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= 0002.0560.p
         (564 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313470|ref|YP_003777562.1| bifunctional 3-dehydroquinate s...   925   0.0  

>gi|300313470|ref|YP_003777562.1| bifunctional 3-dehydroquinate
           synthase/shikimate kinase [Herbaspirillum seropedicae
           SmR1]
          Length = 596

 Score =  925 bits (2390), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 464/593 (78%), Positives = 504/593 (84%), Gaps = 34/593 (5%)

Query: 1   MSGSIFLVGLMGAGKTTIGRALAKKLNKRFVDSDHEIESRTGTTIPVIFEIEGEESFRKR 60
           M+GSIFLVGLMGAGKTTIGRALAKKLNKRF+DSDHEIE+RTG TIPVIFEIEGEE+FR+R
Sbjct: 1   MTGSIFLVGLMGAGKTTIGRALAKKLNKRFIDSDHEIEARTGATIPVIFEIEGEENFRRR 60

Query: 61  EADVIRELSAQQDIVLATGGGAILRAETRAYLKQRGTVIYLRAGINQILQRTGRDKNRPL 120
           EA+VIREL+A  DIVLATGGGAILRAE R  LK+ GTV+YLRA INQILQRTGRDKNRPL
Sbjct: 61  EAEVIRELTALPDIVLATGGGAILRAENRDNLKKGGTVVYLRASINQILQRTGRDKNRPL 120

Query: 121 LQTADPRRKLEELSRQRDPYYREVADFVIETGRPNVQFLVQAILSQLELTPK----QTAD 176
           LQTADPRRKLEELSRQRDP YR+VADFVIET RPNVQFLVQ I+S LEL+P     Q+A 
Sbjct: 121 LQTADPRRKLEELSRQRDPLYRDVADFVIETNRPNVQFLVQTIISHLELSPPESSWQSAP 180

Query: 177 AA---------SAPATSSA---------------QPAAYAEPAM------TASTFAPVAL 206
           AA         SA  TS+A                 AA AEP +      TAS  AP+ L
Sbjct: 181 AADETIVIERSSALVTSAADGAVVVSTSHTSQTFHGAASAEPTLARMNQNTASAPAPITL 240

Query: 207 QVELGERSYPITIGHDLLSNPELLTRHVAGKRVAVVTNDKVGPLYLPRVRKLLEDAGKQV 266
            V+LGERSYPI IG  LL +  LL ++V GKRVA+VTNDKVGPLYL +V + L  AGK V
Sbjct: 241 NVDLGERSYPIHIGRGLLDDAGLLPQYVKGKRVAIVTNDKVGPLYLDKVAQPLRAAGKLV 300

Query: 267 TEIVLPDGEEQKTWVSLMKVFDVLLAEKCDRKTTLVALGGGVIGDLTGFAAASYMRGVPF 326
           TEIVLPDGEE+K W SLMK+FD LLA+KCDRKTTL+ALGGGVIGDLTGFAAASYMRGVPF
Sbjct: 301 TEIVLPDGEEEKNWASLMKIFDRLLADKCDRKTTLIALGGGVIGDLTGFAAASYMRGVPF 360

Query: 327 VQIPTTLLSQVDSSVGGKTGINHPLGKNMIGAFYQPQAVIADTATLHTLPPRELAAGLAE 386
           VQ+PTTLLSQVDSSVGGKTGINHPLGKNMIGAFYQPQAVIADTATLHTLPPREL+AG+AE
Sbjct: 361 VQVPTTLLSQVDSSVGGKTGINHPLGKNMIGAFYQPQAVIADTATLHTLPPRELSAGIAE 420

Query: 387 VIKHGAIIDAAFFDWIEANIGKLVAKDNAALAYSIQRSCEIKADVVRQDEREGGLRAILN 446
           VIKHGAIIDA FFDWIE NI +LV+KD+AALAY+IQRSCEIKA+VVRQDEREGGLRAILN
Sbjct: 421 VIKHGAIIDAPFFDWIETNIAQLVSKDDAALAYAIQRSCEIKAEVVRQDEREGGLRAILN 480

Query: 447 FGHTFGHAIENGLGYGQWLHGEAVGCGMAMAADLSHRLGYIDAASKDRLTALVKAAGLPV 506
           FGHTFGHAIENGLGYGQWLHGEAVGCGM MAADLSHRLGYIDA ++DR+ AL  AAGLP 
Sbjct: 481 FGHTFGHAIENGLGYGQWLHGEAVGCGMVMAADLSHRLGYIDAGARDRVRALTAAAGLPT 540

Query: 507 TAPDLGTQRWLELMEVDKKNEGGAIKFILIKPLGQPLITNVPQELLLQTLAAC 559
            APDLG  RWLELMEVDKKNEGG IKFILI+PLG PLITNVPQ+LLLQTLAAC
Sbjct: 541 VAPDLGVARWLELMEVDKKNEGGQIKFILIRPLGSPLITNVPQDLLLQTLAAC 593


  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
   0.318    0.135    0.386 

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: 1,726,932
Number of extensions: 73958
Number of successful extensions: 350
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 349
Number of HSP's successfully gapped: 1
Length of query: 564
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 474
Effective length of database: 1,193,720
Effective search space: 565823280
Effective search space used: 565823280
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 (21.7 bits)
S2: 133 (55.8 bits)