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= 048340
         (390 letters)

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

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



>pdb|3KVN|X Chain X, Crystal Structure Of The Full-Length Autotransporter Esta
           From Pseudomonas Aeruginosa
 pdb|3KVN|A Chain A, Crystal Structure Of The Full-Length Autotransporter Esta
           From Pseudomonas Aeruginosa
          Length = 632

 Score = 32.3 bits (72), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 9/67 (13%)

Query: 161 AVYFISIGSNDYMGGYLGNPKMQEDYNPETYVGMVIGNLTQAIQVLYEKGGRKFAFLSLS 220
           A+Y+I+ G ND++ G + N         +       G L  ++Q L + G R      L 
Sbjct: 148 ALYYITGGGNDFLQGRILN---------DVQAQQAAGRLVDSVQALQQAGARYIVVWLLP 198

Query: 221 PLGCLPA 227
            LG  PA
Sbjct: 199 DLGLTPA 205


>pdb|3EYB|A Chain A, Structural And Functional Insights Into The Ligand Binding
           Domain Of A Non-Duplicated Rxr From The Invertebrate
           Chordate Amphioxus
 pdb|3EYB|B Chain B, Structural And Functional Insights Into The Ligand Binding
           Domain Of A Non-Duplicated Rxr From The Invertebrate
           Chordate Amphioxus
 pdb|3EYB|C Chain C, Structural And Functional Insights Into The Ligand Binding
           Domain Of A Non-Duplicated Rxr From The Invertebrate
           Chordate Amphioxus
 pdb|3EYB|D Chain D, Structural And Functional Insights Into The Ligand Binding
           Domain Of A Non-Duplicated Rxr From The Invertebrate
           Chordate Amphioxus
          Length = 219

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 49/201 (24%), Positives = 82/201 (40%), Gaps = 26/201 (12%)

Query: 39  GDSTVDPGNNNYIK-----TTSENQANYKPYGQNGFFDKPTGRFSDGRV---IVDFIAEY 90
            +  V+P + N ++      T+  QA  K       + K    FSD  +   ++   A +
Sbjct: 10  AEMAVEPKDGNMVEQPNDPVTNICQAADKQLVTLVEWAKRIPHFSDLPIDDQVILLRAGW 69

Query: 91  AKLPLIPPFSDPAADCSNGVNFASGGAGVLSETHQGLVIDLPRQLENFELVQKSLVEKLG 150
            +L LI  FS  + D  +G+  ASG     S  HQ  V  +      F+ V   LV K+ 
Sbjct: 70  NEL-LIAAFSHRSIDVKDGILLASGLHVHRSSAHQAGVGTI------FDRVLTELVAKMR 122

Query: 151 EANASELTSEAVYFISIGSNDYMGGYLGNPKMQEDYNPETYVGMVIGNLTQAIQVLYEKG 210
           +    +     +  I + + D  G  L +P + E    + Y      +L +  +  Y + 
Sbjct: 123 DMKMDKTELGCLRAIVLFNPDAKG--LTDPSLVESLREKVY-----ASLEEYCKQQYPEQ 175

Query: 211 GRKFAFLSLSPLGCLPALRAL 231
             +FA L L     LPALR++
Sbjct: 176 PGRFAKLLLR----LPALRSI 192


>pdb|3FEV|A Chain A, Crystal Structure Of The Chimeric Muscarinic Toxin Mt7
           With Loop 1 From Mt1.
 pdb|3FEV|B Chain B, Crystal Structure Of The Chimeric Muscarinic Toxin Mt7
           With Loop 1 From Mt1.
 pdb|3FEV|C Chain C, Crystal Structure Of The Chimeric Muscarinic Toxin Mt7
           With Loop 1 From Mt1
          Length = 65

 Score = 29.3 bits (64), Expect = 3.9,   Method: Composition-based stats.
 Identities = 12/28 (42%), Positives = 13/28 (46%)

Query: 288 PAMYGFKDGANACCGYGPYRGIFTCGGT 315
           P MY F  G  A C    YR +  C GT
Sbjct: 33  PRMYDFTRGCAATCPKAEYRDVINCCGT 60


  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
   0.319    0.139    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,318,382
Number of Sequences: 62578
Number of extensions: 531980
Number of successful extensions: 988
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: 985
Number of HSP's gapped (non-prelim): 5
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)