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= 036160
         (601 letters)

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

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



>pdb|3D7A|A Chain A, Crystal Structure Of Duf54 Family Protein Ph1010 From
           Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
 pdb|3D7A|B Chain B, Crystal Structure Of Duf54 Family Protein Ph1010 From
           Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
          Length = 138

 Score = 31.6 bits (70), Expect = 1.3,   Method: Composition-based stats.
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 6/57 (10%)

Query: 436 GEKALEAFRMMLDEGYVPDEITFVVVLSACSHMGLIEEGKKHFSSIKKIYGITPTIK 492
           G++ L+  RMML+EGY  +EI   V      H  +   GK +F+    +  IT TI+
Sbjct: 66  GQQILDTARMMLEEGYFGEEIIIKV------HKQVAYVGKVNFNEDSPLGPITITIR 116


>pdb|2PJX|A Chain A, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
           Complex
 pdb|2PJX|B Chain B, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
           Complex
 pdb|3PUK|A Chain A, Re-Refinement Of The Crystal Structure Of Munc18-3 And
           Syntaxin4 N- Peptide Complex
 pdb|3PUK|B Chain B, Re-Refinement Of The Crystal Structure Of Munc18-3 And
           Syntaxin4 N- Peptide Complex
          Length = 592

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 11/91 (12%)

Query: 454 DEITFVVVLSACSHMGLIEEG----------KKHFSSIKKIYGITPTIKHFACMIDILGR 503
           DE T  ++ S C    L+EEG          ++    +K +Y I+PT K   C +   G 
Sbjct: 38  DEFTTKLLSSCCKMTDLLEEGITVIENIYKNREPVRQMKALYFISPTPKSVDCFLRDFGS 97

Query: 504 AGKFTEIENFITETKLTPNALVWENLLGACS 534
             +      +I  T   P++L +  +  +CS
Sbjct: 98  KSEKKYKAAYIYFTDFCPDSL-FNKIKASCS 127


>pdb|3LJD|A Chain A, The X-Ray Structure Of Zebrafish Rnase1 From A New Crystal
           Form At Ph 4.5
 pdb|3LJD|B Chain B, The X-Ray Structure Of Zebrafish Rnase1 From A New Crystal
           Form At Ph 4.5
 pdb|3LN8|A Chain A, The X-Ray Structure Of Zf-Rnase-1 From A New Crystal Form
           At Ph 7.3
 pdb|3LN8|B Chain B, The X-Ray Structure Of Zf-Rnase-1 From A New Crystal Form
           At Ph 7.3
          Length = 126

 Score = 29.6 bits (65), Expect = 4.4,   Method: Composition-based stats.
 Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 2/38 (5%)

Query: 349 GIKSNEFTLASCLNGCSPVAT--LANGRLLHSIAVKTG 384
           G  + + TL+   NGC PV T  LAN RL+ ++  + G
Sbjct: 29  GPNNRKITLSGTDNGCKPVNTFILANKRLIKTVCGRAG 66


>pdb|2VQ8|A Chain A, Rnase Zf-1a
          Length = 139

 Score = 29.6 bits (65), Expect = 4.4,   Method: Composition-based stats.
 Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 2/38 (5%)

Query: 349 GIKSNEFTLASCLNGCSPVAT--LANGRLLHSIAVKTG 384
           G  + + TL+   NGC PV T  LAN RL+ ++  + G
Sbjct: 42  GPNNRKITLSGTDNGCKPVNTFILANKRLIKTVCGRAG 79


  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
   0.322    0.135    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,171,908
Number of Sequences: 62578
Number of extensions: 675988
Number of successful extensions: 1465
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1464
Number of HSP's gapped (non-prelim): 4
length of query: 601
length of database: 14,973,337
effective HSP length: 104
effective length of query: 497
effective length of database: 8,465,225
effective search space: 4207216825
effective search space used: 4207216825
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: 54 (25.4 bits)