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= 014141
         (430 letters)

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

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



>pdb|2IBP|A Chain A, Crystal Structure Of Citrate Synthase From Pyrobaculum
           Aerophilum
 pdb|2IBP|B Chain B, Crystal Structure Of Citrate Synthase From Pyrobaculum
           Aerophilum
          Length = 409

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 23/95 (24%), Positives = 38/95 (40%), Gaps = 6/95 (6%)

Query: 16  KENLEDWFSRFPDDILIHIISGLTLKEAARTSVLSSRWKY----LWTFTTSLDFDKKVKY 71
           KE   D+ ++F D   +  I+    +E         R  Y     W+      +   + Y
Sbjct: 303 KEFSRDYVAKFGDPQNLFAIASAIEQEVLSHPYFQQRKLYPNVDFWSGIAF--YYMGIPY 360

Query: 72  MSFPPDYQQSKYISWVNKVLELHRGSRINQFRICF 106
             F P +  S+ + WV  VLE    +RI + R C+
Sbjct: 361 EYFTPIFAMSRVVGWVAHVLEYWENNRIFRPRACY 395


>pdb|3LK7|A Chain A, The Crystal Structure Of Udp-N-Acetylmuramoylalanine-D-
           Glutamate (Murd) Ligase From Streptococcus Agalactiae To
           1.5a
          Length = 451

 Score = 28.9 bits (63), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 13/23 (56%), Positives = 15/23 (65%)

Query: 204 SLKVVGSSIPLKCLDIQFCYSIK 226
            +KVV  S PL+ LD  FCY IK
Sbjct: 56  GIKVVCGSHPLELLDEDFCYXIK 78


  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    0.137    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,522,743
Number of Sequences: 62578
Number of extensions: 504395
Number of successful extensions: 1318
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1315
Number of HSP's gapped (non-prelim): 3
length of query: 430
length of database: 14,973,337
effective HSP length: 102
effective length of query: 328
effective length of database: 8,590,381
effective search space: 2817644968
effective search space used: 2817644968
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: 53 (25.0 bits)