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= 041258
         (510 letters)

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

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



>pdb|1U67|A Chain A, Crystal Structure Of Arachidonic Acid Bound To A Mutant Of
           Prostagladin H Synthase-1 That Forms Predominantly
           11-hpete
          Length = 600

 Score = 30.4 bits (67), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 19  AQDLAPVSRSMRTYAVAWVHPNRKLSTRVDAHGRNNPTWNDKFVFRVDEDFLHNDTSAVM 78
            Q++  +   +  YA  W+  + ++   + A    +PTW D+ +F+     L  +T  ++
Sbjct: 288 GQEVFGLLPGLMLYATIWLREHNRVCDLLKA---EHPTWGDEQLFQTARLILIGETIKIV 344

Query: 79  IEIFA 83
           IE +A
Sbjct: 345 IEEYA 349


>pdb|1PRH|A Chain A, The X-Ray Crystal Structure Of The Membrane Protein
           Prostaglandin H2 Synthase-1
 pdb|1PRH|B Chain B, The X-Ray Crystal Structure Of The Membrane Protein
           Prostaglandin H2 Synthase-1
          Length = 554

 Score = 30.4 bits (67), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 14/65 (21%), Positives = 33/65 (50%), Gaps = 3/65 (4%)

Query: 19  AQDLAPVSRSMRTYAVAWVHPNRKLSTRVDAHGRNNPTWNDKFVFRVDEDFLHNDTSAVM 78
            Q++  +   +  YA  W+  ++++   + A    +PTW D+ +F+  +  L  +T  ++
Sbjct: 256 GQEVFGLLPGLMLYATIWLREHQRVCDLLKA---EHPTWGDEQLFQTAKLILIGETIKIV 312

Query: 79  IEIFA 83
           IE + 
Sbjct: 313 IEEYV 317


>pdb|2B5U|A Chain A, Crystal Structure Of Colicin E3 V206c Mutant In Complex
           With Its Immunity Protein
 pdb|2B5U|C Chain C, Crystal Structure Of Colicin E3 V206c Mutant In Complex
           With Its Immunity Protein
          Length = 551

 Score = 29.6 bits (65), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 16/33 (48%)

Query: 392 QTNDEESSVMMAWDMDSSVEGLQSKLERWRAEL 424
           Q  DEE+     WD    VE  +   ER RAEL
Sbjct: 298 QRQDEENRRQQEWDATHPVEAAERNYERARAEL 330


>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
           Immunity Protein
 pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
           Immunity Protein
          Length = 551

 Score = 29.6 bits (65), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 16/33 (48%)

Query: 392 QTNDEESSVMMAWDMDSSVEGLQSKLERWRAEL 424
           Q  DEE+     WD    VE  +   ER RAEL
Sbjct: 298 QRQDEENRRQQEWDATHPVEAAERNYERARAEL 330


>pdb|2NSQ|A Chain A, Crystal Structure Of The C2 Domain Of The Human E3
           Ubiquitin-Protein Ligase Nedd4-Like Protein
          Length = 155

 Score = 29.3 bits (64), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 25/93 (26%), Positives = 43/93 (46%), Gaps = 12/93 (12%)

Query: 54  NPTWNDKFVFRVDEDFLHNDTSAVMIEIFALHWF-RDMHVGTVRVLVGNL-IPPPTRSLH 111
           NP WN++F FRV+          ++ E+F  +   RD  +G V V + +L    PT    
Sbjct: 72  NPKWNEEFYFRVNP-----SNHRLLFEVFDENRLTRDDFLGQVDVPLSHLPTEDPTMERP 126

Query: 112 HSHRSFGMRFVALQVRRPSGRPQGILNIGVALL 144
           ++ + F +R      R    R +G L + +A +
Sbjct: 127 YTFKDFLLR-----PRSHKSRVKGFLRLKMAYM 154


>pdb|3B7Y|A Chain A, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
           Protein Ligase Nedd4
 pdb|3B7Y|B Chain B, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
           Protein Ligase Nedd4
          Length = 153

 Score = 29.3 bits (64), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 10/92 (10%)

Query: 54  NPTWNDKFVFRVDEDFLHNDTSAVMIEIFALHWF-RDMHVGTVRVLVGNLIPPPTRSLHH 112
           NP WN++ +FRV     H     ++ E+F  +   RD  +G V V    L P PT +   
Sbjct: 70  NPKWNEEILFRV-----HPQQHRLLFEVFDENRLTRDDFLGQVDV---PLYPLPTEN-PR 120

Query: 113 SHRSFGMRFVALQVRRPSGRPQGILNIGVALL 144
             R +  +   L  R    R +G L + +  L
Sbjct: 121 LERPYTFKDFVLHPRSHKSRVKGYLRLKMTYL 152


  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
   0.315    0.132    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,691,993
Number of Sequences: 62578
Number of extensions: 475085
Number of successful extensions: 965
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 963
Number of HSP's gapped (non-prelim): 9
length of query: 510
length of database: 14,973,337
effective HSP length: 103
effective length of query: 407
effective length of database: 8,527,803
effective search space: 3470815821
effective search space used: 3470815821
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)