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: d9ed4e961306606d82a6e7558db0eb58.SwissProt.fasta
           21 sequences; 1,898 total letters



Query= ACIAD1408

Length=91
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

P0ACF5 DNA-binding protein HU-beta [Escherichia coli O6:H1 (strai...  125     3e-43
P0ACF6 DNA-binding protein HU-beta [Escherichia coli O157:H7]         125     3e-43
P0ACF7 DNA-binding protein HU-beta [Shigella flexneri]                125     3e-43
P0ACF4 DNA-binding protein HU-beta [Escherichia coli (strain K12)]    125     3e-43
P0A1R9 DNA-binding protein HU-beta [Salmonella typhi]                 124     1e-42
P0A1R8 DNA-binding protein HU-beta [Salmonella typhimurium (strai...  124     1e-42
P0A3H0 DNA-binding protein HU [Geobacillus stearothermophilus]        123     3e-42
P0A3H1 DNA-binding protein HU [Bacillus caldolyticus]                 123     3e-42
P0A3H2 DNA-binding protein HU [Bacillus caldotenax]                   123     3e-42
P05384 DNA-binding protein HU-beta [Pseudomonas aeruginosa (strai...  121     1e-41
P52681 DNA-binding protein HU-beta [Serratia marcescens]              119     1e-40
Q87E48 DNA-binding protein HU [Xylella fastidiosa (strain Temecul...  117     9e-40
P64388 DNA-binding protein HU-beta [Neisseria meningitidis serogr...  116     1e-39
P64389 DNA-binding protein HU-beta [Neisseria meningitidis serogr...  116     1e-39
P28080 DNA-binding protein HU-alpha [Vibrio proteolyticus]            116     1e-39
Q9KHS6 DNA-binding protein HU-beta [Pseudomonas fluorescens (stra...  116     1e-39
Q9PE38 DNA-binding protein HU [Xylella fastidiosa (strain 9a5c)]      115     3e-39
E0J6W8 DNA-binding protein HU-alpha [Escherichia coli (strain ATC...  115     3e-39
P0ACF0 DNA-binding protein HU-alpha [Escherichia coli (strain K12)]   115     3e-39
P0A1R6 DNA-binding protein HU-alpha [Salmonella typhimurium (stra...  114     9e-39
P08821 DNA-binding protein HU 1 [Bacillus subtilis (strain 168)]      113     2e-38


>P0ACF5 DNA-binding protein HU-beta [Escherichia coli O6:H1 (strain 
CFT073 / ATCC 700928 / UPEC)]
Length=90

 Score = 125 bits (314),  Expect = 3e-43
 Identities = 63/89 (71%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LID IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0ACF6 DNA-binding protein HU-beta [Escherichia coli O157:H7]
Length=90

 Score = 125 bits (314),  Expect = 3e-43
 Identities = 63/89 (71%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LID IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0ACF7 DNA-binding protein HU-beta [Shigella flexneri]
Length=90

 Score = 125 bits (314),  Expect = 3e-43
 Identities = 63/89 (71%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LID IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0ACF4 DNA-binding protein HU-beta [Escherichia coli (strain 
K12)]
Length=90

 Score = 125 bits (314),  Expect = 3e-43
 Identities = 63/89 (71%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LID IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0A1R9 DNA-binding protein HU-beta [Salmonella typhi]
Length=90

 Score = 124 bits (310),  Expect = 1e-42
 Identities = 62/89 (70%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LI+ IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIEKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0A1R8 DNA-binding protein HU-beta [Salmonella typhimurium (strain 
LT2 / SGSC1412 / ATCC 700720)]
Length=90

 Score = 124 bits (310),  Expect = 1e-42
 Identities = 62/89 (70%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LI+ IA    +SK  AG+ALDA IASVTE+LK+GD V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSQLIEKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E+ I A KVPSF+AGK LKD+V
Sbjct  61  RNPQTGKEITIAAAKVPSFRAGKALKDAV  89


>P0A3H0 DNA-binding protein HU [Geobacillus stearothermophilus]
Length=90

 Score = 123 bits (308),  Expect = 3e-42
 Identities = 59/89 (66%), Positives = 74/89 (83%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELI+A+AE  GLSK DA KA+DA   S+TEAL+KGD V L+GFG F V++RAAR G
Sbjct  1   MNKTELINAVAETSGLSKKDATKAVDAVFDSITEALRKGDKVQLIGFGNFEVRERAARKG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TGEE++I A+KVP+FK GK LKD+V
Sbjct  61  RNPQTGEEMEIPASKVPAFKPGKALKDAV  89


