RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780827|ref|YP_003065240.1| pantothenate kinase [Candidatus Liberibacter asiaticus str. psy62] (311 letters) >gnl|CDD|180082 PRK05439, PRK05439, pantothenate kinase; Provisional. Length = 311 Score = 443 bits (1143), Expect = e-125 Identities = 156/313 (49%), Positives = 205/313 (65%), Gaps = 7/313 (2%) Query: 1 MPNHCFYHFFTSHEWAV-HSKFSSILSKKISNQLLSFDSPIDSTEIYKIYFPLSHLLLIN 59 Y F+ +WA L+++ +L + PI E+ +IY PLS LL + Sbjct: 4 SNEFSPYLEFSREQWAALRDSTPLTLTEEELERLRGLNDPISLEEVAEIYLPLSRLLNLY 63 Query: 60 VNSAKITCHQYNKFLNLKEESKIPFVVGITGSVAVGKSTFARILCILLQQI-SNFKVSLI 118 V + + +FL K K+PF++GI GSVAVGKST AR+L LL + + KV L+ Sbjct: 64 VAANQRLQAALEQFLG-KNGQKVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELV 122 Query: 119 TTDGFLFPNAVLTANNLMQRKGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILE 178 TTDGFL+PNAVL LM+RKGFPESYD LL FLSDVKSGK V P YSH YDI+ Sbjct: 123 TTDGFLYPNAVLEERGLMKRKGFPESYDMRALLRFLSDVKSGKPNVTAPVYSHLIYDIVP 182 Query: 179 GEYDTIIQPDILLIEGINVLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRF 238 GE T+ QPDIL++EG+NVLQ +SDF DFSIY+DAD+ I +WY+ RF Sbjct: 183 GEKQTVDQPDILIVEGLNVLQTGQN----HHRLFVSDFFDFSIYVDADEDLIEKWYIERF 238 Query: 239 LKLRETAFLNPRSYFHHFTEISEEQSLKIAETAWNNINLPNLQHNILPTRKRADLILSKG 298 LKLRETAF +P SYFH + ++SEE+++ IA W+ INLPNL+ NILPTR+RADLIL KG Sbjct: 239 LKLRETAFSDPDSYFHRYAKLSEEEAIAIARQIWDEINLPNLEENILPTRERADLILHKG 298 Query: 299 EDHSVKTIKIKKI 311 DHS++ ++++K+ Sbjct: 299 ADHSIERVRLRKL 311 >gnl|CDD|129645 TIGR00554, panK_bact, pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model. Length = 290 Score = 306 bits (786), Expect = 3e-84 Identities = 137/287 (47%), Positives = 191/287 (66%), Gaps = 2/287 (0%) Query: 25 LSKKISNQLLSFDSPIDSTEIYKIYFPLSHLLLINVNSAKITCHQYNKFLNLKEESKIPF 84 LS+ +L + + E+ IY PLS LL ++S +FL +KIP+ Sbjct: 5 LSEDEIKRLKGINEDLSLEEVATIYLPLSRLLNFYISSNLRRQAVLEQFLG-TNGAKIPY 63 Query: 85 VVGITGSVAVGKSTFARILCILLQQISNF-KVSLITTDGFLFPNAVLTANNLMQRKGFPE 143 ++ I GSVAVGKST ARIL LL + KV LITTDGFL PN VL NLM++KGFPE Sbjct: 64 IISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFLHPNQVLKERNLMKKKGFPE 123 Query: 144 SYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQQNSL 203 SYD ++L+ FLSD+KSGK V P YSH YD++ + ++QPDIL++EG+NVLQ Sbjct: 124 SYDMHRLVKFLSDLKSGKPNVTAPVYSHLTYDVIPDGFKVVVQPDILILEGLNVLQSGMD 183 Query: 204 SDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLRETAFLNPRSYFHHFTEISEEQ 263 + +SDF+DFSIY+DA++ + WY+NRFLK RE AF +P SYFH++ ++S+E+ Sbjct: 184 YPHDPHHVFVSDFVDFSIYVDAEEDLLQTWYINRFLKFREGAFTDPDSYFHNYAKLSKEE 243 Query: 264 SLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSVKTIKIKK 310 ++K A T W IN NL+ NILPTR+RA LIL+KG +H+V+ ++++K Sbjct: 244 AIKTAMTIWKEINWLNLKQNILPTRERASLILTKGANHAVEEVRLRK 290 >gnl|CDD|181743 PRK09270, PRK09270, nucleoside triphosphate hydrolase domain-containing protein; Reviewed. Length = 229 Score = 96.5 bits (241), Expect = 7e-21 Identities = 61/220 (27%), Positives = 92/220 (41%), Gaps = 43/220 (19%) Query: 84 FVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFPE 