BLASTP 2.2.26 [Sep-21-2011]


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= 037404
         (605 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|3SPE|A Chain A, Crystal Structure Of The Tail Sheath Protein Protease
           Resistant Fragment From Bacteriophage Phikz
 pdb|3SPE|B Chain B, Crystal Structure Of The Tail Sheath Protein Protease
           Resistant Fragment From Bacteriophage Phikz
          Length = 295

 Score = 32.7 bits (73), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 117 TYPFLLKACNGKNWFHLVQMIHALIYKCGYFGDIFVPNSLIDSYSKCGVV 166
           T P ++K  + +++ ++       +Y   Y  D++V + L+DSYS  GVV
Sbjct: 149 TSPVIVKTADQQDYLNIT--FDKGVYSDXYNADLYVGDVLVDSYSDDGVV 196


>pdb|4FQK|A Chain A, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
 pdb|4FQK|C Chain C, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
 pdb|4FQM|A Chain A, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
 pdb|4FQM|C Chain C, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
 pdb|4FQM|E Chain E, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
 pdb|4FQM|G Chain G, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
 pdb|4FQM|I Chain I, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
 pdb|4FQM|K Chain K, Structure Of BBRISBANE602008 INFLUENZA HEMAGGLUTININ
          Length = 347

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 6/65 (9%)

Query: 251 MVWGYSKDGDMEMAKLLFDRMPAKTLVPWTIIISGYAEKGMAKEAARLYDQMEEAGLKPD 310
            VWG+  D + +MAKL  D  P K       + + Y       +     +Q E+ GL P 
Sbjct: 189 TVWGFHSDNETQMAKLYGDSKPQKFTSSANGVTTHYVS-----QIGGFPNQTEDGGL-PQ 242

Query: 311 DGTLI 315
            G ++
Sbjct: 243 SGRIV 247


>pdb|2BAS|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
           With An Eal Domain.
 pdb|2BAS|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
           With An Eal Domain
          Length = 431

 Score = 29.3 bits (64), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 17/33 (51%)

Query: 498 LAEEVLDCLIRLKGSDPGNYTMLSNIFAATGDW 530
           LAEE+ DC  R+   D     +  N+F   G+W
Sbjct: 325 LAEELTDCSFRIYXCDEEGDQLTGNVFKQDGEW 357


>pdb|2W27|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
           With An Eal Domain, In Complex With Substrate C-Di-Gmp
           And Calcium
 pdb|2W27|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
           With An Eal Domain, In Complex With Substrate C-Di-Gmp
           And Calcium
          Length = 431

 Score = 28.9 bits (63), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 17/33 (51%)

Query: 498 LAEEVLDCLIRLKGSDPGNYTMLSNIFAATGDW 530
           LAEE+ DC  R+   D     +  N+F   G+W
Sbjct: 325 LAEELTDCSFRIYMCDEEGDQLTGNVFKQDGEW 357


>pdb|2I7X|A Chain A, Structure Of Yeast Cpsf-100 (Ydh1p)
          Length = 717

 Score = 28.9 bits (63), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 50/231 (21%), Positives = 98/231 (42%), Gaps = 27/231 (11%)

Query: 155 SLIDSYSKCGVVGVSLAKKLFMSMGERDIVSWNSMIAGLVKGGELSEARRLFDEMPERDA 214
           S IDSY+  GV+G     KL +   E   +S++ ++   +K  +L + R  +D +     
Sbjct: 100 STIDSYASAGVIGPYDTNKLDLEDIE---ISFDHIVP--LKYSQLVDLRSRYDGL---TL 151

Query: 215 VSWNTILDGYAKAGEMNLAFELFEKIPHRNIVSWSTMVWGYSKDGDMEMAKLL-FDRMPA 273
           +++N    G    G +       EK+ +          W +++D  +  A +L     P 
Sbjct: 152 LAYNA---GVCPGGSIWCISTYSEKLVY-------AKRWNHTRDNILNAASILDATGKPL 201

Query: 274 KTLVPWTIIISGYAEKGMA---KEAARLYDQMEEAGLKPDDGTLISILAACAESGLLGLG 330
            TL+  + II+     G +   K+ ++++    + GL  D   +I +  +      L L 
Sbjct: 202 STLMRPSAIITTLDRFGSSQPFKKRSKIFKDTLKKGLSSDGSVIIPVDMS---GKFLDLF 258

Query: 331 MKVHASI-NKYRFKCNTNVCNALVDMYAKCGSLDNAMSVFNGMTKKDLVSW 380
            +VH  +    +   +T V   L+  YA+  +L  A S+   ++   L +W
Sbjct: 259 TQVHELLFESTKINAHTQVP-VLILSYARGRTLTYAKSMLEWLSPSLLKTW 308


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.322    0.137    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,323,302
Number of Sequences: 62578
Number of extensions: 769984
Number of successful extensions: 1647
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1645
Number of HSP's gapped (non-prelim): 7
length of query: 605
length of database: 14,973,337
effective HSP length: 104
effective length of query: 501
effective length of database: 8,465,225
effective search space: 4241077725
effective search space used: 4241077725
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)