RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780516|ref|YP_003064929.1| type II modification
methyltransferase [Candidatus Liberibacter asiaticus str. psy62]
(83 letters)
>gnl|CDD|143915 pfam00145, DNA_methylase, C-5 cytosine-specific DNA methylase.
Length = 319
Score = 110 bits (278), Expect = 6e-26
Identities = 43/82 (52%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 2 LKITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQANFPNTLIFGDIAKIKT 61
K DLF GIGG RL LEQ EC ++EI+ + KTY+ANFP GDI I
Sbjct: 1 FKFIDLFAGIGGFRLGLEQA----GFECVAANEIDKSAAKTYEANFPKV-PIGDITLIDI 55
Query: 62 QDIPDHDVLLAGFPCQPFSQAG 83
+DIPD D+L GFPCQ FS AG
Sbjct: 56 KDIPDIDILTGGFPCQDFSIAG 77
>gnl|CDD|73191 cd00315, Cyt_C5_DNA_methylase, Cytosine-C5 specific DNA
methylases; Methyl transfer reactions play an important
role in many aspects of biology. Cytosine-specific DNA
methylases are found both in prokaryotes and
eukaryotes. DNA methylation, or the covalent addition
of a methyl group to cytosine within the context of the
CpG dinucleotide, has profound effects on the mammalian
genome. These effects include transcriptional
repression via inhibition of transcription factor
binding or the recruitment of methyl-binding proteins
and their associated chromatin remodeling factors, X
chromosome inactivation, imprinting and the suppression
of parasitic DNA sequences. DNA methylation is also
essential for proper embryonic development and is an
important player in both DNA repair and genome
stability..
Length = 275
Score = 105 bits (263), Expect = 3e-24
Identities = 45/83 (54%), Positives = 56/83 (67%), Gaps = 5/83 (6%)
Query: 2 LKITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQANFPNTLIFGDIAKIKT 61
L++ DLF GIGG RL LE+ E ++EI+ + +TY+ANFPN LI GDI KI
Sbjct: 1 LRVIDLFAGIGGFRLGLEKA----GFEIVAANEIDKSAAETYEANFPNKLIEGDITKIDE 56
Query: 62 QD-IPDHDVLLAGFPCQPFSQAG 83
+D IPD D+L GFPCQPFS AG
Sbjct: 57 KDFIPDIDLLTGGFPCQPFSIAG 79
>gnl|CDD|30619 COG0270, Dcm, Site-specific DNA methylase [DNA replication,
recombination, and repair].
Length = 328
Score = 87.1 bits (215), Expect = 1e-18
Identities = 38/86 (44%), Positives = 54/86 (62%), Gaps = 7/86 (8%)
Query: 1 MLKITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQANFPNT-LIFGDIAKI 59
+K+ DLF GIGG+ L E+ E F++EI+P +V TY+ANFP+ +I GDI ++
Sbjct: 3 KMKVIDLFAGIGGLSLGFEEA----GFEIVFANEIDPPAVATYKANFPHGDIILGDIKEL 58
Query: 60 KTQDIP--DHDVLLAGFPCQPFSQAG 83
+ + D DVL+ G PCQ FS AG
Sbjct: 59 DGEALRKSDVDVLIGGPPCQDFSIAG 84
>gnl|CDD|36137 KOG0919, KOG0919, KOG0919, C-5 cytosine-specific DNA methylase
[Transcription].
Length = 338
Score = 32.7 bits (74), Expect = 0.023
Identities = 20/85 (23%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 2 LKITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQANFPNTLI-FGDIAKIK 60
L++ +L+ G GG+ LE + + ++N + + Y N+ + L+ +I +
Sbjct: 4 LRVLELYSGHGGMHYALEDAQIPAQIVA--AIDVNTVANEVYAHNYHSNLVKTRNIQSLT 61
Query: 61 TQDIP--DHDVLLAGFPCQPFSQAG 83
++ ++LL PCQPF++ G
Sbjct: 62 VKEFDKLQANMLLMSPPCQPFTRIG 86
>gnl|CDD|32590 COG2520, COG2520, Predicted methyltransferase [General function
prediction only].
