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|254781225|ref|YP_003065638.1| P4 family phage/plasmid
primase [Candidatus Liberibacter asiaticus str. psy62]
         (789 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

Searching...................................................done



>gi|254781225|ref|YP_003065638.1| P4 family phage/plasmid primase [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 789

 Score = 1640 bits (4246), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 789/789 (100%), Positives = 789/789 (100%)

Query: 1   MPVMQWKEQAKQAIHNGFKLIPLRLGDKRPQRLGKWEEQLLSSEKIDKLPACGFGFVCGV 60
           MPVMQWKEQAKQAIHNGFKLIPLRLGDKRPQRLGKWEEQLLSSEKIDKLPACGFGFVCGV
Sbjct: 1   MPVMQWKEQAKQAIHNGFKLIPLRLGDKRPQRLGKWEEQLLSSEKIDKLPACGFGFVCGV 60

Query: 61  GEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKPKILIPFRMNKEGIKKKKTTE 120
           GEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKPKILIPFRMNKEGIKKKKTTE
Sbjct: 61  GEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKPKILIPFRMNKEGIKKKKTTE 120

Query: 121 STQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVEDTPLLSEEDVEYLFKFFQEI 180
           STQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVEDTPLLSEEDVEYLFKFFQEI
Sbjct: 121 STQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVEDTPLLSEEDVEYLFKFFQEI 180

Query: 181 TVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEEFYNGSHDEWIPVVMAVHHET 240
           TVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEEFYNGSHDEWIPVVMAVHHET
Sbjct: 181 TVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEEFYNGSHDEWIPVVMAVHHET 240

Query: 241 RGSSKGKEIARRWSKQGSTYDEENFNYKWDTFDFEEIGDTAKKRSTFTSLFYHHGKLIPK 300
           RGSSKGKEIARRWSKQGSTYDEENFNYKWDTFDFEEIGDTAKKRSTFTSLFYHHGKLIPK
Sbjct: 241 RGSSKGKEIARRWSKQGSTYDEENFNYKWDTFDFEEIGDTAKKRSTFTSLFYHHGKLIPK 300

Query: 301 GLLASRFSDAYNKAMFSIYKKGHFLYTADTKAWYKKDKNNVYIWSLTLDKITASIMNFLV 360
           GLLASRFSDAYNKAMFSIYKKGHFLYTADTKAWYKKDKNNVYIWSLTLDKITASIMNFLV
Sbjct: 301 GLLASRFSDAYNKAMFSIYKKGHFLYTADTKAWYKKDKNNVYIWSLTLDKITASIMNFLV 360

Query: 361 SMKEDVFDLSEEPEDNNKNSKSPRFWFNTDYRRQNVEENSKAKSTAQSLEAGSIFSITSD 420
           SMKEDVFDLSEEPEDNNKNSKSPRFWFNTDYRRQNVEENSKAKSTAQSLEAGSIFSITSD
Sbjct: 361 SMKEDVFDLSEEPEDNNKNSKSPRFWFNTDYRRQNVEENSKAKSTAQSLEAGSIFSITSD 420

Query: 421 LLDSSSRFLGEQDGILDLETGQKVKPTKELYITKSTGTPFVEGEPSQEFLDLVSGYFESE 480
           LLDSSSRFLGEQDGILDLETGQKVKPTKELYITKSTGTPFVEGEPSQEFLDLVSGYFESE
Sbjct: 421 LLDSSSRFLGEQDGILDLETGQKVKPTKELYITKSTGTPFVEGEPSQEFLDLVSGYFESE 480

Query: 481 EVMDYFTRCVGMALLGGNKAQRFIHIRGVGGSGKSTLMNLIKYAFGNQYVINAEASDIMQ 540
           EVMDYFTRCVGMALLGGNKAQRFIHIRGVGGSGKSTLMNLIKYAFGNQYVINAEASDIMQ
Sbjct: 481 EVMDYFTRCVGMALLGGNKAQRFIHIRGVGGSGKSTLMNLIKYAFGNQYVINAEASDIMQ 540

