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= 0061.0027.p         (186 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

emb|CBW26490.1| conserved hypothetical protein [Bacteriovorax ma...    94   1e-17
ref|NP_968013.1| hypothetical protein Bd1079 [Bdellovibrio bacte...    87   1e-15
ref|YP_003187520.1| RNA polymerase sigma factor RpoD [Acetobacte...    38   0.55 
ref|ZP_08242922.1| RNA polymerase sigma factor RpoD [Acetobacter...    38   0.57 
ref|YP_003523195.1| fagellar hook-basal body protein [Sideroxyda...    37   1.9  

>emb|CBW26490.1| conserved hypothetical protein [Bacteriovorax marinus SJ]
          Length = 256

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/139 (35%), Positives = 81/139 (58%), Gaps = 2/139 (1%)

Query: 50  MELAHGWWCEQDDTEFVCSPPGKP-PRAAIAIIAMKERNEQDNLLAYEDHLKQRQRIG-D 107
            EL  GW C  + TE+VC    K   + AI I+A K R  QD+L  Y+ +LK  +     
Sbjct: 33  FELPPGWGCALEGTEWVCQSENKDRKKEAIIILAAKIRGNQDSLEQYQAYLKGTKTFTLP 92

Query: 108 EGTGKLSDIRFVKRNVIGSHQWVEALHSGSELANFDTYYLATNTSELGILVTLSVHKDYA 167
            G  ++S+  + K+  + S QW+++LH  SE+  F T Y+AT  ++LG+ VT SV KD+ 
Sbjct: 93  GGKTQVSEPVYSKKKSVNSQQWIDSLHLASEVPGFYTRYMATVKADLGVAVTFSVGKDHY 152

Query: 168 DEYVAELKQMIETLKIYQK 186
           + Y     ++IETL+++++
Sbjct: 153 NSYKPVFDKIIETLRVFRQ 171


>ref|NP_968013.1| hypothetical protein Bd1079 [Bdellovibrio bacteriovorus HD100]
 emb|CAE79006.1| hypothetical protein predicted by Glimmer/Critica [Bdellovibrio
           bacteriovorus HD100]
          Length = 239

 Score = 86.7 bits (213), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/145 (34%), Positives = 75/145 (51%), Gaps = 3/145 (2%)

Query: 42  VFRAAAFDMELAHGWWCEQDDTEFVC-SPPGKPPRAAIAIIAMKERNEQDNLLAYEDHLK 100
           VFR A    E+   W C  + TE+VC S   K  + AI I+  KE    D    YE HL 
Sbjct: 22  VFRNAYIAFEMPETWKCNLEQTEWVCRSEQTKEAKEAIIILTAKEVGPTDTFALYESHLN 81

Query: 101 QRQRIGDEGTG-KLSDIRFVKRNV-IGSHQWVEALHSGSELANFDTYYLATNTSELGILV 158
               +  +G G   S I +  ++V I    W+++LH GSE+ N+ T YLAT   ++ IL+
Sbjct: 82  APISVALKGGGASESKIVYKSKSVQINDQTWIDSLHLGSEVPNYFTRYLATIKDKIAILI 141

Query: 159 TLSVHKDYADEYVAELKQMIETLKI 183
           T S HK Y  +Y  +  + + +L++
Sbjct: 142 TFSAHKQYYTKYSQDFFKAVMSLRV 166


>ref|YP_003187520.1| RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO
           3283-01]
 dbj|BAH99140.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-01]
 dbj|BAI02191.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-03]
 dbj|BAI05239.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-07]
 dbj|BAI08286.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-22]
 dbj|BAI11334.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-26]
 dbj|BAI14382.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-32]
 dbj|BAI17428.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-01-42C]
 dbj|BAI20412.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter
           pasteurianus IFO 3283-12]
          Length = 672

 Score = 38.1 bits (87), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 128 QWVEALHSGSEL-ANFDTYYLATNTSELGILVTLSVHKDYADEYVAELKQMIETLKIYQ 185
           Q +EAL SG ++  NF+  Y+A     +G +  + +H +  ++ VA+LKQM + L + +
Sbjct: 284 QRIEALTSGEDVDGNFEESYVALREKLVGKVEQVHLHNNRIEDLVAQLKQMFQKLNMLE 342


>ref|ZP_08242922.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001]
 gb|EGE47915.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001]
          Length = 672

 Score = 38.1 bits (87), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 128 QWVEALHSGSEL-ANFDTYYLATNTSELGILVTLSVHKDYADEYVAELKQMIETLKIYQ 185
           Q +EAL SG ++  NF+  Y+A     +G +  + +H +  ++ VA+LKQM + L + +
Sbjct: 284 QRIEALTSGEDVDGNFEENYVALREKLVGKVEQVHLHNNRIEDLVAQLKQMFQKLNMLE 342


>ref|YP_003523195.1| fagellar hook-basal body protein [Sideroxydans lithotrophicus ES-1]
 gb|ADE10808.1| fagellar hook-basal body protein [Sideroxydans lithotrophicus ES-1]
          Length = 405

 Score = 36.6 bits (83), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 32/62 (51%), Gaps = 7/62 (11%)

Query: 124 IGSHQWVEALHSGSELANFDTYYLATNTSELGILVTLSVHKDYADEYVAELKQMIETLKI 183
           +G++QWVE   SG+ L        A  ++ LG+L T +V     D   AEL  MI   ++
Sbjct: 331 LGNNQWVETSTSGTPLVG------APGSASLGVLQTSAVEDSNVD-LTAELVNMITAQRV 383

Query: 184 YQ 185
           YQ
Sbjct: 384 YQ 385