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= 0002.0232.p
         (443 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313420|ref|YP_003777512.1| phenylacetyl-CoA-ligase [Herbas...   256   4e-69
gi|300311876|ref|YP_003775968.1| phenylacetyl-CoA-ligase [Herbas...    99   6e-22

>gi|300313420|ref|YP_003777512.1| phenylacetyl-CoA-ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 446

 Score =  256 bits (653), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 163/438 (37%), Positives = 240/438 (54%), Gaps = 22/438 (5%)

Query: 11  PAHLDPAESWDRATLEAFQLEQLRVQLARLARDSAYYAPLFRQLDWNVGELRSLADLSKL 70
           P  L+P E+  R  L+A QL++L+  L     +  +Y   F Q   +  +L+SL+DLS+ 
Sbjct: 8   PGELEPIETASRDELQALQLQRLKWSLRHAYDNVPHYRNAFDQAGVHPDDLKSLSDLSRF 67

Query: 71  PFTTKPDYINTLGPQAPFGKFMTVPQSEVRRMHFSSGTTSAPSPQFWSERDLDRWAGLYA 130
           PFTTK D    L    PFG F  VP+ +V R+H SSGTT  P+   +++ D+D WA + A
Sbjct: 68  PFTTKKD----LRDHYPFGMF-AVPREQVVRVHASSGTTGKPTVVGYTQNDIDTWATVVA 122

Query: 131 RHARAQGIGPGDIVQCMFSYTWFVGGLGATAGYQRAGAMVIPAGSQDTGRQIDTLFTYGS 190
           R  RA G   GDIVQ  + Y  F GGLGA  G ++ G  VIP     T +Q+  +  +  
Sbjct: 123 RSIRAAGGRRGDIVQISYGYGLFTGGLGAHYGAEKLGCTVIPMSGGQTEKQVQLIRDFKP 182

Query: 191 TVLCGTPSFITHLAEEVRKRGRDPAASTVRSIMMGGEPGASIPATRRRIEALWGARAYDA 250
           +++  TPS++ ++ EE +++G DPA+S+++  + G EP     A RR I+   G  A D 
Sbjct: 183 SIIMVTPSYMLNVIEEFQRQGMDPASSSLKVGIFGAEPWTD--AMRREIQQRAGLDAVDI 240

Query: 251 YGCLEFQ--PIAGDCT-AQAGPHLAEDFAYAEIVDAETGAAVADGTPGVLVLTHLDKQAG 307
           YG  E     +A +C  ++ GP + ED  Y EI+D +TG  + DG  G LV T L K+A 
Sbjct: 241 YGLSEVMGPGVASECIESKDGPVIWEDHFYPEIIDPDTGEVLPDGVEGELVFTSLSKEAL 300

Query: 308 PLVRWWTGDIVLRDATPCSCGRTHARLVGGXS--MLVVRGVNIFPSAVEELVRATPGLGD 365
           P++R+ T D+  R   P S        + G S  ML++RGVN+FP+ +EEL+   P L  
Sbjct: 301 PMIRYRTRDLT-RLLPPTSRSMRRIGKITGRSDDMLIIRGVNVFPTQIEELILKLPQLAP 359

Query: 366 EYQLVINASVHDAAGFMKSIHVRVE-QTDASADAAQLTALAAQLTQEIKQRLHVGAHVEV 424
           +YQL I     +  G M S+ V  E + D S +   + AL  +L   IK  + +   V V
Sbjct: 360 QYQLQI-----ERHGHMDSMSVFAELREDVSNE--HVEALEKELQHSIKTYVGISTKVTV 412

Query: 425 LPQGTLAR-STHKAKRVV 441
           +P G + R S  KAKRV+
Sbjct: 413 VPAGMIERTSVGKAKRVI 430


>gi|300311876|ref|YP_003775968.1| phenylacetyl-CoA-ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 423

 Score = 99.0 bits (245), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 114/415 (27%), Positives = 178/415 (42%), Gaps = 30/415 (7%)

Query: 12  AHLDPAESWDRATLEAFQLEQLRVQLARLARDSAYYAPLFRQLDWNVGELRSLADLSKLP 71
           A LD  E  D    E   +  L   LAR A+ +A +A +   +D     + S A L++LP
Sbjct: 9   AELDALERRDPQQREEQLMRALPQLLAR-AQSAAGWARILGGVD--AAAISSRAALAQLP 65

Query: 72  FTTKPDYINTLGPQAPFGKFMTVPQSEVRRMHFSSGTTSAPSPQFWSE-RDLDRWAGLYA 130
            T K D       ++PFG     P  ++RR+  S      P P F  E    D W   +A
Sbjct: 66  VTRKSDLKELQTRESPFGGLNATPTRQLRRLFVS------PGPIFDPEGHGADWWR--FA 117

Query: 131 RHARAQGIGPGDIVQCMFSYTWFVGGLGATAGYQRAGAMVIPAGSQDTGRQIDTLFTYGS 190
              +A G+  G I+Q  F+Y +            R G  VIPAG   T  Q++ +     
Sbjct: 118 SPMKALGLQAGHILQNCFAYHFTPAAFMVEGAAARLGCAVIPAGIGQTELQVNAMAALKP 177

Query: 191 TVLCGTPSFITHLAEEVRKRGRDPAASTVRSIMMGGEPGASIPATRRRIEALWGARAYDA 250
               GTPSF+  + E+ ++ G D   S+V+  ++  E  A  P+ R         +    
Sbjct: 178 DAYVGTPSFLKIIIEKAQEMGAD--ISSVQRALVSAE--ALPPSLRNWFHEHGVPQVLQL 233

Query: 251 YGCLEFQPIAGDCTAQAGPH---LAEDFAYAEIVDAETGAAVADGTPGVLVLTHLDKQAG 307
           Y   +   IA +  ++   H   + ++    EIV   TG  VA G  G +V+T  +    
Sbjct: 234 YASADIGNIAYETMSEGAVHPGMVLDEALILEIVRPGTGDPVAAGEVGEVVVTSFNPDY- 292

Query: 308 PLVRWWTGDIVLRDATPCSCGRTHARLVG----GXSMLVVRGVNIFPSAVEELVRATPGL 363
           PL+R+ TGD+         CGRT+ R+ G          VRG+ + PS V +++R    +
Sbjct: 293 PLIRFGTGDLSAVVPGVSPCGRTNTRIKGWMGRADQTTKVRGMFVHPSQVADVLRRHADV 352

Query: 364 GDEYQLVINASVHDAAGFMKSIHVRVEQTDASADAAQLTALAAQLTQEIKQRLHV 418
               +LV++  +   A  + ++H  V   D    A  + ALA  L +  K R  V
Sbjct: 353 -LRARLVVSGEM---ANDVMTLHCEV--GDPENPAIDVGALAGSLREVTKLRGEV 401


  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    0.134    0.408 

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: 1,468,081
Number of extensions: 64218
Number of successful extensions: 178
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 174
Number of HSP's successfully gapped: 2
Length of query: 443
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 355
Effective length of database: 1,203,190
Effective search space: 427132450
Effective search space used: 427132450
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: 132 (55.5 bits)