RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780376|ref|YP_003064789.1| flagellar basal body P-ring
protein [Candidatus Liberibacter asiaticus str. psy62]
(369 letters)
>gnl|CDD|180004 PRK05303, flgI, flagellar basal body P-ring protein; Provisional.
Length = 367
Score = 476 bits (1229), Expect = e-135
Identities = 187/372 (50%), Positives = 237/372 (63%), Gaps = 8/372 (2%)
Query: 1 MIFRIAFLIFSLIGLHEISAQVVSRIKDVVSLQSGRDNQLIGYGLVVGLQGTGDSLRSSP 60
M L L+ L ++ RIKD+ S+Q RDNQLIGYGLVVGL GTGD +P
Sbjct: 1 MKMLKLLLALLLLLLLLLAPAAAERIKDLASVQGVRDNQLIGYGLVVGLDGTGDQTTQTP 60
Query: 61 FTEQSMRSLLQNLGISTPGG-RLGSKNVAAVMVTANLPPFASPGSRIDVSINSLGDASSL 119
FT QS+ ++L+ LG++ P G KNVAAVMVTA LPPFA PG RIDV+++S+GDA SL
Sbjct: 61 FTTQSLANMLEQLGVNVPPGTNPKLKNVAAVMVTATLPPFARPGQRIDVTVSSIGDAKSL 120
Query: 120 RGGILVMTSLLGADGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTGGKIVNGAIVERELP 179
RGG L+MT L GADG +YAVAQG++VV G G SS + T G+I NGAIVERE+P
Sbjct: 121 RGGTLLMTPLKGADGQVYAVAQGNLVVGGFGASGDGSSVTVNVPTVGRIPNGAIVEREVP 180
Query: 180 KKFKDSADLILQLRNPDFSTAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPT-NIDL 238
F L L LRNPDF+TA RIAD IN F +A A D+RTV+V P
Sbjct: 181 SDFGQGNSLTLNLRNPDFTTAQRIADAIN----RLFGPGVATALDARTVQVRAPADPSQR 236
Query: 239 TRLMSEVEMLTVETDTPARVIINERTGTIVIGDNVRISKVVVSYGNLTVQITENEQVVQP 298
R ++ +E L VE D PA+V+INERTGTIV+G +VR+S V VS+GNLTV ITE QV QP
Sbjct: 237 VRFLARIENLEVEPDAPAKVVINERTGTIVMGQDVRVSPVAVSHGNLTVTITEQPQVSQP 296
Query: 299 NAFSSNGSTVTQNNTDLKVSDNKGSFSLIDA-PDLNSLISGMNSIGLKTDGIISILQGIK 357
N F S G TV T + V + G ++ L L+ +N++G +I+ILQ +K
Sbjct: 297 NPF-SGGQTVVTPQTQIDVEEEGGRLFVVPEGATLADLVRALNALGATPRDLIAILQALK 355
Query: 358 AAGALQSEIIIQ 369
AAGAL +E+ +
Sbjct: 356 AAGALHAELEVI 367
>gnl|CDD|183746 PRK12789, flgI, flagellar basal body P-ring protein; Reviewed.
