BLASTP 2.2.17 [Aug-26-2007]

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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= 0001.3457.p         (79 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_003776344.1| RNA chaperone Hfq protein [Herbaspirillum se...   143   8e-33
ref|YP_001099571.1| Hfq protein [Herminiimonas arsenicoxydans] >...   138   3e-31
ref|YP_001353812.1| Hfq protein [Janthinobacterium sp. Marseille...   137   4e-31
ref|ZP_08273693.1| RNA-binding protein Hfq [Oxalobacteraceae bac...   135   2e-30
ref|YP_004752575.1| RNA-binding protein [Collimonas fungivorans ...   135   2e-30

>ref|YP_003776344.1| RNA chaperone Hfq protein [Herbaspirillum seropedicae SmR1]
 gb|ADJ64436.1| RNA chaperone Hfq protein [Herbaspirillum seropedicae SmR1]
          Length = 79

 Score =  143 bits (361), Expect = 8e-33,   Method: Composition-based stats.
 Identities = 79/79 (100%), Positives = 79/79 (100%)

Query: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60
          MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI
Sbjct: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60

Query: 61 STVVPARAVNLSLESSSDE 79
          STVVPARAVNLSLESSSDE
Sbjct: 61 STVVPARAVNLSLESSSDE 79


>ref|YP_001099571.1| Hfq protein [Herminiimonas arsenicoxydans]
 sp|A4G4K7|HFQ_HERAR RecName: Full=Protein hfq
 emb|CAL61444.1| protein Hfq [Herminiimonas arsenicoxydans]
          Length = 78

 Score =  138 bits (347), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 73/78 (93%), Positives = 77/78 (98%)

Query: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60
          M+NKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGH+ESFDQYVVLLRNTVTQMVYKHAI
Sbjct: 1  MTNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHIESFDQYVVLLRNTVTQMVYKHAI 60

Query: 61 STVVPARAVNLSLESSSD 78
          STVVPARAVNLSLES ++
Sbjct: 61 STVVPARAVNLSLESDAE 78


>ref|YP_001353812.1| Hfq protein [Janthinobacterium sp. Marseille]
 sp|A6SZW5|HFQ_JANMA RecName: Full=Protein hfq
 gb|ABR91658.1| Hfq protein [Janthinobacterium sp. Marseille]
          Length = 78

 Score =  137 bits (346), Expect = 4e-31,   Method: Composition-based stats.
 Identities = 73/78 (93%), Positives = 77/78 (98%)

Query: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60
          M+NKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGH+ESFDQYVVLLRNTVTQMVYKHAI
Sbjct: 1  MTNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHIESFDQYVVLLRNTVTQMVYKHAI 60

Query: 61 STVVPARAVNLSLESSSD 78
          STVVPARAVNLSLES ++
Sbjct: 61 STVVPARAVNLSLESEAE 78


>ref|ZP_08273693.1| RNA-binding protein Hfq [Oxalobacteraceae bacterium IMCC9480]
 gb|EGF32837.1| RNA-binding protein Hfq [Oxalobacteraceae bacterium IMCC9480]
          Length = 78

 Score =  135 bits (341), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 71/78 (91%), Positives = 75/78 (96%)

Query: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60
          MSNKGQ+LQDPFLNALRKEHVPVSIYLVNGIKLQGH+ESFDQYVVLLRNTVTQMVYKHAI
Sbjct: 1  MSNKGQMLQDPFLNALRKEHVPVSIYLVNGIKLQGHIESFDQYVVLLRNTVTQMVYKHAI 60

Query: 61 STVVPARAVNLSLESSSD 78
          STVVPARAV L+LE  +D
Sbjct: 61 STVVPARAVTLNLEPEAD 78


>ref|YP_004752575.1| RNA-binding protein [Collimonas fungivorans Ter331]
 gb|AEK61752.1| RNA-binding protein [Collimonas fungivorans Ter331]
          Length = 78

 Score =  135 bits (340), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 72/78 (92%), Positives = 76/78 (97%)

Query: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHVESFDQYVVLLRNTVTQMVYKHAI 60
          MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGH+ESFDQYVVLLRNTVTQMVYKH I
Sbjct: 1  MSNKGQLLQDPFLNALRKEHVPVSIYLVNGIKLQGHIESFDQYVVLLRNTVTQMVYKHTI 60

Query: 61 STVVPARAVNLSLESSSD 78
          STVVPARAVNL+LES ++
Sbjct: 61 STVVPARAVNLNLESEAE 78