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= psy15513
         (77 letters)

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

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



>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5
           Angstroms Resolution Reveals Structural Basis For Pax
           Developmental Mutations
          Length = 128

 Score =  137 bits (344), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 63/76 (82%), Positives = 71/76 (93%)

Query: 1   MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
           MAA G+RPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPR+ATP++E RIEEYK
Sbjct: 29  MAADGIRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYK 88

Query: 61  GENPAMFSWEIRDRLV 76
             +P MFSWEIR++L+
Sbjct: 89  RSSPGMFSWEIREKLI 104


>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
 pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
 pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
 pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
           Bound To Dna
          Length = 149

 Score =  123 bits (309), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 58/76 (76%), Positives = 65/76 (85%)

Query: 1   MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
           +A  GVRPC ISRQLRVSHGCVSKIL RY ETGSI+PGVIGGSKP+VATP V  +I EYK
Sbjct: 44  LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYK 103

Query: 61  GENPAMFSWEIRDRLV 76
            +NP MF+WEIRDRL+
Sbjct: 104 RQNPTMFAWEIRDRLL 119


>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain
          Length = 159

 Score =  122 bits (307), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 58/76 (76%), Positives = 65/76 (85%)

Query: 1   MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
           +A  GVRPC ISRQLRVSHGCVSKIL RY ETGSIRPGVIGGSKP+VATP V  +I +YK
Sbjct: 37  LAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYK 96

Query: 61  GENPAMFSWEIRDRLV 76
            +NP MF+WEIRDRL+
Sbjct: 97  RQNPTMFAWEIRDRLL 112


>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
           Complex Reveals A General Model For Pax Protein-Dna
           Interactions
          Length = 133

 Score =  106 bits (265), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 51/76 (67%), Positives = 62/76 (81%)

Query: 1   MAAAGVRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRVATPDVERRIEEYK 60
           +A +G RPC ISR L+VS+GCVSKIL RY  TGSIRP  IGGSKPRVATP+V  +I +YK
Sbjct: 29  LAHSGARPCDISRILQVSNGCVSKILGRYYATGSIRPRAIGGSKPRVATPEVVSKIAQYK 88

Query: 61  GENPAMFSWEIRDRLV 76
            E P++F+WEIRDRL+
Sbjct: 89  QECPSIFAWEIRDRLL 104


  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
   0.321    0.137    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,309,907
Number of Sequences: 62578
Number of extensions: 74132
Number of successful extensions: 152
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 148
Number of HSP's gapped (non-prelim): 4
length of query: 77
length of database: 14,973,337
effective HSP length: 46
effective length of query: 31
effective length of database: 12,094,749
effective search space: 374937219
effective search space used: 374937219
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)