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|254781101|ref|YP_003065514.1|
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate/D-alanyl-D-alanyl ligase [Candidatus Liberibacter
asiaticus str. psy62]
         (472 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254781101|ref|YP_003065514.1| UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
           6-diaminopimelate/D-alanyl-D-alanyl ligase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 472

 Score =  969 bits (2505), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 472/472 (100%), Positives = 472/472 (100%)

Query: 1   MNPLWTFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHA 60
           MNPLWTFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHA
Sbjct: 1   MNPLWTFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHA 60

Query: 61  VQKGAGLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKT 120
           VQKGAGLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKT
Sbjct: 61  VQKGAGLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKT 120

Query: 121 TTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTH 180
           TTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTH
Sbjct: 121 TTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTH 180

Query: 181 LVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSH 240
           LVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSH
Sbjct: 181 LVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSH 240

Query: 241 ALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTL 300
           ALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTL
Sbjct: 241 ALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTL 300

Query: 301 GIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVL 360
           GIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVL
Sbjct: 301 GIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVL 360

Query: 361 SQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPR 420
           SQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPR
Sbjct: 361 SQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPR 420

Query: 421 SIHVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLLLEEFPAIQ 472
           SIHVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLLLEEFPAIQ
Sbjct: 421 SIHVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLLLEEFPAIQ 472


>gi|254781102|ref|YP_003065515.1| UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase
           [Candidatus Liberibacter asiaticus str. psy62]
          Length = 497

 Score = 54.7 bits (130), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 87/376 (23%), Positives = 153/376 (40%), Gaps = 42/376 (11%)

Query: 27  VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNT-----DMVASIGSL 81
           +N +S DSR I     F AI G   DGH FI  A+ +GA  +VV++     D  A+I S 
Sbjct: 30  INEVSSDSRHIQAGWIFVAIVGNKEDGHLFIPQAIAQGAEAIVVSSAYSLQDFSATIRS- 88

Query: 82  SIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLT-----IALSSIK-K 135
           + P+  VD+    L+  A     +    I+A+TG+ GK++    +        LSS +  
Sbjct: 89  NTPILVVDNTRKFLSLFASRLYGKHPENILAVTGTSGKSSVASFVQQICQRSGLSSFQIG 148

Query: 136 TYACIGSY--NNHIGV--PLTLAR----------MPVDVDFGIFELGMSHLGEIRFLTHL 181
             + I S+  +N +    P+ LA+            V V+     L    L  I+ +   
Sbjct: 149 PTSTISSFAQDNRLTTPSPIYLAKALSYLSSQGVTHVSVEASSHGLDQHRLDGIKLIA-- 206

Query: 182 VRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEG-LEKTGTIFLNYDDSFFELLKAKSH 240
                   T +   H+      +   +AK  +FE  L K     +  DD++ + +  ++H
Sbjct: 207 -----GSFTNLGRDHIDYHQTQQAYFNAKMRLFEELLPKESPAIIYADDAYSKEVMKRAH 261

Query: 241 ALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTL 300
             G + + S G  +     L+K      +  + + ++GK  + +    G     N L+  
Sbjct: 262 NAGCR-VLSVG-YQGKFIHLKKVCAIHNKQQVTISVEGKDFDFLFPLPGEFQVYNALVAA 319

Query: 301 GIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVL 360
           G+   +  D    ++ L   H   GR + +    ++G    +D ++ +N   M     +L
Sbjct: 320 GLCIAIGIDSALVLEHLEKLHVVPGRFE-FVGTNSRGGRIYVDYAHTSNSLEM-----IL 373

Query: 361 SQISPHGEGRRIAVLG 376
             I     GR I V G
Sbjct: 374 KNIRTITSGRIIVVFG 389


>gi|254781096|ref|YP_003065509.1| UDP-N-acetylmuramate--L-alanine ligase [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 474

 Score = 42.4 bits (98), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 79/367 (21%), Positives = 145/367 (39%), Gaps = 39/367 (10%)

Query: 100 VAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACI-GSYNNHIGVPLTLARMPV 158
           +A  +R + +I +++G+ GKTTT  ++   L   K     I G   N  G   T AR+  
Sbjct: 100 LAGLMRCRKSI-SVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYG---TNARIGT 155

Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLE 218
             ++ + E   S    IR  + +V     V+T I P HL  +     I +A  +  + + 
Sbjct: 156 S-EWIVVEADESDGTFIRLPSDIV-----VVTNIDPEHLDYYGDFNAIRAAFYKFIDNIP 209

Query: 219 KTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQG 278
             G   +  D      L A+   +  + I ++G+   AD +    ++ S +S  +V +QG
Sbjct: 210 FYGFAVVCMDHPEVRSLIAR---IQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQG 266

Query: 279 ---KSMEVVHH----GIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYR 331
              K + V+       IG H   N   ++ +   L    +   K L+ F    G  +R+ 
Sbjct: 267 NVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASF---SGIKRRFT 323

