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= psy16948
         (297 letters)

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

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



>pdb|3VA2|C Chain C, Crystal Structure Of Human Interleukin-5 In Complex With
           Its Alpha Receptor
          Length = 322

 Score = 31.2 bits (69), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 61  GGDVLPNNQKCRMETCFDFT-KCIGDNFKVYIYPSNPDEEPNTISSLYQKVLDVVKESRY 119
            GD+LP+ +K  +    +FT K  G    +  +  NPD+E   ++  YQ  ++  KE  Y
Sbjct: 6   SGDLLPD-EKISLLPPVNFTIKVTGLAQVLLQWKPNPDQEQRNVNLEYQVKINAPKEDDY 64

Query: 120 YTDDPSQACIFIL 132
            T      C+ IL
Sbjct: 65  ETRITESKCVTIL 77


>pdb|4HB9|A Chain A, Crystal Structure Of A Putative Fad Containing
           Monooxygenase From Photorhabdus Luminescens Subsp.
           Laumondii Tto1 (Target Psi-012791)
          Length = 412

 Score = 28.5 bits (62), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 85  DNFKVYIYPSNPDEEPNTISSLYQKVLDVVKESRYYTDDPS 125
           DNF V++Y +  D  P+ I+    + L  + +SR  + DPS
Sbjct: 241 DNFIVWVYVAATDSLPDNITDFSAEALCDLVQSRXISWDPS 281


>pdb|1S4N|A Chain A, Crystal Structure Of Yeast Alpha1,2-Mannosyltransferase
           Kre2pMNT1P
 pdb|1S4N|B Chain B, Crystal Structure Of Yeast Alpha1,2-Mannosyltransferase
           Kre2pMNT1P
 pdb|1S4O|A Chain A, Crystal Structure Of Yeast Alpha1,2-mannosyltransferase
           Kre2p/mnt1p: Binary Complex With Gdp/mn
 pdb|1S4O|B Chain B, Crystal Structure Of Yeast Alpha1,2-mannosyltransferase
           Kre2p/mnt1p: Binary Complex With Gdp/mn
 pdb|1S4P|A Chain A, Crystal Structure Of Yeast Alpha1,2-Mannosyltransferase
           Kre2pMNT1P: Ternary Complex With GdpMN AND
           METHYL-Alpha-Mannoside Acceptor
 pdb|1S4P|B Chain B, Crystal Structure Of Yeast Alpha1,2-Mannosyltransferase
           Kre2pMNT1P: Ternary Complex With GdpMN AND
           METHYL-Alpha-Mannoside Acceptor
          Length = 348

 Score = 27.7 bits (60), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 27/47 (57%)

Query: 77  FDFTKCIGDNFKVYIYPSNPDEEPNTISSLYQKVLDVVKESRYYTDD 123
           +D  K + +N KVY +  +  E   TI +L+Q  +D +K++  Y D+
Sbjct: 164 YDVFKWMQENEKVYGFTVSIHEYEVTIPTLWQTSMDFIKKNPEYLDE 210


>pdb|3J16|B Chain B, Models Of Ribosome-Bound Dom34p And Rli1p And Their
           Ribosomal Binding Partners
          Length = 608

 Score = 27.7 bits (60), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 79  FTKCIGDNFKVYIYPSNPDEEPNTISSLYQKVLDVVKESRYYTDDPSQACIFILAID-TL 137
           FTK + D+ K  I P   D  P  I    QKV +++K     + +  +  I IL ++  L
Sbjct: 156 FTKMLEDDIKAIIKPQYVDNIPRAIKGPVQKVGELLKLRMEKSPEDVKRYIKILQLENVL 215

Query: 138 DRD 140
            RD
Sbjct: 216 KRD 218


  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    0.139    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,027,110
Number of Sequences: 62578
Number of extensions: 448830
Number of successful extensions: 898
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: 894
Number of HSP's gapped (non-prelim): 4
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
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: 51 (24.3 bits)