLAGGLDEGKILR 236 (424) T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEE T ss_conf 97601277757889999999999998658983488631688555689988765622366687999999976898113678 Q ss_pred EEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf 997074489899878779842991899997 Q gi|254780547|r 125 VTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 125 ~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) ++|+..+-|+...+.. .+.|||+.|+|= T Consensus 237 VvGmAst~~ld~~~p~--~PvNRRISIiVL 264 (424) T PRK12799 237 VVGMASTMRLKEQASD--DPVNRRISILVL 264 (424) T ss_pred EEECCCCCCCCCCCCC--CCCCCEEEEEEE T ss_conf 9851213414667999--854365789996 No 26 >PRK07034 hypothetical protein; Provisional Probab=99.60 E-value=2.2e-15 Score=109.65 Aligned_cols=104 Identities=22% Similarity=0.291 Sum_probs=88.4 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCC--CCC--CCCHHHHHHHHHHHHHHHHCCCC-----C- Q ss_conf 0022047522432479999999843025605899997226653--333--20011133799999999852898-----6- Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELG--SRN--SSIALGLRRAYAVFNYFVARGIS-----A- 120 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~G--s~~--yN~~LS~~RA~aV~~~L~~~Gi~-----~- 120 (160) .=.|+.+++.|.++++..+..+...+..-+-.++|.||||++- +.+ .|+.||+.||..|++.|.+.-.+ + T Consensus 386 DGaF~~g~A~l~~~f~~nieRLG~A~ApwpGdleViGHTD~rPiRss~fp~N~~LSeARA~~VAD~lR~s~~~~~~~~~~ 465 (565) T PRK07034 386 DGAFDVGKANVRADFMHNIERLGLAFAPWPGDLEVIGHTDSRPIRTSEFPDNQALSEARARNVADELRKTALPGGARAPE 465 (565) T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCH T ss_conf 87644341203698898899986763688886577514788764378898407678888878999999853435445712 Q ss_pred ----EEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEE Q ss_conf ----0699997074489899878779842991899997 Q gi|254780547|r 121 ----SRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 (160) Q Consensus 121 ----~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 154 (160) ..|+.+|.|+.+|++.+.|++++..||||+|.-+ T Consensus 466 ~~~QR~i~~~GrGd~~Pldt~~T~~~~~RNRRVDiLWK 503 (565) T PRK07034 466 NAVQRNIEYSGRGDAQPIDTAKTAAAYERNRRVDVLWK 503 (565) T ss_pred HHHHHHEEEECCCCCCCCCCCCHHHHHHHCCCCEEEEE T ss_conf 66652000004788886654005777752653015665 No 27 >PRK10834 hypothetical protein; Provisional Probab=93.70 E-value=0.11 Score=30.39 Aligned_cols=119 Identities=12% Similarity=0.180 Sum_probs=65.2 Q ss_pred CCHHHHHHHHH--HHHHHHHHCCCCCCCCCCCCCCCCC-CCHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHC Q ss_conf 90369999999--9999865024566666566554444-20125678752031002204752243247999999984302 Q gi|254780547|r 1 MQYSTIFIILS--AITMMSISGIDNLDTKISSPDTVLN-ESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLE 77 (160) Q Consensus 1 M~~~~i~i~l~--a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~ 77 (160) |.++.++.++. ++.++.+-+++..-........... ........+..++..-++..| .+++-...-|+.-++..+ T Consensus 1 m~Krl~~~~~~~~~~~~~~i~~~d~wv~~~~~~~iy~~i~~vP~~~valVLGtak~~~~G--~pn~~~~~RldaA~~LY~ 78 (239) T PRK10834 1 MLKRVFYSLLVLIGLLLLTVLGLDRWMSWKTAPYIYDELQDLPYRQVGVVLGTAKYYRTG--VINQYYRYRIQGAINAYN 78 (239) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEECCHHHCCCCCEEEEECCCCCCCCC--CCCHHHHHHHHHHHHHHH T ss_conf 979999999999999999999987988544067542687477987569994576467899--819899999999999998 Q ss_pred CCE-EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECC Q ss_conf 560-58999972266533332001113379999999985289860699997074 Q gi|254780547|r 78 KHD-CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGK 130 (160) Q Consensus 78 ~~~-~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~ 130 (160) +.. .+|.+.|.. ++..||.-- +-++||+++|||++.|..-..|= T Consensus 79 ~GKv~~iLvSGDn---~~~~YnEp~------~Mk~~Li~~GVP~e~I~~D~AGf 123 (239) T PRK10834 79 SGKVNYLLLSGDN---ALQSYNEPM------TMRKDLIAAGVDPADIVLDYAGF 123 (239) T ss_pred CCCCCEEEECCCC---CCCCCCCHH------HHHHHHHHCCCCHHHEECCCCCC T ss_conf 6997489866899---988898289------99999998599899950566765 No 28 >pfam09476 Pilus_CpaD Pilus biogenesis CpaD protein (pilus_cpaD). Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known. Probab=91.09 E-value=1.3 Score=24.09 Aligned_cols=77 Identities=10% Similarity=0.124 Sum_probs=55.8 Q ss_pred ECCCCCCCHHHHHHHHHHHHHHC-CCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCC Q ss_conf 04752243247999999984302-56058999972266533332001113379999999985289860699997074489 Q gi|254780547|r 55 DTSSYSIRPADIQVLSNLGSWLE-KHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMP 133 (160) Q Consensus 55 ~~~s~~L~~~~~~~L~~ia~~l~-~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P 133 (160) ..+...|++..+..|..++.-.. .....|.|.=... .-|..-+.+=+..|+..|...||++.+|.+..|-...| T Consensus 45 ~~~~~~Lt~~qr~~l~~f~~~~~~~g~g~i~I~~Psg-----s~n~~aa~~~~~~ir~~l~~~Gv~~~~I~~~~y~~~~~ 119 (200) T pfam09476 45 GPGRGGLTASQRARLAGFAARYGRRGAGPLVIDVPSG-----SPNARAASALSAEVRALLAAAGVPPSNISVRAYDAAGA 119 (200) T ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCC-----CCCHHHHHHHHHHHHHHHHHCCCCHHHEEECCCCCCCC T ss_conf 6888988999999999999998456886189975899-----86357899999999999998599843155422577787 Q ss_pred CCC Q ss_conf 899 Q gi|254780547|r 134 SVY 136 (160) Q Consensus 134 ~~~ 136 (160) ... T Consensus 120 ~~~ 122 (200) T pfam09476 120 RAP 122 (200) T ss_pred CCC T ss_conf 888 No 29 >PRK13731 conjugal transfer surface exclusion protein TraT; Provisional Probab=82.45 E-value=1.4 Score=23.82 Aligned_cols=27 Identities=15% Similarity=0.367 Sum_probs=22.4 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 903699999999999865024566666 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTK 27 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~ 27 (160) |+.++++++..+++++.+++|...... T Consensus 1 m~~kk~~~~~~~~~~l~lsGC~a~~ta 27 (243) T PRK13731 1 MKTKKLMMVALVSSTLALSGCGAMSTA 27 (243) T ss_pred CCHHHHHHHHHHHHHHHHCCHHHHHHH T ss_conf 933775799999999997156876778 No 30 >TIGR02522 pilus_cpaD pilus (Caulobacter type) biogenesis lipoprotein CpaD; InterPro: IPR013361 Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known.. Probab=81.18 E-value=4.7 Score=20.85 Aligned_cols=76 Identities=13% Similarity=0.168 Sum_probs=54.6 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHH-HHHCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 100220475224324799999998-4302560589999722665333320011133799999999852898606999970 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLG-SWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia-~~l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) ..++-..+..-|+++.++.|..++ .|.+..-..|.|.=|. || .|..=+..=+...+..|...||.+.+|..+.| T Consensus 45 ~~l~v~~~~~Gl~a~~~~~l~~~l~~~~~~~~~~l~~~~p~---GS--aN~~aa~~~~~e~~~~l~~~Gv~a~~iV~~~~ 119 (211) T TIGR02522 45 IDLLVAPGDRGLSASQQDQLLGFLKDWSRASAQTLVVVIPS---GS--ANEAAAEAMAAEIRRVLAASGVGARNIVKVVY 119 (211) T ss_pred EEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCC---CC--HHHHHHHHHHHHHHHHHHHCCCCCHHEEEECC T ss_conf 34554488876798889999999999863058537897588---87--54688999999999999965997204177445 Q ss_pred CC Q ss_conf 74 Q gi|254780547|r 129 GK 130 (160) Q Consensus 129 G~ 130 (160) -. T Consensus 120 ~~ 121 (211) T TIGR02522 120 RA 121 (211) T ss_pred CC T ss_conf 57 No 31 >PRK11087 hypothetical protein; Provisional Probab=77.26 E-value=5.2 Score=20.58 Aligned_cols=32 Identities=9% Similarity=0.109 Sum_probs=14.5 Q ss_pred CCHHHHHHH-HHHHHHHHHHCCCCCCCCCCCCC Q ss_conf 903699999-99999986502456666656655 Q gi|254780547|r 1 MQYSTIFII-LSAITMMSISGIDNLDTKISSPD 32 (160) Q Consensus 1 M~~~~i~i~-l~a~~~~~~~~~~~~~~~~~~~~ 32 (160) ||++.+.|+ |.+++....+.+....+.+..|. T Consensus 1 ~~~~~~~~~~~~~l~~~~~~~~~~a~~~p~~p~ 33 (238) T PRK11087 1 MKLKVLALAALLGLSASLLAMAAQAAELPDFPH 33 (238) T ss_pred CCCHHHHHHHHHHHHHHHHCCCHHHCCCCCCCE T ss_conf 930499999999987766324344347999987 No 32 >COG5461 Type IV pili component [Cell motility and secretion] Probab=75.74 E-value=6.9 Score=19.88 Aligned_cols=72 Identities=14% Similarity=0.220 Sum_probs=51.3 Q ss_pred EEEECCCCCCCHHHHHHHHHHHH-HHCC--CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 02204752243247999999984-3025--60589999722665333320011133799999999852898606999970 Q gi|254780547|r 52 VFFDTSSYSIRPADIQVLSNLGS-WLEK--HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 52 v~F~~~s~~L~~~~~~~L~~ia~-~l~~--~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) +....+.+-|+...++.|..++. |... ..+.|.|-+ || -|..-+.+=++.++..|...||++.||.+++| T Consensus 55 ipi~~gds~Lt~sqrd~lrgf~~~y~s~~a~~l~i~ip~-----gs--~n~~tA~~m~~eir~~l~~~Gv~~~ri~~~~y 127 (224) T COG5461 55 IPILKGDSGLTASQRDRLRGFLDRYSSASADALHIQIPS-----GS--ANEVTASRMAKEIRRLLAGSGVDRARIRVVNY 127 (224) T ss_pred EEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCC-----CC--CCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE T ss_conf 023247654435588999999987643257716998158-----98--42577899999999999864888460589973 Q ss_pred CC Q ss_conf 74 Q gi|254780547|r 129 GK 130 (160) Q Consensus 129 G~ 130 (160) -. T Consensus 128 ~a 129 (224) T COG5461 128 DA 129 (224) T ss_pred CC T ss_conf 34 No 33 >pfam00543 P-II Nitrogen regulatory protein P-II. P-II modulates the activity of glutamine synthetase. Probab=73.56 E-value=7 Score=19.84 Aligned_cols=54 Identities=7% Similarity=0.041 Sum_probs=33.8 Q ss_pred HHHHHHHHHHHHHCCCCCEE-EEEEEECCCCCCCCCCCHHH----HHCCCEEEEEEEEC Q ss_conf 33799999999852898606-99997074489899878779----84299189999713 Q gi|254780547|r 103 LRRAYAVFNYFVARGISASR-MKVTSYGKEMPSVYGHDEDA----YAKNRRAIVFLKGC 156 (160) Q Consensus 103 ~~RA~aV~~~L~~~Gi~~~r-i~~~g~G~~~P~~~~~~~~~----~~~NRRVei~i~~~ 156 (160) -.|.+.|++.|.+.|++.=- ..+.|+|..+....-..... .-.-+++|++++.