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= 005368
         (699 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 50/100 (50%), Gaps = 2/100 (2%)

Query: 128 FCKILTASDTSTHGGFSVLRKHATECLPPLDMTLATPTQELAAKDLHGYEWRFKHIFRGQ 187
           F K +T SD        + + HA +  P     ++     L  +D++G  WRF++ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73

Query: 188 PRRHLLTTGWSTFVTSKRLVAGDAFVFLR--GENGELRVG 225
            + ++LT GWS FV  K L AGD   F R  G++ +L +G
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIG 113


>pdb|2ID0|A Chain A, Escherichia Coli Rnase Ii
 pdb|2ID0|B Chain B, Escherichia Coli Rnase Ii
 pdb|2ID0|C Chain C, Escherichia Coli Rnase Ii
 pdb|2ID0|D Chain D, Escherichia Coli Rnase Ii
          Length = 644

 Score = 30.4 bits (67), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 24/100 (24%), Positives = 44/100 (44%), Gaps = 15/100 (15%)

Query: 454 PHLNVSLNLFPDSTD---------DHRIVAAQSVLSGYASSGRPGNTVIHEEVER---GK 501
           PH  + L  +   T          +HR++ A  V+ G  ++ RP + +  +  ER    +
Sbjct: 483 PHFGLGLEAYATWTSPIRKYGDXINHRLLKA--VIKGETAT-RPQDEITVQXAERRRLNR 539

Query: 502 KSEASLGCWLFGIDLKHNSNTAAPLGRKVVDPTTGTSGVK 541
            +E  +G WL+   LK  + T      ++VD + G   V+
Sbjct: 540 XAERDVGDWLYARFLKDKAGTDTRFAAEIVDISRGGXRVR 579


>pdb|3SK1|A Chain A, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087, Apo Form
 pdb|3SK1|B Chain B, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087, Apo Form
 pdb|3SK1|C Chain C, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087, Apo Form
 pdb|3SK1|D Chain D, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087, Apo Form
 pdb|3SK2|A Chain A, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087 In Complex With Griseoluteic
           Acid
 pdb|3SK2|B Chain B, Crystal Structure Of Phenazine Resistance Protein Ehpr
           From Enterobacter Agglomerans (Erwinia Herbicola,
           Pantoea Agglomerans) Eh1087 In Complex With Griseoluteic
           Acid
          Length = 132

 Score = 29.3 bits (64), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 18  PGSGDLYRELWKACAGPLVEVPRNGERVYYFPQGH-IEQLEASTNQELTHQ 67
           P SGD    +W     P+ E+PR  E     P G  +++L     ++ +HQ
Sbjct: 50  PSSGDALFAIWSGGEEPVAEIPRFSEIGIMLPTGEDVDKLFNEWTKQKSHQ 100


  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    0.131    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,762,652
Number of Sequences: 62578
Number of extensions: 858888
Number of successful extensions: 1719
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1718
Number of HSP's gapped (non-prelim): 4
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
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: 55 (25.8 bits)