>P0A3H1 DNA-binding protein HU [Bacillus caldolyticus]
Length=90

 Score = 123 bits (308),  Expect = 3e-42
 Identities = 59/89 (66%), Positives = 74/89 (83%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELI+A+AE  GLSK DA KA+DA   S+TEAL+KGD V L+GFG F V++RAAR G
Sbjct  1   MNKTELINAVAETSGLSKKDATKAVDAVFDSITEALRKGDKVQLIGFGNFEVRERAARKG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TGEE++I A+KVP+FK GK LKD+V
Sbjct  61  RNPQTGEEMEIPASKVPAFKPGKALKDAV  89


>P0A3H2 DNA-binding protein HU [Bacillus caldotenax]
Length=90

 Score = 123 bits (308),  Expect = 3e-42
 Identities = 59/89 (66%), Positives = 74/89 (83%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELI+A+AE  GLSK DA KA+DA   S+TEAL+KGD V L+GFG F V++RAAR G
Sbjct  1   MNKTELINAVAETSGLSKKDATKAVDAVFDSITEALRKGDKVQLIGFGNFEVRERAARKG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TGEE++I A+KVP+FK GK LKD+V
Sbjct  61  RNPQTGEEMEIPASKVPAFKPGKALKDAV  89


>P05384 DNA-binding protein HU-beta [Pseudomonas aeruginosa (strain 
ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 
12228 / 1C / PRS 101 / PAO1)]
Length=90

 Score = 121 bits (304),  Expect = 1e-41
 Identities = 61/89 (69%), Positives = 72/89 (81%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKSELIDAIA    + K  AG+ALDA I SVT ALK GD+V LVGFGTF+VK+RAARTG
Sbjct  1   MNKSELIDAIAASADIPKAVAGRALDAVIESVTGALKAGDSVVLVGFGTFAVKERAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+ ++I A K+P FKAGK LKD+V
Sbjct  61  RNPQTGKPIKIAAAKIPGFKAGKALKDAV  89


>P52681 DNA-binding protein HU-beta [Serratia marcescens]
Length=90

 Score = 119 bits (298),  Expect = 1e-40
 Identities = 58/89 (65%), Positives = 75/89 (84%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKS+LID IA    +SK  AG+ALDA IASVT++LK GD V LVGFG+F+V++R+ARTG
Sbjct  1   MNKSQLIDKIAAGADISKAAAGRALDAVIASVTDSLKAGDDVALVGFGSFTVRERSARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E++I A KVP+F+AGK LKD+V
Sbjct  61  RNPQTGKEIKIAARKVPAFRAGKALKDAV  89


>Q87E48 DNA-binding protein HU [Xylella fastidiosa (strain Temecula1 
/ ATCC 700964)]
Length=94

 Score = 117 bits (292),  Expect = 9e-40
 Identities = 56/89 (63%), Positives = 69/89 (78%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELID +A    LSK +AG+A+DA +  +TEALK+GD+VTLVGFGTF V+ RA R G
Sbjct  1   MNKTELIDGVAAAANLSKVEAGRAIDAVVNEITEALKEGDSVTLVGFGTFQVRQRAERPG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNPKTGE + I A+  PSFK GK LKD+V
Sbjct  61  RNPKTGEPIMIAASNNPSFKPGKALKDAV  89


>P64388 DNA-binding protein HU-beta [Neisseria meningitidis serogroup 
A / serotype 4A (strain DSM 15465 / Z2491)]
Length=89

 Score = 116 bits (291),  Expect = 1e-39
 Identities = 60/89 (67%), Positives = 70/89 (79%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKSELI+AIA++  +SK  A KALDAT  +VT ALK+GDTVTLVGFGTF V +RA R G
Sbjct  1   MNKSELIEAIAQEADISKAAAQKALDATTNAVTTALKQGDTVTLVGFGTFYVGERAERQG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNPKTGE L I A K P F+AGK LKD++
Sbjct  61  RNPKTGEPLTIAAAKTPKFRAGKALKDAL  89


>P64389 DNA-binding protein HU-beta [Neisseria meningitidis serogroup 
B (strain MC58)]
Length=89

 Score = 116 bits (291),  Expect = 1e-39
 Identities = 60/89 (67%), Positives = 70/89 (79%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKSELI+AIA++  +SK  A KALDAT  +VT ALK+GDTVTLVGFGTF V +RA R G
Sbjct  1   MNKSELIEAIAQEADISKAAAQKALDATTNAVTTALKQGDTVTLVGFGTFYVGERAERQG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNPKTGE L I A K P F+AGK LKD++
Sbjct  61  RNPKTGEPLTIAAAKTPKFRAGKALKDAL  89


>P28080 DNA-binding protein HU-alpha [Vibrio proteolyticus]
Length=90

 Score = 116 bits (291),  Expect = 1e-39
 Identities = 59/89 (66%), Positives = 69/89 (78%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK++LID IAEK  LSK  A  AL+AT+  VT+ALK+GD V L+GFGTF V  RAARTG
Sbjct  1   MNKTQLIDFIAEKADLSKAQAKAALEATLDGVTDALKEGDQVQLIGFGTFKVNHRAARTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNPKTG E+QI A  VP+F AGK LKD+V
Sbjct  61  RNPKTGAEIQIAAANVPAFVAGKALKDAV  89


