RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781089|ref|YP_003065502.1| hypothetical protein
CLIBASIA_04955 [Candidatus Liberibacter asiaticus str. psy62]
(80 letters)
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 31.2 bits (71), Expect = 0.068
Identities = 11/20 (55%), Positives = 16/20 (80%), Gaps = 2/20 (10%)
Query: 2 GLSESGKTTLLEAIF--LFG 19
G++ SGK++LLEA F L+G
Sbjct: 30 GVNGSGKSSLLEACFFALYG 49
>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 = 29.8 bits (67), Expect = 0.15
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 1 MGLSESGKTTLLEAI 15
MGLS SGK++LL A+
Sbjct: 56 MGLSGSGKSSLLRAV 70
>gnl|CDD|178835 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 29.7 bits (68), Expect = 0.18
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 6 SGKTTLLEAIFLFG 19
GKT LLEAI+L
Sbjct: 34 QGKTNLLEAIYLLA 47
>gnl|CDD|129679 TIGR00591, phr2, photolyase PhrII. All proteins in this family for
which functions are known are DNA-photolyases used for
the direct repair of UV irradiation induced DNA damage.
Some repair 6-4 photoproducts while others repair
cyclobutane pyrimidine dimers. This family is based on
the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University).
Length = 454
Score = 28.6 bits (64), Expect = 0.40
Identities = 16/70 (22%), Positives = 23/70 (32%), Gaps = 5/70 (7%)
Query: 14 AIFLFGEALALALSNDPVSVFLKSDVFDGISKNQYGFFTGKIKVDAQFILSEKMDIPHVF 73
+ + LAL F D F ++ Y F G + A E++ IP
Sbjct: 39 WALIAAQTLALKKKLPLHVCFCLVDFFLAATRRHYFFMLGGLDEVAN--ECERLIIPFHL 96
Query: 74 L---PMVHFP 80
L P P
Sbjct: 97 LDGPPKELLP 106
>gnl|CDD|168091 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 28.1 bits (63), Expect = 0.54
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 1 MGLSESGKTTLLEAIFLFGEALALALSNDPVSVFLKSDVF 40
GL+ SGKTT+ +A++ E L L SN ++L D
Sbjct: 13 TGLAGSGKTTIAKALY---ERLKLKYSN---VIYLDGDEL 46
>gnl|CDD|183713 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 27.4 bits (62), Expect = 0.80
Identities = 12/18 (66%), Positives = 14/18 (77%), Gaps = 1/18 (5%)
Query: 1 MGLSESGKTTLLEAIFLF 18
+G S +GKTTL EAI LF
Sbjct: 1 VGHSGAGKTTLTEAI-LF 17
>gnl|CDD|172963 PRK14490, PRK14490, putative bifunctional molybdopterin-guanine
dinucleotide biosynthesis protein MobB/MobA;
Provisional.
Length = 369
Score = 27.3 bits (61), Expect = 0.89
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 2 GLSESGKTTLLEAI 15
G S SGKTTL+ A+
Sbjct: 12 GYSGSGKTTLITAL 25
>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional.
Length = 526
Score = 26.6 bits (60), Expect = 1.4
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 7 GKTTLLEAIFLFGEALALA 25
GKTTL E + LFG A+ A
Sbjct: 22 GKTTLTEKLLLFGGAIQEA 40
>gnl|CDD|179932 PRK05092, PRK05092, PII uridylyl-transferase; Provisional.
Length = 931
Score = 26.4 bits (59), Expect = 1.7
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 8 KTTLLEAIFLFGEALALALSNDPVSVFLKSDVFDG 42
+T LLEA FL G+ AL + + F +V G
Sbjct: 178 RTALLEARFLAGDR---ALFEELETRF-DKEVVKG 208
>gnl|CDD|163179 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD.
This model describes the DndB protein encoded by an
operon associated with a sulfur-containing modification
to DNA. The operon is sporadically distributed in
bacteria, much like some restriction enzyme operons.
DndD is described as a putative ATPase. The small
number of examples known so far include species from
among the Firmicutes, Actinomycetes, Proteobacteria,
and Cyanobacteria.
Length = 650
Score = 26.2 bits (58), Expect = 1.8
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 2 GLSESGKTTLLEAIFL 17
GL+ +GKTTLL+AI L
Sbjct: 35 GLNGAGKTTLLDAIQL 50
>gnl|CDD|161957 TIGR00611, recf, recF protein. All proteins in this family for
which functions are known are DNA binding proteins that
assist the filamentation of RecA onto DNA for the
initiation of recombination or recombinational repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 365
Score = 26.2 bits (58), Expect = 2.0
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 2 GLSESGKTTLLEAIFLFGEALALALSND 29
G + GKT LLEAI+ + S D
Sbjct: 30 GPNGQGKTNLLEAIYYLALGRSHRTSRD 57
>gnl|CDD|129594 TIGR00503, prfC, peptide chain release factor 3. This
translation releasing factor, RF-3 (prfC) was
originally described as stop codon-independent, in
contrast to peptide chain release factor 1 (RF-1, prfA)
and RF-2 (prfB). RF-1 and RF-2 are closely related to
each other, while RF-3 is similar to elongation factors
EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2
is active at UAA and UGA. More recently, RF-3 was shown
to be active primarily at UGA stop codons in E. coli.
All bacteria and organelles have RF-1. The Mycoplasmas
and organelles, which translate UGA as Trp rather than
as a stop codon, lack RF-2. RF-3, in contrast, seems to
be rare among bacteria and is found so far only in
Escherichia coli and some other gamma subdivision
Proteobacteria, in Synechocystis PCC6803, and in
Staphylococcus aureus.