Query: 541 NRPPEAGKANPSLIRLMGSRIVIISETNENDEINAAKIKQMTGGDCMTARLNYGNTYSES 600
           NRPPEAGKANPSLIRLMGSRIVIISETNENDEINAAKIKQMTGGDCMTARLNYGNTYSES
Sbjct: 541 NRPPEAGKANPSLIRLMGSRIVIISETNENDEINAAKIKQMTGGDCMTARLNYGNTYSES 600

Query: 601 PASFTPFIVPNKHLFVRNPDDAWWRRYIVIPFDKPIANRDASFAQKLETKYTLEAKKWFL 660
           PASFTPFIVPNKHLFVRNPDDAWWRRYIVIPFDKPIANRDASFAQKLETKYTLEAKKWFL
Sbjct: 601 PASFTPFIVPNKHLFVRNPDDAWWRRYIVIPFDKPIANRDASFAQKLETKYTLEAKKWFL 660

Query: 661 KGVKAYISKGLDVDIPEVCLKAKEEERQGTDTYQAWIDDCCDIGENLWEESHSLAKSYSE 720
           KGVKAYISKGLDVDIPEVCLKAKEEERQGTDTYQAWIDDCCDIGENLWEESHSLAKSYSE
Sbjct: 661 KGVKAYISKGLDVDIPEVCLKAKEEERQGTDTYQAWIDDCCDIGENLWEESHSLAKSYSE 720

Query: 721 YREQELNYDRKRISTRTVTLNLKQKGFIGGIKREKIEKEWKSKRIIKGLKLKPAFESVDD 780
           YREQELNYDRKRISTRTVTLNLKQKGFIGGIKREKIEKEWKSKRIIKGLKLKPAFESVDD
Sbjct: 721 YREQELNYDRKRISTRTVTLNLKQKGFIGGIKREKIEKEWKSKRIIKGLKLKPAFESVDD 780

Query: 781 NSNIIDFKR 789
           NSNIIDFKR
Sbjct: 781 NSNIIDFKR 789


>gi|254781190|ref|YP_003065603.1| hypothetical protein CLIBASIA_05485 [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 233

 Score =  292 bits (748), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 132/233 (56%), Positives = 169/233 (72%)

Query: 41  LSSEKIDKLPACGFGFVCGVGEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKP 100
           + +  +D     GFG +CG+G  P+YAFD+D  DE+  + F + F+   G PI R+GQ P
Sbjct: 1   MVATDVDHYVYNGFGILCGIGTHPVYAFDVDVLDEQVVDRFNNEFQSCCGKPISRVGQAP 60

Query: 101 KILIPFRMNKEGIKKKKTTESTQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVE 160
           K L+ FRM +  +KK+K+ E  QGHL+ L  GQ FVAYNIHPKT++ YTW+  PH  KVE
Sbjct: 61  KTLMLFRMQETNLKKQKSEEKIQGHLEFLAYGQQFVAYNIHPKTQRAYTWSIAPHALKVE 120

Query: 161 DTPLLSEEDVEYLFKFFQEITVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEE 220
           + PLL+ ++VEY F+FF  IT P  K+K     SK W ++NNR+YTN EI AFLSCFGEE
Sbjct: 121 ELPLLTPDEVEYFFEFFDTITTPRDKEKSYRKLSKIWKSHNNRRYTNIEIRAFLSCFGEE 180

Query: 221 FYNGSHDEWIPVVMAVHHETRGSSKGKEIARRWSKQGSTYDEENFNYKWDTFD 273
           FYNGSHDEWIPVVMA+H+ETRGS++GKEI R W K G TYDE++FN KWD+FD
Sbjct: 181 FYNGSHDEWIPVVMAIHYETRGSAEGKEIVREWCKLGRTYDEKSFNAKWDSFD 233


>gi|254780559|ref|YP_003064972.1| thiamine transporter ATP-binding subunit [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 234

 Score = 27.3 bits (59), Expect = 0.94,   Method: Composition-based stats.
 Identities = 13/24 (54%), Positives = 19/24 (79%), Gaps = 1/24 (4%)