- T Consensus 7 p~kl~~v~~AL~~~G~~g~Tv~~v~G~G~q~g~~~~~~g~~~~~~~~pK~~ieivv~d~ 65 (102) T pfam00543 7 PEKLDEVKEALEKAGVPGMTVTEVKGRGRQKGHTEIYRGAEYYVEFLPKVKIEIVVPDE 65 (102) T ss_pred HHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCEECCCEEEECCCCEEEEEEEECHH T ss_conf 89999999999977998589998289767777441541623571314215999998738 No 34 >PRK10533 putative lipoprotein; Provisional Probab=72.44 E-value=7.4 Score=19.70 Aligned_cols=76 Identities=16% Similarity=0.093 Sum_probs=40.5 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCC-EEE-EECCCCCCCHHHHHHHHHHHHHH Q ss_conf 90369999999999986502456666656655444420125678752031-002-20475224324799999998430 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTKISSPDTVLNESSLQEQFSSSVGD-SVF-FDTSSYSIRPADIQVLSNLGSWL 76 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~v~-F~~~s~~L~~~~~~~L~~ia~~l 76 (160) |+++.+.++++...++++|++-+..-+..+.......+.-.+..+..+-+ ++. =..+.+.|+|-..+.|..+.... T Consensus 1 Mr~~~~~ll~PlallLSACttV~Pa~kd~gsRs~~CveGGPD~VAqqFYD~riq~~~~~~a~lRPylS~~L~~~L~~a 78 (171) T PRK10533 1 MRYSKLALLLPCALLLSACTTVTPAYKDNGSRSGPCVEGGPDSVAQQFYDYRIQHRSNDIAALRPYLSDKLATLLSDA 78 (171) T ss_pred CCCCHHHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHH T ss_conf 986203899999999987224761143037765554158920899998887302255652542524578999999998 No 35 >PRK10665 nitrogen regulatory protein P-II 2; Provisional Probab=69.09 E-value=9.9 Score=18.96 Aligned_cols=54 Identities=11% Similarity=0.059 Sum_probs=32.8 Q ss_pred HHHHHHHHHHHHHCCCCCE-EEEEEEECCCCCCCCC---CCHH-HHHCCCEEEEEEEEC Q ss_conf 3379999999985289860-6999970744898998---7877-984299189999713 Q gi|254780547|r 103 LRRAYAVFNYFVARGISAS-RMKVTSYGKEMPSVYG---HDED-AYAKNRRAIVFLKGC 156 (160) Q Consensus 103 ~~RA~aV~~~L~~~Gi~~~-ri~~~g~G~~~P~~~~---~~~~-~~~~NRRVei~i~~~ 156 (160) -.|.+.|++.|.+.|++.= -..+.|+|.+.....- .... ..---+|+||++.+- T Consensus 10 p~kl~~vk~aL~~~G~~g~Tv~~V~G~G~q~g~~~~~rg~~~~~~~~pKv~ieivv~D~ 68 (112) T PRK10665 10 PFKLEDVREALSSIGIQGLTVTEVKGFGRQKGHAELYRGAEYSVNFLPKVKIDVAIADD 68 (112) T ss_pred HHHHHHHHHHHHHCCCCEEEEEECEEECCCCCCCCCCCCCCCCCCCCCEEEEEEEECHH T ss_conf 99999999999978997399984868756887553314651021521226999999728 No 36 >PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed Probab=68.99 E-value=5.7 Score=20.36 Aligned_cols=24 Identities=13% Similarity=0.257 Sum_probs=18.8 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 903699999999999865024566 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNL 24 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~ 24 (160) |+|+..++.++++++.+|...... T Consensus 1 m~~~~~l~~~~~~~l~~~~~~~~~ 24 (259) T PRK11917 1 MVFRKSLLKLAVFALGACVAFSNA 24 (259) T ss_pred CCHHHHHHHHHHHHHHHHHHCCCC T ss_conf 942799999999999999863452 No 37 >PRK13289 nitric oxide dioxygenase; Provisional Probab=62.89 E-value=5.5 Score=20.45 Aligned_cols=29 Identities=14% Similarity=0.194 Sum_probs=25.7 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEECCCCCC Q ss_conf 99999999852898606999970744898 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSYGKEMPS 134 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~G~~~P~ 134 (160) -++|++.|.+.||++++|....||..+.+ T Consensus 370 m~av~~~L~~~GVp~~~Ih~E~FGP~~~l 398 (399) T PRK13289 370 MQFVAKQLLDLGVPEERIHYEFFGPAKVL 398 (399) T ss_pred HHHHHHHHHHCCCCHHHEEEECCCCCHHC T ss_conf 99999999977997899788335880411 No 38 >PRK03002 prsA peptidylprolyl isomerase; Reviewed Probab=61.33 E-value=8.2 Score=19.43 Aligned_cols=24 Identities=29% Similarity=0.441 Sum_probs=20.1 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 903699999999999865024566 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNL 24 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~ 24 (160) |+++.++++.++++++.+++|... T Consensus 1 mkkK~i~~~~~~~svl~LaaC~~~ 24 (285) T PRK03002 1 MRGKHIFIITALISILMLSACGQK 24 (285) T ss_pred CCHHHHHHHHHHHHHHHHHHHCCC T ss_conf 960189999999999999984579 No 39 >pfam02698 DUF218 DUF218 domain. This large family of proteins contains several highly conserved charged amino acids, suggesting this may be an enzymatic domain (Bateman A pers. obs). The family includes SanA, which is involved in Vancomycin resistance. This protein may be involved in murein synthesis. Probab=60.28 E-value=15 Score=17.97 Aligned_cols=59 Identities=17% Similarity=0.219 Sum_probs=38.1 Q ss_pred CHHHHHHHHHHHHHHCC-CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 32479999999843025-60589999722665333320011133799999999852898606999970 Q gi|254780547|r 62 RPADIQVLSNLGSWLEK-HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 62 ~~~~~~~L~~ia~~l~~-~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .|....-++.-+...++ +..+|.+.|-. ...+ ...-|+..++||++.|||+++|..... T Consensus 12 ~~~~~~R~~~a~~l~~~g~~~~ii~sGg~-----~~~~---~~~ea~~~~~~l~~~gvp~~~I~~e~~ 71 (148) T pfam02698 12 SPALAARLDAAAELYRAGPAPRIIVSGGA-----GGGE---PVSEAEVMRRYLVELGVPAEAILLEPQ 71 (148) T ss_pred CHHHHHHHHHHHHHHHHCCCCEEEEECCC-----CCCC---CCCHHHHHHHHHHHCCCCHHHEECCCC T ss_conf 87799999999999980999889984898-----8888---878999999999986989999774556 No 40 >KOG0524 consensus Probab=60.15 E-value=13 Score=18.32 Aligned_cols=68 Identities=18% Similarity=0.190 Sum_probs=45.9 Q ss_pred HCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEEE Q ss_conf 02560589999722665333320011133799999999852898606999970744898998787798429918999971 Q gi|254780547|r 76 LEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 (160) Q Consensus 76 l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~ 155 (160) +..++..|.|.+|+- +-.-+-..++.|.+.|++++-|..++ -+|++...-...-.|-+|+.++=+| T Consensus 232 ier~G~~iTivt~Sr-----------~v~~~leAA~~L~~~Gvs~EVInlrS---irP~D~~tI~~Sv~KT~~lvtVe~~ 297 (359) T KOG0524 232 IEREGTHITIVTYSR-----------MVGHCLEAAETLVAKGVSAEVINLRS---IRPFDIETIGASVKKTNRLVTVEEG 297 (359) T ss_pred EEECCCCEEEEEECH-----------HHHHHHHHHHHHHHCCCCCEEEEEEC---CCCCCHHHHHHHHHHHCEEEEEECC T ss_conf 661588469998502-----------58999999999986698803674102---4765589999887650538998345 Q ss_pred CC Q ss_conf 36 Q gi|254780547|r 156 CR 157 (160) Q Consensus 156 ~~ 157 (160) .+ T Consensus 298 ~p 299 (359) T KOG0524 298 WP 299 (359) T ss_pred CC T ss_conf 66 No 41 >PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional Probab=57.79 E-value=16 Score=17.72 Aligned_cols=89 Identities=16% Similarity=0.167 Sum_probs=39.4 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCCCCC--C-CCCCCCHHHHHHH----HHHCC---EEEE-ECC-------CCCCC Q ss_conf 9036999999999998650245666665665--5-4444201256787----52031---0022-047-------52243 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTKISSP--D-TVLNESSLQEQFS----SSVGD---SVFF-DTS-------SYSIR 62 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~----~~~~~---~v~F-~~~-------s~~L~ 62 (160) |++++++.+.+.+..+.+++|.........- . .........+... ...+- -+.| ++. .-+|+ T Consensus 3 ~~~k~~~~~~~l~~~l~l~gCg~~~~~~~~ikVG~~~gp~~ei~e~~~~~~~ek~G~~veiv~FsDy~~pN~AL~~G~iD 82 (271) T PRK11063 3 FKFKTFAAVGALIGSLALVGCGQDEKDPNHIKVGVIVGAEQQVAEVAQKVAKEKYGLDVELVTFNDYVLPNEALSKGDID 82 (271) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEEEECCCHHHHHHHHCCCCC T ss_conf 02999999999999997500589856798189984689879999998888886079768999936832155898679844 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEEEEEC Q ss_conf 247999999984302560589999722 Q gi|254780547|r 63 PADIQVLSNLGSWLEKHDCDFLIEGHA 89 (160) Q Consensus 63 ~~~~~~L~~ia~~l~~~~~~i~I~Ght 89 (160) ....|...-+..+-++++..+...|.| T Consensus 83 aN~fQH~~yL~~~nk~~g~~L~~v~~~ 109 (271) T PRK11063 83 ANAFQHKPYLDQQIKDRGYKLVAVGNT 109 (271) T ss_pred HHHHHCHHHHHHHHHHCCCCEEEEEEE T ss_conf 234557999999999779957998667 No 42 >cd07762 CYTH-like_Pase_1 Uncharacterized subgroup 1 of the CYTH-like superfamily. Enzymes belonging to the CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) superfamily hydrolyze triphosphate-containing substrates, require metal cations as cofactors, and have a unique active site located at the center of an eight-stranded antiparallel beta barrel tunnel (the triphosphate tunnel). The name CYTH originated from the gene designation for bacterial class IV adenylyl cyclases (CyaB) and from thiamine triphosphatase. Class IV adenylate cyclases catalyze the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. Thiamine triphosphatase is a soluble cytosolic enzyme which converts thiamine triphosphate to thiamine diphosphate. This domain superfamily also contains RNA triphosphatases, membrane-associated polyphosphate polymerases, tripolyphosphatases, nucleoside triphosphatases, nucleoside tetraphosphatases and other proteins with unknown functions. Proteins of this subgroup Probab=57.33 E-value=16 Score=17.74 Aligned_cols=86 Identities=17% Similarity=0.297 Sum_probs=51.1 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHC--CCEEEEEEEEECCCCCCCCCCCHHHHHHHH-----------HHHHHHHH Q ss_conf 31002204752243247999999984302--560589999722665333320011133799-----------99999985 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLE--KHDCDFLIEGHADELGSRNSSIALGLRRAY-----------AVFNYFVA 115 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~--~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~-----------aV~~~L~~ 115 (160) +.+.||++..-.|+... .+--++ +....+.+-.=. ..|.-++|..|+...|. .|.++|.+ T Consensus 29 Q~N~YfDT~~~~Lk~~~------~aLRIR~~~~~~elTLK~p~-~~g~lE~~~~l~~~~a~~~i~~~~~~~~~I~~~L~~ 101 (180) T cd07762 29 QTNYYFDTPDFALKKKH------SALRIREKEGKAELTLKVPQ-EVGLLETNQPLTLEEAEKLIKGGTLPEGEILDKLKE 101 (180) T ss_pred EEEEEEECCCHHHHHCC------CEEEEEECCCEEEEEEECCC-CCCCEEEECCCCHHHHHHHHHCCCCCCHHHHHHHHH T ss_conf 73898888856677487------06899972983799985787-668468824588899999986178996699999999 Q ss_pred CCCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEEEC Q ss_conf 28986069999707448989987877984299189999713 Q gi|254780547|r 116 RGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKGC 156 (160) Q Consensus 116 ~Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~~ 156 (160) .||+++.+...|. -.+.|.|.-..