Length = 527
Score = 26.0 bits (57), Expect = 2.4
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 5 ESGKTTLLEAIFLFGEALALA 25
++GKTT+ E + L+G A+ A
Sbjct: 21 DAGKTTITEKVLLYGGAIQTA 41
>gnl|CDD|181780 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 25.9 bits (58), Expect = 2.5
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 7/35 (20%)
Query: 20 EALALALSN------DPVSVFLKSDVFDGISKNQY 48
EALA+A N V FL+ D F+ + ++
Sbjct: 143 EALAVARRNAKHGLGARVE-FLQGDWFEPLPGGRF 176
>gnl|CDD|151168 pfam10662, PduV-EutP, Ethanolamine utilisation - propanediol
utilisation. Members of this family function in
ethanolamine and propanediol degradation pathways,
however the exact roles of these proteins is poorly
understood.
Length = 143
Score = 25.7 bits (57), Expect = 2.7
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 1 MGLSESGKTTLLEAI 15
+G S GKTTL +A+
Sbjct: 7 IGRSGCGKTTLTQAL 21
>gnl|CDD|182330 PRK10246, PRK10246, exonuclease subunit SbcC; Provisional.
Length = 1047
Score = 25.5 bits (56), Expect = 2.8
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 2 GLSESGKTTLLEAIFL 17
G + +GKTTLL+AI L
Sbjct: 37 GPTGAGKTTLLDAICL 52
>gnl|CDD|150482 pfam09818, ABC_ATPase, Predicted ATPase of the ABC class. Members
of this family include various bacterial predicted ABC
class ATPases.
Length = 447
Score = 25.6 bits (57), Expect = 3.1
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 7 GKTTLLEAI 15
GK+TLLEA+
Sbjct: 255 GKSTLLEAL 263
>gnl|CDD|162130 TIGR00955, 3a01204, The Eye Pigment Precursor Transporter (EPP)
Family protein.
Length = 617
Score = 25.4 bits (56), Expect = 3.3
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 1 MGLSESGKTTLLEAI 15
MG S +GKTTL+ A+
Sbjct: 57 MGSSGAGKTTLMNAL 71
>gnl|CDD|183990 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 25.3 bits (56), Expect = 3.4
Identities = 9/18 (50%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 1 MGLSESGKTTLLEAIFLF 18
+ ++GKTTL E I LF
Sbjct: 14 LAHIDAGKTTLTERI-LF 30
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 25.3 bits (56), Expect = 3.5
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 2 GLSESGKTTLLEAI 15
G S SGKTTLL A+
Sbjct: 39 GESGSGKTTLLNAL 52
>gnl|CDD|183056 PRK11248, tauB, taurine transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 25.4 bits (56), Expect = 3.5
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 1 MGLSESGKTTLLEAI--FLFGEALALALSNDPVS 32
+G S GKTTLL I F+ + ++ L PV
Sbjct: 33 LGPSGCGKTTLLNLIAGFVPYQHGSITLDGKPVE 66
>gnl|CDD|161745 TIGR00176, mobB, molybdopterin-guanine dinucleotide biosynthesis
protein MobB. This molybdenum cofactor biosynthesis
enzyme is similar to the urease accessory protein UreG
and to the hydrogenase accessory protein HypB, both GTP
hydrolases involved in loading nickel into the
metallocenters of their respective target enzymes.
Length = 155
Score = 25.0 bits (55), Expect = 4.1
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 2 GLSESGKTTLLEAI 15
G SGKTTL+E +
Sbjct: 6 GPKNSGKTTLIERL 19
>gnl|CDD|162131 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein.
Length = 1394
Score = 24.7 bits (54), Expect = 5.5
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 1 MGLSESGKTTLLEAI 15
MG S +GKTTLL +
Sbjct: 795 MGASGAGKTTLLNVL 809
>gnl|CDD|184491 PRK14079, recF, recombination protein F; Provisional.
Length = 349
Score = 24.7 bits (54), Expect = 6.0
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 2 GLSESGKTTLLEAIFL 17
G + +GKT LLEAI+L
Sbjct: 30 GENAAGKTNLLEAIYL 45
>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation
factor; Provisional.
Length = 614
Score = 24.6 bits (54), Expect = 6.1
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 7 GKTTLLEAI 15
GKTTLL+AI
Sbjct: 12 GKTTLLQAI 20
>gnl|CDD|181788 PRK09344, PRK09344, phosphoenolpyruvate carboxykinase; Provisional.
Length = 526
Score = 24.4 bits (54), Expect = 6.4
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 1 MGLSESGKTTL 11
GLS +GKTTL
Sbjct: 231 FGLSGTGKTTL 241
>gnl|CDD|179675 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 24.3 bits (53), Expect = 7.9
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 6 SGKTTLLEAIF 16
SGK+++LEAI
Sbjct: 34 SGKSSILEAIL 44
>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 353
Score = 23.9 bits (52), Expect = 8.7
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 1 MGLSESGKTTLLEAI 15
+G S SGKTTLL I
Sbjct: 34 LGPSGSGKTTLLRII 48
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
0.324 0.142 0.407
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,311,872
Number of extensions: 70412
Number of successful extensions: 286
Number of sequences better than 10.0: 1
Number of HSP's gapped: 286
Number of HSP's successfully gapped: 52
Length of query: 80
Length of database: 5,994,473
Length adjustment: 50
Effective length of query: 30
Effective length of database: 4,914,073
Effective search space: 147422190
Effective search space used: 147422190
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.0 bits)