RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780249|ref|YP_003064662.1| 50S ribosomal protein L5
[Candidatus Liberibacter asiaticus str. psy62]
(185 letters)
>gnl|CDD|30443 COG0094, RplE, Ribosomal protein L5 [Translation, ribosomal
structure and biogenesis].
Length = 180
Score = 265 bits (680), Expect = 4e-72
Identities = 111/178 (62%), Positives = 141/178 (79%)
Query: 8 PRLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALIT 67
RLK++Y I A+ ++F Y N MQ+P+IEKVVVNMGVGE+ AD K+ E AA DL LIT
Sbjct: 2 NRLKEKYKDEIVPALIKKFGYSNPMQVPRIEKVVVNMGVGEAAADGKRLEKAAKDLELIT 61
Query: 68 GQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRS 127
GQKPVIT+A++SIAGFK+R GMPIG KVTLRG MY+FLDRL+N+ +PR+RDF GL+ +S
Sbjct: 62 GQKPVITKAKKSIAGFKIREGMPIGVKVTLRGERMYEFLDRLLNIALPRVRDFRGLSPKS 121
Query: 128 FDGSGNFSFGIREHIVFPEINYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPFPK 185
FDG GN+SFGI+E I+FPEI+YD + + GMDI+I TT + D EA+ LL+ FG PF K
Sbjct: 122 FDGRGNYSFGIKEQIIFPEIDYDPIIGIRGMDITIVTTAKGDVEARALLSAFGIPFRK 179
>gnl|CDD|177017 CHL00078, rpl5, ribosomal protein L5.
Length = 181
Score = 262 bits (671), Expect = 6e-71
Identities = 95/176 (53%), Positives = 133/176 (75%)
Query: 8 PRLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALIT 67
RLK Y +I + ++F YKN+ Q+PK++K+V+N G+GE+ +SK ES+ +L +IT
Sbjct: 3 QRLKSLYKEKIVPKLIEKFLYKNIHQVPKLKKIVINRGLGEASQNSKILESSIKELTIIT 62
Query: 68 GQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRS 127
GQKP+ITRA+++IAGFK+R MP+G VTLRG MY FLDRLIN+ +PRIRDF GL+ +S
Sbjct: 63 GQKPIITRAKKAIAGFKIREKMPVGVSVTLRGDKMYAFLDRLINLALPRIRDFQGLSPKS 122
Query: 128 FDGSGNFSFGIREHIVFPEINYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183
FDG GN++ G++E ++FPEI+YDK+D + GMDISI TT ++D+E LL G PF
Sbjct: 123 FDGHGNYNLGLKEQLMFPEIDYDKIDQIRGMDISIVTTAKTDQEGLALLKELGMPF 178
>gnl|CDD|35619 KOG0398, KOG0398, KOG0398, Mitochondrial/chloroplast ribosomal
protein L5/L7 [Translation, ribosomal structure and
biogenesis].
Length = 278
Score = 190 bits (484), Expect = 2e-49
Identities = 92/179 (51%), Positives = 122/179 (68%), Gaps = 4/179 (2%)
Query: 9 RLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITG 68
R + Y R +A+ EF Y N+ +PK++KVVVN G+GE+ + K E+A D+ALITG
Sbjct: 95 RNRPPYLERGIKALLPEFKYVNIHNVPKVQKVVVNCGIGEAAQNDKGLEAAMKDIALITG 154
Query: 69 QKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSF 128
QKP+ TRAR +A +KLR G P+G KVTLRG MY FL RLI + +PR RDF G++ S
Sbjct: 155 QKPIKTRARADVATWKLREGQPLGIKVTLRGDVMYSFLSRLIELVLPRTRDFKGVSPSSG 214
Query: 129 DGSGNFSFGIREHI--VFPEI--NYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183
DG+GN SFG++ VFPEI N+D V GMD++I TT +SD+EA+ LL+L G PF
Sbjct: 215 DGNGNISFGLKAEDQGVFPEIRANFDAVPKTRGMDVNISTTAKSDQEARKLLSLMGMPF 273
>gnl|CDD|144317 pfam00673, Ribosomal_L5_C, ribosomal L5P family C-terminus. This
region is found associated with pfam00281.
Length = 95
Score = 163 bits (414), Expect = 4e-41
Identities = 60/94 (63%), Positives = 75/94 (79%)
Query: 90 PIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSFDGSGNFSFGIREHIVFPEINY 149
PIG KVTLRG MY+FLDRLIN+ +PRIRDF GL+ +SFDG GN+SFGI+EHI+FPEI Y
Sbjct: 1 PIGCKVTLRGEKMYEFLDRLINIVLPRIRDFRGLSPKSFDGRGNYSFGIKEHIIFPEIKY 60
Query: 150 DKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183
D + + GMDI+I TT ++D+EA+ LL G PF
Sbjct: 61 DPIIGIFGMDITIVTTAKTDKEARALLKELGMPF 94
>gnl|CDD|109342 pfam00281, Ribosomal_L5, Ribosomal protein L5.
Length = 56
Score = 83.1 bits (206), Expect = 4e-17
Identities = 35/57 (61%), Positives = 48/57 (84%), Gaps = 1/57 (1%)
Query: 30 NVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLR 86
NVM++PK+EK+VVNMGVGE+ D+K E AA +L I+GQKP+IT+A++SIA FK+R
Sbjct: 1 NVMEVPKLEKIVVNMGVGEA-GDNKILEKAALELEEISGQKPIITKAKKSIASFKIR 56
>gnl|CDD|35618 KOG0397, KOG0397, KOG0397, 60S ribosomal protein L11 [Translation,
ribosomal structure and biogenesis].