143 +VGI G GKST A L LLQQ + DGF NAVL A+ L RKG PE Sbjct: 34 TIVGIAGPPGAGKSTLAEFLEALLQQDGELPAIQVPMDGFHLDNAVLDAHGLRPRKGAPE 93 Query: 144 SYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPD--ILLIEGINVLQQN 201 ++D L L +++G +V P + S D + ++ P ++++EG N L Sbjct: 94 TFDVAGLAALLRRLRAGDDEVYWPVFDRSLEDPVADA--IVVPPTARLVIVEG-NYL--- 147 Query: 202 SLSDNQKATPMISDFLDFSIYIDAD-----KRDIHRWYLNRFLKLRETAFLNPRSYFHHF 256 L D + ++ DF+I++DA +R + R E A Sbjct: 148 -LLDEEPWRR-LAGLFDFTIFLDAPAEVLRERLVARKL--AGGLSPEAA----------- 192 Query: 257 TEISEEQSLKIAETAW-NNINLPNLQHNILPTRKRADLIL 295 A+ + PN + +L T + ADL+L Sbjct: 193 -------------EAFVLRNDGPNARL-VLETSRPADLVL 218 >gnl|CDD|161782 TIGR00235, udk, uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below. Length = 207 Score = 57.4 bits (139), Expect = 5e-09 Identities = 53/233 (22%), Positives = 98/233 (42%), Gaps = 47/233 (20%) Query: 80 SKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRK 139 ++GI G GK+T AR + +Q+ ++ +I+ D + + L + +RK Sbjct: 3 KPKGIIIGIGGGSGSGKTTVARKIY---EQLGKLEIVIISQDNYYKDQSHLE---MAERK 56 Query: 140 GF----PESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGI 195 P+++D++ L L ++K+G + VP Y + + + E I D++++EGI Sbjct: 57 KTNFDHPDAFDNDLLYEHLKNLKNG-SPIDVPVYDYVNHTRPK-ETVHIEPKDVVILEGI 114 Query: 196 NVLQQNSLSDNQKATPMISDFLDFSIYIDA--DKRDIHRWYLNRFLKLRETAFLNPRSYF 253 L L D +D I++D D R I R + R Sbjct: 115 MPLFDERL----------RDLMDLKIFVDTPLDIRLIRR--IER---------------- 146 Query: 254 HHFTEISEE-QSLKIAETAWNNINLPNLQHNILPTRKRADLILSKGEDHSVKT 305 +I+E +SL + P + + PT++ ADLI+ +G + V Sbjct: 147 ----DINERGRSLDSVIDQYRKTVRPMYEQFVEPTKQYADLIIPEGGRNEVAI 195 >gnl|CDD|180114 PRK05480, PRK05480, uridine/cytidine kinase; Provisional. Length = 209 Score = 54.4 bits (132), Expect = 4e-08 Identities = 38/167 (22%), Positives = 81/167 (48%), Gaps = 35/167 (20%) Query: 80 SKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRK 139 K P ++GI G GK+T A + +++ + +++I D + + L+ +R Sbjct: 3 MKKPIIIGIAGGSGSGKTTVASTIY---EELGDESIAVIPQDSYYKDQSHLS---FEERV 56 Query: 140 GF----PESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTI-IQP-DILLIE 193 P+++D + L+ L +K+G K + +P Y ++++ + +TI ++P D++++E Sbjct: 57 KTNYDHPDAFDHDLLIEHLKALKAG-KAIEIPVYDYTEHTRSK---ETIRVEPKDVIILE 112 Query: 194 GINVLQQNSLSDNQKATPMISDFLDFSIYIDAD---------KRDIH 231 GI + L D + D +D I++D KRD++ Sbjct: 113 GILL-----LED-----ERLRDLMDIKIFVDTPLDIRLIRRLKRDVN 149 >gnl|CDD|180975 PRK07429, PRK07429, phosphoribulokinase; Provisional. Length = 327 Score = 37.7 bits (88), Expect = 0.004 Identities = 43/178 (24%), Positives = 69/178 (38%), Gaps = 53/178 (29%) Query: 83 PFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGF---------------LFPN 127 P ++G+ G GK+TF R L LL + V++I TD + L P Sbjct: 8 PVLLGVAGDSGCGKTTFLRGLADLLGEE---LVTVICTDDYHSYDRKQRKELGITALDPR 64 Query: 128 AVLTANNL--MQRKGFPESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTII 185 A NNL M L +K+G+ + P Y+H EY I Sbjct: 65 A----NNLDIMYEH--------------LKALKTGQP-ILKPIYNHETGTFDPPEY---I 102 Query: 186 QP-DILLIEGINVLQQNSLSDNQKATPMISDFLDFSIYIDADKRDIHRWYLNRFLKLR 