RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780258|ref|YP_003064671.1| 50S ribosomal protein L2
[Candidatus Liberibacter asiaticus str. psy62]
(278 letters)
>gnl|CDD|181807 PRK09374, rplB, 50S ribosomal protein L2; Validated.
Length = 276
Score = 480 bits (1239), Expect = e-136
Identities = 166/277 (59%), Positives = 211/277 (76%), Gaps = 2/277 (0%)
Query: 1 MALKNFNPDTSGRRQLVMVDRNSLHSGKPIKSLTRGLCSKGGRNNTGRVTMRFRGGGHKN 60
MA+K + P T GRR +V+VD + L GKP KSL L GGRNN GR+T+R RGGGHK
Sbjct: 1 MAIKKYKPTTPGRRGMVVVDFSELTKGKPEKSLLEPLKKSGGRNNNGRITVRHRGGGHKR 60
Query: 61 RYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSD 120
+YR++DFKR + G+ V+R+EYDPNR+A IAL+ Y++G YILAP+ L VGD V+S
Sbjct: 61 KYRIIDFKRNKDGIPAKVERIEYDPNRSARIALLHYADGEKRYILAPKGLKVGDTVVSGP 120
Query: 121 SAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSG 180
A D+KPGNA+PLR IPVG+ VHN+E+KPGKGGQ++RSAG+ A+LV ++ A LRL SG
Sbjct: 121 DA-DIKPGNALPLRNIPVGTTVHNIELKPGKGGQLARSAGTSAQLVAKEGKYATLRLPSG 179
Query: 181 EMRFVHSSCMASIGAVSNQDHSNVNHAKAGRARWLGMRSHVRGVAMNPVDHPHGGGEGKT 240
E+R V + C A+IG V N++HSN++ KAGR+RWLG+R VRGVAMNPVDHPHGGGEG+T
Sbjct: 180 EVRKVLAECRATIGEVGNEEHSNISLGKAGRSRWLGIRPTVRGVAMNPVDHPHGGGEGRT 239
Query: 241 SGGRNPCSPWGKLTKGKRTRS-NKSTDVFIARSRHKN 276
SGGR+P +PWGK TKG +TR NK +D FI R R K
Sbjct: 240 SGGRHPVTPWGKPTKGYKTRKKNKRSDKFIVRRRKKK 276
>gnl|CDD|162234 TIGR01171, rplB_bact, ribosomal protein L2, bacterial/organellar.
This model distinguishes bacterial and organellar
ribosomal protein L2 from its counterparts in the
archaea nad in the eukaryotic cytosol. Plant
mitochondrial examples tend to have long, variable
inserts.
Length = 273
Score = 392 bits (1008), Expect = e-110
Identities = 157/274 (57%), Positives = 197/274 (71%), Gaps = 2/274 (0%)
Query: 3 LKNFNPDTSGRRQLVMVDRNSLHSGKPIKSLTRGLCSKGGRNNTGRVTMRFRGGGHKNRY 62
+K + P T GRR V+ D + + GKP KSL L GGRNN GR+T R RGGGHK Y
Sbjct: 1 IKKYKPTTPGRRGAVVSDFDEITKGKPEKSLLEKLHKTGGRNNRGRITSRHRGGGHKRLY 60
Query: 63 RLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSDSA 122
R++DFKR + G+ V +EYDPNR+A IAL+ Y++G YILAP+ L VGD VIS A
Sbjct: 61 RIIDFKRNKDGIPAKVAAIEYDPNRSARIALLHYADGEKRYILAPKGLKVGDTVISGPEA 120
Query: 123 VDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSGEM 182
+KPGNA+PLR IPVG+ VHN+E+KPGKGGQ++RSAG+ A+++ ++ LRL SGEM
Sbjct: 121 -PIKPGNALPLRNIPVGTTVHNIELKPGKGGQLARSAGTSAQILAKEGGYVTLRLPSGEM 179
Query: 183 RFVHSSCMASIGAVSNQDHSNVNHAKAGRARWLGMRSHVRGVAMNPVDHPHGGGEGKTSG 242
R V C A+IG V N+DH+N+ KAGR+RWLG+R VRGVAMNPVDHPHGGGEG+T G
Sbjct: 180 RMVLKECRATIGEVGNEDHNNIVLGKAGRSRWLGIRPTVRGVAMNPVDHPHGGGEGRTPG 239
Query: 243 GRNPCSPWGKLTKGKRTRSNK-STDVFIARSRHK 275
GR+P +PWGK TKG +TR K +D FI R R K
Sbjct: 240 GRHPVTPWGKPTKGYKTRKKKKYSDKFIVRRRKK 273
>gnl|CDD|173329 PTZ00031, PTZ00031, ribosomal protein L2; Provisional.