|| T Consensus 102 ~~i~~~~l~~~G~---------------ltT~R~e~~~~~g 127 (180) T cd07762 102 LGIDPSELKLFGS---------------LTTIRAEIPYEGG 127 (180) T ss_pred HCCCHHHEEEEEE---------------EEEEEEEEECCCE T ss_conf 2999789899510---------------5889999973897 No 43 >PRK02998 prsA peptidylprolyl isomerase; Reviewed Probab=55.90 E-value=9.4 Score=19.10 Aligned_cols=24 Identities=17% Similarity=0.264 Sum_probs=15.6 Q ss_pred CCHHHHHHHHH-HHHHHHHHCCCCC Q ss_conf 90369999999-9999865024566 Q gi|254780547|r 1 MQYSTIFIILS-AITMMSISGIDNL 24 (160) Q Consensus 1 M~~~~i~i~l~-a~~~~~~~~~~~~ 24 (160) |+.+++++.+. +++++++++|... T Consensus 1 Mkkkk~~~~~~~~~~~l~LaaC~s~ 25 (283) T PRK02998 1 MKKKKLFIGTIISCVVLALSACGSS 25 (283) T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 9358999999999999999866899 No 44 >TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein; InterPro: IPR005670 This is a family of phosphate transport system permease proteins.; GO: 0005315 inorganic phosphate transmembrane transporter activity, 0015114 phosphate transmembrane transporter activity, 0006817 phosphate transport, 0016020 membrane. Probab=55.50 E-value=16 Score=17.69 Aligned_cols=53 Identities=15% Similarity=0.230 Sum_probs=44.0 Q ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 3100220475224324799999998430256058999972266533332001113379999999985 Q gi|254780547|r 49 GDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVA 115 (160) Q Consensus 49 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~ 115 (160) |+-++||-=.|.|+|-+-..++++...|+++ ++|+|+=|- .+-|.-|.+|-.- T Consensus 163 PeVlLlDEPTSALDPIaT~~IEeLi~eLk~~-YTivIVTHn-------------MqQA~RiSD~tAF 215 (248) T TIGR00972 163 PEVLLLDEPTSALDPIATGKIEELIQELKKK-YTIVIVTHN-------------MQQAARISDRTAF 215 (248) T ss_pred CCEECCCCCCCCCCHHHHHHHHHHHHHHHHC-CEEEEEECC-------------HHHHHHHHHHHHH T ss_conf 8521057888757877899999999987652-979988177-------------5678999999988 No 45 >COG4116 Uncharacterized protein conserved in bacteria [Function unknown] Probab=54.30 E-value=5 Score=20.71 Aligned_cols=71 Identities=15% Similarity=0.280 Sum_probs=47.3 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHCC--CEEEEEEEEECCCCCCCCCCCHHHHHHHHH-----------HHHHHHHC Q ss_conf 10022047522432479999999843025--605899997226653333200111337999-----------99999852 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEK--HDCDFLIEGHADELGSRNSSIALGLRRAYA-----------VFNYFVAR 116 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia~~l~~--~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~a-----------V~~~L~~~ 116 (160) .+-||+++.-.|+.. ..|-.++. +.+.+.+.-- -.+|.-+||+.||.+-|.. |.+.|.+. T Consensus 35 tN~YiDT~dF~LKek------~~ALRIR~~e~~~elTLK~P-~~vGllEynq~Ls~e~a~~~l~~~~~P~g~v~d~l~~~ 107 (193) T COG4116 35 TNHYIDTDDFKLKEK------KSALRIRTKENQYELTLKVP-AKVGLLEYNQILSLEEAKLALISANLPEGEVLDILEKL 107 (193) T ss_pred EEEEECCCCHHHHHH------HCCEEEEEECCEEEEEECCC-HHCCCHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHC T ss_conf 223332742101330------00036776055689995483-12274111310337799987411689950899999983 Q ss_pred CCCCEEEEEEE Q ss_conf 89860699997 Q gi|254780547|r 117 GISASRMKVTS 127 (160) Q Consensus 117 Gi~~~ri~~~g 127 (160) ||+.+.|.+.| T Consensus 108 gI~~~~l~~~G 118 (193) T COG4116 108 GIKDSALQVFG 118 (193) T ss_pred CCCHHHHHHHH T ss_conf 99878877511 No 46 >COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion] Probab=52.95 E-value=20 Score=17.25 Aligned_cols=52 Identities=23% Similarity=0.174 Sum_probs=32.0 Q ss_pred HHHCCCEEEEEEEEEC-CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEE Q ss_conf 4302560589999722-6653333200111337999999998528986069999 Q gi|254780547|r 74 SWLEKHDCDFLIEGHA-DELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVT 126 (160) Q Consensus 74 ~~l~~~~~~i~I~Ght-D~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~ 126 (160) ..+++----|.|.|-- ++ =...+--.+..+|++.+++.|-+.||.++|+... T Consensus 48 ~Al~~GaDGV~v~GC~~ge-CHy~~GN~ka~rR~~~lke~l~elgie~eRv~~~ 100 (132) T COG1908 48 KALRKGADGVLVAGCKIGE-CHYISGNYKAKRRMELLKELLKELGIEPERVRVL 100 (132) T ss_pred HHHHCCCCEEEEECCCCCC-EEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEE T ss_conf 9997389868993441561-2330166479999999999999948884427899 No 47 >cd06184 flavohem_like_fad_nad_binding FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The hemoglobin domain adopts a globin fold with an embedded heme molecule. Flavohemoglobins also have a C-terminal reductase domain with bindiing sites for FAD and NAD(P)H. This domain catalyzes the conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+. Instead of the oxygen transport function of hemoglobins, flavohemoglobins seem to act in NO dioxygenation and NO signalling. Probab=52.69 E-value=13 Score=18.34 Aligned_cols=29 Identities=24% Similarity=0.276 Sum_probs=24.8 Q ss_pred HHHHHHHHHHHHHCCCCCEEEEEEEECCC Q ss_conf 33799999999852898606999970744 Q gi|254780547|r 103 LRRAYAVFNYFVARGISASRMKVTSYGKE 131 (160) Q Consensus 103 ~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~ 131 (160) ..=.++|.+.|.+.|+++++|....||.. T Consensus 218 ~~mi~~~~~~L~~~Gv~~~~I~~E~FgP~ 246 (247) T cd06184 218 VPFMQAVREGLKALGVPAERIHYEVFGPG 246 (247) T ss_pred HHHHHHHHHHHHHCCCCHHHEEEEEECCC T ss_conf 99999999999976997895999000898 No 48 >pfam06925 MGDG_synth Monogalactosyldiacylglycerol (MGDG) synthase. This family represents a conserved region of approximately 180 residues within plant and bacterial monogalactosyldiacylglycerol (MGDG) synthase (EC:2.4.1.46). In Arabidopsis, there are two types of MGDG synthase which differ in their N-terminal portion: type A and type B. Probab=47.40 E-value=12 Score=18.46 Aligned_cols=23 Identities=30% Similarity=0.358 Sum_probs=19.3 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 99999999852898606999970 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .+.+++.|+++||++++|.+.|. T Consensus 145 ~ee~~~~l~~~Gi~~~kI~vtGI 167 (169) T pfam06925 145 SKEVKKEALEKGIDPSNIKVTGI 167 (169) T ss_pred CHHHHHHHHHCCCCHHHEEEECC T ss_conf 99999999985999889788374 No 49 >PRK10494 hypothetical protein; Provisional Probab=43.66 E-value=28 Score=16.39 Aligned_cols=62 Identities=8% Similarity=0.049 Sum_probs=37.5 Q ss_pred CCCCCHHHHHHHHHHHHHHCC-CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEE Q ss_conf 522432479999999843025-6058999972266533332001113379999999985289860699997 Q gi|254780547|r 58 SYSIRPADIQVLSNLGSWLEK-HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTS 127 (160) Q Consensus 58 s~~L~~~~~~~L~~ia~~l~~-~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g 127 (160) +..+...+.+-|..-+...+. +..+|++.|-. ..+|. . .-|+..++++++.||++++|.... T Consensus 98 ~~~~~~~a~~Rl~~g~~L~r~~~~~~li~SGG~-----~~~~~-~--sea~~~~~~~~~lGv~~~~I~~e~ 160 (259) T PRK10494 98 SSNLINNSLPRLNEGIRLWRANPGAKLIFTGGV-----AKTNT-V--STAEVGARVAQSLGVPREDIITLD 160 (259) T ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCC-----CCCCC-C--CHHHHHHHHHHHCCCCHHHEEECC T ss_conf 444446489999999999983899839996887-----88899-9--899999999998399989915256 No 50 >PRK03095 prsA peptidylprolyl isomerase; Reviewed Probab=42.93 E-value=22 Score=17.01 Aligned_cols=20 Identities=20% Similarity=0.381 Sum_probs=11.1 Q ss_pred CCHHHHHHHHHHHHHHHHHCCC Q ss_conf 9036999999999998650245 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGID 22 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~ 22 (160) |++..+. +++++++++++|. T Consensus 1 MKK~~la--~~~~svl~LaaC~ 20 (287) T PRK03095 1 MKKAMLA--LAATSVIALSACG 20 (287) T ss_pred CCHHHHH--HHHHHHHHHHHCC T ss_conf 9078999--9999999998516 No 51 >PRK10684 HCP oxidoreductase, NADH-dependent; Provisional Probab=41.97 E-value=24 Score=16.72 Aligned_cols=32 Identities=16% Similarity=-0.027 Sum_probs=26.6 Q ss_pred HHHHHHHHHCCCCCEEEEEEEECCCCCCCCCC Q ss_conf 99999998528986069999707448989987 Q gi|254780547|r 107 YAVFNYFVARGISASRMKVTSYGKEMPSVYGH 138 (160) Q Consensus 107 ~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~~ 138 (160) +++++.|.+.|+++++|....|+...+..... T Consensus 217 ~a~~~~l~~~Gv~~~~ih~E~F~~~~~~~~~~ 248 (335) T PRK10684 217 DWVEQEVKALGVTADRFFKEKFFTPDEVAEAA 248 (335) T ss_pred HHHHHHHHHCCCCHHHEEEEECCCCCCCCCCC T ss_conf 99999999849988997975568998666678 No 52 >PRK01326 prsA foldase protein PrsA; Reviewed Probab=41.48 E-value=27 Score=16.46 Aligned_cols=24 Identities=8% Similarity=0.155 Sum_probs=18.0 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 903699999999999865024566 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNL 24 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~ 24 (160) |+++.++.++.+++++.+++|... T Consensus 1 MKKKl~~~~~~~~svl~LaaCs~~ 24 (310) T PRK01326 1 MKKKLIAGAVTLLSVATLAACSKT 24 (310) T ss_pred CCHHHHHHHHHHHHHHHHHHHCCC T ss_conf 908899999999999999871699 No 53 >pfam02662 FlpD Methyl-viologen-reducing hydrogenase, delta subunit. This family consist of methyl-viologen-reducing hydrogenase, delta subunit / heterodisulphide reductase. No specific functions have been assigned to this subunit. The aligned region corresponds to almost the entire delta chain sequence and contains 4 conserved cysteine residues. However, in two Archaeoglobus sequences this region corresponds to only the C-terminus of these proteins. Probab=40.15 E-value=26 Score=16.51 Aligned_cols=57 Identities=21% Similarity=0.195 Sum_probs=33.7 Q ss_pred HHHHHCCCEEEEEEEE-ECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEC Q ss_conf 9843025605899997-226653333200111337999999998528986069999707 Q gi|254780547|r 72 LGSWLEKHDCDFLIEG-HADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYG 129 (160) Q Consensus 72 ia~~l~~~~~~i~I~G-htD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G 129 (160) +...+.+----|.|.| |..+=-...-| ...++|...+++.|...|++++|+...-.. T Consensus 45 il~A~~~GADGV~V~GC~~GdChy~~Gn-~~a~~Rv~~~~~~L~~~Gi~~~Rv~~~~vs 102 (124) T pfam02662 45 ILKALEKGADGVLVLGCHPGDCHYLKGN-EKARRRVEKVKELLEELGIEPERLRFFWVS 102 (124) T ss_pred HHHHHHCCCCEEEEECCCCCCCCCCHHH-HHHHHHHHHHHHHHHHCCCCHHHEEEEEEC T ss_conf 9999986999799947888887672646-999999999999999839985684888966 No 54 >COG1735 Php Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only] Probab=38.75 E-value=33 Score=15.94 Aligned_cols=66 Identities=12% Similarity=0.149 Sum_probs=47.3 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEC Q ss_conf 0022047522432479999999843025605899997226653333200111337999999998528986069999707 Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYG 129 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G 129 (160) .