RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780725|ref|YP_003065138.1| response regulator receiver
protein [Candidatus Liberibacter asiaticus str. psy62]
(427 letters)
>gnl|CDD|163527 TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood
CpaE-like protein. Members of this protein family
belong to the MinD/ParA family of P-loop NTPases, and in
particular show homology to the CpaE family of pilus
assembly proteins (see PubMed:12370432). Nearly all
members are found, not only in a gene context consistent
with pilus biogenesis or a pilus-like secretion
apparatus, but also near a DEAD/DEAH-box helicase,
suggesting an involvement in DNA transfer activity. The
model describes a clade restricted to the
Actinobacteria.
Length = 322
Score = 46.6 bits (111), Expect = 1e-05
Identities = 41/172 (23%), Positives = 69/172 (40%), Gaps = 18/172 (10%)
Query: 147 SAIFTPQEEGKGSSGCSISFIGSRGGVGSSTIAHNCAFSIASVFAMETLLAD-------L 199
+ ++ + G ++ IG RGG G+ST+A A + A + TLL D L
Sbjct: 79 VELLADLDQSPPARGVVVAVIGGRGGAGASTLAAALALAAARH-GLRTLLVDADPWGGGL 137
Query: 200 DLPYGTANINFDKDPINSISDAIYPVGRID-KAFVSRLPVFYAENLSILTAPAMLSRTYD 258
DL G ++ + P S + GR+ A LP LS+L+ +
Sbjct: 138 DLLLGAEDVPGLRWPDLSQAR-----GRLPAGALRDALPR--RGGLSVLSWGR--AVGAA 188
Query: 259 FDEKMIVPVLDILEQIFPLVILDVPHVWNSWTQEVLTLSDKVVITTSLDLAG 310
+ VLD + LV++D+P + L +D V++ D+
Sbjct: 189 LPPAAVRAVLDAARRGGDLVVVDLPRRLTPAAETALESADLVLVVVPADVRA 240
>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD. This
model describes the bacterial and chloroplast form of
MinD, a multifunctional cell division protein that
guides correct placement of the septum. The homologous
archaeal MinD proteins, with many archaeal genomes
having two or more forms, are described by a separate
model.
Length = 261
Score = 43.1 bits (102), Expect = 2e-04
Identities = 59/269 (21%), Positives = 126/269 (46%), Gaps = 34/269 (12%)
Query: 170 RGGVGSSTIAHNCAFSIAS------VFAMETLLADLDLPYGTAN-INFDKDPINSISDAI 222
+GGVG +T N ++A + + L +LDL G N I + + D +
Sbjct: 10 KGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDLLLGLENRIVYT------LVDVV 63
Query: 223 YPVGRIDKAFVS--RLPVFYAENLSILTAPAMLSRT-YDFDEKMIVPVLDILEQIFPLVI 279
R+ +A + RL +NL +L PA +R + + +++ L++ F VI
Sbjct: 64 EGECRLQQALIKDKRL-----KNLYLL--PASQTRDKDAVTPEQMKKLVNELKEEFDYVI 116
Query: 280 LDVPHVWNSWTQEVLTLSDKVVITTSLDLAGLRNSKNLIDVLKKLRPADKPPYLVLNQVK 339
+D P S + + +D+ ++ T+ +++ +R++ +I +L+ + +L++N+++
Sbjct: 117 IDCPAGIESGFRNAVAPADEAIVVTTPEVSAVRDADRVIGLLEA--KGIEKIHLIVNRLR 174
Query: 340 TP--KKPE-ISISDFCAPLGITPSAIIPFDGAVFGMSANSGKMIHEVDPKSAIANLLVDF 396
KK + +S+ D L I +IP D A+ +S N G+ + ++ KS +
Sbjct: 175 PEMVKKGDMLSVDDVLEILSIPLIGVIPEDEAII-VSTNKGEPV-VLNDKSRAGKAFENI 232
Query: 397 SRVLMGR----VTVSKPQSAMYTKIKKIF 421
+R ++G ++ + + +IK+ F
Sbjct: 233 ARRILGEEVPFEDLTTQKKGFFARIKRFF 261
>gnl|CDD|182756 PRK10818, PRK10818, cell division inhibitor MinD; Provisional.
