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= 016289
         (392 letters)

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

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



>pdb|2ITM|A Chain A, Crystal Structure Of The E. Coli Xylulose Kinase Complexed
           With Xylulose
 pdb|2ITM|B Chain B, Crystal Structure Of The E. Coli Xylulose Kinase Complexed
           With Xylulose
 pdb|2NLX|A Chain A, Crystal Structure Of The Apo E. Coli Xylulose Kinase
 pdb|2NLX|B Chain B, Crystal Structure Of The Apo E. Coli Xylulose Kinase
          Length = 484

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 4/46 (8%)

Query: 112 GTSGQFFAILEAAMSSPTSCTDPSVRA---DYHALFTVAQDAAECL 154
           GTSG +FA+ E  +S P S       A    +H L +V   AA CL
Sbjct: 254 GTSGVYFAVSEGFLSKPESAVHSFCHALPQRWH-LMSVMLSAASCL 298


>pdb|2AE3|B Chain B, Glutaryl 7-Aminocephalosporanic Acid Acylase: Mutational
           Study Of Activation Mechanism
          Length = 528

 Score = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 5/65 (7%)

Query: 59  PQKSLRFKMTTDASDAQVIDAMQKIASHIKNPAKFGKASKLAIQMIQAGSVKPGTSGQFF 118
           PQ S R +     +D   +D   +I S +  P  F +A   A+ +  AG  +PG   Q+F
Sbjct: 100 PQASYRLRQ----ADGTTVDKPLEIRSSVHGPV-FERADGTAVAVRVAGLDRPGMLEQYF 154

Query: 119 AILEA 123
            ++ A
Sbjct: 155 DMITA 159


>pdb|3S8R|A Chain A, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
           Acylase: Insight Into Autoproteolytic Activation
 pdb|3S8R|B Chain B, Crystal Structures Of Glutaryl 7-Aminocephalosporanic Acid
           Acylase: Insight Into Autoproteolytic Activation
          Length = 697

 Score = 29.3 bits (64), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 5/65 (7%)

Query: 59  PQKSLRFKMTTDASDAQVIDAMQKIASHIKNPAKFGKASKLAIQMIQAGSVKPGTSGQFF 118
           PQ S R +     +D   +D   +I S +  P  F +A   A+ +  AG  +PG   Q+F
Sbjct: 269 PQASYRLRQ----ADGTTVDKPLEIRSSVHGPV-FERADGTAVAVRVAGLDRPGMLEQYF 323

Query: 119 AILEA 123
            ++ A
Sbjct: 324 DMITA 328


>pdb|3G0Q|A Chain A, Crystal Structure Of Muty Bound To Its Inhibitor Dna
          Length = 352

 Score = 29.3 bits (64), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 108 SVKPGTSGQFFAILEAAMSSPTSCTDPSVRADYHALFTVAQDAAECLSKKQKNQL 162
            V P T G   A+L  A   P    D +V      LF V  D A+C ++K+  Q+
Sbjct: 114 GVGPYTVG---AVLSLAYGVPEPAVDGNVMRVLSRLFLVTDDIAKCSTRKRFEQI 165


  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
   0.314    0.127    0.356 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,937,338
Number of Sequences: 62578
Number of extensions: 303692
Number of successful extensions: 763
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 760
Number of HSP's gapped (non-prelim): 8
length of query: 392
length of database: 14,973,337
effective HSP length: 101
effective length of query: 291
effective length of database: 8,652,959
effective search space: 2518011069
effective search space used: 2518011069
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)