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= psy15733
         (200 letters)

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

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



>pdb|3GI9|C Chain C, Crystal Structure Of Apct Transporter Bound To 7f11
           Monoclonal Fab Fragment
 pdb|3GIA|A Chain A, Crystal Structure Of Apct Transporter
          Length = 444

 Score = 32.7 bits (73), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 55/153 (35%), Gaps = 14/153 (9%)

Query: 50  NKTTSLWDTVQWTVIIFQNAALIEVVNVALGFVKSNLALTFFQXXXXXXXXXXXLIATPT 109
           NK  SLW+ V   V +   A++  +  V       NL  TF                   
Sbjct: 5   NKKLSLWEAVSMAVGVMIGASIFSIFGVGAKIAGRNLPETFILSGIYALLVAYSYTKLGA 64

Query: 110 GPASPGLPLCLLAWTITEIIRYLFYALNLINAVPDILVWCRYTFFIALYPIGITGELLCI 169
              S   P+  +   I +         N+I     IL+W  Y   IAL+  G  G  L +
Sbjct: 65  KIVSNAGPIAFIHKAIGD---------NIITGALSILLWMSYVISIALFAKGFAGYFLPL 115

Query: 170 WWA---QSYVAETKLWSMELPNALNF--TKPMG 197
             A      +A T++  +    ALNF  +K +G
Sbjct: 116 INAPINTFNIAITEIGIVAFFTALNFFGSKAVG 148


>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
           Monoclonal Fab Fragment
          Length = 444

 Score = 32.7 bits (73), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 55/153 (35%), Gaps = 14/153 (9%)

Query: 50  NKTTSLWDTVQWTVIIFQNAALIEVVNVALGFVKSNLALTFFQXXXXXXXXXXXLIATPT 109
           NK  SLW+ V   V +   A++  +  V       NL  TF                   
Sbjct: 5   NKKLSLWEAVSMAVGVMIGASIFSIFGVGAKIAGRNLPETFILSGIYALLVAYSYTKLGA 64

Query: 110 GPASPGLPLCLLAWTITEIIRYLFYALNLINAVPDILVWCRYTFFIALYPIGITGELLCI 169
              S   P+  +   I +         N+I     IL+W  Y   IAL+  G  G  L +
Sbjct: 65  KIVSNAGPIAFIHKAIGD---------NIITGALSILLWMSYVISIALFAKGFAGYFLPL 115

Query: 170 WWA---QSYVAETKLWSMELPNALNF--TKPMG 197
             A      +A T++  +    ALNF  +K +G
Sbjct: 116 INAPINTFNIAITEIGIVAFFTALNFFGSKAVG 148


  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
   0.325    0.140    0.454 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,834,099
Number of Sequences: 62578
Number of extensions: 208943
Number of successful extensions: 371
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 367
Number of HSP's gapped (non-prelim): 2
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 49 (23.5 bits)