Length = 270
Score = 34.5 bits (79), Expect = 0.054
Identities = 54/234 (23%), Positives = 103/234 (44%), Gaps = 28/234 (11%)
Query: 162 CSISFIGSRGGVGSSTIAHNCAFSIASVFAMETLLADLDLPYGTANINF----DKDPINS 217
I +GGVG +T + A +A +T++ D D+ G N++ ++ +
Sbjct: 3 RIIVVTSGKGGVGKTTSSAAIATGLAQK-GKKTVVIDFDI--GLRNLDLIMGCERRVVYD 59
Query: 218 ISDAIYPVGRIDKAFVSRLPVFYAENLSILTAPAMLSRTYDFD----EKMIVPVLDILEQ 273
+ I +++A + ENL IL A S+T D D E + + D+
Sbjct: 60 FVNVIQGDATLNQALIKDK---RTENLYILPA----SQTRDKDALTREGVAKVLDDLKAM 112
Query: 274 IFPLVILDVPHVWNSWTQEVLTLSDKVVITTSLDLAGLRNSKNLIDVL-KKLRPADK--- 329
F ++ D P + L +D+ +ITT+ +++ +R+S ++ +L K R A+
Sbjct: 113 DFEFIVCDSPAGIETGALMALYFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEE 172
Query: 330 --PPYLVL---NQVKTPKKPEISISDFCAPLGITPSAIIPFDGAVFGMSANSGK 378
+L+L N + + +S+ D L I +IP D +V ++N G+
Sbjct: 173 PIKEHLLLTRYNPGRVSRGDMLSMEDVLEILRIKLVGVIPEDQSVL-RASNQGE 225
>gnl|CDD|163238 TIGR03371, cellulose_yhjQ, cellulose synthase operon protein YhjQ.
Members of this family are the YhjQ protein, found
immediately upsteam of bacterial cellulose synthase
(bcs) genes in a broad range of bacteria, including both
copies of the bcs locus in Klebsiella pneumoniae. In
several species it is seen clearly as part of the bcs
operon. It is identified as a probable component of the
bacterial cellulose metabolic process not only by gene
location, but also by partial phylogenetic profiling, or
Haft-Selengut algorithm (PubMed:16930487), based on a
bacterial cellulose biosynthesis genome property
profile. Cellulose plays an important role in biofilm
formation and structural integrity in some bacteria.
Mutants in yhjQ in Escherichia coli, show altered
morphology an growth, but the function of YhjQ has not
yet been determined.
Length = 246
Score = 31.9 bits (73), Expect = 0.34
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 164 ISFIGSRGGVGSSTIAHNCAFSIASVFAM---ETLLADLD 200
I+ +G +GGVG +T+ N +AS + L DLD
Sbjct: 4 IAIVGVKGGVGKTTLTAN----LASALKLLGEPVLAIDLD 39
>gnl|CDD|167016 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 31.3 bits (71), Expect = 0.49
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 220 DAIYPVGRIDKAFVSRLPVFYAENLSILTAPAM 252
D IY GR K ++S LP F+A L L P++
Sbjct: 45 DTIYAAGR--KRYLSTLPSFFATTLDSLPDPSV 75
>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal. This
model represents the archaeal branch of the MinD family.
MinD, a weak ATPase, works in bacteria with MinC as a
generalized cell division inhibitor and, through
interaction with MinE, prevents septum placement
inappropriate sites. Often several members of this
family are found in archaeal genomes, and the function
is uncharacterized. More distantly related proteins
include flagellar biosynthesis proteins and ParA
chromosome partitioning proteins. The exact roles of the
various archaeal MinD homologs are unknown.
Length = 251
Score = 30.1 bits (68), Expect = 1.2
Identities = 51/248 (20%), Positives = 99/248 (39%), Gaps = 25/248 (10%)
Query: 163 SISFIGSRGGVGSSTIAHNCAFSIASVFAMETLLADLDLPYGTANI----NFDKDPINSI 218
I+ +GG G +TI N ++A + L D D+ AN+ + P+ ++
Sbjct: 2 IITIASGKGGTGKTTITANLGVALAK-LGKKVLALDADI--TMANLELILGMEDKPV-TL 57
Query: 219 SDAIYPVGRIDKAFVSRLPVFYAENLSILTAPAMLS----RTYDFDEKMIVPVLDILEQI 274
D + I A Y + PA +S R D D+ + VL +
Sbjct: 58 HDVLAGEADIKDA-------IYEGPFGVKVIPAGVSLEGLRKADPDK--LEDVLKEIIDD 108
Query: 275 FPLVILDVPHVWNSWTQEVLTLSDKVVITTSLDLAGLRNSKNLIDVLKKLRPADKPPYLV 334
+++D P L +D++++ + +++ + ++ V +KL +V
Sbjct: 109 TDFLLIDAPAGLERDAVTALAAADELLLVVNPEISSITDALKTKIVAEKL--GTAILGVV 166
Query: 335 LNQVKTPKKPEISISDFCAPLGITPSAIIPFDGAVFGMSANSGKMIHEVDPKSAIANLLV 394
LN+V T K E+ + L + ++P D V +A G+ + +P S A +
Sbjct: 167 LNRV-TRDKTELGREEIETILEVPVLGVVPEDPEVRRAAA-FGEPVVIYNPNSPAAQAFM 224
Query: 395 DFSRVLMG 402
+ + L G
Sbjct: 225 ELAAELAG 232
>gnl|CDD|179762 PRK04169, PRK04169, geranylgeranylglyceryl phosphate synthase-like
protein; Reviewed.