Length = 317
Score = 266 bits (682), Expect = 4e-72
Identities = 128/254 (50%), Positives = 159/254 (62%), Gaps = 1/254 (0%)
Query: 24 LHSGKPIKSLTRGLCSKGGRNNTGRVTMRFRGGGHKNRYRLVDFKRGEYGLEGVVKRLEY 83
L+ G+ +K L+ GRNN GR+T R RGGGH R R +DFKR + V R+EY
Sbjct: 55 LYKGRVVKQLSCRRVKNSGRNNVGRITTRHRGGGHVQRLRFIDFKRSRKDIYSTVLRIEY 114
Query: 84 DPNRTAFIALISYSNGSLAYILAPQRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVH 143
DP+R+A IAL+ Y +G L+YILAP L GDK+I+S A ++ PGN++PLR IPVGSIVH
Sbjct: 115 DPSRSAHIALLQYEDGVLSYILAPLLLRPGDKIIASKYA-NINPGNSLPLRNIPVGSIVH 173
Query: 144 NVEMKPGKGGQISRSAGSYARLVERDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSN 203
NVEM+PG GGQI R+ G+YA +V +D A L+L S E+R C A+IG VSN +H
Sbjct: 174 NVEMRPGAGGQIIRAGGTYATVVSKDEQFATLKLKSTEIRKFPLDCWATIGQVSNLEHHM 233
Query: 204 VNHAKAGRARWLGMRSHVRGVAMNPVDHPHGGGEGKTSGGRNPCSPWGKLTKGKRTRSNK 263
KAG RWLG R VRGVAMNP HPHGGG K R CS WG G +TRS K
Sbjct: 234 RILGKAGVNRWLGKRPVVRGVAMNPSKHPHGGGTSKKGTKRPKCSLWGICRDGYKTRSKK 293
Query: 264 STDVFIARSRHKNK 277
I R + +
Sbjct: 294 KPLGLIIRRKICGR 307
>gnl|CDD|181989 PRK09612, rpl2p, 50S ribosomal protein L2P; Validated.
Length = 238
Score = 154 bits (391), Expect = 3e-38
Identities = 76/202 (37%), Positives = 114/202 (56%), Gaps = 15/202 (7%)
Query: 45 NTGRVTMRFRGGGHKN----RYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGS 100
GR T FR H+ +Y +D L G V + +DP R A +A + + NG
Sbjct: 9 RRGRGTPTFRSPSHRYKGPVKYPPLDKDGT---LRGKVVDILHDPGRNAPVAKVKFENGE 65
Query: 101 LAYILAPQRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAG 160
ILAP+ L VG ++ SA ++KPGN +PL IP G+ V N+E +PG GG+ +RS+G
Sbjct: 66 EFLILAPEGLYVGQEIEIGPSA-EIKPGNTLPLGEIPEGTPVCNIESRPGDGGKFARSSG 124
Query: 161 SYARLVERDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSNVNHAKAGRARWLGMRSH 220
+YA +V + + +++L SG+++ ++ C A+IG V+ KAG ++ M++
Sbjct: 125 TYALVVGHEGDKVIVQLPSGKIKELNPRCRATIGVVAGGGRKEKPFLKAG-KKYHKMKAK 183
Query: 221 ------VRGVAMNPVDHPHGGG 236
VRGVAMN VDHPHGGG
Sbjct: 184 AKKWPRVRGVAMNAVDHPHGGG 205
>gnl|CDD|173464 PTZ00180, PTZ00180, 60S ribosomal protein L8; Provisional.
Length = 260
Score = 97.5 bits (243), Expect = 3e-21
Identities = 74/203 (36%), Positives = 109/203 (53%), Gaps = 23/203 (11%)
Query: 53 FRGGGHKN----RYRLVDFKRGEYGLEGVVKRLEYDPNRTAFIALISYSNGSLAY----- 103
F+ GHK + R++D+ + GVVK +E+DP R A +A + + + Y
Sbjct: 16 FKAHGHKRLGPAKLRILDYAERHGYIRGVVKDIEHDPGRGAPLARVEFRD---PYKYKRV 72
Query: 104 ---ILAPQRLSVGDKVISSDSAVDVKPGNAMPLRFIPVGSIVHNVEMKPGKGGQISRSAG 160
++AP+ + G V A + GN +PL IP G+IV NVE KPG G ++R++G
Sbjct: 73 KELMVAPEGMYTGQYVYCGAKA-PLAIGNVLPLGQIPEGTIVCNVEEKPGDRGTLARASG 131
Query: 161 SYARLV--ERDRSRALLRLSSGEMRFVHSSCMASIGAVSNQDHSNVNHAKAGRA--RWLG 216
YA ++ D + +RL SG+ + V S A IG V+ + KAG A ++ G
Sbjct: 132 CYATIIGHSDDGGKTRIRLPSGQKKTVSSLSRAMIGIVAGGGRIDKPVLKAGNAFHKYRG 191
Query: 217 MRS---HVRGVAMNPVDHPHGGG 236
R+ VRGVAMNPV+HPHGGG
Sbjct: 192 KRNCWPKVRGVAMNPVEHPHGGG 214
>gnl|CDD|178288 PLN02685, PLN02685, iron superoxide dismutase.
