RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780466|ref|YP_003064879.1| putative modification
methylase [Candidatus Liberibacter asiaticus str. psy62]
(375 letters)
>gnl|CDD|183177 PRK11524, PRK11524, putative methyltransferase; Provisional.
Length = 284
Score = 161 bits (409), Expect = 3e-40
Identities = 90/262 (34%), Positives = 138/262 (52%), Gaps = 39/262 (14%)
Query: 22 KIIKGNSISVLEKLPAKSVDLIFADPPYNLQLNGQLYRPDHSLVDAVTDSWDKFSSFEAY 81
II G++++ L+K+P++SVDLIFADPPYN+ N D + ++W + + +
Sbjct: 10 TIIHGDALTELKKIPSESVDLIFADPPYNIGKN----------FDGLIEAWKE----DLF 55
Query: 82 DAFTRAWLLACRRVLKPNGTLWVIGSYHNIFRIGTMLQNLNFWILNDIVWRKSNPMPNFR 141
+ W+ C RVLK GT++++ S N+ I + L F I + IVW + +
Sbjct: 56 IDWLYEWIDECHRVLKKQGTMYIMNSTENMPFIDLYCRKL-FTIKSRIVWSYDSSGVQAK 114
Query: 142 GRRFQNAHETLIWASPSPKAKGYTFNYDALK------AANEDVQMRSDWLIPICSGSE-- 193
+ F + +E ++ K YTFN DA+ A + R + P ++
Sbjct: 115 -KYFGSMYEPILMMVKDAKN--YTFNGDAILVEAKTGAKRALIDYRKN--PPQPYNTQKV 169
Query: 194 ----------RLRNKDGEKLHPTQKPEALLSRILVSSTKPGDIILDPFFGSGTSGAVAKK 243
R + E HPTQKPEALL RI+++S+ PGDI+LDPF GS T+GAVAK
Sbjct: 170 PGNVWDFPRVRYLMDEYEN-HPTQKPEALLKRIILASSNPGDIVLDPFAGSFTTGAVAKA 228
Query: 244 LRRSFIGIEMKQDYIDIATKRI 265
R FIGIE+ +YI + +R+
Sbjct: 229 SGRKFIGIEINSEYIKMGLRRL 250
>gnl|CDD|184255 PRK13699, PRK13699, putative methylase; Provisional.
Length = 227
Score = 93.0 bits (231), Expect = 1e-19
Identities = 67/249 (26%), Positives = 104/249 (41%), Gaps = 43/249 (17%)
Query: 22 KIIKGNSISVLEKLPAKSVDLIFADPPYNLQLNGQLYRPDHSLVDAVTDSWDKFSSFEAY 81
+ I GN I V+ + P +VD I DPPY L G R ++ TD W + + E Y
Sbjct: 3 RFILGNCIDVMARFPDNAVDFILTDPPY---LVGFRDRQGRTIAGDKTDEWLQPACNEMY 59
Query: 82 DAFTRAWLLACRRVLKPNGTLWVIGSYHNIFRIGTMLQNLNFWILNDIVWRKS-NPMPNF 140
RVLK + + ++ + R +N F ++ +V+ K+ +
Sbjct: 60 ------------RVLKKDALMVSFYGWNRVDRFMAAWKNAGFSVVGHLVFTKNYTSKAAY 107
Query: 141 RGRRFQNAHETLIWASPSPKAKGYTFNYDALKAANEDVQMRSDWLIPICSGSERLRNKDG 200
G R + A+ L P+ DV W G
Sbjct: 108 VGYRHECAY-ILAKGRPALPQNPLP-----------DVL---GW------------KYSG 140
Query: 201 EKLHPTQKPEALLSRILVSSTKPGDIILDPFFGSGTSGAVAKKLRRSFIGIEMKQDYIDI 260
+ HPT+KP L ++ S T P I+LDPF GSG++ A + R +IGIE+ + Y
Sbjct: 141 NRHHPTEKPVTSLQPLIESFTHPNAIVLDPFAGSGSTCVAALQSGRRYIGIELLEQYHRA 200
Query: 261 ATKRIASVQ 269
+R+A+VQ
Sbjct: 201 GQQRLAAVQ 209
>gnl|CDD|163311 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3.
Length = 251
Score = 33.6 bits (78), Expect = 0.094
Identities = 22/96 (22%), Positives = 34/96 (35%), Gaps = 22/96 (22%)
Query: 22 KIIKGNSISVLEKLPAKSVDLIFADPPY-------NLQLNGQLYRPDHSLVDAVTDSWDK 74
++ + E LP DLI ++PPY L + + P +L
Sbjct: 140 TFLQSD---WFEPLPGGKFDLIVSNPPYIPEADIHLLDPEVRFHEPRLALF-------GG 189
Query: 75 FSSFEAYDAFTRAWLLACRRVLKPNGTLWV-IGSYH 109
+ Y R + R+LKP G L + IG
Sbjct: 190 EDGLDFY----RRIIAQAPRLLKPGGWLLLEIGYDQ 221
>gnl|CDD|181780 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 31.7 bits (73), Expect = 0.32
Identities = 26/93 (27%), Positives = 37/93 (39%), Gaps = 22/93 (23%)
Query: 22 KIIKGNSISVLEKLPAKSVDLIFADPPY-------NLQLNGQLYRPDHSLVDAVTDSWDK 74
+ ++G+ E LP DLI ++PPY LQ + + P +L D D
Sbjct: 161 EFLQGD---WFEPLPGGRFDLIVSNPPYIPEADIHLLQPEVRDHEPHLAL-FGGEDGLD- 215
Query: 75 FSSFEAYDAFTRAWLLACRRVLKPNGTLWV-IG 106
F R + R LKP G L + IG
Sbjct: 216 ---------FYRRIIEQAPRYLKPGGWLLLEIG 239
>gnl|CDD|162239 TIGR01177, TIGR01177, conserved hypothetical protein TIGR01177.
