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= psy13790
         (193 letters)

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

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



>pdb|1YNU|A Chain A, Crystal Structure Of Apple Acc Synthase In Complex With
           L-Vinylglycine
          Length = 473

 Score = 30.8 bits (68), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 41  DIQSLVLEIVGTNVSTTFISCPADPKKTLGIKLPFLVMIIKNLK 84
           D   LVL    T+ + TFI C ADP + + I  P+     ++LK
Sbjct: 110 DPNHLVLTAGATSANETFIFCLADPGEAVLIPTPYYPGFDRDLK 153


>pdb|1M7Y|A Chain A, Crystal Structure Of Apple Acc Synthase In Complex With L-
           Aminoethoxyvinylglycine
 pdb|1M4N|A Chain A, Crystal Structure Of Apple Acc Synthase In Complex With
           [2-(Amino-
           Oxy)ethyl](5'-Deoxyadenosin-5'-Yl)(Methyl)sulfonium
          Length = 435

 Score = 30.4 bits (67), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 41  DIQSLVLEIVGTNVSTTFISCPADPKKTLGIKLPFLVMIIKNLK 84
           D   LVL    T+ + TFI C ADP + + I  P+     ++LK
Sbjct: 110 DPNHLVLTAGATSANETFIFCLADPGEAVLIPTPYYPGFDRDLK 153


>pdb|1B8G|A Chain A, 1-aminocyclopropane-1-carboxylate Synthase
 pdb|1B8G|B Chain B, 1-aminocyclopropane-1-carboxylate Synthase
          Length = 429

 Score = 30.4 bits (67), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 41  DIQSLVLEIVGTNVSTTFISCPADPKKTLGIKLPFLVMIIKNLK 84
           D   LVL    T+ + TFI C ADP + + I  P+     ++LK
Sbjct: 108 DPNHLVLTAGATSANETFIFCLADPGEAVLIPTPYYPGFDRDLK 151


>pdb|3PIU|A Chain A, High-Resolution Structure Of Native Malus Domestica Acc
           Synthase
          Length = 410

 Score = 30.4 bits (67), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 41  DIQSLVLEIVGTNVSTTFISCPADPKKTLGIKLPFLVMIIKNLK 84
           D   LVL    T+ + TFI C ADP + + I  P+     ++LK
Sbjct: 93  DPNHLVLTAGATSANETFIFCLADPGEAVLIPTPYYPGFDRDLK 136


>pdb|3UVF|A Chain A, Expanding Lagalidadg Endonuclease Scaffold Diversity By
           Rapidly Surveying Evolutionary Sequence Space
 pdb|3UVF|B Chain B, Expanding Lagalidadg Endonuclease Scaffold Diversity By
           Rapidly Surveying Evolutionary Sequence Space
          Length = 255

 Score = 27.7 bits (60), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 78  MIIKNLKKYFTFEVQVLDDKNVRRRFRASNYQSTTRVKPFICTMPMRLDDGWNQIQFNL 136
           ++I  + KY +F  ++  DK    R + +  +S   V  FI   P++L  G  ++Q+ L
Sbjct: 177 ILISAIHKYLSFTTKIYLDKTNCSRLKVTGVRSVKNVVKFIQGAPVKL-LGNKKLQYKL 234


>pdb|2KZF|A Chain A, Solution Nmr Structure Of The Thermotoga Maritima Protein
           Tm0855 A Putative Ribosome Binding Factor A
          Length = 106

 Score = 27.7 bits (60), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 4/52 (7%)

Query: 52  TNVSTTFISCPADPKKTLGI----KLPFLVMIIKNLKKYFTFEVQVLDDKNV 99
            +V  +F+  P + K+T+ I    K  F   I KNL+ Y   E++  +DK +
Sbjct: 50  ADVYVSFLGTPEERKETVEILNRAKGFFRTFIAKNLRLYVAPEIRFYEDKGI 101


>pdb|3EH8|A Chain A, Crystal Structure Of Y2 I-Anii Variant (F13yS111Y)DNA
           COMPLEX WITH Calcium
 pdb|3EH8|D Chain D, Crystal Structure Of Y2 I-Anii Variant (F13yS111Y)DNA
           COMPLEX WITH Calcium
 pdb|3EH8|G Chain G, Crystal Structure Of Y2 I-Anii Variant (F13yS111Y)DNA
           COMPLEX WITH Calcium
          Length = 254

 Score = 26.6 bits (57), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 14/59 (23%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 78  MIIKNLKKYFTFEVQVLDDKNVRRRFRASNYQSTTRVKPFICTMPMRLDDGWNQIQFNL 136
           ++I  ++KY +F  +V  DK    + + ++ +S   +  F+   P++L  G  ++Q+ L
Sbjct: 176 ILISAIRKYLSFTTKVYLDKTNCSKLKVTSVRSVENIIKFLQNAPVKL-LGNKKLQYKL 233


  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    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,454,008
Number of Sequences: 62578
Number of extensions: 202359
Number of successful extensions: 555
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 548
Number of HSP's gapped (non-prelim): 8
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
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)