BLASTP 2.2.22 [Sep-27-2009]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= gi|254780476|ref|YP_003064889.1| two component response
regulator [Candidatus Liberibacter asiaticus str. psy62]
(123 letters)
Database: las_proteome
1233 sequences; 328,796 total letters
Searching...................................................done
>gi|254780476|ref|YP_003064889.1| two component response regulator [Candidatus Liberibacter asiaticus
str. psy62]
Length = 123
Score = 248 bits (632), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 123/123 (100%), Positives = 123/123 (100%)
Query: 1 MLKKVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEIS 60
MLKKVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEIS
Sbjct: 1 MLKKVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEIS 60
Query: 61 GLEITKQIKEDSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKYI 120
GLEITKQIKEDSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKYI
Sbjct: 61 GLEITKQIKEDSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKYI 120
Query: 121 GEA 123
GEA
Sbjct: 121 GEA 123
>gi|254780450|ref|YP_003064863.1| two-component sensor histidine kinase/response regulator hybrid
protein [Candidatus Liberibacter asiaticus str. psy62]
Length = 803
Score = 41.6 bits (96), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 58/107 (54%), Gaps = 4/107 (3%)
Query: 5 VMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELAR--QHKPDVIIMDIQLQEISGL 62
V++VED + + + ++ET GY + +G +AL++ Q + D++I D+ + E+ G
Sbjct: 684 VLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGP 743
Query: 63 EITKQIKEDSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPISL 109
+ +++++ + I ++ +A + + K +++SKP SL
Sbjct: 744 TLLRELRK--TYPSLKFIFISGYAEDAFSKNLPKDAKFSFLSKPFSL 788
>gi|254780893|ref|YP_003065306.1| two component response regulator [Candidatus Liberibacter asiaticus
str. psy62]
Length = 236
Score = 41.2 bits (95), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 55/105 (52%), Gaps = 2/105 (1%)
Query: 4 KVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEISGLE 63
+++++ED++ ++++ + T G + +EL + ++ D II+D+ L +I G E
Sbjct: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61
Query: 64 ITKQIKEDSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPIS 108
+ + ++ PV ++ + D+ R + G + YISKP +
Sbjct: 62 VLRALRVAK--ISTPVCILSGMSSIEDKVRGLQSGADDYISKPFN 104
>gi|254780312|ref|YP_003064725.1| response regulator receiver protein [Candidatus Liberibacter
asiaticus str. psy62]
Length = 122
Score = 40.4 bits (93), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/121 (20%), Positives = 57/121 (47%), Gaps = 4/121 (3%)
Query: 1 MLKKVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEIS 60
M +K+++ ED++ + + +GY + NG A + R+ +++ DI + E+
Sbjct: 1 MNQKILLAEDDDDMRRFLIKALGKAGYEVVSCNNGASAYDKVREEPFSLLLTDIVMPEMD 60
Query: 61 GLEITKQIKE-DSELQEIPVIAVTAFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKY 119
G+E+ ++ E D +L+ + + A A+ D + +SKP L + + +
Sbjct: 61 GIELARRATELDPDLKVMFITGFAAVALNPDSNAPKNAKV---LSKPFHLRDLVNEVNRL 117
Query: 120 I 120
+
Sbjct: 118 L 118
>gi|254780916|ref|YP_003065329.1| putative sigma-54-dependent transcription regulator protein
[Candidatus Liberibacter asiaticus str. psy62]
Length = 482
Score = 24.3 bits (51), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 8/25 (32%), Positives = 19/25 (76%)
Query: 3 KKVMIVEDNELNMKLFRDLIETSGY 27
K+V+I++ ++ +K+ +D +E+ GY
Sbjct: 11 KRVLIIDKDDEQIKIIKDHVESYGY 35
>gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus
str. psy62]
Length = 682
Score = 23.9 bits (50), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 94 IRKGGCEAYISKP----ISLSIFMETIKKYIG 121
+RKG CEA I+K +L + + KKY
Sbjct: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTN 465
>gi|254780195|ref|YP_003064608.1| CTP synthetase [Candidatus Liberibacter asiaticus str. psy62]
Length = 544
Score = 23.1 bits (48), Expect = 1.8, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 77 IPVIAVTAFAMKGDEERIR 95
+PVIA+ + MKGD++ R
Sbjct: 412 VPVIALMSEWMKGDQQEKR 430
>gi|254780334|ref|YP_003064747.1| DNA repair protein RadA [Candidatus Liberibacter asiaticus str.
psy62]
Length = 479
Score = 22.3 bits (46), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 20 DLIETSGYIALQTRNGMEALELARQHKPDVIIMD 53
+ I +S YIA++T L KPD++I+D
Sbjct: 141 NTINSSVYIAIETNVEDIIATLITNEKPDLVIID 174
>gi|254780877|ref|YP_003065290.1| ATP-dependent Clp protease, ATP-binding subunit protein [Candidatus
Liberibacter asiaticus str. psy62]
Length = 853
Score = 21.2 bits (43), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 5/17 (29%), Positives = 13/17 (76%)
Query: 93 RIRKGGCEAYISKPISL 109
++ GG + Y+S+P+++
Sbjct: 73 KVTGGGAQVYLSQPLAV 89
>gi|254780909|ref|YP_003065322.1| hypothetical protein CLIBASIA_04040 [Candidatus Liberibacter
asiaticus str. psy62]
Length = 159
Score = 20.8 bits (42), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 66 KQIKEDSELQEIPVIA 81
K+ KE+ E+ E+PV A
Sbjct: 82 KKPKENQEVNEVPVAA 97
Database: las_proteome
Posted date: Jun 5, 2011 6:30 PM
Number of letters in database: 328,796
Number of sequences in database: 1233
Lambda K H
0.318 0.136 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 70,251
Number of Sequences: 1233
Number of extensions: 2418
Number of successful extensions: 18
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 3
Number of HSP's gapped (non-prelim): 16
length of query: 123
length of database: 328,796
effective HSP length: 64
effective length of query: 59
effective length of database: 249,884
effective search space: 14743156
effective search space used: 14743156
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)