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= 0001.4000.p
         (446 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...   877   0.0  
gi|300311876|ref|YP_003775968.1| phenylacetyl-CoA-ligase [Herbas...   119   6e-28

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

 Score =  877 bits (2265), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 422/446 (94%), Positives = 435/446 (97%)

Query: 1   MTTRTPQPGDLEAIENASRDELQALQLQRLKWSLQHAYDNVPHYRNAFDQAGVHPDDLKS 60
           MT R PQPG+LE IE ASRDELQALQLQRLKWSL+HAYDNVPHYRNAFDQAGVHPDDLKS
Sbjct: 1   MTIRIPQPGELEPIETASRDELQALQLQRLKWSLRHAYDNVPHYRNAFDQAGVHPDDLKS 60

Query: 61  LSDLAKFPFTTKQDLRDHYPFGLFAVPREQVVRVHASSGTTGKPTVVGYTQNDIDTWATV 120
           LSDL++FPFTTK+DLRDHYPFG+FAVPREQVVRVHASSGTTGKPTVVGYTQNDIDTWATV
Sbjct: 61  LSDLSRFPFTTKKDLRDHYPFGMFAVPREQVVRVHASSGTTGKPTVVGYTQNDIDTWATV 120

Query: 121 VARSIRAAGGRRGDIVQISYGYGLFTGGLGAHYGAEKLGCTVIPMSGGQTEKQVQLIRDF 180
           VARSIRAAGGRRGDIVQISYGYGLFTGGLGAHYGAEKLGCTVIPMSGGQTEKQVQLIRDF
Sbjct: 121 VARSIRAAGGRRGDIVQISYGYGLFTGGLGAHYGAEKLGCTVIPMSGGQTEKQVQLIRDF 180

Query: 181 KPSIIMVTPSYMLNVIEEFQRQGLDAAASSLKVGIFGAEPWTDAMRLEIQQRAGIDAVDI 240
           KPSIIMVTPSYMLNVIEEFQRQG+D A+SSLKVGIFGAEPWTDAMR EIQQRAG+DAVDI
Sbjct: 181 KPSIIMVTPSYMLNVIEEFQRQGMDPASSSLKVGIFGAEPWTDAMRREIQQRAGLDAVDI 240

Query: 241 YGLSEVMGPGVASECIESKDGPVIWEDHFYPEIIDPDTGEVLPDGSEGELVFTSLSKEAL 300
           YGLSEVMGPGVASECIESKDGPVIWEDHFYPEIIDPDTGEVLPDG EGELVFTSLSKEAL
Sbjct: 241 YGLSEVMGPGVASECIESKDGPVIWEDHFYPEIIDPDTGEVLPDGVEGELVFTSLSKEAL 300

Query: 301 PMIRYRTRDLTRLLPPTSRSMRRIGKITGRSDDMLIIRGVNVFPTQIEELILKLPQLAPQ 360
           PMIRYRTRDLTRLLPPTSRSMRRIGKITGRSDDMLIIRGVNVFPTQIEELILKLPQLAPQ
Sbjct: 301 PMIRYRTRDLTRLLPPTSRSMRRIGKITGRSDDMLIIRGVNVFPTQIEELILKLPQLAPQ 360

Query: 361 YQLQIERHGHMDSMCVFAELREDASNEHVEALEKELQHSIKTYVGISTKVTVVPAGMIER 420
           YQLQIERHGHMDSM VFAELRED SNEHVEALEKELQHSIKTYVGISTKVTVVPAGMIER
Sbjct: 361 YQLQIERHGHMDSMSVFAELREDVSNEHVEALEKELQHSIKTYVGISTKVTVVPAGMIER 420

Query: 421 SSVGKAKRVIDHRKKAEAAAPSALPA 446
           +SVGKAKRVID+RKKAEA + +ALPA
Sbjct: 421 TSVGKAKRVIDNRKKAEAGSTAALPA 446


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

 Score =  119 bits (297), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 94/310 (30%), Positives = 150/310 (48%), Gaps = 22/310 (7%)

Query: 52  GVHPDDLKSLSDLAKFPFTTKQDLRD----HYPFG-LFAVPREQVVRVHASSGTTGKPTV 106
           GV    + S + LA+ P T K DL++      PFG L A P  Q+ R+  S G    P  
Sbjct: 49  GVDAAAISSRAALAQLPVTRKSDLKELQTRESPFGGLNATPTRQLRRLFVSPGPIFDPEG 108

Query: 107 VGYTQNDIDTWATVVARSIRAAGGRRGDIVQISYGYGLFTGGLGAHYGAEKLGCTVIPMS 166
            G      D W    A  ++A G + G I+Q  + Y            A +LGC VIP  
Sbjct: 109 HGA-----DWWR--FASPMKALGLQAGHILQNCFAYHFTPAAFMVEGAAARLGCAVIPAG 161

Query: 167 GGQTEKQVQLIRDFKPSIIMVTPSYMLNVIEEFQRQGLDAAASSLKVGIFGAEPWTDAMR 226
            GQTE QV  +   KP   + TPS++  +IE+ Q  G D   SS++  +  AE    ++R
Sbjct: 162 IGQTELQVNAMAALKPDAYVGTPSFLKIIIEKAQEMGAD--ISSVQRALVSAEALPPSLR 219

Query: 227 LEIQQRAGIDAVDIYGLSEVMGPGVASECI-ESKDGP-VIWEDHFYPEIIDPDTGEVLPD 284
               +      + +Y  +++    +A E + E    P ++ ++    EI+ P TG+ +  
Sbjct: 220 NWFHEHGVPQVLQLYASADIG--NIAYETMSEGAVHPGMVLDEALILEIVRPGTGDPVAA 277

Query: 285 GSEGELVFTSLSKEALPMIRYRTRDLTRLLP---PTSRSMRRIGKITGRSDDMLIIRGVN 341
           G  GE+V TS + +  P+IR+ T DL+ ++P   P  R+  RI    GR+D    +RG+ 
Sbjct: 278 GEVGEVVVTSFNPD-YPLIRFGTGDLSAVVPGVSPCGRTNTRIKGWMGRADQTTKVRGMF 336

Query: 342 VFPTQIEELI 351
           V P+Q+ +++
Sbjct: 337 VHPSQVADVL 346


  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    0.394 

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: 1,378,404
Number of extensions: 57671
Number of successful extensions: 193
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 2
Length of query: 446
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 358
Effective length of database: 1,203,190
Effective search space: 430742020
Effective search space used: 430742020
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: 132 (55.5 bits)