This family is found exclusively in the Archaea.
Length = 329
Score = 31.3 bits (71), Expect = 0.42
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 188 ICSGSERLRNKDGEK-------LHPTQKPEAL---LSRILVSST--KPGDIILDPFFGSG 235
I L +D E+ P KP ++ L+R +V+ GD +LDPF G+G
Sbjct: 135 IFYLGRVLEERDKEQFIERKPDRRPFFKPGSMDPKLARAMVNLARVTEGDRVLDPFCGTG 194
>gnl|CDD|128461 smart00156, PP2Ac, Protein phosphatase 2A homologues, catalytic
domain. Large family of serine/threonine phosphatases,
that includes PP1, PP2A and PP2B (calcineurin) family
members.
Length = 271
Score = 29.9 bits (68), Expect = 1.3
Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 16/101 (15%)
Query: 72 WDKFSSFEAYDAFTRAWLLACRRVLKPNGTLWVIGSYHNIFRIGTMLQNLNFWILNDIVW 131
++KF EA+ A L+ + + G + + +I ++ + + +L D++W
Sbjct: 120 YEKFQ--EAFSWLPLAALIDNKILCMHGGLSPDLTTLDDIRKLKRPQEPPDEGLLIDLLW 177
Query: 132 RKSNPMPNFRGRRFQNAHETLIWASPSPKAKGYTFNYDALK 172
S+P + PS + Y F DA+
Sbjct: 178 --SDPDQ------------PVDGFQPSIRGASYYFGPDAVD 204
>gnl|CDD|149353 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 95
Score = 28.4 bits (64), Expect = 3.3
Identities = 16/45 (35%), Positives = 17/45 (37%), Gaps = 6/45 (13%)
Query: 60 PDHSLVDAVTDSWDKFSSFEAYDAFTRAWLLACRRVLKPNGTLWV 104
PD S D V S RA L RVLKP G L +
Sbjct: 57 PDES-FDVVVSSL----VLHHLPDPERA-LREIARVLKPGGKLVI 95
>gnl|CDD|129571 TIGR00479, rumA, 23S rRNA (uracil-5-)-methyltransferase RumA. This
protein family was first proposed to be RNA
methyltransferases by homology to the TrmA family. The
member from E. coli has now been shown to act as the 23S
RNA methyltransferase for the conserved U1939. The gene
is now designated rumA and was previously designated
ygcA.
Length = 431
Score = 27.9 bits (62), Expect = 4.1
Identities = 18/78 (23%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 223 PGDIILDPFFGSGTSGAVAKKLRRSFIGIEMKQDYIDIATKRIASVQPLGNIEL------ 276
++++D + G GT K +S +GIE+ + ++ A ++ A + + N+E
Sbjct: 292 GEELVVDAYCGVGTFTLPLAKQAKSVVGIEVVPESVEKA-QQNAELNGIANVEFLAGTLE 350
Query: 277 TVLTGKRTEPRVAFNLLV 294
TVL K+ ++L+
Sbjct: 351 TVLP-KQPWAGQIPDVLL 367
>gnl|CDD|183312 PRK11783, rlmL, 23S rRNA m(2)G2445 methyltransferase; Provisional.
Length = 702
Score = 27.5 bits (62), Expect = 6.7
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 11/48 (22%)
Query: 200 GEKLH-------PTQKP--EALLSRILVSS--TKPGDIILDPFFGSGT 236
GE LH + P E L + IL+ S + G +LDP GSGT
Sbjct: 156 GESLHQRGYRQATGEAPLKENLAAAILLRSGWPQEGTPLLDPMCGSGT 203
>gnl|CDD|180814 PRK07057, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 591
Score = 27.1 bits (60), Expect = 7.0
Identities = 33/142 (23%), Positives = 52/142 (36%), Gaps = 36/142 (25%)
Query: 195 LRNKDGEKLH----PTQK---PEALLSRILVSSTKPGDIILDPFFGSGTSGAVAKKLRRS 247
LRNKDGE+ PT K P +SR + K G G G +G
Sbjct: 269 LRNKDGERFMERYAPTLKDLAPRDFVSRSMDQEIKEGR-------GCGPNG--------D 313
Query: 248 FIGIEMKQDYIDIATKRIASVQPLG----NIELTVLTGKRTEPRVAFNLLVERGLIQPGQ 303
+ +++ + KR+ S++ + N++ K P +V Q G
Sbjct: 314 HVLLDLTHLGAETIMKRLPSIREIALKFANVDCI----KEPIP------VVPTIHYQMGG 363
Query: 304 ILTNAQGNISATVCADGTLISG 325
I TN G + T ++G
Sbjct: 364 IPTNIHGQVVGTSRDHKEPVNG 385
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 0.136 0.415
Gapped
Lambda K H
0.267 0.0858 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,192,250
Number of extensions: 397147
Number of successful extensions: 736
Number of sequences better than 10.0: 1
Number of HSP's gapped: 732
Number of HSP's successfully gapped: 19
Length of query: 375
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 280
Effective length of database: 3,941,713
Effective search space: 1103679640
Effective search space used: 1103679640
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: 58 (25.9 bits)