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)