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= 023096
         (287 letters)

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

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



>pdb|1VE5|A Chain A, Crystal Structure Of T.Th. Hb8 Threonine Deaminase
 pdb|1VE5|B Chain B, Crystal Structure Of T.Th. Hb8 Threonine Deaminase
 pdb|1VE5|C Chain C, Crystal Structure Of T.Th. Hb8 Threonine Deaminase
 pdb|1VE5|D Chain D, Crystal Structure Of T.Th. Hb8 Threonine Deaminase
          Length = 311

 Score = 31.2 bits (69), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 6/55 (10%)

Query: 139 DLVRRGQLRSDRRGISRPLKYED------PFNNPLVKVGKSNSTMEMCGKVYRLA 187
           ++V RG    +R  ++R L+ E       PF++PLV  G+  + +E+  +  R+ 
Sbjct: 113 EVVDRGVTAKNREEVARALQEETGYALIHPFDDPLVIAGQGTAGLELLAQAGRMG 167


>pdb|1QHB|A Chain A, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
 pdb|1QHB|B Chain B, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
 pdb|1QHB|C Chain C, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
 pdb|1QHB|D Chain D, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
 pdb|1QHB|E Chain E, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
 pdb|1QHB|F Chain F, Vanadium Bromoperoxidase From Red Alga Corallina
           Officinalis
          Length = 596

 Score = 29.3 bits (64), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 15/74 (20%)

Query: 52  VRDSASSNEDQNLESGKVAVAADTKTKDPVAKFQETLISLPPVAFVMKRHTRSSFAIGLS 111
           + DSASSNE QN+  G V+         P   F      L P+AF        S+  G +
Sbjct: 442 LDDSASSNEKQNIADGDVS---------PGKSF------LLPMAFAEGSPFHPSYGSGHA 486

Query: 112 LSTAFLVIVVRAFI 125
           +     V +++AF 
Sbjct: 487 VVAGACVTILKAFF 500


>pdb|1O7D|D Chain D, The Structure Of The Bovine Lysosomal A-Mannosidase
           Suggests A Novel Mechanism For Low Ph Activation
          Length = 282

 Score = 28.1 bits (61), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 17/28 (60%)

Query: 133 RPGSVEDLVRRGQLRSDRRGISRPLKYE 160
           R GS+E +V R  L+ D RG+  PL  E
Sbjct: 203 RDGSLELMVHRRLLKDDARGVGEPLNKE 230


>pdb|13PK|A Chain A, Ternary Complex Of Phosphoglycerate Kinase From
           Trypanosoma Brucei
 pdb|13PK|B Chain B, Ternary Complex Of Phosphoglycerate Kinase From
           Trypanosoma Brucei
 pdb|13PK|C Chain C, Ternary Complex Of Phosphoglycerate Kinase From
           Trypanosoma Brucei
 pdb|13PK|D Chain D, Ternary Complex Of Phosphoglycerate Kinase From
           Trypanosoma Brucei
 pdb|16PK|A Chain A, Phosphoglycerate Kinase From Trypanosoma Brucei
           Bisubstrate Analog
          Length = 415

 Score = 27.7 bits (60), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 5/65 (7%)

Query: 48  QLKAVRDSASSNEDQNLESGKVAVAADTKTKD----PVAKFQETLISLPPVAFVMKRHTR 103
           + KAV DS    EDQN+  G +A+    KT +     + K +  + + P   F M  +++
Sbjct: 289 EFKAV-DSPLITEDQNIPEGHMALDIGPKTIEKYVQTIGKCKSAIWNGPMGVFEMVPYSK 347

Query: 104 SSFAI 108
            +FAI
Sbjct: 348 GTFAI 352


  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
   0.319    0.132    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,813,035
Number of Sequences: 62578
Number of extensions: 292638
Number of successful extensions: 629
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 627
Number of HSP's gapped (non-prelim): 7
length of query: 287
length of database: 14,973,337
effective HSP length: 98
effective length of query: 189
effective length of database: 8,840,693
effective search space: 1670890977
effective search space used: 1670890977
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)