Query: 498 NKAQRFIHIRGVGGSGKSTLMNLI 521
           NKA+R + I G  G+GKSTL++L+
Sbjct: 23  NKAERIV-ILGPSGAGKSTLLSLM 45


>gi|254780451|ref|YP_003064864.1| aconitate hydratase [Candidatus Liberibacter asiaticus str. psy62]
          Length = 896

 Score = 27.3 bits (59), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 18/36 (50%)

Query: 137 AYNIHPKTKKEYTWTTPPHRFKVEDTPLLSEEDVEY 172
            Y IH  +K+E        R+KV+  PL+    VEY
Sbjct: 743 GYTIHYPSKEELFIYDAAMRYKVDQVPLVVFAGVEY 778


>gi|255764477|ref|YP_003065232.2| dephospho-CoA kinase [Candidatus Liberibacter asiaticus str. psy62]
          Length = 199

 Score = 26.2 bits (56), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 20/41 (48%)

Query: 161 DTPLLSEEDVEYLFKFFQEITVPLVKDKKSIIPSKTWTNNN 201
           DTPLL E+  EYLF     +T      ++ ++  K  T  N
Sbjct: 109 DTPLLFEKRKEYLFDAVVVVTCSFETQRERVLSRKKHTEEN 149


>gi|254780455|ref|YP_003064868.1| nicotinate phosphoribosyltransferase [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 418

 Score = 26.2 bits (56), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 18/81 (22%), Positives = 30/81 (37%)

Query: 202 NRQYTNREITAFLSCFGEEFYNGSHDEWIPVVMAVHHETRGSSKGKEIARRWSKQGSTYD 261
           NR Y +  +      FG +F+      W+       H++    +G E    W K+ +   
Sbjct: 261 NRLYDDNLLIVLPDSFGTDFFLEHAPSWMTQWKGFRHDSASPIEGGEKIIAWWKKMNCNP 320

Query: 262 EENFNYKWDTFDFEEIGDTAK 282
           +  F    D  D + I  T K
Sbjct: 321 QNKFLVFSDNLDVDSIIYTYK 341


>gi|254780724|ref|YP_003065137.1| component of type IV pilus [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 483

 Score = 26.2 bits (56), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 504 IHIRGVGGSGKSTLMN-LIKYAFGNQYVINAEASDIMQNRPPEA 546
           + I G  GSGK+TL+N L +Y   ++ ++  E +  +Q + P  
Sbjct: 253 VLISGGTGSGKTTLLNCLTRYIDKDERIVTCEDTAELQLQQPHV 296


>gi|254780917|ref|YP_003065330.1| ABC transporter, nucleotide binding/ATPase protein [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 596

 Score = 24.3 bits (51), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 8/59 (13%)

Query: 463 GEPSQEFLDLVSGYFESEEVMDYFTRCVGMALLGGNKAQRFIHIRGVGGSGKSTLMNLI 521
           G+ +  F D+   Y +   V+     C         K+ +   + G  GSGKST++NL+
Sbjct: 349 GKGTTVFRDVFFSYKQGHPVLSGINLCF--------KSGKMTALVGPSGSGKSTIINLL 399


>gi|254780945|ref|YP_003065358.1| ATP-dependent DNA helicase RecG [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 700

 Score = 24.3 bits (51), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 5/52 (9%)

Query: 137 AYNI--HPKTKKEYTWTTPPHRFKVEDTPLLSEEDVEYLFK--FFQEITVPL 184
           A+NI  +P+  K++ WT+P  R ++    LL+ +    L +  F +EI +P+
Sbjct: 205 AFNIIHNPRKAKDFEWTSPA-RERLAYDELLAGQIALLLMRKQFKKEIGIPI 255


  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
   0.316    0.134    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 536,224
Number of Sequences: 1233
Number of extensions: 23650
Number of successful extensions: 86
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 79
Number of HSP's gapped (non-prelim): 13
length of query: 789
length of database: 328,796
effective HSP length: 81
effective length of query: 708
effective length of database: 228,923
effective search space: 162077484
effective search space used: 162077484
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 42 (20.8 bits)