|-|..++..++|.-...|...|..-++. ++-|.-|| .++. .|-.+.+.|.+.|++++++.+-=++ T Consensus 136 iIk~~~~~~~iTp~Eek~lrAaA~A~~~T--g~Pi~tHt----------~~gt-~g~eq~~il~~egvdl~~v~igH~d 201 (316) T COG1735 136 IIKEAGGSPAITPLEEKSLRAAARAHKET--GAPISTHT----------PAGT-MGLEQLRILAEEGVDLRKVSIGHMD 201 (316) T ss_pred EEEECCCCCCCCHHHHHHHHHHHHHHHHC--CCCEEEEC----------CCHH-HHHHHHHHHHHCCCCHHHEEEECCC T ss_conf 46642576667989999999999986411--89717734----------4003-0199999999729986673673258 No 55 >pfam04954 SIP Siderophore-interacting protein. Probab=38.45 E-value=26 Score=16.55 Aligned_cols=26 Identities=15% Similarity=0.212 Sum_probs=22.3 Q ss_pred HHHHHHHHHHHH-CCCCCEEEEEEEEC Q ss_conf 379999999985-28986069999707 Q gi|254780547|r 104 RRAYAVFNYFVA-RGISASRMKVTSYG 129 (160) Q Consensus 104 ~RA~aV~~~L~~-~Gi~~~ri~~~g~G 129 (160) .-+..++++|.. .|++.++|.+.||= T Consensus 89 ~~~r~lR~~l~~~~g~~~~~i~~~gYW 115 (118) T pfam04954 89 GAVRALRRHLRNERGLPREQVYASGYW 115 (118) T ss_pred HHHHHHHHHHHHHHCCCHHHEEEEEEC T ss_conf 899999999998539997993899854 No 56 >PRK06193 hypothetical protein; Provisional Probab=38.26 E-value=34 Score=15.89 Aligned_cols=81 Identities=11% Similarity=0.150 Sum_probs=47.7 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHH--------------HHHCCEEEEECCC----CCCC Q ss_conf 903699999999999865024566666566554444201256787--------------5203100220475----2243 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTKISSPDTVLNESSLQEQFS--------------SSVGDSVFFDTSS----YSIR 62 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~v~F~~~s----~~L~ 62 (160) |+...+++.|.++.+++.|+...................+-..+. ...++...|+.+. -.|+ T Consensus 1 ~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ll~~L~~GG~vl~~RHa~a~pg~gDp~~f~l~dCsTQRnLs 80 (211) T PRK06193 1 MRAAALLCALLVAALLAGCGRESAANQNPDFEDKLSTKDLLASLQKGGYVIYFRHAATDKDYADQATPELDDCSTQRQLS 80 (211) T ss_pred CCHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 91799999999999942522001243582155405859999999719989999767778999998888843022447878 Q ss_pred HHHHHHHHHHHHHHCCCEE Q ss_conf 2479999999843025605 Q gi|254780547|r 63 PADIQVLSNLGSWLEKHDC 81 (160) Q Consensus 63 ~~~~~~L~~ia~~l~~~~~ 81 (160) .+.++.=..+..+++++.. T Consensus 81 ~~Gr~qA~~iG~~~~~~~I 99 (211) T PRK06193 81 AEGRQQAKAIGEAFRALDI 99 (211) T ss_pred HHHHHHHHHHHHHHHHCCC T ss_conf 8999999999999998599 No 57 >PRK09859 multidrug efflux system protein MdtE; Provisional Probab=37.93 E-value=34 Score=15.86 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=10.7 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCC Q ss_conf 90369999999999986502456 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDN 23 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~ 23 (160) ||+++.+++...+..+.+++|.. T Consensus 1 m~~k~~~li~ll~~~~lL~gC~~ 23 (385) T PRK09859 1 MNRRRKLLIPLLFCGAMLTACDD 23 (385) T ss_pred CCCHHHHHHHHHHHHHHHHCCCC T ss_conf 98206789999999999953799 No 58 >pfam00123 Hormone_2 Peptide hormone. This family contains glucagon, GIP, secretin and VIP. Probab=36.61 E-value=20 Score=17.23 Aligned_cols=28 Identities=21% Similarity=0.193 Sum_probs=24.6 Q ss_pred ECCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 2266533332001113379999999985 Q gi|254780547|r 88 HADELGSRNSSIALGLRRAYAVFNYFVA 115 (160) Q Consensus 88 htD~~Gs~~yN~~LS~~RA~aV~~~L~~ 115 (160) |+|.+=+.+|+.-|.+.+|+-..++|++ T Consensus 1 HadGtFTsdysk~l~~~~ak~fl~~L~~ 28 (28) T pfam00123 1 HADGTFTSDYSKLLDQLAAKKFLQWLMN 28 (28) T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHC T ss_conf 9876202579999988889999999749 No 59 >cd06185 PDR_like Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur [2Fe-2S] cluster domain. Although structurally homologous to FNR, PDR binds FMN rather than FAD in it's FNR-like domain. Electron transfer between pyrimidines and iron-sulfur clusters (Rieske center [2Fe-2S]) or heme groups is mediated by flavins in respiration, photosynthesis, and oxygenase systems. Type I dioxygenase systems, including the hydroxylate phthalate system, have 2 components, a monomeric reductase consisting of a flavin and a 2Fe-2S center and a multimeric oxygenase. In contrast to other Rieske dioxygenases the ferredoxin like domain is C-, not N-terminal. Probab=36.58 E-value=26 Score=16.58 Aligned_cols=25 Identities=20% Similarity=0.171 Sum_probs=19.6 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEEC Q ss_conf 7999999998528986069999707 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSYG 129 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~G 129 (160) --++|.+.|.+.||++++|....|+ T Consensus 187 m~~a~~~~L~~~Gv~~~~Ih~E~Fa 211 (211) T cd06185 187 MMDAVRAAAAALGWPEARLHFERFA 211 (211) T ss_pred HHHHHHHHHHHCCCCHHHEEEEECC T ss_conf 9999999999869988995865288 No 60 >smart00070 GLUCA Glucagon like hormones. Probab=36.36 E-value=19 Score=17.32 Aligned_cols=27 Identities=22% Similarity=0.192 Sum_probs=23.4 Q ss_pred ECCCCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 226653333200111337999999998 Q gi|254780547|r 88 HADELGSRNSSIALGLRRAYAVFNYFV 114 (160) Q Consensus 88 htD~~Gs~~yN~~LS~~RA~aV~~~L~ 114 (160) |+|.+-+.+|+.-|.+.+|+-..++|+ T Consensus 1 HadG~Fts~ysk~l~~~aak~fl~~L~ 27 (27) T smart00070 1 HADGTFTSDYSKYLDQLAAKKFLQWLM 27 (27) T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHC T ss_conf 998740014899999999999999869 No 61 >pfam01187 MIF Macrophage migration inhibitory factor (MIF). Probab=35.84 E-value=37 Score=15.66 Aligned_cols=74 Identities=16% Similarity=0.218 Sum_probs=42.7 Q ss_pred EECC--CCCCCHHHHHHHHH-HHHHHCCCEEEEEEEEECCCC----CCCC------------CCCHHHHHHHHHHHHHHH Q ss_conf 2047--52243247999999-984302560589999722665----3333------------200111337999999998 Q gi|254780547|r 54 FDTS--SYSIRPADIQVLSN-LGSWLEKHDCDFLIEGHADEL----GSRN------------SSIALGLRRAYAVFNYFV 114 (160) Q Consensus 54 F~~~--s~~L~~~~~~~L~~-ia~~l~~~~~~i~I~GhtD~~----Gs~~------------yN~~LS~~RA~aV~~~L~ 114 (160) +.+| ...+..+....|.. +++.|.+|...|.|.-..|.. |+.+ .+-+.-.+-+.++-++|. T Consensus 5 i~TNv~~~~~~~~f~~~ls~~la~~lgKPe~yv~V~v~~~~~m~fgGs~eP~a~~~l~siG~l~~~~n~~~s~~l~~~l~ 84 (114) T pfam01187 5 IDTNLPANSVPAGLEKRLTAALAKALGKPADRIAVHIRPGQAMVFGGSTDPCAVCSIKSIGVVGAEQNRSHSALLFKFLT 84 (114) T ss_pred EECCCCCHHCCHHHHHHHHHHHHHHHCCCHHEEEEEEECCCEEEECCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHH T ss_conf 98679822256899999999999986898362999992897189668899779999998678998999999999999999 Q ss_pred H-CCCCCEEEEEEE Q ss_conf 5-289860699997 Q gi|254780547|r 115 A-RGISASRMKVTS 127 (160) Q Consensus 115 ~-~Gi~~~ri~~~g 127 (160) + .||+++||-+.= T Consensus 85 ~~LgI~~~RiyI~F 98 (114) T pfam01187 85 KELGLPKDRIYIRF 98 (114) T ss_pred HHCCCCCCEEEEEE T ss_conf 86297946499999 No 62 >PRK09585 anmK anhydro-N-acetylmuramic acid kinase; Reviewed Probab=35.81 E-value=37 Score=15.66 Aligned_cols=32 Identities=25% Similarity=0.187 Sum_probs=18.9 Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 20011133799999999852898606999970 Q gi|254780547|r 97 SSIALGLRRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 97 yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .|..|++.=|++|.+++.+.++++..|..+|+ T Consensus 65 l~~~~~~~~~~~i~~~i~~~~~~~~~id~Ig~ 96 (366) T PRK09585 65 LDRALGRLFAEAVNALLAEAGLSPEDIDAIGS 96 (366) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEC T ss_conf 99999999999999999984998036328975 No 63 >COG4195 Phage-related replication protein [General function prediction only] Probab=34.96 E-value=31 Score=16.06 Aligned_cols=80 Identities=18% Similarity=0.160 Sum_probs=46.1 Q ss_pred HCCCEEEEEEEEECCCCCCCCCCC--HHHHHHHHHHHHHHHHCCCCCEEE----EEEEECCCCCCCCCCCHHH------H Q ss_conf 025605899997226653333200--111337999999998528986069----9997074489899878779------8 Q gi|254780547|r 76 LEKHDCDFLIEGHADELGSRNSSI--ALGLRRAYAVFNYFVARGISASRM----KVTSYGKEMPSVYGHDEDA------Y 143 (160) Q Consensus 76 l~~~~~~i~I~GhtD~~Gs~~yN~--~LS~~RA~aV~~~L~~~Gi~~~ri----~~~g~G~~~P~~~~~~~~~------~ 143 (160) ..++++.|-+.||.|-. ...-| -+-.+||......|...|.+++-. ...|.-+.+++..+.+..+ + T Consensus 96 ~~~h~~vis~HGy~~~~--~~~~lvGG~dR~~aa~i~~~L~~aGF~a~L~~~~~~LaG~hpnNi~Nr~~~g~~iQLE~s~ 173 (208) T COG4195 96 VSDHDYVISLHGYADIE--SKQTLVGGTDRELAAHIARALQLAGFSAELANSKHRLAGLHPNNIVNRGKTGLSIQLEIST 173 (208) T ss_pred HCCCCEEEEECCCCCCC--CCEEEECCCCHHHHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEEEEH T ss_conf 40562799851435788--7615654745899999999986078537764499767777866522235567436887617 Q ss_pred HCCCEEEEEEEECCC Q ss_conf 429918999971368 Q gi|254780547|r 144 AKNRRAIVFLKGCRA 158 (160) Q Consensus 144 ~~NRRVei~i~~~~~ 158 (160) . -||.-+..-||++ T Consensus 174 ~-~r~~lf~~f~~~~ 187 (208) T COG4195 174 E-QRRALFTTFGLKG 187 (208) T ss_pred H-HHHCCCCCCCCCC T ss_conf 6-4302004755466 No 64 >TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family; InterPro: IPR003282 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior. There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia. The type III secretion system is of great interest as it is used to transport virulence factors from the pathogen directly into the host cell and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis . However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself, type III subunits in the outer membrane translocate secreted proteins through a channel-like structure. One of the outer membrane protein subunit families, termed "K" here for nomenclature purposes, aids in the structural assembly of the invasion complex . It is also described as a lipoprotein. Members of this family include the Salmonella PrgK and SsaJ genes, MxiJ from Shigella, YscJ from Yersinia, and from the plant enteropathogens NolT (Rhizobium) and HrcJ Erwinia). The flagellar M-ring protein FliF also shares a low level of similarity, presumably due to evolution of the type III secretion system from the flagellar biosynthetic pathway.; GO: 0009306 protein secretion. Probab=34.95 E-value=32 Score=16.05 Aligned_cols=20 Identities=10% Similarity=0.182 Sum_probs=10.2 Q ss_pred HHHHHHHH--CCCCCEEEEEEE Q ss_conf 99999985--289860699997 Q gi|254780547|r 108 AVFNYFVA--RGISASRMKVTS 127 (160) Q Consensus 108 aV~~~L~~--~Gi~~~ri~~~g 127 (160) -+|..