Comparative Genomics

ACIAD2627 / SwissProt Alignments

BLASTP 2.12.0+


Reference: Stephen F. Altschul, 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: Alejandro A. Schaffer,
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.



Database: 45f2f332a8681c51ab25e25a94df6cb1.SwissProt.fasta
           10 sequences; 1,913 total letters



Query= ACIAD2627

Length=213
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

Q06198 RNA polymerase sigma-H factor [Pseudomonas aeruginosa (str...  43.1    4e-09
P45215 Probable RNA polymerase sigma factor HI_1459 [Haemophilus ...  42.4    8e-09
P44790 ECF RNA polymerase sigma-E factor [Haemophilus influenzae ...  40.4    4e-08
P0AGB7 ECF RNA polymerase sigma-E factor [Escherichia coli O6:H1 ...  40.4    4e-08
P0AGB8 ECF RNA polymerase sigma-E factor [Escherichia coli O157:H7]   40.4    4e-08
P0AGB9 ECF RNA polymerase sigma-E factor [Shigella flexneri]          40.4    4e-08
P0AGB6 ECF RNA polymerase sigma-E factor [Escherichia coli (strai...  40.4    4e-08
P0A2F1 ECF RNA polymerase sigma-E factor [Salmonella typhi]           39.3    9e-08
P0A2F0 ECF RNA polymerase sigma-E factor [Salmonella typhimurium ...  39.3    9e-08
D0ZSY9 ECF RNA polymerase sigma-E factor [Salmonella typhimurium ...  39.3    9e-08


>Q06198 RNA polymerase sigma-H factor [Pseudomonas aeruginosa 
(strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 
12228 / 1C / PRS 101 / PAO1)]
Length=193

 Score = 43.1 bits (100),  Expect = 4e-09
 Identities = 41/153 (27%), Positives = 65/153 (42%), Gaps = 18/153 (12%)

Query  56   AMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVSLD  114
            A D+ QEAFI  +++  +   D  +Y   Y I  N  ++      RR            D
Sbjct  47   AQDVAQEAFIKAYRALGNFRGDSAFYTWLYRIAINTAKNHLVARGRRPP----------D  96

Query  115  SDEEVTDVV---DETTPNPFEFLDQAVTIEEIQAA----IAQLPVRQQQAFMLRAWEGFD  167
            SD    D      +      E  ++A+  +EI+A     I QLP   + A  LR +EG  
Sbjct  97   SDVTAEDAEFFEGDHALKDIESPERAMLRDEIEATVHQTIQQLPEDLRTALTLREFEGLS  156

Query  168  TQTTAQIMNCSEGSVKTHYHRAIQGLRASLAHL  200
             +  A +M C  G+V++   RA + +  +L  L
Sbjct  157  YEDIATVMQCPVGTVRSRIFRAREAIDKALQPL  189


>P45215 Probable RNA polymerase sigma factor HI_1459 [Haemophilus 
influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)]
Length=194

 Score = 42.4 bits (98),  Expect = 8e-09
 Identities = 36/150 (24%), Positives = 68/150 (45%), Gaps = 18/150 (12%)

Query  52   QHGIAMDLVQEAFIALHKSYAD-KATDEWYPLFYTILNNKLQDWRRKEARRSNPFSFFKK  110
            Q  +A DLVQEAF++  K+ A+ K    +    + IL NK+ D+ R++ R      F  +
Sbjct  39   QADLAEDLVQEAFLSAFKNLANFKRQSAFKTWIFAILKNKIIDYLRQKGR------FVLE  92

Query  111  VSLDSDEEVTDVVDET-------TPNPFEFLDQAVTIEE----IQAAIAQLPVRQQQAFM  159
              L+ +       DE         P+  +  ++ V  +E     +  +  LP +Q + FM
Sbjct  93   SELEDENTNNSFFDEKGHWKPEYHPSELQGEEETVYSDEFWLIFETCLNCLPAKQAKIFM  152

Query  160  LRAWEGFDTQTTAQIMNCSEGSVKTHYHRA  189
            +R +    ++   Q  + +  ++ T  +RA
Sbjct  153  MREFLELSSEEICQETHLTSSNLHTTLYRA  182


