BLASTP 2.2.18 [Mar-02-2008]


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= 0001.1181.p
         (306 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-...   573   e-165
gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [H...    83   3e-17

>gi|300310700|ref|YP_003774792.1| dihydrodipicolinate
           synthase/N-acetylneuraminate lyase [Herbaspirillum
           seropedicae SmR1]
          Length = 306

 Score =  573 bits (1478), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 288/306 (94%), Positives = 297/306 (97%)

Query: 1   MSTPIYRGVFPVAPTIFDDHGQLDLEGQKRAIDFMIDAGSNGICILANFSEQFVLSDEER 60
           MSTP+YRGVFPVAPTIFD +G+LDLEGQKRAIDFMIDAGSNG+CILANFSEQFVLSDEER
Sbjct: 1   MSTPLYRGVFPVAPTIFDANGKLDLEGQKRAIDFMIDAGSNGLCILANFSEQFVLSDEER 60

Query: 61  VQVQNTVLEHVAGRVPVIVTTTHFGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVSEK 120
           VQVQNTVLEHVAGRVPVIVTTTH+GSQICAERSRAAQDAGAAMVMVMPPYHGATFRV EK
Sbjct: 61  VQVQNTVLEHVAGRVPVIVTTTHYGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVPEK 120

Query: 121 QIYEFYGRVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIENVSYFKIETAGAASKLRE 180
           QIYEFY  VSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIE VSYFKIETAGAASKLR+
Sbjct: 121 QIYEFYKHVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIEQVSYFKIETAGAASKLRD 180

Query: 181 LIELGGEAVVGPWDGEEAITLIPDLDGGATGAMTGGGYPDGIRKIVDAYFAGDTEKAAEL 240
           LIELGG+AVVGPWDGEEAITLIPDLD GATGAMTGGGYPDGIRKIVDAYFAGD EKAAEL
Sbjct: 181 LIELGGDAVVGPWDGEEAITLIPDLDAGATGAMTGGGYPDGIRKIVDAYFAGDIEKAAEL 240

Query: 241 YMQWLPLINYENRQCGLSACKALMLAGGVIKSDMLRHPQAPLHPKVREGLLRVARRLDPM 300
           YMQWLPLINYENRQCGLSACKALML GGVIKSDMLRHPQ PLHPKVREGLLRVARRLDP+
Sbjct: 241 YMQWLPLINYENRQCGLSACKALMLEGGVIKSDMLRHPQPPLHPKVREGLLRVARRLDPL 300

Query: 301 VLSWGK 306
           VLSWG+
Sbjct: 301 VLSWGR 306


>gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 292

 Score = 83.2 bits (204), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 72/276 (26%), Positives = 135/276 (48%), Gaps = 13/276 (4%)

Query: 21  GQLDLEGQKRAIDFMIDAGSNGICILANFSEQFVLSDEERVQVQNTVLEHVAGRVPVIVT 80
           G LD +G ++ ID+ I  G++ I I+    E   +S EE  ++    +EH A R+P+I  
Sbjct: 17  GSLDYDGLRKLIDWHIAEGTDSIVIVGTTGESPTVSMEEHCELIKVAVEHTAKRIPIIAG 76

Query: 81  TTHFGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVSEKQIYEFYGRVSDAIDIPIMIQ 140
           T    +    E +  A+  GA   + + PY+    R +++ +Y  + ++++++D+P+++ 
Sbjct: 77  TGGNSTSEAIELTEFAKKVGADASLQVVPYYN---RPTQEGMYLHFKKIAESVDLPVILY 133

Query: 141 DAPVAGTP-LSAPFLARMAKEIENVSYFKIETAGAASKLRELIELGGEAVVGPWDGEEAI 199
           + P      +S   + R+A +++ +   K +  G  ++  +LI L  ++    + G++A 
Sbjct: 134 NVPGRTVADMSNETILRLA-QVKGIVGVK-DATGNIARGTDLIRLAPKS-FAVYSGDDAT 190

Query: 200 TLIPDLDGGATG-AMTGGGYPDGIRKIVDAYFAGDTEKAAELYMQWLPLINYENRQCGLS 258
            +   L GGA   ++T    P  + ++  A  +G+  +A EL  + LPL N    +    
Sbjct: 191 AIALMLYGGAGNISVTANVAPRDMHELCVAAMSGNIARAVELNNKLLPLHNKLFVEPNPV 250

Query: 259 ACKALMLAGGVIKSDMLRHPQAPL----HPKVREGL 290
             K  M   G+I S M R P APL    H  VR  L
Sbjct: 251 PLKWAMQEMGLIPSGM-RLPLAPLGAAYHDTVRAAL 285


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.138    0.410 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 938,195
Number of extensions: 36529
Number of successful extensions: 135
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 133
Number of HSP's successfully gapped: 2
Length of query: 306
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 221
Effective length of database: 1,217,395
Effective search space: 269044295
Effective search space used: 269044295
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 130 (54.7 bits)