+.. .|++-++|+++- T Consensus 174 ~IK~Lv~~Si~gL~Yd~vSVvl 195 (203) T TIGR02544 174 KIKRLVANSIPGLAYDNVSVVL 195 (203) T ss_pred HHHHHHHHHCCCCCCCCEEEEE T ss_conf 2689998603788716568998 No 65 >PRK05363 putative sulfite oxidase subunit YedY; Reviewed Probab=34.74 E-value=38 Score=15.56 Aligned_cols=53 Identities=15% Similarity=0.257 Sum_probs=33.8 Q ss_pred CHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCC Q ss_conf 0125678752031002204752243247999999984302560589999722665333320 Q gi|254780547|r 38 SSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSS 98 (160) Q Consensus 38 ~~~~~~~~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~yN 98 (160) ..+....+...++ |++||+.+=+|. ..|..|+-.+-+|.|.|..+.-++-++. T Consensus 72 ~~T~~~~vTtYNN--FYEFGt~K~dp~------~~A~~l~t~PWtv~IdG~V~kP~~~d~d 124 (327) T PRK05363 72 PLTPEKDVTTYNN--FYEFGTDKADPA------RNAGSLKTRPWTVKIDGEVEKPGTLDLD 124 (327) T ss_pred CCCCHHHHHEECC--EEEECCCCCCHH------HHHHHCCCCCCEEEEEECCCCCCCCCHH T ss_conf 8898788403110--266057767577------8875167888559984011678513899 No 66 >PRK10858 nitrogen regulatory protein P-II 1; Provisional Probab=34.51 E-value=39 Score=15.54 Aligned_cols=53 Identities=9% Similarity=0.055 Sum_probs=32.0 Q ss_pred HHHHHHHHHHHHHCCCCCE-EEEEEEECCCCCCCCC---C-CHHHHHCCCEEEEEEEE Q ss_conf 3379999999985289860-6999970744898998---7-87798429918999971 Q gi|254780547|r 103 LRRAYAVFNYFVARGISAS-RMKVTSYGKEMPSVYG---H-DEDAYAKNRRAIVFLKG 155 (160) Q Consensus 103 ~~RA~aV~~~L~~~Gi~~~-ri~~~g~G~~~P~~~~---~-~~~~~~~NRRVei~i~~ 155 (160) ..|-+.|++.|.+.|++.= -..+.|+|.+.....- . .....---+++||++.. T Consensus 10 p~kl~~vk~aL~~~G~~g~Tv~~V~G~G~q~g~~~~~rg~~~~~~~~pK~~ieivv~d 67 (112) T PRK10858 10 PFKLDDVREALAEVGITGMTVTEVKGFGRQKGHTELYRGAEYMVDFLPKVKIEIVVPD 67 (112) T ss_pred HHHHHHHHHHHHHCCCCEEEEEECEEECCCCCCCCCCCCCCEEECCCCEEEEEEEECH T ss_conf 9999999999997899739999577874588855431365204122310599999678 No 67 >PRK05421 hypothetical protein; Provisional Probab=33.78 E-value=40 Score=15.47 Aligned_cols=58 Identities=14% Similarity=0.264 Sum_probs=45.4 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCE Q ss_conf 00220475224324799999998430256058999972266533332001113379999999985289860 Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISAS 121 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ 121 (160) .|.|.++- .+...+|+.+...|+.|.--|++.| ++| .=|.+|...+.+++.+.|+..- T Consensus 147 aINF~~g~----~~y~~QL~~l~~~i~~H~GPvI~AG--------DFN-tWs~~R~~~l~~~~~~~gL~ev 204 (254) T PRK05421 147 AINFSVGV----DVYSKQLEPIGDQIAHHSGPIILAG--------DFN-TWSRKRMNALKRFARELGLKEV 204 (254) T ss_pred EEEEECCH----HHHHHHHHHHHHHHHHCCCCEEEEC--------CCC-CCCHHHHHHHHHHHHHCCCCEE T ss_conf 67665156----9999999999999984899879844--------533-0139999999999997698087 No 68 >KOG0739 consensus Probab=33.60 E-value=40 Score=15.45 Aligned_cols=99 Identities=20% Similarity=0.238 Sum_probs=56.8 Q ss_pred EEEEECCCCCCCHH----HHHHHHHHHHHHCCCEEEEEEEEECCCC-CCCCCCCHHHHHHHHHHHHHHHH-CCC--CCEE Q ss_conf 00220475224324----7999999984302560589999722665-33332001113379999999985-289--8606 Q gi|254780547|r 51 SVFFDTSSYSIRPA----DIQVLSNLGSWLEKHDCDFLIEGHADEL-GSRNSSIALGLRRAYAVFNYFVA-RGI--SASR 122 (160) Q Consensus 51 ~v~F~~~s~~L~~~----~~~~L~~ia~~l~~~~~~i~I~GhtD~~-Gs~~yN~~LS~~RA~aV~~~L~~-~Gi--~~~r 122 (160) .-||...|++|-.. +....+.+-++-+.+...|+-.---|+. |++.-|..=+.+|-++ ++|++ .|| +.+- T Consensus 192 STFFSvSSSDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKT--EfLVQMqGVG~d~~g 269 (439) T KOG0739 192 STFFSVSSSDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKT--EFLVQMQGVGNDNDG 269 (439) T ss_pred CCEEEEEHHHHHHHHHCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCHHHHHHHHH--HHHHHHHCCCCCCCC T ss_conf 706873017889987321799999999998734994798634444326887771177777777--888764066658886 Q ss_pred EEEEEECCCCCCCCCCCHHHHHCCCEEEEEE Q ss_conf 9999707448989987877984299189999 Q gi|254780547|r 123 MKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 (160) Q Consensus 123 i~~~g~G~~~P~~~~~~~~~~~~NRRVei~i 153 (160) +-+- |.++---.-++.--|...+|+-|-+ T Consensus 270 vLVL--gATNiPw~LDsAIRRRFekRIYIPL 298 (439) T KOG0739 270 VLVL--GATNIPWVLDSAIRRRFEKRIYIPL 298 (439) T ss_pred EEEE--ECCCCCHHHHHHHHHHHHCCEECCC T ss_conf 4897--2378843677999987650230108 No 69 >COG4472 Uncharacterized protein conserved in bacteria [Function unknown] Probab=33.08 E-value=41 Score=15.40 Aligned_cols=68 Identities=21% Similarity=0.132 Sum_probs=43.1 Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHCCCEE--EEEEEEECCCCCCCCC----CCHHHHH----H----HHHHHHHHHH Q ss_conf 10022047522432479999999843025605--8999972266533332----0011133----7----9999999985 Q gi|254780547|r 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDC--DFLIEGHADELGSRNS----SIALGLR----R----AYAVFNYFVA 115 (160) Q Consensus 50 ~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~--~i~I~GhtD~~Gs~~y----N~~LS~~----R----A~aV~~~L~~ 115 (160) .++.|+++. ..+.+-+..|..+-..|...++ -=.|.||- -.|.++| |-+=++= | -+-|+.||.. T Consensus 6 ~T~~f~~~d-~~~~~v~e~L~~VY~sL~ekGYNpiNQiVGYl-lSGDPaYIpr~ndARn~IRk~eRDeIvEElvk~YLk~ 83 (88) T COG4472 6 ETMRFDVGD-SDKKDVKETLNDVYNSLEEKGYNPINQIVGYL-LSGDPAYIPRYNDARNQIRKLERDEIVEELVKYYLKG 83 (88) T ss_pred CEEEEECCC-CHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH-CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 325655688-70889999999999999872787287788440-1489644676210899999874889999999999851 Q ss_pred CCCC Q ss_conf 2898 Q gi|254780547|r 116 RGIS 119 (160) Q Consensus 116 ~Gi~ 119 (160) .|++ T Consensus 84 ~~~~ 87 (88) T COG4472 84 NGKD 87 (88) T ss_pred CCCC T ss_conf 5789 No 70 >pfam09961 DUF2195 Uncharacterized protein conserved in bacteria (DUF2195). This domain, found in various hypothetical bacterial proteins, has no known function. Probab=32.82 E-value=32 Score=16.00 Aligned_cols=57 Identities=14% Similarity=0.074 Sum_probs=38.3 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCHHHHHCCCEEEEEEEECCC Q ss_conf 33320011133799999999852898606999970744898998787798429918999971368 Q gi|254780547|r 94 SRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKGCRA 158 (160) Q Consensus 94 s~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~~~~~~~~~NRRVei~i~~~~~ 158 (160) |.-.+..+|..++..++..|++.-++-.+-... +-|++ ++.+...||+|.+.+ ||.. T Consensus 63 SAL~~Y~s~v~~~~g~~~~LQ~G~~~~~~~~~r----tl~LA---sd~~l~~dr~v~l~l-gCa~ 119 (121) T pfam09961 63 SALVRYQSLVEFARGSRLVLQEGLFNLAKSQGR----TLPLA---TDAALVFDGRLALRL-GCAP 119 (121) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCE----EEEEE---CCHHHHCCCEEEEEE-ECCC T ss_conf 899999999887277899999760665415864----79975---374451387079998-3577 No 71 >cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD. Probab=32.69 E-value=42 Score=15.36 Aligned_cols=64 Identities=17% Similarity=0.247 Sum_probs=40.7 Q ss_pred HHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCCC-EEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 5203100220475224324799999998430256-05899997226653333200111337999999998528986069 Q gi|254780547|r 46 SSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRM 123 (160) Q Consensus 46 ~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~-~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri 123 (160) ..+...+..+|++..........+..++ .|+++ +.-|+|.|+.. +.|.....+|++.|.+.--+ T Consensus 31 ghi~~siniPf~~~~~~~~~L~~~~~~~-~Lek~Kgk~VViV~~~g-------------~~a~~fa~~Lvk~Gf~rVcv 95 (105) T cd01525 31 GHIEGSINIPFSSVFLKEGELEQLPTVP-RLENYKGKIIVIVSHSH-------------KHAALFAAFLVKCGVPRVCI 95 (105) T ss_pred CEECCCCCCCCHHHCCCCCCCCCCCCHH-HHHHCCCCEEEEECCCC-------------CCHHHHHHHHHHCCCCEEEE T ss_conf 6112755057302015544221364258-99975898299988998-------------67999999999849986999 No 72 >PRK07609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated Probab=32.03 E-value=35 Score=15.83 Aligned_cols=26 Identities=27% Similarity=0.452 Sum_probs=22.7 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEECCC Q ss_conf 99999999852898606999970744 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSYGKE 131 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~G~~ 131 (160) -+++++.|.+.||++++|....|+.. T Consensus 309 v~a~~~~L~~~Gv~~~~I~~E~F~pa 334 (337) T PRK07609 309 VYAARDDFVAAGLPAEEFFADAFTSA 334 (337) T ss_pred HHHHHHHHHHCCCCHHHEEEEECCCC T ss_conf 99999999985998899798203470 No 73 >cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD. Probab=31.68 E-value=28 Score=16.34 Aligned_cols=24 Identities=21% Similarity=0.443 Sum_probs=19.6 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 799999999852898606999970 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) =-++|.+.|.+.|+++++|....| T Consensus 201 m~~~v~~~L~~~Gv~~~~I~~E~F 224 (224) T cd06189 201 MVYAARDDFVEKGLPEENFFSDAF 224 (224) T ss_pred HHHHHHHHHHHCCCCHHHEEECCC T ss_conf 999999999985998899574119 No 74 >cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate. Probab=31.27 E-value=34 Score=15.87 Aligned_cols=24 Identities=17% Similarity=0.238 Sum_probs=19.7 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 799999999852898606999970 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) =.++|++.|.+.||++++|...-| T Consensus 204 m~~~v~~~L~~~Gv~~~~I~~E~F 227 (227) T cd06213 204 MIDAAIAVLRALGIAREHIHADRF 227 (227) T ss_pred HHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 999999999985998899797159 No 75 >cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases. Probab=31.01 E-value=35 Score=15.81 Aligned_cols=23 Identities=4% Similarity=0.060 Sum_probs=18.8 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 99999999852898606999970 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .