BLASTP 2.2.21 [Jun-14-2009]

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= 0002.0248.p         (117 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_004751121.1| ribosome hibernation protein YhbH [Collimona...   183   8e-45
ref|ZP_08274232.1| Ribosome hibernation protein YhbH [Oxalobacte...   174   3e-42
ref|YP_001355043.1| sigma-54 modulation protein [Janthinobacteri...   169   1e-40
ref|YP_001101340.1| putative sigma(54) modulation protein RpoX [...   169   1e-40
ref|YP_003777353.1| sigma-54 modulation protein [Herbaspirillum ...   166   9e-40

>ref|YP_004751121.1| ribosome hibernation protein YhbH [Collimonas fungivorans Ter331]
 gb|AEK60298.1| Ribosome hibernation protein YhbH [Collimonas fungivorans Ter331]
          Length = 117

 Score =  183 bits (464), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 93/117 (79%), Positives = 105/117 (89%), Gaps = 2/117 (1%)

Query: 1   MNLTISGHHLDLTPAIREYVQNKLTRIKRHFDHVIDISVILSVDKLTEKEKRQKAEINVH 60
           MN TISGHHL+LTPAIREYVQ+KL RIKRHFD VIDISVIL+VDK+TEKEKRQKAEIN+ 
Sbjct: 1   MNFTISGHHLELTPAIREYVQSKLERIKRHFDQVIDISVILTVDKITEKEKRQKAEINLR 60

Query: 61  IKGKDLHAESIAHDLYAAIDMLIDKLDRQVIKHKDRVQNH-HSMAKRLPEE-PVSAS 115
           +KGKDLHAESIAHDLYAAID LIDKLDRQVIK+KD++Q+H H   K LPEE P +A+
Sbjct: 61  VKGKDLHAESIAHDLYAAIDALIDKLDRQVIKYKDKMQDHQHDAIKHLPEELPAAAT 117


>ref|ZP_08274232.1| Ribosome hibernation protein YhbH [Oxalobacteraceae bacterium
           IMCC9480]
 gb|EGF32300.1| Ribosome hibernation protein YhbH [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 118

 Score =  174 bits (442), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 87/118 (73%), Positives = 105/118 (88%), Gaps = 1/118 (0%)

Query: 1   MNLTISGHHLDLTPAIREYVQNKLTRIKRHFDHVIDISVILSVDKLTEKEKRQKAEINVH 60
           MNLTISGHHL++TPAIREYVQ+KL RIKRHFDHVIDI+VIL+V+KL EKEKRQ+AEIN+H
Sbjct: 1   MNLTISGHHLEVTPAIREYVQSKLERIKRHFDHVIDIAVILTVEKLPEKEKRQRAEINLH 60

Query: 61  IKGKDLHAESIAHDLYAAIDMLIDKLDRQVIKHKDRVQNH-HSMAKRLPEEPVSASAS 117
           ++GKDLHAESIA DLYAAID LIDKLDRQVIK+K ++Q+H H   K +P+  V A++S
Sbjct: 61  LRGKDLHAESIAEDLYAAIDALIDKLDRQVIKYKTKLQDHQHDAIKHIPDPAVVAASS 118


>ref|YP_001355043.1| sigma-54 modulation protein [Janthinobacterium sp. Marseille]
 gb|ABR91623.1| sigma-54 modulation protein [Janthinobacterium sp. Marseille]
          Length = 117

 Score =  169 bits (428), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 85/110 (77%), Positives = 97/110 (88%), Gaps = 1/110 (0%)

Query: 1   MNLTISGHHLDLTPAIREYVQNKLTRIKRHFDHVIDISVILSVDKLTEKEKRQKAEINVH 60
           MNLTISGHHL+LTPAIREYVQ KL RIKRHFDHVIDI+VIL+VD L EKEKRQ+AEIN+ 
Sbjct: 1   MNLTISGHHLELTPAIREYVQGKLERIKRHFDHVIDIAVILTVDNLPEKEKRQRAEINLR 60

Query: 61  IKGKDLHAESIAHDLYAAIDMLIDKLDRQVIKHKDRVQNH-HSMAKRLPE 109
           ++GKDLHAESIA +LYAAID LIDKLDRQVIK+K + Q+H H   KRLP+
Sbjct: 61  VRGKDLHAESIADNLYAAIDTLIDKLDRQVIKYKTKQQDHQHDAIKRLPD 110


>ref|YP_001101340.1| putative sigma(54) modulation protein RpoX [Herminiimonas
           arsenicoxydans]
 emb|CAL63219.1| Sigma(54) modulation protein [Herminiimonas arsenicoxydans]
          Length = 117

 Score =  169 bits (427), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 83/111 (74%), Positives = 98/111 (88%), Gaps = 1/111 (0%)

Query: 1   MNLTISGHHLDLTPAIREYVQNKLTRIKRHFDHVIDISVILSVDKLTEKEKRQKAEINVH 60
           MNLTISGHHL+LTPAIREYVQ KL RIKRHFDHVIDI+VIL+VD L EKEKRQ+AEIN+ 
Sbjct: 1   MNLTISGHHLELTPAIREYVQGKLERIKRHFDHVIDIAVILTVDNLPEKEKRQRAEINLR 60

Query: 61  IKGKDLHAESIAHDLYAAIDMLIDKLDRQVIKHKDRVQNH-HSMAKRLPEE 110
           ++GKD+H ESIA++LYAAID L+DKLDRQVIK+K + Q+H H   KRLP+E
Sbjct: 61  VRGKDIHVESIANNLYAAIDTLVDKLDRQVIKYKTKQQDHQHDAIKRLPDE 111


>ref|YP_003777353.1| sigma-54 modulation protein [Herbaspirillum seropedicae SmR1]
 gb|ADJ65445.1| sigma-54 modulation protein [Herbaspirillum seropedicae SmR1]
          Length = 108

 Score =  166 bits (421), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 82/88 (93%), Positives = 86/88 (97%)

Query: 1  MNLTISGHHLDLTPAIREYVQNKLTRIKRHFDHVIDISVILSVDKLTEKEKRQKAEINVH 60
          MNLTISGHHL+LTPAIREYVQ+KL RIKRHFD+VID+SVILSVDKLTEKEKRQKAEINVH
Sbjct: 1  MNLTISGHHLELTPAIREYVQSKLARIKRHFDNVIDVSVILSVDKLTEKEKRQKAEINVH 60

Query: 61 IKGKDLHAESIAHDLYAAIDMLIDKLDR 88
          IKGKDLHAESIAHDLYAAID LIDKLDR
Sbjct: 61 IKGKDLHAESIAHDLYAAIDALIDKLDR 88