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= 0001.0942.p
         (376 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310473|ref|YP_003774565.1| amino acid aldolase or racemase...   679   0.0  
gi|300311077|ref|YP_003775169.1| D-serine deaminase [Herbaspiril...    56   6e-09

>gi|300310473|ref|YP_003774565.1| amino acid aldolase or racemase
           [Herbaspirillum seropedicae SmR1]
          Length = 376

 Score =  679 bits (1752), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/376 (86%), Positives = 348/376 (92%)

Query: 1   MNLASLPTPAALIDITRMEHNIARMQQRMDALGVRFRPHVKTTKCREVVQAQLQAGARGI 60
           MNLASLPTPAALID+ RM+ NI RMQQRMDALGVRFRPHVKTTKC EVVQAQLQAGA GI
Sbjct: 1   MNLASLPTPAALIDVARMQRNITRMQQRMDALGVRFRPHVKTTKCNEVVQAQLQAGASGI 60

Query: 61  TVSTLKEAEQFFAEGITDIVYAVGMAPTKLGQALALRRQGCALKIVADSAACAEAIVRFG 120
           TVSTLKEAEQFFA GI+DIVYAVGMAPTKLGQALALRRQGC LKIVADS  CAEAIV FG
Sbjct: 61  TVSTLKEAEQFFAAGISDIVYAVGMAPTKLGQALALRRQGCNLKIVADSVVCAEAIVAFG 120

Query: 121 QEHDECFEVWIEIDVDGHRSGIAPEDATLLSVGSILHEGGMKLGGVIAHAGSSYDYDNDA 180
           Q  +ECF+VWIEIDVDGHRSGIAPEDATLL+VG++LH GGM++GGVIAHAGSSYDYDND 
Sbjct: 121 QAQEECFDVWIEIDVDGHRSGIAPEDATLLAVGNVLHAGGMRIGGVIAHAGSSYDYDNDE 180

Query: 181 DLVRVAEQERAGCVHAAERLRAAGLPCEVVSIGSTPTALRAQHLQGITEVRAGVYAMFDL 240
            L+ VAEQERAGCV AAERLR AGLPC+VVSIGSTPTALRA+HL+G+TEVRAGVYAMFDL
Sbjct: 181 ALIAVAEQERAGCVRAAERLREAGLPCDVVSIGSTPTALRAEHLRGVTEVRAGVYAMFDL 240

Query: 241 VMHNVGVNTLDDIALSVLTTVIGHQQEKGWAIVDAGWMAMSRDRGTQGRKHDFGYGQVCT 300
           VMHNVGVNT+ +IALSVLTTVIGHQ EKGWAIVDAGWMAMSRDRGTQGRKHDFGYGQVCT
Sbjct: 241 VMHNVGVNTMYEIALSVLTTVIGHQPEKGWAIVDAGWMAMSRDRGTQGRKHDFGYGQVCT 300

Query: 301 EDGRVLEGYLMSGANQEHGILSRQGEADRDIAARLPIGTRLRILPNHACATGAQYPEYHA 360
           E+G+VLEGYLMSGANQEHGILSRQG  D  IA  LPIGTRLRILPNHACATGAQ+  YHA
Sbjct: 301 EEGQVLEGYLMSGANQEHGILSRQGTPDAQIAEHLPIGTRLRILPNHACATGAQHQHYHA 360

Query: 361 IASDGSIATWPRFNGW 376
           IA+DGS+ATWPRFNGW
Sbjct: 361 IAADGSVATWPRFNGW 376


>gi|300311077|ref|YP_003775169.1| D-serine deaminase [Herbaspirillum
           seropedicae SmR1]
          Length = 430

 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 44/166 (26%), Positives = 75/166 (45%), Gaps = 4/166 (2%)

Query: 9   PAALIDITRMEHNIARMQQRMDALGVRFRPHVKTTKCREVVQAQLQAGARGITVSTLKEA 68
           PAA++   ++ HN+  MQ+ +    ++  PH KTT   ++   QL  GA GIT++T  + 
Sbjct: 49  PAAVLYEEKIAHNLKWMQEFVGQYQLKLAPHGKTTMAPKLFARQLDTGAWGITLATAHQT 108

Query: 69  EQFFAEGITDIVYA---VGMAPTKLGQALALRRQGCALKIVADSAACAEAIVRFGQEHDE 125
              +  G+  ++ A   VG     +   L L         + DSAA  + + RF  E  +
Sbjct: 109 LAGYHHGVRRVIMANQLVGKRNMAIISEL-LADPSFEFFCLVDSAALVDQLGRFFAERKQ 167

Query: 126 CFEVWIEIDVDGHRSGIAPEDATLLSVGSILHEGGMKLGGVIAHAG 171
              V +E+   G R+G+  E      + +I     + L GV  + G
Sbjct: 168 TLNVLLELGPTGGRTGVRDEAQQQAVLEAISRWDSIALAGVEVYEG 213


  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    0.135    0.406 

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: 1,247,080
Number of extensions: 54452
Number of successful extensions: 171
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 2
Length of query: 376
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 289
Effective length of database: 1,207,925
Effective search space: 349090325
Effective search space used: 349090325
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 (21.9 bits)
S2: 131 (55.1 bits)