++|++.|.+.|+++++|....| T Consensus 216 ~~av~~~L~~~Gv~~~~I~~E~F 238 (238) T cd06211 216 IDACIKTLMQGRLFERDIYYEKF 238 (238) T ss_pred HHHHHHHHHHCCCCHHHEEEEEC T ss_conf 99999999986998899898069 No 76 >pfam01764 Lipase_3 Lipase (class 3). Probab=30.57 E-value=45 Score=15.15 Aligned_cols=58 Identities=31% Similarity=0.491 Sum_probs=38.9 Q ss_pred HHHHHHHHCC-CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CCEEEEEEEECCCCCCCCCCC Q ss_conf 9999843025-6058999972266533332001113379999999985289-860699997074489899878 Q gi|254780547|r 69 LSNLGSWLEK-HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGI-SASRMKVTSYGKEMPSVYGHD 139 (160) Q Consensus 69 L~~ia~~l~~-~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi-~~~ri~~~g~G~~~P~~~~~~ 139 (160) +..+.+++++ ++++|.|.||+ |+-.=|.-..-+|...+. +..++....||. |..-|.. T Consensus 50 ~~~l~~~~~~~~~~~l~itGHS-----------LGGa~A~l~a~~l~~~~~~~~~~~~~~tfg~--Prvgn~~ 109 (141) T pfam01764 50 LEELKRLLEKYPDYKIVVTGHS-----------LGGALASLAAADLAENGLFPSSRIRVVTFGS--PRVGNYA 109 (141) T ss_pred HHHHHHHHHHCCCCEEEEEECC-----------HHHHHHHHHHHHHHHHCCCCCCCEEEEEECC--CCCCCHH T ss_conf 9999999997899769998056-----------5789999999999982567878658999479--9757999 No 77 >cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate. Probab=30.07 E-value=36 Score=15.73 Aligned_cols=24 Identities=8% Similarity=0.170 Sum_probs=20.0 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 799999999852898606999970 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) =-++|++.|.+.|+++++|....| T Consensus 208 m~~~~~~~L~~~Gv~~~~I~~E~F 231 (232) T cd06212 208 MIDAALPVLEMSGVPPDQIFYDKF 231 (232) T ss_pred HHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 999999999986998899587407 No 78 >pfam08085 Entericidin Entericidin EcnA/B family. This family consists of the entericidin antidote/toxin peptides. The entericidin locus is activated in stationary phase under high osmolarity conditions by rho-S and simultaneously repressed by the osmoregulatory EnvZ/OmpR signal transduction pathway. The entericidin locus encodes tandem paralogous genes (ecnAB) and directs the synthesis of two small cell-envelope lipoproteins which can maintain plasmids in bacterial population by means of post-segregational killing. Probab=29.75 E-value=47 Score=15.07 Aligned_cols=24 Identities=8% Similarity=0.277 Sum_probs=16.1 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 903699999999999865024566 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNL 24 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~ 24 (160) |++..+++.+.+..++.+++|.+. T Consensus 1 Mk~~~~~~~~l~~~~~~lagCNTv 24 (42) T pfam08085 1 MKKLIALLLALLLLALVLAGCNTV 24 (42) T ss_pred CHHHHHHHHHHHHHHHHHHCCHHH T ss_conf 923699999999999998612221 No 79 >cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group. Probab=29.63 E-value=40 Score=15.44 Aligned_cols=24 Identities=17% Similarity=0.277 Sum_probs=19.4 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 799999999852898606999970 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) =.++|++.|.+.||++++|....| T Consensus 204 m~~~v~~~L~~~Gv~~~~Ih~E~F 227 (228) T cd06209 204 MVDAVRSWLDEQGIEPANFYYEKF 227 (228) T ss_pred HHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 999999999986998899388527 No 80 >cd06194 FNR_N-term_Iron_sulfur_binding Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second e Probab=28.70 E-value=40 Score=15.44 Aligned_cols=24 Identities=17% Similarity=0.146 Sum_probs=20.1 Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 799999999852898606999970 Q gi|254780547|r 105 RAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) -.++|+++|.+.|+++++|....| T Consensus 198 m~~a~~~~L~~~Gv~~~~I~~E~F 221 (222) T cd06194 198 MVNAVRRRAFLAGAPMKRIYADPF 221 (222) T ss_pred HHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 999999999986997897466011 No 81 >PRK11872 antC anthranilate dioxygenase reductase; Provisional Probab=28.07 E-value=48 Score=14.97 Aligned_cols=26 Identities=12% Similarity=0.216 Sum_probs=21.2 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEECCC Q ss_conf 99999999852898606999970744 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSYGKE 131 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~G~~ 131 (160) -+++++.|.+.||++++|....|..+ T Consensus 313 v~a~~~~L~~~Gv~~~~I~~E~F~~S 338 (340) T PRK11872 313 VEAVKQWLDEQALQNYRLYSEKFTQS 338 (340) T ss_pred HHHHHHHHHHCCCCHHHEEEEECCCC T ss_conf 99999999986998899688615388 No 82 >PRK13609 diacylglycerol glucosyltransferase; Provisional Probab=27.82 E-value=51 Score=14.87 Aligned_cols=48 Identities=21% Similarity=0.370 Sum_probs=32.9 Q ss_pred HHHHHHHHHCCCCCEEEEEEEECCCCCCCCC-----CCHHHH-----HCCCEEEEEEEECCC Q ss_conf 9999999852898606999970744898998-----787798-----429918999971368 Q gi|254780547|r 107 YAVFNYFVARGISASRMKVTSYGKEMPSVYG-----HDEDAY-----AKNRRAIVFLKGCRA 158 (160) Q Consensus 107 ~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~-----~~~~~~-----~~NRRVei~i~~~~~ 158 (160) +.+++.|++.|+++++|.+.| -|+.+. +.+..| ..++++.++.-|..| T Consensus 156 e~~k~~l~~~Gv~~~kI~vtG----iPVr~~F~~~~~k~~~r~~lgL~~d~~~vLimgGg~G 213 (388) T PRK13609 156 DHVKEVMVDIGVPAEQIVETG----IPIRSSFELKINPDIIYNKYQLCKNKKILLIVAGAHG 213 (388) T ss_pred HHHHHHHHHHCCCHHHEEEEC----CCCCHHHCCCCCHHHHHHHHCCCCCCCEEEEECCHHH T ss_conf 999999998099888999889----8438787275887899998289987847999766012 No 83 >COG3672 Predicted transglutaminase-like cysteine proteinase [General function prediction only] Probab=27.14 E-value=52 Score=14.80 Aligned_cols=71 Identities=17% Similarity=0.154 Sum_probs=42.8 Q ss_pred ECCCCCCCHHHHHHHHHHHHHHCC---CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEE Q ss_conf 047522432479999999843025---60589999722665333320011133799999999852898606999 Q gi|254780547|r 55 DTSSYSIRPADIQVLSNLGSWLEK---HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKV 125 (160) Q Consensus 55 ~~~s~~L~~~~~~~L~~ia~~l~~---~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~ 125 (160) +.....|+++-...|..+-...+. +-.-+.|-|..|.=-.+.-+.-=-+.-|..=+..|++.|++++.+.+ T Consensus 60 ~~~~~~Lt~~~~~~L~~VN~~vN~~i~~~tD~e~~G~ed~Wa~P~~~~GDCEDyal~KRr~L~~~G~s~~~Lli 133 (191) T COG3672 60 DTDPVKLTPDRWAELKRVNASVNTSIKPMTDMEIYGKEDYWAYPVTGAGDCEDYALEKRRRLMEAGVSSSALLI 133 (191) T ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHEEE T ss_conf 99720059999999999999872115655215541752345688888666799999999999985998124789 No 84 >PRK12701 flgH flagellar basal body L-ring protein; Reviewed Probab=26.77 E-value=53 Score=14.76 Aligned_cols=22 Identities=14% Similarity=-0.055 Sum_probs=13.7 Q ss_pred CCHHHHHHHHHHHHHHHHHCCC Q ss_conf 9036999999999998650245 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGID 22 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~ 22 (160) |+...+.+++.++.+++.|+.. T Consensus 1 m~r~~~~~~~la~~lL~GC~~~ 22 (230) T PRK12701 1 MNRLNIAVSCLATALLFGCEAL 22 (230) T ss_pred CCHHHHHHHHHHHHHHHCCCCC T ss_conf 9258999999999997556688 No 85 >TIGR02074 PBP_1a_fam penicillin-binding protein, 1A family; InterPro: IPR011816 Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of bifunctional transglycosylase/transpeptidase penicillin-binding proteins (PBP). In the Proteobacteria, this family includes PBP 1A but not the paralogous PBP 1B (IPR011813 from INTERPRO). This family also includes related proteins, often designated PBP 1A, from other bacterial lineages.; GO: 0008233 peptidase activity, 0016763 transferase activity transferring pentosyl groups, 0009252 peptidoglycan biosynthetic process, 0046677 response to antibiotic. Probab=26.48 E-value=54 Score=14.72 Aligned_cols=60 Identities=18% Similarity=0.174 Sum_probs=41.0 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCC-CCCEEEE Q ss_conf 0022047522432479999999843025605899997226653333200111337999999998528-9860699 Q gi|254780547|r 51 SVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARG-ISASRMK 124 (160) Q Consensus 51 ~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~G-i~~~ri~ 124 (160) ..||.-+=.+|+-.-.+ -||..++.| +.=+|-+|.+.+++|.+.|.+-..+.| |++++.+ T Consensus 123 ~~YFgK~v~~Ltl~EaA---~LAGlpkaP-----------s~Y~P~~~~e~A~~Rr~~VL~~M~~~G~It~~~~~ 183 (700) T TIGR02074 123 QVYFGKSVNDLTLAEAA---LLAGLPKAP-----------SAYNPFVNPERAKARRNLVLSRMVEEGYITAEEAE 183 (700) T ss_pred HHHCCCCHHHCCHHHHH---HHHHHHCCC-----------CCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHH T ss_conf 76069776527888999---999861375-----------20276221689999999999999865897899999 No 86 >cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown. Probab=26.13 E-value=42 Score=15.36 Aligned_cols=49 Identities=16% Similarity=0.242 Sum_probs=29.9 Q ss_pred HHHHHHHHHHHCCC---EEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEE Q ss_conf 99999998430256---0589999722665333320011133799999999852898606999 Q gi|254780547|r 66 IQVLSNLGSWLEKH---DCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKV 125 (160) Q Consensus 66 ~~~L~~ia~~l~~~---~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~ 125 (160) ...|..++..|++. +-.+. +....|--..-+.|++||.+.|+++++|.