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= 043920
         (504 letters)

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

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



>pdb|3N28|A Chain A, Crystal Structure Of Probable Phosphoserine Phosphatase
           From Vibrio Cholerae, Unliganded Form
          Length = 335

 Score = 34.7 bits (78), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 51/122 (41%), Gaps = 14/122 (11%)

Query: 101 LPKFYASDLHPESWRVFSSCGKRCVLTANPRIMVEAFLKDFLAADLVLGTEIATYKGRAT 160
           LP+  A+ LH   W+V  + G     +         +LK+ L+ D      +    G+ T
Sbjct: 183 LPELVAT-LHAFGWKVAIASGGFTYFSD--------YLKEQLSLDYAQSNTLEIVSGKLT 233

Query: 161 GLVRDPGVLVGNKKADALLKAFGETQPEI----GLGDRQTDIPFMALCKEGYLVPSKPEV 216
           G V    V+    KAD LL    +   EI     +GD   D+  MA    G    +KP+V
Sbjct: 234 GQVLGE-VVSAQTKADILLTLAQQYDVEIHNTVAVGDGANDLVMMAAAGLGVAYHAKPKV 292

Query: 217 KA 218
           +A
Sbjct: 293 EA 294


>pdb|2W3C|A Chain A, Globular Head Region Of The Human General Vesicular
           Transport Factor P115
          Length = 577

 Score = 30.8 bits (68), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 27/108 (25%), Positives = 49/108 (45%), Gaps = 7/108 (6%)

Query: 282 VRVIVKGTPPPAAKKSTGQTGVLFVCSHRTLLDPIFLSVALGRPIPTVTYSVSRLSEIIS 341
           VRV+V  T PP A  S  +   +F C     L  I +  A G P   +T +++ +SE+  
Sbjct: 235 VRVLVSPTNPPGATSSCQKA--MFQCGLLQQLCTILM--ATGVPADILTETINTVSEV-- 288

Query: 342 PIKAVRLSRDRATDASTIKKLLEEGDLAMCPEGTTCREPFLLRFSALF 389
            I+  ++++D     +          + +       R+PF+LR + L+
Sbjct: 289 -IRGCQVNQDYFASVNAPSNPPRPAIVVLLMSMVNERQPFVLRCAVLY 335


>pdb|3GGD|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferase
           (Yp_325210.1) From Anabaena Variabilis Atcc 29413 At
           2.11 A Resolution
          Length = 245

 Score = 28.9 bits (63), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 10/71 (14%)

Query: 430 PAYEVTFLNKLPM-ELTCGSGKSSHEVANYIQRVIAATLSYESTRFTRKDK------YRA 482
           P +E+ F  +LP+ +  CG+G  +  ++ +  RVI   +S  +     K+       YR 
Sbjct: 48  PRFELLFNPELPLIDFACGNGTQTKFLSQFFPRVIGLDVSKSALEIAAKENTAANISYRL 107

Query: 483 LAGNDGTVVEK 493
           L   DG V E+
Sbjct: 108 L---DGLVPEQ 115


>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
           Resolution
 pdb|2XOK|B Chain B, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
           Resolution
 pdb|2XOK|C Chain C, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
           Resolution
          Length = 545

 Score = 28.5 bits (62), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 11/57 (19%)

Query: 157 GRATGLVRDPGVL----------VGNKKADALLKAFGETQPEIGLGDRQTDIPFMAL 203
           GR+   V+ PG+L           G K  DAL+   G  Q E+ +GDRQT    +AL
Sbjct: 162 GRSRAQVKAPGILPRRSVHEPVQTGLKAVDALV-PIGRGQRELIIGDRQTGKTAVAL 217


  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
   0.324    0.138    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,638,013
Number of Sequences: 62578
Number of extensions: 528011
Number of successful extensions: 980
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 980
Number of HSP's gapped (non-prelim): 11
length of query: 504
length of database: 14,973,337
effective HSP length: 103
effective length of query: 401
effective length of database: 8,527,803
effective search space: 3419649003
effective search space used: 3419649003
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)