>P44790 ECF RNA polymerase sigma-E factor [Haemophilus influenzae 
(strain ATCC 51907 / DSM 11121 / KW20 / Rd)]
Length=189

 Score = 40.4 bits (93),  Expect = 4e-08
 Identities = 35/133 (26%), Positives = 58/133 (44%), Gaps = 4/133 (3%)

Query  58   DLVQEAFIALHKSYAD-KATDEWYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVSLDSD  116
            D+VQE+FI  ++S    +    +Y   Y I  N  +++   + RR  P         ++ 
Sbjct  48   DVVQESFIKAYRSIESFRGESAFYTWLYRIAVNTAKNYLTAQGRRP-PNEDILAEDAENY  106

Query  117  EEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTAQIMN  176
            +  T + D  TP       +   I  +   I  LP   + A  LR  EG   +  A+IM+
Sbjct  107  DVGTHLRDVDTPENEMLSSELERI--VFDTIHNLPEDLKTAITLRELEGLSYEDIAEIMD  164

Query  177  CSEGSVKTHYHRA  189
            C  G+V++   RA
Sbjct  165  CPVGTVRSRIFRA  177


>P0AGB7 ECF RNA polymerase sigma-E factor [Escherichia coli O6:H1 
(strain CFT073 / ATCC 700928 / UPEC)]
Length=191

 Score = 40.4 bits (93),  Expect = 4e-08
 Identities = 35/141 (25%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQEAFI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>P0AGB8 ECF RNA polymerase sigma-E factor [Escherichia coli O157:H7]
Length=191

 Score = 40.4 bits (93),  Expect = 4e-08
 Identities = 35/141 (25%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQEAFI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>P0AGB9 ECF RNA polymerase sigma-E factor [Shigella flexneri]
Length=191

 Score = 40.4 bits (93),  Expect = 4e-08
 Identities = 35/141 (25%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQEAFI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>P0AGB6 ECF RNA polymerase sigma-E factor [Escherichia coli (strain 
K12)]
Length=191

 Score = 40.4 bits (93),  Expect = 4e-08
 Identities = 35/141 (25%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQEAFI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>P0A2F1 ECF RNA polymerase sigma-E factor [Salmonella typhi]
Length=191

 Score = 39.3 bits (90),  Expect = 9e-08
 Identities = 34/141 (24%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQE+FI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQESFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>P0A2F0 ECF RNA polymerase sigma-E factor [Salmonella typhimurium 
(strain LT2 / SGSC1412 / ATCC 700720)]
Length=191

 Score = 39.3 bits (90),  Expect = 9e-08
 Identities = 34/141 (24%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQE+FI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQESFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181


>D0ZSY9 ECF RNA polymerase sigma-E factor [Salmonella typhimurium 
(strain 14028s / SGSC 2262)]
Length=191

 Score = 39.3 bits (90),  Expect = 9e-08
 Identities = 34/141 (24%), Positives = 62/141 (44%), Gaps = 4/141 (3%)

Query  54   GIAMDLVQEAFIALHKSYADKATDE-WYPLFYTILNNKLQDWRRKEARRSNPFSFFKKVS  112
            G   D+VQE+FI  +++      D  +Y   Y I  N  +++   + RR  P S    + 
Sbjct  44   GDVPDVVQESFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRP-PSSDVDAIE  102

Query  113  LDSDEEVTDVVDETTPNPFEFLDQAVTIEEIQAAIAQLPVRQQQAFMLRAWEGFDTQTTA  172
             ++ E    + + + P      ++   I  +   I  LP   + A  LR  +G   +  A
Sbjct  103  AENFESGGALKEISNPENLMLSEELRQI--VFRTIESLPEDLRMAITLRELDGLSYEEIA  160

Query  173  QIMNCSEGSVKTHYHRAIQGL  193
             IM+C  G+V++   RA + +
Sbjct  161  AIMDCPVGTVRSRIFRAREAI  181



Lambda      K        H        a         alpha
   0.320    0.131    0.381    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0410    0.140     1.90     42.6     43.6 

Effective search space used: 274881


  Database: 45f2f332a8681c51ab25e25a94df6cb1.SwissProt.fasta
    Posted date:  May 8, 2024  7:05 PM
  Number of letters in database: 1,913
  Number of sequences in database:  10



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40