Length = 299
Score = 30.0 bits (67), Expect = 0.69
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 8/42 (19%)
Query: 147 MKPGKGGQ--------ISRSAGSYARLVERDRSRALLRLSSG 180
MKPG GG+ I R GS+ R VE +S A + SG
Sbjct: 130 MKPGGGGKPSGELLQLIERDFGSFERFVEEFKSAAATQFGSG 171
>gnl|CDD|178017 PLN02394, PLN02394, trans-cinnamate 4-monooxygenase.
Length = 503
Score = 29.3 bits (66), Expect = 1.0
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 130 AMPLRFIPVGSIVHNVEMKP----------GKGGQISRSAGSYARLVERDRS 171
A+P+ I +G +V N E+ P KGGQ S ++ +V + RS
Sbjct: 451 ALPILGIVLGRLVQNFELLPPPGQSKIDVSEKGGQFSLHIAKHSTVVFKPRS 502
>gnl|CDD|177875 PLN02230, PLN02230, phosphoinositide phospholipase C 4.
Length = 598
Score = 27.4 bits (60), Expect = 4.6
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 7/86 (8%)
Query: 137 PVGSIVHNVEMKPGKGGQIS-------RSAGSYARLVERDRSRALLRLSSGEMRFVHSSC 189
P G + +++ P K ++S ++ SY V R + LR+ RF S+
Sbjct: 344 PKGGLRMALKVDPNKIRRLSLSEQLLEKAVASYGADVIRFTQKNFLRIYPKGTRFNSSNY 403
Query: 190 MASIGAVSNQDHSNVNHAKAGRARWL 215
IG +S N GRA WL
Sbjct: 404 KPQIGWMSGAQMIAFNMQGYGRALWL 429
>gnl|CDD|173153 PRK14690, PRK14690, molybdopterin biosynthesis protein MoeA;
Provisional.
Length = 419
Score = 27.2 bits (60), Expect = 5.5
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 120 DSAVDVKPGNAMPLRFIPVGS 140
D A + PG+ P+RFIP GS
Sbjct: 398 DGARRIAPGD--PVRFIPYGS 416
>gnl|CDD|177868 PLN02222, PLN02222, phosphoinositide phospholipase C 2.
Length = 581
Score = 26.9 bits (59), Expect = 5.8
Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 8/94 (8%)
Query: 137 PVGSIVHNVEMKPGK-------GGQISRSAGSYARLVERDRSRALLRLSSGEMRFVHSSC 189
P G I +++ P K Q+ ++A YA+ + R LLR+ R S+
Sbjct: 327 PKGGITECLKVDPDKVRRLSLSEEQLEKAAEKYAKQIVRFTQHNLLRIYPKGTRVTSSNY 386
Query: 190 MASIGAVSNQDHSNVNHAKAGRARWLGMRSHVRG 223
+G N GR+ WL M+ R
Sbjct: 387 NPLVGWSHGAQMVAFNMQGYGRSLWL-MQGMFRA 419
>gnl|CDD|161677 TIGR00042, TIGR00042, non-canonical purine NTP pyrophosphatase,
rdgB/HAM1 family. Saccharomyces cerevisiae HAM1
protects against the mutagenic effects of the base
analog 6-N-hydroxylaminopurine, which can be a natural
product of monooxygenase activity on adenine.
Methanococcus jannaschii MJ0226 and E. coli RdgB are
also characterized as pyrophosphatases active against
non-standard purines NTPs. E. coli RdgB appears to act
by intercepting non-canonical deoxyribonucleotide
triphosphates from replication precursor pools.
Length = 184
Score = 26.6 bits (59), Expect = 7.8
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 73 GLEGVVKRLEYDPNRTA-FIALISYS 97
LE ++K LE NR A F+ +I Y
Sbjct: 91 NLEKILKLLEGVENRQAYFVCVIGYC 116
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
0.317 0.134 0.396
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,491,659
Number of extensions: 280873
Number of successful extensions: 456
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 15
Length of query: 278
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 186
Effective length of database: 4,006,537
Effective search space: 745215882
Effective search space used: 745215882
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)