+ T Consensus 25 ~~~lk~l~k~LKk~~gcGGtvk-----------~~~IelQGD~R~~i~~~L~~~G~~~~~I~i 76 (77) T cd00474 25 YADLKKLAKELKKKCACGGTVK-----------DEVIELQGDQRKKIKEFLIKMGFAKDNIKI 76 (77) T ss_pred HHHHHHHHHHHHHHCCCCEEEE-----------CCEEEECCCHHHHHHHHHHHCCCCHHHEEE T ss_conf 8999999999888643880795-----------399998281799999999984997898884 No 87 >TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase; InterPro: IPR005963 Tryptophan 5-monooxygenase (1.14.16.4 from EC) is a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tyrosine 3-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria. It is the rate-limiting enzyme in the biosynthesis of serotonin in the central nervous system and catalyzes the first step of the synthesis of melatonin in the pineal gland .L-tryptophan + tetrahydropteridine + O2 = 5-hydroxy-L-tryptophan + dihydropteridine + H2O ; GO: 0004510 tryptophan 5-monooxygenase activity, 0042427 serotonin biosynthetic process. Probab=26.08 E-value=54 Score=14.68 Aligned_cols=54 Identities=13% Similarity=0.210 Sum_probs=32.9 Q ss_pred HHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCCC Q ss_conf 50245666665665544442012567875203100220475224324799999998430256 Q gi|254780547|r 18 ISGIDNLDTKISSPDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH 79 (160) Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~ 79 (160) .+-......+.=.|..+..+ |-+...++ .+||.+.|-+ +|+++|+.++.-|++| T Consensus 403 HA~~~~a~ik~FdP~~v~~q----ECLiTtFQ-~aYF~t~sFE---eA~~~mR~F~~~ikRP 456 (499) T TIGR01270 403 HALSGKAKIKPFDPEKVCEQ----ECLITTFQ-NAYFYTESFE---EAKEKMREFTKTIKRP 456 (499) T ss_pred HHHCCCCEEEECCCCCEECC----CCCEEEEC-CEEEEECCHH---HHHHHHHHHHHHCCCC T ss_conf 63245753651587400013----40154303-4146407769---9999999999736888 No 88 >PRK13799 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional Probab=25.85 E-value=55 Score=14.66 Aligned_cols=77 Identities=14% Similarity=0.205 Sum_probs=53.7 Q ss_pred CCCCHHHHHHHHHHHHHHCCCEE-EEEE----------------------EEECCCC-CCCCCCCHHHHHHHHHHHHHHH Q ss_conf 22432479999999843025605-8999----------------------9722665-3333200111337999999998 Q gi|254780547|r 59 YSIRPADIQVLSNLGSWLEKHDC-DFLI----------------------EGHADEL-GSRNSSIALGLRRAYAVFNYFV 114 (160) Q Consensus 59 ~~L~~~~~~~L~~ia~~l~~~~~-~i~I----------------------~GhtD~~-Gs~~yN~~LS~~RA~aV~~~L~ 114 (160) ..|+|..+.....+..||++.+. .|.| =-|-|.+ -.-.|-=.|+-==+..|.+.|. T Consensus 207 ~ylt~~h~~~~~~~~~wMr~aG~deV~IDAvGNl~GR~eG~~p~ap~l~~GSHlDTVpnGG~yDG~LGVla~le~v~~L~ 286 (591) T PRK13799 207 TYLSDAHRACANQISDWMRDAGFDEVEIDAVGNVVGRYKAADDDAKTLITGSHYDTVRNGGKYDGREGIFLAIACVKELH 286 (591) T ss_pred EECCHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEEECCCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHH T ss_conf 96499999999999999998099779986775468880379999988888776036778865771899999999999999 Q ss_pred HCCCCCE-EEEEEEECCCCCCC Q ss_conf 5289860-69999707448989 Q gi|254780547|r 115 ARGISAS-RMKVTSYGKEMPSV 135 (160) Q Consensus 115 ~~Gi~~~-ri~~~g~G~~~P~~ 135 (160) +.|+.+. -|++++|.+++..- T Consensus 287 e~g~~~~~~iEVV~F~dEEGsR 308 (591) T PRK13799 287 EQGERLPFHFEVIAFAEEEGQR 308 (591) T ss_pred HHCCCCCCCEEEEEECCCCCCC T ss_conf 8099999986999874667766 No 89 >cd00519 Lipase_3 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the process of becoming active at the lipid/water interface, although several examples of lipases have been identified that do not undergo interfacial activation . The active site of a lipase contains a catalytic triad consisting of Ser - His - Asp/Glu, but unlike most serine proteases, the active site is buried inside the structure. A "lid" or "flap" covers the active site, making it inaccessible to solvent and substrates. The lid opens during the process of interfacial activation, allowing the lipid substrate access to the active site. Probab=25.83 E-value=55 Score=14.65 Aligned_cols=56 Identities=29% Similarity=0.374 Sum_probs=37.2 Q ss_pred HHHHHHCC-CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCH Q ss_conf 99843025-60589999722665333320011133799999999852898606999970744898998787 Q gi|254780547|r 71 NLGSWLEK-HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDE 140 (160) Q Consensus 71 ~ia~~l~~-~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~~~~ 140 (160) .+...+++ ++++|.|.||+ |+-.=|.-..-+|...+ +...+.+..||. |.+-+..- T Consensus 117 ~~~~~~~~~p~~~i~vTGHS-----------LGgalA~L~a~~l~~~~-~~~~~~~~tfG~--Prvgn~~f 173 (229) T cd00519 117 ELKSALKQYPDYKIIVTGHS-----------LGGALASLLALDLRLRG-PGSDVTVYTFGQ--PRVGNAAF 173 (229) T ss_pred HHHHHHHHCCCCEEEEECCC-----------CHHHHHHHHHHHHHHHC-CCCCEEEEEECC--CCCCCHHH T ss_conf 99999987899569996467-----------06899999999999717-999707999479--97578999 No 90 >PHA00691 hypothetical protein Probab=25.73 E-value=55 Score=14.64 Aligned_cols=40 Identities=18% Similarity=0.310 Sum_probs=25.5 Q ss_pred HCCC-EEEEEEEEECCCCCCCCCCCH---HHHHHHHHHHHHHHHCC Q ss_conf 0256-058999972266533332001---11337999999998528 Q gi|254780547|r 76 LEKH-DCDFLIEGHADELGSRNSSIA---LGLRRAYAVFNYFVARG 117 (160) Q Consensus 76 l~~~-~~~i~I~GhtD~~Gs~~yN~~---LS~~RA~aV~~~L~~~G 117 (160) |++. .+.+.|.|-|.++-...||+. +|. |.+-.+||..+- T Consensus 18 L~K~~~Y~V~vSG~THST~DS~Y~lsda~~~i--A~~R~DYLArk~ 61 (68) T PHA00691 18 LKKSDSYTVFVSGVTHSTSDSTYELSDAESGI--AKARADYLARKL 61 (68) T ss_pred EEECCCEEEEEECCCCCCCCCCEECCCHHHHH--HHHHHHHHHHHC T ss_conf 98278279998624324554201214112147--788778998722 No 91 >cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water. Probab=25.62 E-value=49 Score=14.93 Aligned_cols=23 Identities=13% Similarity=0.252 Sum_probs=18.8 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 99999999852898606999970 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) -++|++.|.+.|+++++|....| T Consensus 213 ~~~~~~~l~~~Gv~~~~I~~E~F 235 (236) T cd06210 213 VDAAFAAAREAGVPDEQVYLEKF 235 (236) T ss_pred HHHHHHHHHHCCCCHHHEEEEEC T ss_conf 99999999986998899598347 No 92 >cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH. Probab=24.90 E-value=53 Score=14.77 Aligned_cols=25 Identities=24% Similarity=0.230 Sum_probs=19.3 Q ss_pred HHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 3799999999852898606999970 Q gi|254780547|r 104 RRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 104 ~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .-.++|++.|.+.|+++++|....| T Consensus 191 ~mv~~~~~~L~~~Gv~~~~I~~E~F 215 (216) T cd06198 191 GMADALEKGLRALGVPARRFHYERF 215 (216) T ss_pred HHHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 9999999999986997898797022 No 93 >cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form Probab=24.61 E-value=53 Score=14.75 Aligned_cols=25 Identities=12% Similarity=0.292 Sum_probs=19.5 Q ss_pred HHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 3799999999852898606999970 Q gi|254780547|r 104 RRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 104 ~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .-.++|.+.|.+.|+++++|....| T Consensus 211 ~m~~~v~~~L~~~Gv~~~~I~~E~F 235 (235) T cd06217 211 AFVEAATRLLLELGVPRDRIRTEAF 235 (235) T ss_pred HHHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 9999999999986997899797269 No 94 >cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in Probab=24.56 E-value=56 Score=14.61 Aligned_cols=23 Identities=17% Similarity=0.254 Sum_probs=19.1 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 99999999852898606999970 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) -++|++.|.+.|+++++|....| T Consensus 209 ~~~~~~~L~~~Gv~~~~I~~E~F 231 (231) T cd06191 209 MDAVETALKELGMPPERIHTERF 231 (231) T ss_pred HHHHHHHHHHCCCCHHHEEEEEC T ss_conf 99999999987997898898279 No 95 >cd06187 O2ase_reductase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate, while mono-oxygenases (aka mixed oxygenases) add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate. Probab=24.35 E-value=54 Score=14.71 Aligned_cols=25 Identities=20% Similarity=0.377 Sum_probs=19.8 Q ss_pred HHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 3799999999852898606999970 Q gi|254780547|r 104 RRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 104 ~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .--++|++.|.+.||++++|....| T Consensus 200 ~m~~~v~~~L~~~Gv~~~~i~~E~F 224 (224) T cd06187 200 AMVDATVDALLARGAPPERIHFDKF 224 (224) T ss_pred HHHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 9999999999986997899798169 No 96 >cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr Probab=24.28 E-value=58 Score=14.54 Aligned_cols=25 Identities=24% Similarity=0.247 Sum_probs=19.2 Q ss_pred HHHHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 3799999999852898606999970 Q gi|254780547|r 104 RRAYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 104 ~RA~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) .--++|++.|.+.|+++++|....| T Consensus 207 ~m~~~~~~~L~~~Gv~~~~I~~E~F 231 (231) T cd06215 207 GFMKAVKSLLAELGFPMSRFHQESF 231 (231) T ss_pred HHHHHHHHHHHHCCCCHHHEEEEEC T ss_conf 9999999999986997897698179 No 97 >cd06214 PA_degradation_oxidoreductase_like NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like domain with an iron-sulfur binding cluster domain. Ferredoxins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal portion may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and Probab=24.24 E-value=53 Score=14.73 Aligned_cols=23 Identities=22% Similarity=0.276 Sum_probs=17.7 Q ss_pred HHHHHHHHHHCCCCCEEEEEEEE Q ss_conf 99999999852898606999970 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKVTSY 128 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~~g~ 128 (160) -++|.+.|.+.|+++++|....| T Consensus 218 ~~~~~~~L~~~Gv~~~~I~~E~F 240 (241) T cd06214 218 MDAVEAALLELGVPAERIHRELF 240 (241) T ss_pred HHHHHHHHHHCCCCHHHEEEEEC T ss_conf 99999999986997899598315 No 98 >PRK01741 cell division protein ZipA; Provisional Probab=24.00 E-value=45 Score=15.13 Aligned_cols=21 Identities=29% Similarity=0.559 Sum_probs=18.0 Q ss_pred CCHHHHHHHHHHHHHHHHHCC Q ss_conf 903699999999999865024 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGI 21 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~ 21 (160) |.++.|||+++++++.++-.. T Consensus 1 MdLrlILIIvGaIAI~ALL~H 21 (342) T PRK01741 1 MDLNTILIILGILALVALVAH 21 (342) T ss_pred CCCEEHHHHHHHHHHHHHHHH T ss_conf 971254999999999999985 No 99 >PRK05464 Na(+)-translocating NADH-quinone reductase subunit F; Provisional Probab=23.56 E-value=48 Score=15.02 Aligned_cols=23 Identities=17% Similarity=0.400 Sum_probs=11.3 Q ss_pred HHHHHHHHHCCCCCEEEEEEEEC Q ss_conf 99999998528986069999707 Q gi|254780547|r 107 YAVFNYFVARGISASRMKVTSYG 129 (160) Q Consensus 107 ~aV~~~L~~~Gi~~~ri~~~g~G 129 (160) ++|...