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= 044987
         (368 letters)

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

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



>pdb|3QM2|A Chain A, 2.25 Angstrom Crystal Structure Of Phosphoserine
           Aminotransferase (Serc) From Salmonella Enterica Subsp.
           Enterica Serovar Typhimurium
 pdb|3QM2|B Chain B, 2.25 Angstrom Crystal Structure Of Phosphoserine
           Aminotransferase (Serc) From Salmonella Enterica Subsp.
           Enterica Serovar Typhimurium
          Length = 386

 Score = 29.3 bits (64), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)

Query: 213 GPVTNVDPIGNSPVIIRKDLLEKI---APTWMNVSLKMKDDP--ETDKTFGWVLEMYAYA 267
           G   N+ P G + VI+R+DLL K     P+ ++ ++   +D    T  TF W L    + 
Sbjct: 219 GAQKNIGPAGLTLVIVREDLLGKAHESCPSILDYTVLNDNDSMFNTPPTFAWYLSGLVFK 278

Query: 268 VASALHGV 275
              A  GV
Sbjct: 279 WLKAQGGV 286


>pdb|3RHA|A Chain A, The Crystal Structure Of Oxidoreductase From Arthrobacter
           Aurescens
 pdb|3RHA|B Chain B, The Crystal Structure Of Oxidoreductase From Arthrobacter
           Aurescens
          Length = 482

 Score = 28.1 bits (61), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 13/54 (24%)

Query: 143 IVLNRPWAFVQW--------LEKAKIDEEYILMAEPDHIFVR-----PLPNLSH 183
           +VLN P   ++W         E+A ++  +++MA P +++ R     PLP   H
Sbjct: 231 VVLNSPVRTIKWDENGVSVVSERATVNARFVIMAVPPNLYSRVSFDPPLPRRQH 284


>pdb|2OV6|A Chain A, The Nmr Structure Of Subunit F Of The Methanogenic A1ao
           Atp Synthase And Its Interaction With The
           Nucleotide-Binding Subunit B
          Length = 101

 Score = 28.1 bits (61), Expect = 8.1,   Method: Composition-based stats.
 Identities = 12/25 (48%), Positives = 17/25 (68%)

Query: 215 VTNVDPIGNSPVIIRKDLLEKIAPT 239
           V + D IGN P ++RK+L E + PT
Sbjct: 49  VMHNDDIGNLPEVLRKNLNESVQPT 73


>pdb|1BJN|A Chain A, Structure Of Phosphoserine Aminotransferase From
           Escherichia Coli
 pdb|1BJN|B Chain B, Structure Of Phosphoserine Aminotransferase From
           Escherichia Coli
 pdb|1BJO|B Chain B, The Structure Of Phosphoserine Aminotransferase From E.
           Coli In Complex With Alpha-Methyl-L-Glutamate
          Length = 360

 Score = 28.1 bits (61), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 7/72 (9%)

Query: 213 GPVTNVDPIGNSPVIIRKDLLEK---IAPTWMNVSLKMKDDPE---TDKTFGWVLEMYAY 266
           G   N+ P G + VI+R+DLL K     P+ ++ S+ + D+     T  TF W L    +
Sbjct: 193 GAQXNIGPAGLTIVIVREDLLGKANIACPSILDYSI-LNDNGSMFNTPPTFAWYLSGLVF 251

Query: 267 AVASALHGVQHI 278
               A  GV  +
Sbjct: 252 KWLKANGGVAEM 263


>pdb|3QBO|A Chain A, Crystal Structure Of Phosphoserine Aminotransferase From
           Yersinia Pestis Co92
 pdb|3QBO|B Chain B, Crystal Structure Of Phosphoserine Aminotransferase From
           Yersinia Pestis Co92
          Length = 364

 Score = 27.7 bits (60), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 213 GPVTNVDPIGNSPVIIRKDLLEK---IAPTWMNVSLKMKDDP--ETDKTFGWVLE 262
           G   N+ P G + VI+R+DLL K     P+ ++  +   +D    T  TF W L 
Sbjct: 197 GAQKNIGPAGLTLVIVREDLLGKAHTALPSILDYKILADNDSMFNTPPTFAWYLS 251


>pdb|1BJO|A Chain A, The Structure Of Phosphoserine Aminotransferase From E.
           Coli In Complex With Alpha-Methyl-L-Glutamate
          Length = 360

 Score = 27.7 bits (60), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 7/72 (9%)

Query: 213 GPVTNVDPIGNSPVIIRKDLLEK---IAPTWMNVSLKMKDDPE---TDKTFGWVLEMYAY 266
           G   N+ P G + VI+R+DLL K     P+ ++ S+ + D+     T  TF W L    +
Sbjct: 193 GAQKNIGPAGLTIVIVREDLLGKANIACPSILDYSI-LNDNGSMFNTPPTFAWYLSGLVF 251

Query: 267 AVASALHGVQHI 278
               A  GV  +
Sbjct: 252 KWLKANGGVAEM 263


  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
   0.320    0.139    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,854,762
Number of Sequences: 62578
Number of extensions: 534251
Number of successful extensions: 1088
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1087
Number of HSP's gapped (non-prelim): 7
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
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: 52 (24.6 bits)