>Q9KHS6 DNA-binding protein HU-beta [Pseudomonas fluorescens (strain 
ATCC BAA-477 / NRRL B-23932 / Pf-5)]
Length=90

 Score = 116 bits (291),  Expect = 1e-39
 Identities = 61/89 (69%), Positives = 68/89 (76%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNKSELIDAIA    L K  AG+ALDA I SVT ALK GD+V LVGFGTFSV DR AR G
Sbjct  1   MNKSELIDAIAASADLPKAAAGRALDAVIESVTGALKAGDSVVLVGFGTFSVTDRPARIG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+ L+I A K P FKAGK LK++V
Sbjct  61  RNPQTGKTLEIAAAKKPGFKAGKALKEAV  89


>Q9PE38 DNA-binding protein HU [Xylella fastidiosa (strain 9a5c)]
Length=94

 Score = 115 bits (289),  Expect = 3e-39
 Identities = 56/89 (63%), Positives = 69/89 (78%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELID +A    LSK +AG+A+DA +  +TEALKKGD+VTLVGFGTF V+ RA R G
Sbjct  1   MNKTELIDGVAAAANLSKVEAGRAIDAVVNEITEALKKGDSVTLVGFGTFQVRPRAERPG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNPK+GE + I A+  PSFK GK LKD+V
Sbjct  61  RNPKSGELIMIAASNNPSFKPGKALKDAV  89


>E0J6W8 DNA-binding protein HU-alpha [Escherichia coli (strain 
ATCC 9637 / CCM 2024 / DSM 1116 / LMG 11080 / NBRC 13500 / 
NCIMB 8666 / NRRL B-766 / W)]
Length=90

 Score = 115 bits (288),  Expect = 3e-39
 Identities = 56/89 (63%), Positives = 72/89 (81%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK++LID IAEK  LSKT A  AL++T+A++TE+LK+GD V LVGFGTF V  RA RTG
Sbjct  1   MNKTQLIDVIAEKAELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E++I A  VP+F +GK LKD+V
Sbjct  61  RNPQTGKEIKIAAANVPAFVSGKALKDAV  89


>P0ACF0 DNA-binding protein HU-alpha [Escherichia coli (strain 
K12)]
Length=90

 Score = 115 bits (288),  Expect = 3e-39
 Identities = 56/89 (63%), Positives = 72/89 (81%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK++LID IAEK  LSKT A  AL++T+A++TE+LK+GD V LVGFGTF V  RA RTG
Sbjct  1   MNKTQLIDVIAEKAELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E++I A  VP+F +GK LKD+V
Sbjct  61  RNPQTGKEIKIAAANVPAFVSGKALKDAV  89


>P0A1R6 DNA-binding protein HU-alpha [Salmonella typhimurium (strain 
LT2 / SGSC1412 / ATCC 700720)]
Length=90

 Score = 114 bits (285),  Expect = 9e-39
 Identities = 55/89 (62%), Positives = 72/89 (81%), Gaps = 0/89 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK++LID IA+K  LSKT A  AL++T+A++TE+LK+GD V LVGFGTF V  RA RTG
Sbjct  1   MNKTQLIDVIADKAELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFKVNHRAERTG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSV  89
           RNP+TG+E++I A  VP+F +GK LKD+V
Sbjct  61  RNPQTGKEIKIAAANVPAFVSGKALKDAV  89


>P08821 DNA-binding protein HU 1 [Bacillus subtilis (strain 168)]
Length=92

 Score = 113 bits (283),  Expect = 2e-38
 Identities = 53/90 (59%), Positives = 72/90 (80%), Gaps = 0/90 (0%)

Query  1   MNKSELIDAIAEKGGLSKTDAGKALDATIASVTEALKKGDTVTLVGFGTFSVKDRAARTG  60
           MNK+ELI+A+AE   LSK DA KA+D+   ++ +ALK GD + L+GFG F V++R+AR G
Sbjct  1   MNKTELINAVAEASELSKKDATKAVDSVFDTILDALKNGDKIQLIGFGNFEVRERSARKG  60

Query  61  RNPKTGEELQIKATKVPSFKAGKGLKDSVA  90
           RNP+TGEE++I A+KVP+FK GK LKD+VA
Sbjct  61  RNPQTGEEIEIPASKVPAFKPGKALKDAVA  90



Lambda      K        H        a         alpha
   0.315    0.132    0.353    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: 85184


  Database: d9ed4e961306606d82a6e7558db0eb58.SwissProt.fasta
    Posted date:  May 31, 2024  10:18 PM
  Number of letters in database: 1,898
  Number of sequences in database:  21



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