RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780995|ref|YP_003065408.1|
Endonuclease/exonuclease/phosphatase [Candidatus Liberibacter
asiaticus str. psy62]
(125 letters)
>gnl|CDD|140318 PTZ00297, PTZ00297, pantothenate kinase; Provisional.
Length = 1452
Score = 28.7 bits (64), Expect = 0.37
Identities = 13/16 (81%), Positives = 13/16 (81%), Gaps = 2/16 (12%)
Query: 21 IPFVIAGDFNRKINSI 36
IPFVIAGDFN IN I
Sbjct: 196 IPFVIAGDFN--INGI 209
>gnl|CDD|185163 PRK15251, PRK15251, cytolethal distending toxin subunit CdtB;
Provisional.
Length = 271
Score = 27.3 bits (61), Expect = 1.2
Identities = 26/96 (27%), Positives = 40/96 (41%), Gaps = 18/96 (18%)
Query: 21 IPFVIAGDFNRKINSIGDTDDFWQKMDPDGL--LIRFPQEKESTCNVIKRNKSSLDYFVI 78
I ++IAGDFNR + + T +D + L + E T +R+ +LDY V
Sbjct: 185 INWMIAGDFNRSPDRLEST------LDTEHLRNRVNIVAPTEPT----QRSGGTLDYAVT 234
Query: 79 DRDNKNFLIDNSFSIVSYDQSDLDTRRSKL-STHCP 113
N+ F + + RS+L S H P
Sbjct: 235 GNSNQTFGPPLLAASLMLAS-----LRSQLASDHFP 265
>gnl|CDD|177627 PHA03391, p47, viral transcription regulator p47; Provisional.
Length = 395
Score = 26.7 bits (60), Expect = 1.5
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 6/36 (16%)
Query: 65 VIKRNKSSLDYFV--IDRDN----KNFLIDNSFSIV 94
+IKR+K S Y V +D +N K L D F+++
Sbjct: 197 IIKRHKFSKKYIVLELDANNWTAIKELLQDEFFTVI 232
>gnl|CDD|162892 TIGR02504, NrdJ_Z, ribonucleoside-diphosphate reductase,
adenosylcobalamin-dependent. This model identifies
genes in a wide range of deeply branching bacteria. All
are structurally related to the class I (non-heme iron
dependent) RNRs. In most species this gene is known as
NrdJ, while in mycobacteria it is called NrdZ.
Length = 586
Score = 26.5 bits (59), Expect = 1.9
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 29 FNRKINSIGDTDDFWQKMDPDGLL-IRFPQEKESTCNVIKRNKSSLDYFVID 79
FN S+G TD F + ++ D +R P+ E + + + + Y +
Sbjct: 183 FN---ISVGVTDAFMEAVEADEEYKLRNPRTGEEIEELAELDPKNKVYKEVP 231
>gnl|CDD|152552 pfam12117, DUF3580, Protein of unknown function (DUF3580). This
domain is found in viruses, and is about 120 amino
acids in length. It is found in association with
pfam01057.
Length = 120
Score = 24.9 bits (54), Expect = 5.5
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 12/35 (34%)
Query: 7 EWLKKWADQKIKTGIPFVIAGDFNRKINSIGDTDD 41
+W + WA+ KI+T INS G
Sbjct: 8 DWSENWAEPKIQTP------------INSPGSARS 30
>gnl|CDD|131789 TIGR02742, TrbC_Ftype, type-F conjugative transfer system pilin
assembly protein TrbC. This protein is an essential
component of the F-type conjugative pilus assembly
system for the transfer of plasmid DNA. The N-terminal
portion of these proteins are heterogeneous and are not
covered by this model.
Length = 130
Score = 24.7 bits (54), Expect = 6.2
Identities = 11/32 (34%), Positives = 12/32 (37%), Gaps = 4/32 (12%)
Query: 9 LKKWADQKIKTGIPFVIAG----DFNRKINSI 36
LK+ DQ G P VI G F I
Sbjct: 14 LKQLLDQAEALGAPLVIRGLLDNGFKATATRI 45
>gnl|CDD|117424 pfam08857, ParBc_2, Putative ParB-like nuclease. This domain is
probably distantly related to pfam02195. Suggesting
these uncharacterized proteins have a nuclease function.
Length = 162
Score = 24.5 bits (54), Expect = 6.6
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 5/45 (11%)
Query: 8 WLKKWADQKIKTGIPFVIAGDFNRKINSIGDTDDFWQKMDPDGLL 52
L+ + + +P + D S D D FW KMD +G +
Sbjct: 64 LLRALLELGVGGTVPVTVVADL-----SDLDKDAFWNKMDNNGWV 103
>gnl|CDD|183921 PRK13255, PRK13255, thiopurine S-methyltransferase; Reviewed.
Length = 218
Score = 24.8 bits (55), Expect = 6.6
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 4 QQGEWLKKWADQKI 17
W +KWA+ +I
Sbjct: 2 DPDFWHEKWAENQI 15
>gnl|CDD|180231 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 24.7 bits (55), Expect = 6.7
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 7 EWLKKWADQKI 17
E LK+W + +
Sbjct: 27 EILKRWEENDL 37
>gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog;
Provisional.
Length = 606
Score = 24.7 bits (54), Expect = 7.3
Identities = 6/10 (60%), Positives = 8/10 (80%)
Query: 21 IPFVIAGDFN 30
IP ++ GDFN
Sbjct: 456 IPMLVCGDFN 465
>gnl|CDD|162079 TIGR00871, zwf, glucose-6-phosphate 1-dehydrogenase. This is a
well-studied enzyme family, with sequences available
from well over 50 species. The trusted cutoff is set
above the score for the Drosophila melanogaster CG7140
gene product, a homolog of unknown function. G6PD
homologs from the bacteria Aquifex aeolicus and
Helicobacter pylori lack several motifs well conserved
most other members, were omitted from the seed
alignment, and score well below the trusted cutoff.
Length = 482
Score = 24.6 bits (54), Expect = 7.8
Identities = 9/45 (20%), Positives = 15/45 (33%), Gaps = 6/45 (13%)
Query: 83 KNFLIDNSFSIVSYDQSDLDT------RRSKLSTHCPLTIEYDFE 121
+N L+ F IV + DL R + I+ +
Sbjct: 28 RNGLLPPDFRIVGVARRDLSVEDFRKQVREAIIKFETEEIDEQLD 72
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 0.137 0.416
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,035,932
Number of extensions: 115178
Number of successful extensions: 235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 234
Number of HSP's successfully gapped: 25
Length of query: 125
Length of database: 5,994,473
Length adjustment: 82
Effective length of query: 43
Effective length of database: 4,222,617
Effective search space: 181572531
Effective search space used: 181572531
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 (21.7 bits)
S2: 51 (23.5 bits)