Length = 341
Score = 31.0 bits (70), Expect = 0.062
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 4 ITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQAN 46
+ D+F G+G + + V ++ +INP +V+ + N
Sbjct: 192 VLDMFAGVGPFSIPI-AKKGRPKV---YAIDINPDAVEYLKEN 230
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.)..
Length = 107
Score = 30.9 bits (70), Expect = 0.084
Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 10/83 (12%)
Query: 3 KITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQAN------FPNTLIFGDI 56
++ DL CG G + L L R +I+P +++ + ++ GD
Sbjct: 1 RVLDLGCGTGALALALASGPGAR----VTGVDISPVALELARKAAAALLADNVEVLKGDA 56
Query: 57 AKIKTQDIPDHDVLLAGFPCQPF 79
++ + DV+++ P
Sbjct: 57 EELPPEADESFDVIISDPPLHHL 79
>gnl|CDD|32446 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA
(uracil-5-)-methyltransferase [Translation, ribosomal
structure and biogenesis].
Length = 432
Score = 26.8 bits (59), Expect = 1.4
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 6 DLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQAN 46
DL+CG+G L L + EI+P +V+ Q N
Sbjct: 299 DLYCGVGTFGLPLAKRVKK-----VHGVEISPEAVEAAQEN 334
>gnl|CDD|39628 KOG4427, KOG4427, KOG4427, E3 ubiquitin protein ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 1096
Score = 26.9 bits (59), Expect = 1.4
Identities = 12/44 (27%), Positives = 18/44 (40%)
Query: 31 FSSEINPYSVKTYQANFPNTLIFGDIAKIKTQDIPDHDVLLAGF 74
F S I+P + + LI GD + I D+ + GF
Sbjct: 931 FRSIISPEWLSLFSPPELQRLISGDNSDIDLDDLKRNTKYYGGF 974
>gnl|CDD|145554 pfam02475, Met_10, Met-10+ like-protein. The methionine-10 mutant
allele of N. crassa codes for a protein of unknown
function. However, homologous proteins have been found
in yeast suggesting this protein may be involved in
methionine biosynthesis, transport and/or utilisation.
Length = 199
Score = 26.1 bits (58), Expect = 1.9
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 4 ITDLFCGIGGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQAN 46
+ D+F GIG + + + H + ++ E+NP +VK + N
Sbjct: 104 VVDMFAGIGPFSIPIAK---HSKAKRVYAVELNPEAVKYLKEN 143
>gnl|CDD|34970 COG5411, COG5411, Phosphatidylinositol 5-phosphate phosphatase
[Signal transduction mechanisms].
Length = 460
Score = 25.3 bits (55), Expect = 4.1
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 1/62 (1%)
Query: 8 FCGIGGIRLDLEQTFNH-RNVECFFSSEINPYSVKTYQANFPNTLIFGDIAKIKTQDIPD 66
F G + + FN+ R CF +S + + F I +I + I D
Sbjct: 146 FGGSSSNKGAVAIRFNYERTSFCFVNSHLAAGVNNIEERIFDYRSIASNICFSRGLRIYD 205
Query: 67 HD 68
HD
Sbjct: 206 HD 207
>gnl|CDD|38173 KOG2962, KOG2962, KOG2962, Prohibitin-related membrane protease
subunits [General function prediction only].
Length = 322
Score = 24.7 bits (53), Expect = 5.7
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 3 KITDLFCGI-GGIRLDLEQTFNHRNVECFFSSEINPYSVKTYQANFPNTLIFGDI 56
++ ++ CG GG+ + F+ V F + VK Y ++ TLIF I
Sbjct: 70 EVKNVPCGTSGGVLI----YFDRIEVVNFLRPDAVYDIVKNYTVDYDKTLIFNKI 120
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.325 0.143 0.447
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,019,561
Number of extensions: 42563
Number of successful extensions: 111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 13
Length of query: 83
Length of database: 6,263,737
Length adjustment: 53
Effective length of query: 30
Effective length of database: 5,118,460
Effective search space: 153553800
Effective search space used: 153553800
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: 40 (21.6 bits)
S2: 51 (23.5 bits)