Length = 367
Score = 435 bits (1121), Expect = e-123
Identities = 196/370 (52%), Positives = 272/370 (73%), Gaps = 4/370 (1%)
Query: 1 MIFRIAF-LIFSLIGLHEISAQVVSRIKDVVSLQSGRDNQLIGYGLVVGLQGTGDSLRSS 59
MI R+ ++ L L A +RIKD+ +L+ RDNQL+GYGLV GLQGTGD+LR++
Sbjct: 1 MIRRLLLAVLLGL--LAGPVAAAGTRIKDIATLKGVRDNQLVGYGLVTGLQGTGDTLRNA 58
Query: 60 PFTEQSMRSLLQNLGISTPGGRLGSKNVAAVMVTANLPPFASPGSRIDVSINSLGDASSL 119
FTEQS++S+L +GI+ RL ++NVAAVMVTA+LPPF PGSRIDV+++SLGDA+SL
Sbjct: 59 QFTEQSLQSMLDRMGINVRDARLRTRNVAAVMVTADLPPFTGPGSRIDVTVSSLGDATSL 118
Query: 120 RGGILVMTSLLGADGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTGGKIVNGAIVERELP 179
RGG L+MTSL G DG +YAVAQG + VSG V+GQ+ S +G+ T G+I NGA++ERE+P
Sbjct: 119 RGGTLLMTSLTGGDGLVYAVAQGPLAVSGFSVQGQAESLTQGVPTAGRIPNGALIEREVP 178
Query: 180 KKFKDSADLILQLRNPDFSTAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPTNIDLT 239
F+D +L+L+L+NPDF TA +I+D IN+YSL R+ R IA D RTV + +P + T
Sbjct: 179 GTFRDLPELVLELKNPDFKTATQISDAINAYSLGRYGRRIASERDQRTVVLMRPRQMAQT 238
Query: 240 RLMSEVEMLTVETDTPARVIINERTGTIVIGDNVRISKVVVSYGNLTVQITENEQVVQPN 299
R ++E+ LT+E DTPARV++++RTGT+VIG NV+IS V V++GNLTV++TE +V QP
Sbjct: 239 RFIAEIGDLTIEPDTPARVVVDQRTGTVVIGRNVQISTVAVTHGNLTVRVTEAPEVSQPA 298
Query: 300 AFSSNGSTVTQNNTDLKVSDNKGSFSLIDAPDLNSLISGMNSIGLKTDGIISILQGIKAA 359
F SNG TV T++ ++ G +++ DL +L+ G+N IGLK II+ILQ IK A
Sbjct: 299 PF-SNGQTVVVPRTEIDANEEGGKLAILRGSDLQTLVRGLNQIGLKPSDIIAILQAIKTA 357
Query: 360 GALQSEIIIQ 369
GALQ+E+++Q
Sbjct: 358 GALQAELVVQ 367
>gnl|CDD|183694 PRK12706, flgI, flagellar basal body P-ring protein; Provisional.
Length = 328
Score = 73.3 bits (180), Expect = 8e-14
Identities = 94/354 (26%), Positives = 151/354 (42%), Gaps = 62/354 (17%)
Query: 17 EISAQVVSRIKDVVSLQSGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQSMRSLLQNLGIS 76
+IS V ++K++ + N L G G+V GL GDSL+ + +L +GI+
Sbjct: 35 QISESV--KLKNIAEICPTNSNFLTGIGIVAGLADKGDSLKQKDILNK----ILNEIGIN 88
Query: 77 TPG-GRLGSKNVAAVMVTANLPPFASPGSRIDVSINSLGDASSLRGGILVMTSLLGADGN 135
+GSKN+A V V+ + GS+ +V I S+ D+ L GIL+ T L +G
Sbjct: 89 EIDLTNIGSKNIALVNVSLQINGNMIKGSKHNVYIASMLDSKDLTNGILLKTELKDKEGK 148
Query: 136 IYAVAQGSVVVSGLFVKGQSSSFMEGISTGGKIVNGAIVERELPKKFKDSADLILQLRNP 195
I A A G ++ + KG G I+NGA + ++ + L+
Sbjct: 149 ILATASGPIITNNK-SKGT-----------GYILNGATIHEN-----QNYTHYNIILKKG 191
Query: 196 DFSTAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPTNIDLTRLMSEVEMLTVETDTP 255
D++ IN S S+ I S + + NI L+ E+E + +ET
Sbjct: 192 DYTL-------INRISKILTSKNIKNNIKSGNIIEIEVKNI---GLLEEIENIEIETM-- 239
Query: 256 ARVIINERTGTIVIGDNVRISKVVVSYGNLTVQITENEQVVQPNAFSSNGSTVTQNNTDL 315
+V+I+E+ I+ N I G LT I ++Q N F++ NN +
Sbjct: 240 PKVLIDEQNKIILASTNAEI-------GPLTFSIERDDQ----NLFNNK------NNKTI 282
Query: 316 KVSDNKGSFSLIDAPDLNSLISGMNSIGLKTDGIISILQGIKAAGALQSEIIIQ 369
K+ K LN IS NS L +I I++ K L E+I++
Sbjct: 283 KIQIQKMK--------LNEFISK-NSNNLSNKELIQIIKAAKKINKLNGELILE 327
>gnl|CDD|129562 TIGR00470, sepS, O-phosphoseryl-tRNA(Cys) synthetase. This family
of archaeal proteins resembles known phenylalanyl-tRNA
synthetase alpha chains. Recently, it was shown to act
in a proposed pathway of tRNA(Cys) indirect
aminoacylation, resulting in Cys biosynthesis from
O-phosphoserine, in certain archaea. It charges
tRNA(Cys) with O-phosphoserine. The pscS gene product
converts the phosphoserine to Cys.