|.+.||++++|....|| T Consensus 385 ~Av~~~L~~lGV~~E~I~~D~FG 407 (408) T PRK05464 385 AAVIKMLKDLGVEDENILLDDFG 407 (408) T ss_pred HHHHHHHHHCCCCHHHEEECCCC T ss_conf 99999999869998996433568 No 100 >pfam12000 DUF3495 Domain of unknown function (DUF3495). This presumed domain is functionally uncharacterized. This domain is found in bacteria. This domain is about 170 amino acids in length. This domain is found associated with pfam00534. This domain has a single completely conserved residue G that may be functionally important. Probab=22.42 E-value=64 Score=14.26 Aligned_cols=50 Identities=14% Similarity=0.125 Sum_probs=31.3 Q ss_pred EEEEEECCCCCC------CCCCCHHHHHHHHHHHHHHH---HCCCCCEEEE-EEEECCCC Q ss_conf 999972266533------33200111337999999998---5289860699-99707448 Q gi|254780547|r 83 FLIEGHADELGS------RNSSIALGLRRAYAVFNYFV---ARGISASRMK-VTSYGKEM 132 (160) Q Consensus 83 i~I~GhtD~~Gs------~~yN~~LS~~RA~aV~~~L~---~~Gi~~~ri~-~~g~G~~~ 132 (160) |.+.-|.-.+++ ...+.+....|+++|.+.+. +.|..|+-|. ..|.||.- T Consensus 21 V~~~~Y~~~r~~~~~~h~~~~~~E~~~~rg~av~~aa~~L~~~Gf~PDvIi~H~GWGe~L 80 (172) T pfam12000 21 VRLLRYRPPRGATPGTHPYLRDFEAAVIRGQAVARAARQLRAQGFRPDVIVAHPGWGETL 80 (172) T ss_pred EEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHH T ss_conf 489995689888888783320599999999999999999997499999898758764010 No 101 >pfam11713 Peptidase_C80 Peptidase C80 family. This family belongs to cysteine peptidase family C80. Probab=22.40 E-value=64 Score=14.26 Aligned_cols=46 Identities=17% Similarity=0.226 Sum_probs=30.8 Q ss_pred CCEEEEEEEEECCCCCCCCC-CCHHHHHHHHHHHHHHH--------HC--CCCCEEEEEEE Q ss_conf 56058999972266533332-00111337999999998--------52--89860699997 Q gi|254780547|r 78 KHDCDFLIEGHADELGSRNS-SIALGLRRAYAVFNYFV--------AR--GISASRMKVTS 127 (160) Q Consensus 78 ~~~~~i~I~GhtD~~Gs~~y-N~~LS~~RA~aV~~~L~--------~~--Gi~~~ri~~~g 127 (160) ..+.+..+.||-+. ++ |..|+-.-|+.++..|. .. .+.|++|..+| T Consensus 55 ~gkiRwqlVGHG~~----~~n~~~lag~~a~~La~~l~~~~~~~~~~~~~~~~P~kI~LvG 111 (160) T pfam11713 55 KGKIRWQFVGHGRD----EFNGPTLGGHTADELANKIASFRDAFLQTYGSNASPKKISLVG 111 (160) T ss_pred CCCEEEEEEECCCC----CCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEE T ss_conf 78657999945866----5678432688999999999999999987534578874789998 No 102 >PRK06437 hypothetical protein; Provisional Probab=22.02 E-value=65 Score=14.22 Aligned_cols=48 Identities=17% Similarity=0.304 Sum_probs=35.9 Q ss_pred EEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCC Q ss_conf 5899997226653333200111337999999998528986069999707448989987 Q gi|254780547|r 81 CDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGH 138 (160) Q Consensus 81 ~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P~~~~~ 138 (160) .-|.|.||- |..+-..+-..|-+.+...|++.++..+.--|+ |+...+ T Consensus 3 ~MI~vkG~~--------~k~i~id~e~~v~Di~k~~~ldee~yvvIvNGs--P~~~D~ 50 (67) T PRK06437 3 AMIRVKGHI--------NKTIEIDHELTVNDIIKDLGLDEEEYVVIVNGS--PVLEDH 50 (67) T ss_pred EEEEEECEE--------CEEEEEECCCCHHHHHHHCCCCCCCEEEEECCC--CCCCCC T ss_conf 799981100--------306984401328789998199921079998698--544445 No 103 >cd06193 siderophore_interacting Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from transferrin and lactoferrin for bacterial uptake, contributing to pathogen virulence. Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hy Probab=21.59 E-value=67 Score=14.17 Aligned_cols=24 Identities=17% Similarity=0.319 Sum_probs=20.3 Q ss_pred HHHHHHHHHHH-CCCCCEEEEEEEE Q ss_conf 79999999985-2898606999970 Q gi|254780547|r 105 RAYAVFNYFVA-RGISASRMKVTSY 128 (160) Q Consensus 105 RA~aV~~~L~~-~Gi~~~ri~~~g~ 128 (160) =+++++.+|.. .|++.++|.+.|| T Consensus 209 ~~r~lR~~l~~~~g~~r~~i~~~gY 233 (235) T cd06193 209 AVRALRRHLREERGVPRAQVYASGY 233 (235) T ss_pred HHHHHHHHHHHHHCCCHHHEEEEEE T ss_conf 9999999999851998799489864 No 104 >PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional Probab=21.27 E-value=68 Score=14.13 Aligned_cols=28 Identities=21% Similarity=0.315 Sum_probs=21.1 Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCC Q ss_conf 9036999999999998650245666665 Q gi|254780547|r 1 MQYSTIFIILSAITMMSISGIDNLDTKI 28 (160) Q Consensus 1 M~~~~i~i~l~a~~~~~~~~~~~~~~~~ 28 (160) |=++.+|.++.++.++++.+|++..+.. T Consensus 1 ~mkk~~~~~~~a~g~~~l~GC~~r~~~~ 28 (234) T PRK10523 1 MMKKAILTALAAVGLFALMGCNNRAEVD 28 (234) T ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 9058999999999999876346654346 No 105 >KOG4569 consensus Probab=20.88 E-value=69 Score=14.08 Aligned_cols=55 Identities=27% Similarity=0.405 Sum_probs=38.9 Q ss_pred HHHHHHHCC-CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC-CEEEEEEEECCCCCCCCC Q ss_conf 999843025-60589999722665333320011133799999999852898-606999970744898998 Q gi|254780547|r 70 SNLGSWLEK-HDCDFLIEGHADELGSRNSSIALGLRRAYAVFNYFVARGIS-ASRMKVTSYGKEMPSVYG 137 (160) Q Consensus 70 ~~ia~~l~~-~~~~i~I~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~~~Gi~-~~ri~~~g~G~~~P~~~~ 137 (160) +.+...+.. ++++|.|.||+ |+-.=|.--+.+++..|.. +.++.+..||. |..-+ T Consensus 159 ~~~~~L~~~~~~~~i~vTGHS-----------LGgAlA~laa~~i~~~~~~~~~~v~v~tFG~--PRvGn 215 (336) T KOG4569 159 AELRRLIELYPNYSIWVTGHS-----------LGGALASLAALDLVKNGLKTSSPVKVYTFGQ--PRVGN 215 (336) T ss_pred HHHHHHHHHCCCCEEEEEECC-----------CCHHHHHHHHHHHHHCCCCCCCCEEEEEECC--CCCCH T ss_conf 999999986899679994068-----------7089899999999972766566459999169--96954 No 106 >COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism] Probab=20.54 E-value=61 Score=14.39 Aligned_cols=29 Identities=28% Similarity=0.181 Sum_probs=10.1 Q ss_pred EEECCCCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 97226653333200111337999999998 Q gi|254780547|r 86 EGHADELGSRNSSIALGLRRAYAVFNYFV 114 (160) Q Consensus 86 ~GhtD~~Gs~~yN~~LS~~RA~aV~~~L~ 114 (160) +||+|..---..+.-.|..-|+.+..-+. T Consensus 140 eg~AdeiyIVtSge~MalYAANNI~kgi~ 168 (278) T COG1348 140 EGYADEIYIVTSGEMMALYAANNIAKGIR 168 (278) T ss_pred CCCCCEEEEEECCCHHHHHHHHHHHHHHH T ss_conf 26663799995683589999889999999 No 107 >TIGR01854 lipid_A_lpxH UDP-2,3-diacylglucosamine hydrolase; InterPro: IPR010138 This entry represents LpxH, or UDP-2,3-diacylglucosamine hydrolase (or pyrophosphatase), which is an essential enzyme in Escherichia coli that catalyses the fourth step in lipid A biosynthesis. This reaction involves pyrophosphate bond hydrolysis of the precursor UDP-2,3-diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate and UMP . Several Gram-negative bacteria have homologues of LpxH and/or LpxH2, while others have only distant orthologues of LpxH or LpxH2, or lack these enzymes altogether .; GO: 0016462 pyrophosphatase activity, 0009245 lipid A biosynthetic process, 0005737 cytoplasm. Probab=20.48 E-value=42 Score=15.34 Aligned_cols=21 Identities=24% Similarity=0.550 Sum_probs=14.0 Q ss_pred HHHHHHCCCEEEEEEEEECCC Q ss_conf 998430256058999972266 Q gi|254780547|r 71 NLGSWLEKHDCDFLIEGHADE 91 (160) Q Consensus 71 ~ia~~l~~~~~~i~I~GhtD~ 91 (160) .++..|++++....|-|||-. T Consensus 184 ~v~~~~~~~~v~~lIHGHTHR 204 (241) T TIGR01854 184 EVAAVMRRYGVDLLIHGHTHR 204 (241) T ss_pred HHHHHHHHCCCCEEECCCCCC T ss_conf 889999873861430678798 No 108 >pfam03702 UPF0075 Uncharacterized protein family (UPF0075). The proteins is this family are about 370 amino acids long and have no known function. Probab=20.41 E-value=71 Score=14.02 Aligned_cols=34 Identities=21% Similarity=0.231 Sum_probs=15.0 Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCC Q ss_conf 1133799999999852898606999970744898 Q gi|254780547|r 101 LGLRRAYAVFNYFVARGISASRMKVTSYGKEMPS 134 (160) Q Consensus 101 LS~~RA~aV~~~L~~~Gi~~~ri~~~g~G~~~P~ 134 (160) |.+--|+++.+.+...+..+.+|.+.|=|..+|. T Consensus 265 lt~~ta~sIa~~i~~~~~~~~~iiv~GGG~~N~~ 298 (363) T pfam03702 265 LVELTAVTIVDALLQAGPDCERLLVCGGGARNPL 298 (363) T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHH T ss_conf 9999999999999962899758999788756889 No 109 >TIGR01618 phage_P_loop phage nucleotide-binding protein; InterPro: IPR006505 These sequences represent an uncharacterised family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of these proteins is unknown.. Probab=20.29 E-value=71 Score=14.00 Aligned_cols=78 Identities=15% Similarity=0.150 Sum_probs=53.7 Q ss_pred HHHHHHHHCC-CEEEEEEEEECCCCCCCC-----CCCHHHHHHHHHHHHHHHHCCCCCEEEEEEE-ECC--CCCCCCCCC Q ss_conf 9999843025-605899997226653333-----2001113379999999985289860699997-074--489899878 Q gi|254780547|r 69 LSNLGSWLEK-HDCDFLIEGHADELGSRN-----SSIALGLRRAYAVFNYFVARGISASRMKVTS-YGK--EMPSVYGHD 139 (160) Q Consensus 69 L~~ia~~l~~-~~~~i~I~GhtD~~Gs~~-----yN~~LS~~RA~aV~~~L~~~Gi~~~ri~~~g-~G~--~~P~~~~~~ 139 (160) +-.+...|.+ .+..|...-|-++.+... ||+.+.+=|++.+=++|--.-|- .||...+ -|+ -+-+.-..+ T Consensus 127 ~~d~~~vl~~l~~~~i~~tAwe~~~~~~~e~G~iy~ry~pdir~kvlN~~lgl~DvV-aRl~~~~~tG~eevRg~~L~~~ 205 (229) T TIGR01618 127 FLDLLTVLKELKNKNIYVTAWEDTNQLSLESGQIYNRYLPDIREKVLNAFLGLTDVV-ARLVKNAKTGEEEVRGFILDPS 205 (229) T ss_pred HHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCEE-EEEEECCCCCHHHCCCEEECCC T ss_conf 999999998558987999876566753401146687666775478876550333234-5676568888113132355599 Q ss_pred HHHHHCCC Q ss_conf 77984299 Q gi|254780547|r 140 EDAYAKNR 147 (160) Q Consensus 140 ~~~~~~NR 147 (160) +..+|||| T Consensus 206 ~G~yAKNr 213 (229) T TIGR01618 206 KGNYAKNR 213 (229) T ss_pred CCCCCCCC T ss_conf 87212110 No 110 >cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH. Probab=20.11 E-value=62 Score=14.34 Aligned_cols=20 Identities=10% Similarity=0.124 Sum_probs=12.7 Q ss_pred HHHHHHHHHHCCCCCEEEEE Q ss_conf 99999999852898606999 Q gi|254780547|r 106 AYAVFNYFVARGISASRMKV 125 (160) Q Consensus 106 A~aV~~~L~~~Gi~~~ri~~ 125 (160) -++|++.|.+.|+++++|.. T Consensus 198 ~~~~~~~L~~~Gv~~~~I~~ 217 (218) T cd06196 198 EEAINGALKELGVPEDSIVF 217 (218) T ss_pred HHHHHHHHHHCCCCHHHEEE T ss_conf 99999999986998899883 Done!