National Center for Biotechnology Information (NCBI)

welcome to the blast2 network service.


PEPTIDE SEQUENCE DATABASES

 nr        Non-redundant GenBank CDS translations+PDB+SwissProt+PIR
 month     All new or revised GenBank CDS translation+PDB+SwissProt+PIR
           sequences released in the last 30 days
 pdb       PDB protein sequences
 yeast     Yeast (Saccharomyces cerevisiae) protein sequences.
 kabat     Kabat Sequences of Proteins of Immunological Interest
 alu *     Translations of Select Alu Repeats from REPBASE
 swissprot SwissProt sequences


NUCLEOTIDE SEQUENCE DATABASES

 nr       Non-redundant GenBank+EMBL+DDBJ+PDB sequences
          (but no EST, STS, GSS, or HTGS sequences) 
 month    All new or revised GenBank+EMBL+DDBJ+PDB sequences released in
          the last 30 days
 yeast    Yeast (Saccharomyces cerevisiae) genomic nucleotide sequences.
 est +    Non-redundant Database of GenBank+EMBL+DDBJ EST Division
 sts +    Non-redundant Database of GenBank+EMBL+DDBJ STS Division
 htgs     High Throughput Genomic Sequences 
 pdb      PDB nucleotide sequences
 vector   Vector subset of GenBank
 mito *   Database of mitochondrial sequences, Rel. 1.0, July 1995
 gss      Genome Survey Sequences (includes single-pass genomic data, exon-
          trapped sequences, and Alu PCR primers.
 kabat    Kabat Sequences of Nucleic Acid of Immunological Interest
 epd      Eukaryotic Promotor Database
 alu *+   Select Alu Repeats from REPBASE

BLASTX 1.4.11 [24-Nov-97] [Build 24-Nov-97]

Reference:  Gish, Warren and David J. States (1993).  Identification of
protein coding regions by database similarity search.  Nat. Genet. 3:266-72.
Altschul, Stephen F., Warren Gish, Webb Miller, Eugene W. Myers, and David J.
Lipman (1990).  Basic local alignment search tool.  J. Mol. Biol. 215:403-10.

Notice:  statistical significance is estimated under the assumption that
the equivalent of one entire reading frame in the query sequence codes for
protein and that significant alignments will involve only coding reading
frames.

Query=  tmpseq_1
        (286 letters)

  Translating both strands of query sequence in all 6 reading frames

Database:  Non-redundant GenBank CDS
           translations+PDB+SwissProt+SPupdate+PIR
           329,726 sequences; 100,504,245 total letters.
Searching..................................................done

                                                                     Smallest
                                                                       Sum
                                                     Reading  High  Probability
Sequences producing High-scoring Segment Pairs:        Frame Score  P(N)      N

sp|P23861|POTD_ECOLI SPERMIDINE/PUTRESCINE-BINDING PER... -2    61  0.98      1
pdb|1POY|1           Escherichia coli /pdb|1POY|2 Esch... -2    61  0.98      1
pdb|1POT|             SpermidinePUTRESCINE-Binding Pro... -2    61  0.98      1

 

sp|P23861|POTD_ECOLI SPERMIDINE/PUTRESCINE-BINDING PERIPLASMIC PROTEIN
            PRECURSOR (SPBP) pir||D40840 spermidine/putrescine transport
            protein D - Escherichia coli gi|147329 (M64519) transport protein
            [Escherichia coli] gnl|PID|d1015409 (D90747)
            Spermidine/putrescine-binding periplasmic protein precursor
            [Escherichia coli] gi|1787367 (AE000212)
            spermidine/putrescine-binding periplasmic protein precursor
            [Escherichia coli]
            Length = 348

  Minus Strand HSPs:

 Score = 61 (27.9 bits), Expect = 3.9, P = 0.98
 Identities = 11/17 (64%), Positives = 14/17 (82%), Frame = -2

Query:   165 YFHNNTNFLPMGLLEQF 115
             YF+N T ++P GLLEQF
Sbjct:    30 YFYNWTEYVPPGLLEQF 46

 

pdb|1POY|1 Escherichia coli pdb|1POY|2 Escherichia coli pdb|1POY|3
            Escherichia coli pdb|1POY|4 Escherichia coli
            Length = 323

  Minus Strand HSPs:

 Score = 61 (27.9 bits), Expect = 3.9, P = 0.98
 Identities = 11/17 (64%), Positives = 14/17 (82%), Frame = -2

Query:   165 YFHNNTNFLPMGLLEQF 115
             YF+N T ++P GLLEQF
Sbjct:     5 YFYNWTEYVPPGLLEQF 21

 

pdb|1POT|   SpermidinePUTRESCINE-Binding Protein Complexed With
          Spermidine (Monomer Form) Polyamine Transport Protein, Binding
          Protein Mol_id: 1; Molecule: SpermidinePUTRESCINE-Binding Protein;
          Chain: Null; Synonym: Potd; Other_details: Monom...
          Length = 325

  Minus Strand HSPs:

 Score = 61 (27.9 bits), Expect = 3.9, P = 0.98
 Identities = 11/17 (64%), Positives = 14/17 (82%), Frame = -2

Query:   165 YFHNNTNFLPMGLLEQF 115
             YF+N T ++P GLLEQF
Sbjct:     7 YFYNWTEYVPPGLLEQF 23


Parameters:

  V=5

  Lambda     K      H
     0.318   0.135   0.401

  Cutoff to enter 2nd pass: >= 44 ( 0.0 bits)

  E     S     T1     T2     X1     X2     W     Gap
  10.0      61      12      12      -16      -22      40      50

  Database:  Non-redundant GenBank CDS translations+PDB+SwissProt+SPupdate+PIR
    Posted date:  Oct 14, 1998  7:57 AM
  # of letters in database:  100,504,245
  # of sequences in database:  329,726



  Number of Hits to DB: 1st pass: 42535574, 2nd pass: 103293
  Number of Sequences: 1st pass: 329726, 2nd pass: 312
  Number of extensions: 1st pass: 618547, 2nd pass: 86440
  Number of successful extensions: 1st pass: 312, 2nd pass: 524
  Number of sequences better than 10: 3