Length = 533
Score = 29.8 bits (67), Expect = 1.2
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 103 GSRIDVSINSLGDASSLRGGILVMTSLLGADGNIYAVAQGSVVVSGLFVKGQSSSFMEGI 162
G RI V I + + L G V+ + DGNIY + V ++K + EG+
Sbjct: 403 GRRIKVEIFENEENTKLLGPA-VLNEVYVYDGNIYGIPPTFEGVKEQYIK----AKEEGV 457
Query: 163 STGGKIVNGAIVE 175
STG + ++G +
Sbjct: 458 STGIRYIDGIAYK 470
>gnl|CDD|163210 TIGR03303, OM_YaeT, outer membrane protein assembly complex, YaeT
protein. Members of this protein family are the YaeT
protein of the YaeT/YfiO complex for assembling proteins
into the outer membrane of Gram-negative bacteria. This
protein is similar in sequence and function to a
non-essential paralog, YtfM, that is also in the Omp85
family. Members of this family typically have five
tandem copies of the surface antigen variable number
repeat (pfam07244), followed by an outer membrane
beta-barrel domain (pfam01103), while the YtfM family
typically has a single pfam07244 repeat.
Length = 741
Score = 28.7 bits (65), Expect = 2.2
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 221 EAYDSRTVKVSKPTNIDLTRLMSEVEMLTVETDTPARVIIN----ER-TGTIVIG 270
+ Y +K SK ++ V + TV +P +V +N E+ TG+I G
Sbjct: 350 DWYSLSKIKRSK-RRLERLGYFETVNIETVPVGSPDQVDLNVKVKEQPTGSISFG 403
>gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit
beta/beta'; Provisional.
Length = 2836
Score = 27.7 bits (61), Expect = 5.0
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 79 GGRLGSKNVAAVMVTANLPPFASPGSRIDVSINSLGDASSLRGGILVMT 127
GR G+K V + +V P+ G+ +D+ +N LG S + G ++ T
Sbjct: 1088 AGRHGNKGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMNVGQILET 1136
>gnl|CDD|161995 TIGR00682, lpxK, tetraacyldisaccharide 4'-kinase. Also called
lipid-A 4'-kinase. This essential gene encodes an enzyme
in the pathway of lipid A biosynthesis in Gram-negative
organisms. A single copy of this protein is found in
Gram-negative bacteria. PSI-BLAST converges on this set
of apparent orthologs without identifying any other
homologs.
Length = 311
Score = 27.4 bits (61), Expect = 6.2
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 176 RELPKKFKDSADLILQLR-NPDFSTAIRIADQINSYSLNR 214
RE PK+ K + +I+ N + + +I
Sbjct: 163 REFPKRLKSADAVIVNGGENQSGFIPMFLMPRIACCVNLS 202
>gnl|CDD|180856 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau;
Validated.
Length = 725
Score = 26.7 bits (59), Expect = 8.7
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 173 IVERELPKKFKDSADLILQLRNPDFSTAIRIADQINSYSLN 213
I+E+E K++ LI +L + A+ IA+Q++ + N
Sbjct: 189 ILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNN 229
>gnl|CDD|131892 TIGR02845, spore_V_AD, stage V sporulation protein AD. Bacillus
and Clostridium species contain about 10 % dipicolinic
acid (pyridine-2,6-dicarboxylic acid) by weight. This
protein family, SpoVAD, belongs to the spoVA operon that
is suggested to act in the transport of dipicolinic acid
(DPA) from the mother cell, where DPA is synthesized, to
the forespore, a process essential to sporulation.
Members of this protein family are found, so far, in
exactly those species believed capable of endospore
formation.
Length = 327
Score = 27.0 bits (60), Expect = 9.0
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 148 GLFVKGQSSSFMEGISTGGKIVNGAIVEREL 178
GL+ G S+ ME ++ G +V+G +R L
Sbjct: 100 GLY--GACSTSMETLALGAMLVDGGFADRVL 128
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
0.315 0.133 0.355
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,693,696
Number of extensions: 365566
Number of successful extensions: 829
Number of sequences better than 10.0: 1
Number of HSP's gapped: 823
Number of HSP's successfully gapped: 26
Length of query: 369
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 274
Effective length of database: 3,941,713
Effective search space: 1080029362
Effective search space used: 1080029362
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.0 bits)