Length = 232
Score = 29.4 bits (67), Expect = 1.6
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 85 TKVDSREVLSALEPLAEVCDSGTKVIVIGDTNDVSLYR--ALISNHVSEY----LIEPLS 138
T +D + L E L +C+SGT I++G ++ V+ L+ + EY ++ P +
Sbjct: 12 TLLDPDKPLPD-EALEAICESGTDAIIVGGSDGVTEENVDELVKA-IKEYDLPVILFPGN 69
Query: 139 VADIINSISAIFTP 152
+ I A P
Sbjct: 70 IEGISPGADAYLFP 83
>gnl|CDD|180603 PRK06522, PRK06522, 2-dehydropantoate 2-reductase; Reviewed.
Length = 304
Score = 28.7 bits (65), Expect = 3.0
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 58 MRITRGSIAEAVSCFSDSS---TPDLIIVQTKVDSREVLSALEPLAEVCDSGTKVIVI 112
+R+ G I V D + DL+I+ K + +AL LA + T V+ +
Sbjct: 44 LRLEDGEITVPVLAADDPAELGPQDLVILAVKAYQ--LPAALPSLAPLLGPDTPVLFL 99
>gnl|CDD|182700 PRK10752, PRK10752, sulfate transporter subunit; Provisional.
Length = 329
Score = 28.6 bits (64), Expect = 3.1
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 220 DAIYPVGRIDKAFVSRLP 237
DAI GRIDK ++ RLP
Sbjct: 89 DAIAERGRIDKNWIKRLP 106
>gnl|CDD|134018 PHA02518, PHA02518, ParA-like protein; Provisional.
Length = 211
Score = 28.3 bits (63), Expect = 4.0
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 164 ISFIGSRGGVGSSTIAHNCAFSIASVFAMETLLADLDLPYGTA 206
I+ + +GG G +T+A N A + + + LL DLD P G++
Sbjct: 3 IAVLNQKGGAGKTTVATNLASWLHADGH-KVLLVDLD-PQGSS 43
>gnl|CDD|178854 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 28.1 bits (64), Expect = 4.3
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 320 VLKKLRPADKPPYLVLNQV-KTPKKPEISISDFCAPLGITPSAIIPFDGAVFGMSANSGK 378
+L+KL+ P LVLN++ K E+ PL S ++ F + +SA G
Sbjct: 105 ILEKLKKVKTPVILVLNKIDLVKDKEEL------LPLLEELSELMDFA-EIVPISALKGD 157
Query: 379 MIHEVDPKSAIANLL 393
+ E+ IA L
Sbjct: 158 NVDEL--LDVIAKYL 170
>gnl|CDD|162018 TIGR00745, apbA_panE, 2-dehydropantoate 2-reductase. This model
describes enzymes that perform as 2-dehydropantoate
2-reductase, one of four enzymes required for the de
novo biosynthesis of pantothenate (vitamin B5) from Asp
and 2-oxoisovalerate. Although few members of the seed
alignment are characterized experimentally, nearly all
from complete genomes are found in a genome-wide (but
not local) context of all three other
pantothenate-biosynthetic enzymes (TIGR00222, TIGR00018,
TIGR00223). The gene encoding this enzyme is designated
apbA in Salmonella typhimurium and panE in Escherichia
coli; this protein functions as a monomer and functions
in the alternative pyrimidine biosynthetic, or APB,
pathway, used to synthesize the pyrimidine moiety of
thiamine. Note, synthesis of the pyrimidine moiety of
thiamine occurs either via the first five steps in de
novo purine biosynthesis, which uses the pur gene
products, or through the APB pathway. Note that this
family includes both NADH and NADPH-dependent enzymes,
and enzymes with broad specificity, such as a
D-mandelate dehydrogease that is also a
2-dehydropantoate 2-reductase.
Length = 293
Score = 27.7 bits (62), Expect = 5.9
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 4/47 (8%)
Query: 67 EAVSCFSDSSTPDLIIVQTKV-DSREVLSALEPLAEVCDSGTKVIVI 112
A + + DL+I+ K + E + L PL TKV+ +
Sbjct: 49 SAATSPEELPPADLVIITVKAYQTEEAAALLLPLI---GKNTKVLFL 92
>gnl|CDD|179031 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 27.1 bits (61), Expect = 8.4
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 166 FIGSRGGVGSSTIAH 180
+GSRG VGSS +A
Sbjct: 881 LVGSRGSVGSSFVAT 895
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site. In
a number of species, the ftsEX gene pair is located next
to FtsY, the signal recognition particle-docking
protein.
Length = 214
Score = 27.2 bits (61), Expect = 9.1
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 62 RGSIAEAVSCFSDSSTPDLIIVQT---KVDSREVLSALEPLAEVCDSGTKVIVIGDTNDV 118
R +IA A+ ++P L++ +D L+ L + GT VIV T+D+
Sbjct: 145 RVAIARAIV-----NSPPLLLADEPTGNLDPDLSERILDLLKRLNKRGTTVIVA--THDL 197
Query: 119 SLYRA 123
SL
Sbjct: 198 SLVDR 202
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
0.319 0.135 0.386
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,816,217
Number of extensions: 440980
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 832
Number of HSP's successfully gapped: 20
Length of query: 427
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 331
Effective length of database: 3,920,105
Effective search space: 1297554755
Effective search space used: 1297554755
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 (21.8 bits)
S2: 59 (26.5 bits)