242 +P I+++EG++ L + + DF +Y+D + W + R + R Sbjct: 103 EPNKIVVVEGLHPL----------YDERVRELYDFKVYLDPPEEVKIAWKIKRDMAKR 150 >gnl|CDD|178848 PRK00081, coaE, dephospho-CoA kinase; Reviewed. Length = 197 Score = 37.4 bits (88), Expect = 0.005 Identities = 8/21 (38%), Positives = 13/21 (61%) Query: 83 PFVVGITGSVAVGKSTFARIL 103 ++G+TG + GKST A + Sbjct: 2 MLIIGLTGGIGSGKSTVANLF 22 >gnl|CDD|178393 PLN02796, PLN02796, D-glycerate 3-kinase. Length = 347 Score = 37.4 bits (87), Expect = 0.005 Identities = 41/163 (25%), Positives = 64/163 (39%), Gaps = 35/163 (21%) Query: 33 LLSFD----SPIDSTEIYKIYFPLSHLLLINVNSAKITCHQYNKFLNLKEESKI-PFVVG 87 LL FD S +Y Y P+ ++ H+ +KF K+ +I P V+G Sbjct: 54 LLQFDELSLSASQKARVYHYYLPVYLWCE-----DQLEAHR-SKF---KDGDEIPPLVIG 104 Query: 88 ITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTA------------NNL 135 I+ GK+T L L + + + ++ D F LTA N L Sbjct: 105 ISAPQGCGKTTLVFALVYLFN-ATGRRAASLSIDDFY-----LTAADQAKLAEANPGNAL 158 Query: 136 MQRKGFPESYD---SNKLLTFLSDVKSGKKKVAVPRYSHSQYD 175 ++ +G S+D + L L + K+ VPRY S Y Sbjct: 159 LELRGNAGSHDLALGVETLEALRKLNKEGSKMKVPRYDKSAYG 201 >gnl|CDD|177982 PLN02348, PLN02348, phosphoribulokinase. Length = 395 Score = 36.0 bits (83), Expect = 0.012 Identities = 46/181 (25%), Positives = 66/181 (36%), Gaps = 54/181 (29%) Query: 71 NKFLNLKEESKIPFVVGITGSVAVGKSTFARILCILL----------QQISNFKVSLITT 120 + + V+G+ GKSTF R L + SN +S TT Sbjct: 37 SSVVVALAADDGTVVIGLAADSGCGKSTFMRRLTSVFGGAAKPPKGGNPDSNTLISDTTT 96 Query: 121 DGFLFPNAVLTANN--LMQRKGFPES------YDSNKLLTFLSDVKSGKKKVAV--PRYS 170 V+ ++ + R G E +N VK+ K+ AV P Y+ Sbjct: 97 --------VICLDDYHSLDRTGRKEKGVTALDPRANNFDLMYEQVKALKEGKAVEKPIYN 148 Query: 171 HSQYDILEGEYD---TIIQPDILLIEGINVLQQNSLSDNQKATPM----ISDFLDFSIYI 223 H + G D I P IL+IEG++ PM + D LDFSIY+ Sbjct: 149 H-----VTGLLDPPELIEPPKILVIEGLH--------------PMYDERVRDLLDFSIYL 189 Query: 224 D 224 D Sbjct: 190 D 190 >gnl|CDD|173193 PRK14731, coaE, dephospho-CoA kinase; Provisional. Length = 208 Score = 35.0 bits (81), Expect = 0.022 Identities = 12/25 (48%), Positives = 16/25 (64%) Query: 79 ESKIPFVVGITGSVAVGKSTFARIL 103 +PF+VG+TG + GKST R L Sbjct: 1 MRSLPFLVGVTGGIGSGKSTVCRFL 25 >gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional. Length = 590 Score = 34.4 bits (80), Expect = 0.037 Identities = 10/19 (52%), Positives = 15/19 (78%) Query: 85 VVGITGSVAVGKSTFARIL 103 V+GI G +GK+TFA++L Sbjct: 367 VIGIVGPNGIGKTTFAKLL 385 Score = 30.5 bits (70), Expect = 0.52 Identities = 21/97 (21%), Positives = 32/97 (32%), Gaps = 41/97 (42%) Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPN-----------AVLTAN 133 V GI G +GK+T +IL G L PN VL Sbjct: 101 VTGILGPNGIGKTTAVKIL-----------------SGELIPNLGDYEEEPSWDEVL--- 140 Query: 134 NLMQRKGFPESYDSNKLLTFLSDVKSGKKKVAV-PRY 169 + + +L + + +G+ KV P+Y Sbjct: 141 ---------KRFRGTELQNYFKKLYNGEIKVVHKPQY 168 >gnl|CDD|180660 PRK06696, PRK06696, uridine kinase; Validated. Length = 223 Score = 33.8 bits (78), Expect = 0.059 Identities = 34/158 (21%), Positives = 58/158 (36%), Gaps = 20/158 (12%) Query: 83 PFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLMQRKGFP 142 P V I G A GK+TFA L + + V + D F P + +G+ Sbjct: 22 PLRVAIDGITASGKTTFADELAEEI-KKRGRPVIRASIDDFHNPRVIRYRRGRESAEGYY 80 Query: 143 E-SYDSNKLLTFLSD--VKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGINVLQ 199 E +YD L L D +G ++ + + +L+++G +L+ Sbjct: 81 EDAYDYTALRRLLLDPLGPNGDRQYRTASHDLKTDIPVHNPPLLAAPNAVLIVDGTFLLR 140 Query: 200 QNSLSDNQKATPMISDFLDFSIYIDAD-----KRDIHR 232 P + D D+ I++D D +R R Sbjct: 141 -----------PELRDLWDYKIFLDTDFEVSRRRGAKR 167 >gnl|CDD|181855 PRK09435, PRK09435, membrane ATPase/protein kinase; Provisional. Length = 332 Score = 32.5 bits (75), Expect = 0.13 Identities = 10/14 (71%), Positives = 11/14 (78%) Query: 86 VGITGSVAVGKSTF 99 +GITG VGKSTF Sbjct: 59 IGITGVPGVGKSTF 72 >gnl|CDD|132456 TIGR03415, ABC_choXWV_ATP, choline ABC transporter, ATP-binding protein. Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines. Length = 382 Score = 32.4 bits (74), Expect = 0.16 Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 9/85 (10%) Query: 126 PNAVLTANNLMQRKGFPESYDSN-------KLLTFLSD--VKSGKKKVAVPRYSHSQYDI 176 P VLTA +LM+ E D F D V+ K+ V ++ Q Sbjct: 270 PLNVLTARSLMRPLTDLEHVDGGWCVSDRRDTWLFTIDKQVRRRDAKLPVQAWAAEQEVE 329 Query: 177 LEGEYDTIIQPDILLIEGINVLQQN 201 T+I PD L+ + + + Sbjct: 330 SLEAAPTVINPDTLMRDVLAARHRT 354 >gnl|CDD|180124 PRK05537, PRK05537, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated. Length = 568 Score = 30.8 bits (70), Expect = 0.45 Identities = 14/38 (36%), Positives = 20/38 (52%) Query: 84 FVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTD 121 F V TG GKST A+ L + L ++ V+L+ D Sbjct: 393 FTVFFTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDGD 430 >gnl|CDD|179560 PRK03333, coaE, dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional. Length = 395 Score = 30.7 bits (70), Expect = 0.53 Identities = 9/18 (50%), Positives = 12/18 (66%) Query: 86 VGITGSVAVGKSTFARIL 103 +G+TG + GKST A L Sbjct: 4 IGLTGGIGAGKSTVAARL 21 >gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however. Length = 300 Score = 30.1 bits (68), Expect = 0.72 Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 5/52 (9%) Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANNLM 136 VGITG+ GKST L + L++ KV++I D P++ T +++ Sbjct: 36 RVGITGTPGAGKSTLLEALGMELRR-RGLKVAVIAVD----PSSPFTGGSIL 82 >gnl|CDD|129256 TIGR00152, TIGR00152, dephospho-CoA kinase. This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases. Length = 188 Score = 30.0 bits (68), Expect = 0.83 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 6/39 (15%) Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGF 123 ++G+TG + GKST A L + +I D Sbjct: 1 IIGLTGGIGSGKSTVANYL------ADKYHFPVIDADKI 33 >gnl|CDD|172762 PRK14274, PRK14274, phosphate ABC transporter ATP-binding protein; Provisional. Length = 259 Score = 29.9 bits (67), Expect = 0.83 Identities = 16/50 (32%), Positives = 30/50 (60%), Gaps = 4/50 (8%) Query: 68 HQYNKFLNLK-EESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVS 116 H K +NL E+++ ++G +G GKSTF + L +++Q + N K++ Sbjct: 25 