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= psy10340
         (98 letters)

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

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



>pdb|1SNL|A Chain A, Nmr Solution Structure Of The Calcium-Binding Domain Of
          Nucleobindin (Calnuc)
          Length = 103

 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 40/57 (70%), Gaps = 3/57 (5%)

Query: 19 LEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQN 75
          L+EVW+E D +    FNPK FF +HD++ + V DE+E++ LF KEL+K+Y    P+N
Sbjct: 5  LKEVWEELDGLDPNRFNPKTFFILHDINSDGVLDEQELEALFTKELEKVYD---PKN 58


>pdb|1I1I|P Chain P, Neurolysin (Endopeptidase 24.16) Crystal Structure
          Length = 681

 Score = 29.6 bits (65), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 7/52 (13%)

Query: 48  NHVWDEEEVKMLFLKELDKMYKEGMPQND-LMERAEERQTVFTGLFCSLRAI 98
           N VWD +      L++L K YK+G P  D L+E+    + V TGL  +LR I
Sbjct: 511 NWVWDVDS-----LRKLSKHYKDGHPITDELLEKLVASRLVNTGLL-TLRQI 556


>pdb|2O3E|A Chain A, Crystal Structure Of Engineered Neurolysin With Thimet
           Oligopeptidase Specificity For Neurotensin Cleavage Site
          Length = 678

 Score = 29.6 bits (65), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 7/52 (13%)

Query: 48  NHVWDEEEVKMLFLKELDKMYKEGMPQND-LMERAEERQTVFTGLFCSLRAI 98
           N VWD +      L++L K YK+G P  D L+E+    + V TGL  +LR I
Sbjct: 511 NWVWDVDS-----LRKLSKHYKDGHPITDELLEKLVASRLVNTGLL-TLRQI 556


>pdb|1Y8B|A Chain A, Solution Nmr-Derived Global Fold Of Malate Synthase G From
           E.Coli
          Length = 731

 Score = 26.2 bits (56), Expect = 4.3,   Method: Composition-based stats.
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 80  RAEERQTVFTGLFCSLRA 97
           +A ER  V +GLFC LR 
Sbjct: 483 KAYERNNVLSGLFCGLRG 500


>pdb|2JQX|A Chain A, Solution Structure Of Malate Synthase G From Joint
           Refinement Against Nmr And Saxs Data
          Length = 723

 Score = 26.2 bits (56), Expect = 4.3,   Method: Composition-based stats.
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 80  RAEERQTVFTGLFCSLRA 97
           +A ER  V +GLFC LR 
Sbjct: 483 KAYERNNVLSGLFCGLRG 500


>pdb|1P7T|A Chain A, Structure Of Escherichia Coli Malate Synthase
           G:pyruvate:acetyl- Coenzyme A Abortive Ternary Complex
           At 1.95 Angstrom Resolution
          Length = 731

 Score = 26.2 bits (56), Expect = 4.5,   Method: Composition-based stats.
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 80  RAEERQTVFTGLFCSLRA 97
           +A ER  V +GLFC LR 
Sbjct: 483 KAYERNNVLSGLFCGLRG 500


>pdb|1P7T|B Chain B, Structure Of Escherichia Coli Malate Synthase
           G:pyruvate:acetyl- Coenzyme A Abortive Ternary Complex
           At 1.95 Angstrom Resolution
          Length = 731

 Score = 26.2 bits (56), Expect = 4.5,   Method: Composition-based stats.
 Identities = 10/18 (55%), Positives = 12/18 (66%)

Query: 80  RAEERQTVFTGLFCSLRA 97
           +A ER  V +GLFC LR 
Sbjct: 483 KAYERNNVLSGLFCGLRG 500


>pdb|3FQ4|A Chain A, Crystal Structure Of The Calx-Beta Domain Of Integrin
          Beta4
 pdb|3FQ4|B Chain B, Crystal Structure Of The Calx-Beta Domain Of Integrin
          Beta4
 pdb|3FSO|A Chain A, Crystal Structure Of The Calx-Beta Domain Of Integrin
          Beta4, Calcium Soak
 pdb|3FSO|B Chain B, Crystal Structure Of The Calx-Beta Domain Of Integrin
          Beta4, Calcium Soak
 pdb|3H6A|A Chain A, Structure Of The Calx-Beta Domain Of Integrin Beta4
          Crystallized In The Presence Of Calcium
 pdb|3H6A|B Chain B, Structure Of The Calx-Beta Domain Of Integrin Beta4
          Crystallized In The Presence Of Calcium
          Length = 123

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 14 GSKKQLEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYK 69
          G K Q+    Q+    GN ++ P     +        W E +VK+L L+E+D + +
Sbjct: 35 GGKSQVSYRTQDGTAQGNRDYIPVEGELL--FQPGEAWKELQVKLLELQEVDSLLR 88


  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    0.134    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,261,049
Number of Sequences: 62578
Number of extensions: 121703
Number of successful extensions: 270
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 262
Number of HSP's gapped (non-prelim): 17
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)