Query: 332 CALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSF--- 388
                    + D+ Y  +P  + + ++ + QI P    R+I  +        LS  F   
Sbjct: 324 LVGVWNDVHVFDD-YGHHPIEISSVLAAVRQICP----RKIIAIHQPHRYSRLSTLFDQF 378

Query: 389 -----HIDLAEVLSLYNISHVWLSGFHVLALKDALPRSIH--VHYSETMDGLFLFIQSSL 441
                  D+  +  +Y+     + GF    L   +    H   +Y ++ D L   I +  
Sbjct: 379 SSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQAYYMDSFDHLVSKILAIA 438

Query: 442 VDGDVVV 448
             GD ++
Sbjct: 439 EPGDFII 445



 Score = 23.5 bits (49), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 12/68 (17%)

Query: 78  IGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTY 137
           I  LS+P+ G  ++  A   +AVA +L            +     K+ L  + S IK+ +
Sbjct: 275 IKDLSLPLIGEHNISNACASIAVAYKL-----------GLSSEDVKKGLA-SFSGIKRRF 322

Query: 138 ACIGSYNN 145
             +G +N+
Sbjct: 323 TLVGVWND 330


>gi|254780858|ref|YP_003065271.1| NADH dehydrogenase I subunit F [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 425

 Score = 36.2 bits (82), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 47/107 (43%), Gaps = 12/107 (11%)

Query: 275 QLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDT----AIKALSVFHPKEGRGKRY 330
           Q++G  M+       Y   + M   LG  +++  D  T    AI  LSVF+  E  G+  
Sbjct: 297 QMRGAIMD-------YDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCT 349

Query: 331 RCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGD 377
            C    G+   + E      A  K  I +L ++S + EGR I  LGD
Sbjct: 350 PCREGTGWMMRVMERLVKGIAQ-KREIDLLYEVSKNIEGRTICALGD 395


>gi|254781099|ref|YP_003065512.1| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 468

 Score = 32.3 bits (72), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 9/125 (7%)

Query: 90  DVLGALNKLAVAARLRS-KATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIG 148
           +++G +       R  S ++  IA+TG+ GK++T  +++  L   K  Y        +IG
Sbjct: 94  EIIGDIELFVRERRFSSLQSPFIAVTGTNGKSSTVALISHVLR--KNGYDV--QLGGNIG 149

Query: 149 VPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIAS 208
           +P+          F + E     +     LT  + P I V+  I+P HL     +E   +
Sbjct: 150 LPILNLEYFSPNRFYVIECSSYQIE----LTPTIDPSIGVLLNISPDHLDRHHTLENYVN 205

Query: 209 AKAEI 213
            K +I
Sbjct: 206 IKKKI 210


>gi|254780806|ref|YP_003065219.1| chromosome partitioning protein A [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 265

 Score = 27.7 bits (60), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 34/134 (25%), Positives = 61/134 (45%), Gaps = 19/134 (14%)

Query: 107 KATIIAIT---GSVGKTTTKEMLTIALSSIKKTYACI-----GSYNNHIGVPLTLARMPV 158
           K+ II I    G VGKTTT   L+ AL++I +    I     G+ +  +G+ L       
Sbjct: 5   KSRIITIANQKGGVGKTTTAINLSTALAAIGENVLLIDLDPQGNASTGLGIEL------Y 58

Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLE 218
           D  +  ++L +      + L     P++++I    P+ + +  GIE I   + +    L+
Sbjct: 59  DRKYSSYDLLIEEKNINQILIQTAIPNLSII----PSTM-DLLGIEMILGGEKDRLFRLD 113

Query: 219 KTGTIFLNYDDSFF 232
           K  ++ L  D S+ 
Sbjct: 114 KALSVQLTSDFSYI 127


>gi|254780649|ref|YP_003065062.1| nicotinic acid mononucleotide adenylyltransferase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 216

 Score = 25.8 bits (55), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 224 FLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADF-QLRKWKQ 265
           +LN+ ++F  +L+ K H   +  ++  G      F Q   WK+
Sbjct: 95  YLNHTETFHTILQVKKHNKSVNFVWIMGADNIKSFHQWHHWKR 137


>gi|254780930|ref|YP_003065343.1| nodulation protein (outer membrane efflux protein) [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 452

 Score = 25.4 bits (54), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 10/50 (20%)

Query: 202 GIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFG 251
            + +I  AK++++  L   G+I L +D+SF           G  T +SFG
Sbjct: 288 SVAKIGIAKSDLYPSLSLNGSIALTHDNSF----------PGYNTHWSFG 327


  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
   0.322    0.137    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 300,146
Number of Sequences: 1233
Number of extensions: 12439
Number of successful extensions: 39
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 28
Number of HSP's gapped (non-prelim): 11
length of query: 472
length of database: 328,796
effective HSP length: 77
effective length of query: 395
effective length of database: 233,855
effective search space: 92372725
effective search space used: 92372725
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 40 (20.0 bits)