HHALKNINLSIPENEVTAIIGPSG---CGKSTFIKTLNLMIQMVPNVKLT 71 >gnl|CDD|163294 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. Length = 282 Score = 29.6 bits (67), Expect = 0.95 Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 4/50 (8%) Query: 75 NLKEESKIPFVVGITGSVAVGKST-FARILCILLQQISNFKVSLITTDGF 123 + E+ + +VG TG VGK+T A++ + + N KV+LITTD + Sbjct: 189 EILEQGGVIALVGPTG---VGKTTTLAKLAARFVLEHGNKKVALITTDTY 235 >gnl|CDD|185630 PTZ00451, PTZ00451, dephospho-CoA kinase; Provisional. Length = 244 Score = 29.8 bits (67), Expect = 0.98 Identities = 11/19 (57%), Positives = 16/19 (84%) Query: 85 VVGITGSVAVGKSTFARIL 103 ++G+TG +A GKST +RIL Sbjct: 3 LIGLTGGIACGKSTVSRIL 21 >gnl|CDD|163508 TIGR03796, NHPM_micro_ABC1, NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein. This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin. Length = 710 Score = 29.5 bits (67), Expect = 1.1 Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 4/38 (10%) Query: 74 LNLKEESKIPFVVGITGSVAVGKSTFARILCILLQQIS 111 L L+ ++ V G +GS GKST A+++ L Q S Sbjct: 500 LTLQPGQRVALV-GGSGS---GKSTIAKLVAGLYQPWS 533 >gnl|CDD|178042 PLN02422, PLN02422, dephospho-CoA kinase. Length = 232 Score = 29.3 bits (66), Expect = 1.2 Identities = 10/19 (52%), Positives = 14/19 (73%) Query: 85 VVGITGSVAVGKSTFARIL 103 VVG+TG +A GKST + + Sbjct: 3 VVGLTGGIASGKSTVSNLF 21 >gnl|CDD|129002 smart00763, AAA_PrkA, PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain. Length = 361 Score = 28.4 bits (64), Expect = 2.1 Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 3/36 (8%) Query: 76 LKEESKIPFVVGITGSVAVGKSTFARILCILLQQIS 111 L+E +I +++G G GKS+ L L++ S Sbjct: 74 LEERKQILYLLGPVGG---GKSSLVECLKRGLEEYS 106 >gnl|CDD|185081 PRK15127, PRK15127, multidrug efflux system protein AcrB; Provisional. Length = 1049 Score = 28.3 bits (63), Expect = 2.4 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 10/71 (14%) Query: 76 LKEESKIPFVVGITGSVAVGKSTFARILCILLQQISN---FKVSLITTDGFLFPNAVLT- 131 L E IPF V + + V +L + ++N F+V L+TT G NA+L Sbjct: 891 LYESWSIPFSVMLVVPLGV----IGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIV 946 Query: 132 --ANNLMQRKG 140 A +LM ++G Sbjct: 947 EFAKDLMDKEG 957 >gnl|CDD|184807 PRK14730, coaE, dephospho-CoA kinase; Provisional. Length = 195 Score = 28.3 bits (64), Expect = 2.6 Identities = 9/18 (50%), Positives = 12/18 (66%) Query: 86 VGITGSVAVGKSTFARIL 103 +G+TG +A GKST L Sbjct: 4 IGLTGGIASGKSTVGNYL 21 >gnl|CDD|140322 PTZ00301, PTZ00301, uridine kinase; Provisional. Length = 210 Score = 28.0 bits (62), Expect = 2.8 Identities = 28/113 (24%), Positives = 54/113 (47%), Gaps = 4/113 (3%) Query: 85 VVGITGSVAVGKSTFA-RILCILLQQISNFKVSLITTDGFLFPNA-VLTANNLMQRKGFP 142 V+GI+G+ GKS+ + I+ L+ + +I D + + + + P Sbjct: 5 VIGISGASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYYRDQSNIPESERAYTNYDHP 64 Query: 143 ESYDSNKLLTFLSDVKSGKKKVAVPRYSHSQYDILEGEYDTIIQPDILLIEGI 195 +S + + L T L ++KSG K V +P+Y + + T+ +L++EGI Sbjct: 65 KSLEHDLLTTHLRELKSG-KTVQIPQYDYVHH-TRSDTAVTMTPKSVLIVEGI 115 >gnl|CDD|162224 