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= 0002.0093.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|300312447|ref|YP_003776539.1| 5-dehydro-4-deoxyglucarate dehy...   622   e-179
gi|300312573|ref|YP_003776665.1| dihydrodipicolinate synthase [H...    75   6e-15

>gi|300312447|ref|YP_003776539.1| 5-dehydro-4-deoxyglucarate
           dehydratase [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score =  622 bits (1604), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 304/306 (99%), Positives = 304/306 (99%)

Query: 1   MSQYTPQDLKQILSSGLLSFPLTDFDEQGDFRPKTYIERLEWLAPYGASALFPAGGTGEF 60
           MSQYTPQDLKQILSSGLLSFPLTDFDEQGDFRPKTYIERLEWLAPYGASALF AGGTGEF
Sbjct: 1   MSQYTPQDLKQILSSGLLSFPLTDFDEQGDFRPKTYIERLEWLAPYGASALFAAGGTGEF 60

Query: 61  FSLVPGEYSDIIRTAVDTCRGKVPIIAGAGGSTRAAIAYAQEAERLGAHGILLMPHYLTE 120
           FSLVPGEYSDIIRTAVDTCRGKVPIIAGAGGSTRAAIAYAQEAERLGAHGILLMPHYLTE
Sbjct: 61  FSLVPGEYSDIIRTAVDTCRGKVPIIAGAGGSTRAAIAYAQEAERLGAHGILLMPHYLTE 120

Query: 121 ASQDGIAAHVEAVCKSVKFGVIIYNRAVCKLNADTLQKLADRCPNLIGFKDGIGEIEPMV 180
           ASQDGIAAHVEAVCKSVKFGVIIYNRAVCKLNADTLQKLADRCPNLIGFKDGIGEIEPMV
Sbjct: 121 ASQDGIAAHVEAVCKSVKFGVIIYNRAVCKLNADTLQKLADRCPNLIGFKDGIGEIEPMV 180

Query: 181 HIRRKLGDRFTYLGGLPTAEVYAAAYKALGVPVYSSAVFNFIPKTAVEFYQAIAKEDHDT 240
           HIRRKLGDRFTYLGGLPTAEVYAAAYKALGVPVYSSAVFNFIPKTAVEFYQAIAKEDHDT
Sbjct: 181 HIRRKLGDRFTYLGGLPTAEVYAAAYKALGVPVYSSAVFNFIPKTAVEFYQAIAKEDHDT 240

Query: 241 VGKLIDEFFLPYLAIRNRKAGYAVSIVKAGARIAGHDAGPVRTPLTDCTPEEHEELAALM 300
           VGKLIDEFFLPYLAIRNRKAGYAVSIVKAGARIAGHDAGPVRTPLTDCTPEEHEELAALM
Sbjct: 241 VGKLIDEFFLPYLAIRNRKAGYAVSIVKAGARIAGHDAGPVRTPLTDCTPEEHEELAALM 300

Query: 301 KKLGPQ 306
            KLGPQ
Sbjct: 301 NKLGPQ 306


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

 Score = 75.5 bits (184), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 83/159 (52%), Gaps = 5/159 (3%)

Query: 22  LTDFDEQGDFRPKTYIERLEWLAPYGASALFPAGGTGEFFSLVPGEYSDIIRTAVDTCRG 81
           +T   + G        + ++W    G  ++   G TGE  ++   E+ ++I+ AV+    
Sbjct: 10  VTPMHQDGSLDYDGLRKLIDWHIAEGTDSIVIVGTTGESPTVSMEEHCELIKVAVEHTAK 69

Query: 82  KVPIIAGAGG-STRAAIAYAQEAERLGAHGILLMPHYLTEASQDGIAAHVEAVCKSVKFG 140
           ++PIIAG GG ST  AI   + A+++GA   L +  Y    +Q+G+  H + + +SV   
Sbjct: 70  RIPIIAGTGGNSTSEAIELTEFAKKVGADASLQVVPYYNRPTQEGMYLHFKKIAESVDLP 129

Query: 141 VIIYN---RAVCKLNADTLQKLADRCPNLIGFKDGIGEI 176
           VI+YN   R V  ++ +T+ +LA +   ++G KD  G I
Sbjct: 130 VILYNVPGRTVADMSNETILRLA-QVKGIVGVKDATGNI 167


  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
   0.321    0.138    0.412 

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: 1,040,981
Number of extensions: 46369
Number of successful extensions: 156
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 155
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)