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= 016727
         (384 letters)

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

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



>pdb|4DOO|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fatty-Acid
           Binding Protein At3g63170 (Atfap1)
 pdb|4DOO|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fatty-Acid
           Binding Protein At3g63170 (Atfap1)
          Length = 205

 Score = 73.6 bits (179), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/123 (33%), Positives = 66/123 (53%), Gaps = 11/123 (8%)

Query: 208 VEPRTGIEFPMILDNVIDGENYSSSTSEVLVGTGSRTIKIVKIKSLKVYAFAFYVHPRSV 267
           VEP+TG  FP            S   S  L+G G R   ++ +K++ VYAF  Y     V
Sbjct: 6   VEPKTGFSFPA-----------SIGDSRRLLGVGLRKKSLLGLKNIDVYAFGVYADCDDV 54

Query: 268 CEKLGPKYASISVAELNKCGGFYEDLLREDIDMTVRLVINCNGMKVNAVKDVFEKSLRAR 327
            + +G KYA++  +E+     F +DL+  DI MT+RL I    + + +V++ F++S+  R
Sbjct: 55  KKLVGDKYANLPASEIRGNKSFMDDLMEADIKMTIRLQIVYGKLNIRSVRNAFQESVGNR 114

Query: 328 LEK 330
           L+K
Sbjct: 115 LKK 117


>pdb|2D1I|A Chain A, Structure Of Human Atg4b
 pdb|2D1I|B Chain B, Structure Of Human Atg4b
          Length = 398

 Score = 31.2 bits (69), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 94  QVKQITSTGHNLTGFHLSSNSESEYACPVVFN-KVSSSAIRRLFR 137
           QVK+++  G  L  F L     S  ACP V N  + SS + RL R
Sbjct: 340 QVKKLSLLGGALPMFELVEQQPSHLACPDVLNLSLDSSDVERLER 384


>pdb|2CY7|A Chain A, The Crystal Structure Of Human Atg4b
          Length = 396

 Score = 31.2 bits (69), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 94  QVKQITSTGHNLTGFHLSSNSESEYACPVVFN-KVSSSAIRRLFR 137
           QVK+++  G  L  F L     S  ACP V N  + SS + RL R
Sbjct: 338 QVKKLSLLGGALPMFELVEQQPSHLACPDVLNLSLDSSDVERLER 382


>pdb|3KYA|A Chain A, Crystal Structure Of Putative Phosphatase (Np_812416.1)
           From Bacteroides Thetaiotaomicron Vpi-5482 At 1.77 A
           Resolution
          Length = 496

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 3/49 (6%)

Query: 210 PRTGIEFPMILDNVIDGENYSSSTSEVLVGTGSRTIKIVKIKSLKVYAF 258
           P+ G  +  +L   I GEN+ +  S+V V  G +   ++ +KS  VY F
Sbjct: 25  PKEGGAYQKLL---IYGENFGTDVSKVKVKIGGKDAIVINVKSTYVYCF 70


>pdb|3LQB|A Chain A, Crystal Structure Of The Hatching Enzyme Zhe1 From The
           Zebrafish Danio Rerio
          Length = 199

 Score = 28.9 bits (63), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 270 KLGPKYASISVAELNKCGGFYEDLLREDIDMTVRLVIN--CNGMKVNAVK 317
           + G  Y+ I+  ELN   GFY +  R D D  VR+  N    GM  N +K
Sbjct: 88  RKGCVYSGIAQHELNHALGFYHEQSRSDRDQYVRINWNNISPGMAYNFLK 137


  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    0.136    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,567,477
Number of Sequences: 62578
Number of extensions: 393622
Number of successful extensions: 806
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 803
Number of HSP's gapped (non-prelim): 6
length of query: 384
length of database: 14,973,337
effective HSP length: 101
effective length of query: 283
effective length of database: 8,652,959
effective search space: 2448787397
effective search space used: 2448787397
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: 52 (24.6 bits)