TIGR01143, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ. Length = 417 Score = 28.0 bits (63), Expect = 3.0 Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 4/33 (12%) Query: 83 PFVVGITGSVAVGKSTFARILCILLQQISNFKV 115 V+GITGS GK+T +L +L +KV Sbjct: 74 GKVIGITGS--SGKTTTKEMLAAILSH--KYKV 102 >gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148 Score = 28.1 bits (62), Expect = 3.1 Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 1/40 (2%) Query: 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFL 124 V+ I G GK+T AR L L V I + L Sbjct: 4 VILIVGPPGSGKTTLARALARELGP-PGGGVIYIDGEDIL 42 >gnl|CDD|132614 TIGR03575, selen_PSTK_euk, L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity. Length = 340 Score = 27.9 bits (62), Expect = 3.6 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%) Query: 90 GSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLTANN 134 G A GKST AR L L++ + V++IT D + P A + Sbjct: 6 GLPAAGKSTLARSLSATLRRERGWAVAVITYDDII-PEAAFELDQ 49 >gnl|CDD|178800 PRK00023, cmk, cytidylate kinase; Provisional. Length = 225 Score = 27.8 bits (63), Expect = 4.2 Identities = 9/24 (37%), Positives = 11/24 (45%) Query: 80 SKIPFVVGITGSVAVGKSTFARIL 103 V+ I G GK T A+IL Sbjct: 1 MMKAIVIAIDGPAGSGKGTVAKIL 24 >gnl|CDD|129208 TIGR00101, ureG, urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel. Length = 199 Score = 27.5 bits (61), Expect = 4.7 Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 9/61 (14%) Query: 83 PFVVGITGSVAVGKSTFARILCILLQQISNFKVSLITTD-------GFLFPNAVLTANNL 135 P +G+ G V GK+ L L+Q +++++IT D FL N+ L + Sbjct: 1 PLKIGVAGPVGSGKTALIEALTRALRQ--KYQLAVITNDIYTQEDAEFLVKNSALPPERI 58 Query: 136 M 136 + Sbjct: 59 L 59 >gnl|CDD|184933 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional. Length = 527 Score = 27.0 bits (60), Expect = 6.5 Identities = 10/15 (66%), Positives = 12/15 (80%) Query: 89 TGSVAVGKSTFARIL 103 TG+ VGK+T ARIL Sbjct: 44 TGTRGVGKTTLARIL 58 >gnl|CDD|182515 PRK10522, PRK10522, multidrug transporter membrane component/ATP-binding component; Provisional. Length = 547 Score = 26.9 bits (60), Expect = 6.8 Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 3/28 (10%) Query: 84 FVVGITGSVAVGKSTFARILCILLQQIS 111 F++G GS GKST A +L L Q S Sbjct: 353 FLIGGNGS---GKSTLAMLLTGLYQPQS 377 >gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional. Length = 282 Score = 26.6 bits (59), Expect = 7.7 Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 3/29 (10%) Query: 81 KIPFVVGITGSVAVGKSTFARILCILLQQ 109 K+ + G+ G GKST A++L +L Q Sbjct: 4 KLIIIEGLPG---FGKSTTAKMLNDILSQ 29 >gnl|CDD|172873 PRK14397, PRK14397, membrane protein; Provisional. Length = 222 Score = 26.7 bits (59), Expect = 7.8 Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 1/55 (1%) Query: 63 AKITCHQYNKFLNLKEESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSL 117 A + H Y+ FL + + +G+ +A + + ILC+L+ S F VSL Sbjct: 87 AALLGHLYSCFLGFRGGKAVATTIGVFIPLAFWQLLLSGILCLLVIWRSGF-VSL 140 >gnl|CDD|162555 TIGR01842, type_I_sec_PrtD, type I secretion system ABC transporter, PrtD