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= 0134.0004.p
         (625 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313152|ref|YP_003777244.1| glutamate dehydrogenase [Herbas...   782   0.0  
gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transpo...    73   8e-14
gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/sign...    63   6e-11

>gi|300313152|ref|YP_003777244.1| glutamate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 430

 Score =  782 bits (2019), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/409 (92%), Positives = 393/409 (96%), Gaps = 2/409 (0%)

Query: 10  MSNEPLKQHEVPSYVTPHGIGPWGVYLEQIDRVTPHLGSLARWVETLKRPKRILIVDVPI 69
           MSN P   HEVPSY+ PHGIGPWGVYLEQIDRVTP+LGSLARWVETLKRPKR+L+VDVPI
Sbjct: 1   MSNVP--NHEVPSYLVPHGIGPWGVYLEQIDRVTPYLGSLARWVETLKRPKRMLVVDVPI 58

Query: 70  ERDDGTIAHFEGYRVQHNTSRGPGKGGVRFHQDVTLSEVMALSAWMTVKNAAVNVPYGGA 129
           ERDDGTIAHFEGYRVQHNTSRGPGKGGVRFHQDVTLSEVMALSAWMT+KNAAVNVPYGGA
Sbjct: 59  ERDDGTIAHFEGYRVQHNTSRGPGKGGVRFHQDVTLSEVMALSAWMTIKNAAVNVPYGGA 118

Query: 130 KGGIRVDPKTLSRGELQRVTRRYTSEIGIIIGPNKDIPAPDVNTDSQIMAWMMDTYSMNQ 189
           KGGIRVDPKTLSRGELQRVTRRYTSEIGIIIGPNKDIPAPDVNTDSQIMAWMMDTYSMNQ
Sbjct: 119 KGGIRVDPKTLSRGELQRVTRRYTSEIGIIIGPNKDIPAPDVNTDSQIMAWMMDTYSMNQ 178

Query: 190 GSTASGVVTGKPISLGGSLGRHEATGRGVFVVGCEAAAKRGLDIKDARVAVQGFGNVGGI 249
           GST+SGVVTGKPISLGGSLGRHEATGRGVFVVGCEAAAKRGLDIKDA+VAVQGFGNVGGI
Sbjct: 179 GSTSSGVVTGKPISLGGSLGRHEATGRGVFVVGCEAAAKRGLDIKDAKVAVQGFGNVGGI 238

Query: 250 AARLFAEAGAKVVAVQDHITTVVRDSGLDVPALQAYVAEHGSVRGFPGADEVTDRALFWA 309
           AARLFAEAG+KVVAVQDH+TTV    GLDVPALQAYVA++GSV+GF GADE+TDRA FW+
Sbjct: 239 AARLFAEAGSKVVAVQDHVTTVFNAGGLDVPALQAYVAKNGSVKGFAGADEITDRAQFWS 298

Query: 310 TDCDILVPAALEQQITEANASMIRAKIILEGANGPTTPAADDILHDKGVLIVPDVIANAG 369
            DCDILVPAALEQQITEANA+ I+AKIILEGANGPTTPAADDIL DKGVLIVPDVIANAG
Sbjct: 299 VDCDILVPAALEQQITEANANQIKAKIILEGANGPTTPAADDILRDKGVLIVPDVIANAG 358

Query: 370 GVTVSYFEWVQDFSSFFWTEDEINLRLTRIMREAFAAVWQLADEKKKKL 418
           GVTVSYFEWVQDFSSFFWTEDEINLRLTRIMREAFAAVWQLADEKK  L
Sbjct: 359 GVTVSYFEWVQDFSSFFWTEDEINLRLTRIMREAFAAVWQLADEKKVSL 407


>gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 315

 Score = 72.8 bits (177), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 32/101 (31%), Positives = 57/101 (56%)

Query: 428 GTLEKIRRTNAVVIAYLNGTTPFAFLGDDKQVTGYTIELCRNIAEGLRKELKLPRMQVQF 487
           G L+KI+ +  + +   + + PF++L D +   GY+I+LC   A  ++K+L L  + ++ 
Sbjct: 27  GRLKKIKDSGTLTLGVRDSSIPFSYLDDKQSYQGYSIDLCLKAATAIQKKLGLTSLNIKM 86

Query: 488 LEVDTVTRFIALDQGKADLECSTSTNNAERRKIAAFTVPHF 528
           + V + TR   +  G  D+ C ++TNN ER    AF+V  F
Sbjct: 87  VPVTSATRIPLIANGTTDISCDSATNNQERWNQVAFSVTEF 127


>gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/signal
           transduction system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 305

 Score = 63.2 bits (152), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 27/100 (27%), Positives = 55/100 (55%)

Query: 429 TLEKIRRTNAVVIAYLNGTTPFAFLGDDKQVTGYTIELCRNIAEGLRKELKLPRMQVQFL 488
           TL+KI+  N + I +   + PF++  +++QV GY+ +LC  + + ++ ++   +++V+ +
Sbjct: 35  TLQKIKDANLIAIGHRTSSIPFSYYDENQQVIGYSQDLCNKVIDAVKTKIGAAKLEVRMV 94

Query: 489 EVDTVTRFIALDQGKADLECSTSTNNAERRKIAAFTVPHF 528
            V +  R   L  G  DLEC  ++N   R +  +F    F
Sbjct: 95  PVTSQNRTPLLQNGTIDLECGVTSNLKSRWQQVSFATNFF 134


  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    0.406 

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: 2,005,271
Number of extensions: 86327
Number of successful extensions: 296
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 3
Length of query: 625
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 534
Effective length of database: 1,188,985
Effective search space: 634917990
Effective search space used: 634917990
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: 133 (55.8 bits)