Length = 176
Score = 77.7 bits (191), Expect = 2e-15
Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 10/145 (6%)
Query: 29 KNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLRTG 88
+N M+ KI+K+V+N+ VGES + AA L +TGQ PV ++AR ++ F +R
Sbjct: 7 QNPMRELKIQKLVLNICVGES---GDRLTRAAKVLEQLTGQTPVFSKARYTVRSFGIRRN 63
Query: 89 MPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSFDGSGNFSFGIREHIVFPEIN 148
I VT+RG + L+R + +++++ L R+F +GNF FGI+EHI I
Sbjct: 64 EKIAVHVTVRGPKAEEILERGL-----KVKEYE-LRKRNFSDTGNFGFGIQEHIDL-GIK 116
Query: 149 YDKVDCVLGMDISICTTTRSDREAK 173
YD + GMD + R A+
Sbjct: 117 YDPSIGIYGMDFYVVLGRPGYRVAR 141
>gnl|CDD|143824 pfam00035, dsrm, Double-stranded RNA binding motif. Putative
motif shared by proteins that bind to dsRNA. At least
some DSRM proteins seem to bind to specific RNA
targets. Exemplified by Staufen, which is involved in
localisation of at least five different mRNAs in the
early Drosophila embryo. Also by interferon-induced
protein kinase in humans, which is part of the cellular
response to dsRNA.
Length = 66
Score = 31.1 bits (71), Expect = 0.20
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 13 EYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMG---VGESIADSKK-AESAAADLAL 65
E C + + E+ + V V +G G SKK A+ AA+ AL
Sbjct: 7 ELCQKKGKKPPYEYVEEEGPSHSPTFTVTVTVGGKKYGTGTGSSKKEAKQLAAEKAL 63
>gnl|CDD|29328 cd01343, PL1_Passenger_AT, Pertactin-like passenger domains
(virulence factors), C-terminal, subgroup 1, of
autotransporter proteins of the type V secretion system
of Gram-negative bacteria. This subgroup includes the
passenger domains of Neisseria and Haemophilus IgA1
proteases, SPATEs (serine protease autotransporters
secreted by Enterobacteriaceae), Bordetella pertacins,
and nonprotease autotransporters, TibA and similar
AIDA-like proteins..
Length = 233
Score = 29.9 bits (67), Expect = 0.42
Identities = 17/94 (18%), Positives = 32/94 (34%), Gaps = 8/94 (8%)
Query: 47 GESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFL 106
G + + + A A+L L +I G + + + TL G + + L
Sbjct: 61 GTVVLGAGQPLQALAELLLGGN-----AAWTGAIQGLNATVSLNLNSVWTLTGDSNVNNL 115
Query: 107 ---DRLINMGMPRIRDFHGLNSRSFDGSGNFSFG 137
++ P F+ L + G+G F
Sbjct: 116 TLNGGTVDFNGPSAGKFNTLTVNTLSGNGTFVMR 149
>gnl|CDD|30612 COG0263, ProB, Glutamate 5-kinase [Amino acid transport and
metabolism].
Length = 369
Score = 27.1 bits (60), Expect = 2.6
Identities = 8/36 (22%), Positives = 12/36 (33%)
Query: 59 AAADLALITGQKPVITRARRSIAGFKLRTGMPIGTK 94
AA +A G +I + G +GT
Sbjct: 221 EAAKIATRAGVPVIIASGSKPDVILDALEGEAVGTL 256
>gnl|CDD|144336 pfam00696, AA_kinase, Amino acid kinase family. This family
includes kinases that phosphorylate a variety of amino
acid substrates, as well as uridylate kinase and
carbamate kinase. This family includes: Aspartokinase
EC:2.7.2.4. Acetylglutamate kinase EC:2.7.2.8. Glutamate
5-kinase EC:2.7.2.11. Uridylate kinase EC:2.7.4.-.
Carbamate kinase EC:2.7.2.2.
Length = 230
Score = 25.4 bits (56), Expect = 8.7
Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 38 EKVVVNMGVGESIADSKKAESAAADLALIT--GQKPVITRARRSIAGFKLRTGMPIGTKV 95
+++V+ +G G S+ D + A ++AL++ G K V+ KL I K+
Sbjct: 1 KRIVIKLG-GSSLTDEDAIKRIAEEIALLSELGIKVVVVSGGGGFTD-KLLAAYGIAEKI 58
Query: 96 TLRGTNMYD 104
LR T
Sbjct: 59 GLRVTAGAT 67
>gnl|CDD|36517 KOG1303, KOG1303, KOG1303, Amino acid transporters [Amino acid
transport and metabolism].
Length = 437
Score = 25.3 bits (55), Expect = 9.6
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 128 FDGSGNFSFGIREHIVFPEI 147
F G +F H V PEI
Sbjct: 231 FTALGIIAFAYGGHAVLPEI 250
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
0.324 0.140 0.410
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,249,512
Number of extensions: 114682
Number of successful extensions: 250
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 12
Length of query: 185
Length of database: 6,263,737
Length adjustment: 88
Effective length of query: 97
Effective length of database: 4,362,145
Effective search space: 423128065
Effective search space used: 423128065
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: 54 (24.7 bits)