family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. Length = 544 Score = 26.5 bits (59), Expect = 7.9 Identities = 8/19 (42%), Positives = 11/19 (57%) Query: 85 VVGITGSVAVGKSTFARIL 103 + I G GKST AR++ Sbjct: 346 ALAIIGPSGSGKSTLARLI 364 >gnl|CDD|178749 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional. Length = 1153 Score = 26.8 bits (59), Expect = 7.9 Identities = 14/28 (50%), Positives = 18/28 (64%) Query: 76 LKEESKIPFVVGITGSVAVGKSTFARIL 103 L ES+ +VGI GS +GK+T AR L Sbjct: 200 LHLESEEVRMVGIWGSSGIGKTTIARAL 227 >gnl|CDD|173195 PRK14733, coaE, dephospho-CoA kinase; Provisional. Length = 204 Score = 26.5 bits (58), Expect = 8.0 Identities = 12/20 (60%), Positives = 15/20 (75%) Query: 84 FVVGITGSVAVGKSTFARIL 103 + +GITG +A GKST RIL Sbjct: 7 YPIGITGGIASGKSTATRIL 26 >gnl|CDD|177379 PHA02544, 44, clamp loader, small subunit; Provisional. Length = 316 Score = 26.5 bits (59), Expect = 8.6 Identities = 10/34 (29%), Positives = 20/34 (58%) Query: 71 NKFLNLKEESKIPFVVGITGSVAVGKSTFARILC 104 F ++ ++ +IP ++ + S GK+T A+ LC Sbjct: 31 ETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALC 64 >gnl|CDD|163239 TIGR03375, type_I_sec_LssB, type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export. Length = 694 Score = 26.4 bits (59), Expect = 8.9 Identities = 10/26 (38%), Positives = 13/26 (50%) Query: 86 VGITGSVAVGKSTFARILCILLQQIS 111 V I G + GKST ++L L Q Sbjct: 494 VAIIGRIGSGKSTLLKLLLGLYQPTE 519 >gnl|CDD|183450 PRK12335, PRK12335, tellurite resistance protein TehB; Provisional. Length = 287 Score = 26.4 bits (59), Expect = 8.9 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 8/39 (20%) Query: 258 EISEEQSLKIAETAWNNINLPNLQHNILPTRKRADLILS 296 EI+E+++L I T +IN ++Q D ILS Sbjct: 160 EIAEKENLNI-RTGLYDINSASIQEEY-------DFILS 190 >gnl|CDD|162558 TIGR01846, type_I_sec_HlyB, type I secretion system ABC transporter, HlyB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. Length = 694 Score = 26.2 bits (58), Expect = 9.7 Identities = 8/19 (42%), Positives = 11/19 (57%) Query: 85 VVGITGSVAVGKSTFARIL 103 +GI G GKST ++L Sbjct: 485 FIGIVGPSGSGKSTLTKLL 503 >gnl|CDD|181456 PRK08525, PRK08525, amidophosphoribosyltransferase; Provisional. Length = 445 Score = 26.2 bits (58), Expect = 9.9 Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 5/40 (12%) Query: 78 EESKIPFVVGITGSVAVGKSTFARILCILLQQISNFKVSL 117 +ES IPF + I + VG+ TF Q++ N KV L Sbjct: 295 QESGIPFEMAIVRNHYVGR-TFIEP----TQEMRNLKVKL 329 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.321 0.136 0.397 Gapped Lambda K H 0.267 0.0758 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,910,854 Number of extensions: 304316 Number of successful extensions: 785 Number of sequences better than 10.0: 1 Number of HSP's gapped: 772 Number of HSP's successfully gapped: 68 Length of query: 311 Length of database: 5,994,473 Length adjustment: 93 Effective length of query: 218 Effective length of database: 3,984,929 Effective search space: 868714522 Effective search space used: 868714522 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 57 (25.7 bits)