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= 0001.0307.p
         (700 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134095973|ref|YP_001101048.1| UDP-N-acetylmuramoyl-L-alanyl-D...   444   e-126

>gi|134095973|ref|YP_001101048.1|
           UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase
           [Herminiimonas arsenicoxydans]
          Length = 498

 Score =  444 bits (1143), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 225/332 (67%), Positives = 264/332 (79%), Gaps = 7/332 (2%)

Query: 369 SMPQAWVLELSSFQLHTTHSLQAHAATVLNLTQDHLDWHGSMEHYAADKARIFGQDTVRV 428
           ++PQ WVLELSSFQLH T+SLQA  ATVLNLTQDHLDWHG M  YA DKARIFG +T+RV
Sbjct: 170 ALPQVWVLELSSFQLHFTYSLQADVATVLNLTQDHLDWHGDMAAYADDKARIFGSNTIRV 229

Query: 429 LNRDDALVMEMASTAAPLSTFGLDEPDTPNSFGLVNDNGMLWLANAFVHEDDEVPEGKRR 488
           LNRDDA VM+MA  +A + TFG DE    N FGL ++NGM WL+ A   E  E+P+   +
Sbjct: 230 LNRDDARVMQMALPSAAVITFGADEAGQANCFGLADENGMRWLSVAVAEE--ELPQ---K 284

Query: 489 RKQKDMLPPPVTVKRLMPADALKIRGAHNAMNALAALALCRAIDLPMAPLLHGLREYTGE 548
           R++KD +   ++ K+LMP DALKIRG HNA+NAL+ALALCRAI L  A LLHGLREY GE
Sbjct: 285 RRKKDNVELAISTKKLMPVDALKIRGQHNAINALSALALCRAIGLSFAQLLHGLREYHGE 344

Query: 549 PHRVELVGVIQEVEYYDDSKGTNVGATVAALNGLGLG--GRPNRIVLIAGGDGKGQDFSP 606
           PHRVE V  I  VEYYDDSKGTNVGATVAALNGLG+   G    +VLIAGGDGKGQDFSP
Sbjct: 345 PHRVEHVMTIAGVEYYDDSKGTNVGATVAALNGLGVSQDGGAKHLVLIAGGDGKGQDFSP 404

Query: 607 LDLPVQKYARAVLLIGRDAPAVRTALADSGVELIDCASLEQAVEQAGQIAKAGDIVLLSP 666
           L  PV KYARAV+LIG+DA ++R A+A +GVELIDC +LE+A ++A ++A+AGD VLLSP
Sbjct: 405 LADPVAKYARAVVLIGKDAASIRAAIAATGVELIDCTTLEEATQKAAELAQAGDAVLLSP 464

Query: 667 ACASLDMFRNYAHRAEVFVDAVHELALSRGEV 698
           ACASLDMFRNYAHRA+VFVD V E+ LSRGEV
Sbjct: 465 ACASLDMFRNYAHRAQVFVDTVREIGLSRGEV 496



 Score =  244 bits (623), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 131/184 (71%), Positives = 149/184 (80%), Gaps = 7/184 (3%)

Query: 1   MNYSGKHVLVLGLGESGLAMARWLVYCGASVRVADTRSEAALAERLAALRADAPEAQAVL 60
           MNY+GKHVLVLGLGESGLAMA+WLV CGAS+RVADTR++    +RL  LRA AP A+ + 
Sbjct: 1   MNYAGKHVLVLGLGESGLAMAQWLVRCGASLRVADTRAQP---DRLPQLRALAPTAEFIA 57

Query: 61  GQPLAAALLDGIDFVAVSPGLAPEGELAPLMPVIAERGLPLWGEIELFAQALLALREETL 120
           G P  AALLDGIDFVAVSPGL PE ELA L+P   E+ +PLWGEIELFAQAL AL+EE  
Sbjct: 58  G-PFDAALLDGIDFVAVSPGLMPERELAALIPAAEEKEIPLWGEIELFAQALAALKEERN 116

Query: 121 YQPKVLAITGTNGKTTVTRLTGLLCQRAGLSVQVAGNISPAALDVLREAVIKD---QVFL 177
           Y PKV+AITGTNGKTTVT L GLLCQRAGL+VQVAGNISPAALD L +AV  D   QV++
Sbjct: 117 YTPKVIAITGTNGKTTVTSLVGLLCQRAGLTVQVAGNISPAALDRLDQAVASDALPQVWV 176

Query: 178 AELA 181
            EL+
Sbjct: 177 LELS 180


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.315    0.130    0.367 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 1,033,071
Number of extensions: 36684
Number of successful extensions: 168
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 2
Length of query: 700
Length of database: 1,000,347
Length adjustment: 88
Effective length of query: 612
Effective length of database: 710,387
Effective search space: 434756844
Effective search space used: 434756844
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 132 (55.5 bits)