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= 0001.3490.p         (156 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc0711 [K] COG0781 Transcription termination factor Rso Ralston...   194   6e-50
PA4052 [K] COG0781 Transcription termination factor Pae Pseudomo...   135   4e-32
NMB0683 [K] COG0781 Transcription termination factor Nme Neisser...   131   6e-31
NMA0885 [K] COG0781 Transcription termination factor NmA Neisser...   130   8e-31
PM0730 [K] COG0781 Transcription termination factor Pmu Pasteure...   117   9e-27

>RSc0711 [K] COG0781 Transcription termination factor Rso Ralstonia
           solanacearum
          Length = 161

 Score =  194 bits (493), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 91/139 (65%), Positives = 109/139 (78%)

Query: 14  RTPRHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADAEHFDTLLTGAIRDADKL 73
           ++ R RARE ALQGLYQWLLN  D G +EAH+  A GF+KAD  HFD LL GAIR+   L
Sbjct: 21  KSARRRARELALQGLYQWLLNRNDPGVVEAHLHDAQGFNKADRAHFDALLHGAIREEATL 80

Query: 74  RAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVINEAVELAKSFGGIDGHKY 133
               +P +DRP+ ELSPVE AALL+GAYEL + ++IPYKVVINEAVELAK+FGG++G+KY
Sbjct: 81  TESFTPFLDRPVAELSPVERAALLVGAYELVHCVDIPYKVVINEAVELAKTFGGVEGYKY 140

Query: 134 VNGVLDRFAAQTRATEVEA 152
           VNGVLD+ AAQ RA EV A
Sbjct: 141 VNGVLDKLAAQVRAVEVAA 159


>PA4052 [K] COG0781 Transcription termination factor Pae Pseudomonas
           aeruginosa
          Length = 159

 Score =  135 bits (339), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 69/159 (43%), Positives = 95/159 (59%), Gaps = 4/159 (2%)

Query: 1   MSNK---SQHANSNKNRTP-RHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADA 56
           MSN+   +  A   K +T  R +AR  A+Q LY W +  +    IEA  R  + F + D 
Sbjct: 1   MSNQDSGNPAAKPPKGKTAARRKARSLAVQALYSWQIAGQPLHEIEAQFRTDNDFSEVDG 60

Query: 57  EHFDTLLTGAIRDADKLRAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVIN 116
            +F  +L G  R   +L +   P +DRP+ E+ PVE A L +  YEL+N I++PYKVVIN
Sbjct: 61  AYFHEILHGVPRQKSELDSTFEPCLDRPLAEIDPVELAILRLSTYELRNRIDVPYKVVIN 120

Query: 117 EAVELAKSFGGIDGHKYVNGVLDRFAAQTRATEVEAAGR 155
           E +ELAK+FG  DGHK+VNGVLD+ A + RA E+    R
Sbjct: 121 EGIELAKTFGATDGHKFVNGVLDKLAPRLRAAELRGGKR 159


>NMB0683 [K] COG0781 Transcription termination factor Nme Neisseria
           meningitidis MC58
          Length = 141

 Score =  131 bits (329), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 64/136 (47%), Positives = 87/136 (63%)

Query: 14  RTPRHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADAEHFDTLLTGAIRDADKL 73
           +T R R+RE A+Q +YQ L+N   A  I  +IR+   F KAD E F+ L  G   +A + 
Sbjct: 2   KTARRRSRELAVQAVYQSLINRTAAPEIAKNIREMSDFAKADEELFNKLFFGTQTNAAEY 61

Query: 74  RAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVINEAVELAKSFGGIDGHKY 133
              + PL+DR  K+L+P+E A LL   +EL    E PY V+INEA+E+ K+FGG DGHK+
Sbjct: 62  IRQIRPLLDRDEKDLNPIERAVLLTACHELSAMPETPYPVIINEAIEVTKTFGGTDGHKF 121

Query: 134 VNGVLDRFAAQTRATE 149
           VNG+LD+ AAQ R  E
Sbjct: 122 VNGILDKLAAQIRPDE 137


>NMA0885 [K] COG0781 Transcription termination factor NmA Neisseria
           meningitidis Z2491
          Length = 141

 Score =  130 bits (328), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 64/136 (47%), Positives = 87/136 (63%)

Query: 14  RTPRHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADAEHFDTLLTGAIRDADKL 73
           +T R R+RE A+Q +YQ L+N   A  I  +IR+   F KAD E F+ L  G   +A + 
Sbjct: 2   KTARRRSRELAVQAVYQSLINRTAAPEIAKNIREMPDFAKADEELFNKLFFGTQTNAAEY 61

Query: 74  RAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVINEAVELAKSFGGIDGHKY 133
              + PL+DR  K+L+P+E A LL   +EL    E PY V+INEA+E+ K+FGG DGHK+
Sbjct: 62  IRQIRPLLDRDEKDLNPIERAVLLTACHELSAMPETPYPVIINEAIEVTKTFGGTDGHKF 121

Query: 134 VNGVLDRFAAQTRATE 149
           VNG+LD+ AAQ R  E
Sbjct: 122 VNGILDKLAAQIRPDE 137


>PM0730 [K] COG0781 Transcription termination factor Pmu Pasteurella
           multocida
          Length = 144

 Score =  117 bits (293), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 55/131 (41%), Positives = 75/131 (57%)

Query: 12  KNRTPRHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADAEHFDTLLTGAIRDAD 71
           K  +PR RARE A+Q LY W ++      IE +          D  +F  L      + D
Sbjct: 8   KKISPRRRARECAVQALYSWYVSQNSPAEIELNFMAEQDLKGVDTAYFRRLFRQTAENVD 67

Query: 72  KLRAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVINEAVELAKSFGGIDGH 131
            +   + P +DR + EL P+E A L +  YEL+  +++PYKVVINEA+E+AK FG  D H
Sbjct: 68  AVDNIMIPYLDREVSELDPIEKAILRLAVYELKFELDVPYKVVINEAIEVAKVFGAEDSH 127

Query: 132 KYVNGVLDRFA 142
           KYVNGVLD+ A
Sbjct: 128 KYVNGVLDKVA 138