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= 002338
         (934 letters)

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

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



>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
 pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
          Length = 425

 Score = 30.4 bits (67), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (6%)

Query: 344 RSREFV----KFETFDAALDEFYSKIESQRAEQQHKAKEDAAFHKLNKIHMDQENRVHTL 399
           R +E V    K    D    E   ++E+ R+E+   +KE     +  K   + +NRV  L
Sbjct: 21  RDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLSKEIGKLKREGKDTTEIQNRVKEL 80

Query: 400 KQEVDR 405
           K+E+DR
Sbjct: 81  KEEIDR 86


>pdb|3DOA|A Chain A, The Crystal Structure Of The Fibrinogen Binding Protein
           From Staphylococcus Aureus
          Length = 288

 Score = 30.0 bits (66), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)

Query: 47  VTESGESEKVLLLMESGV-RLHTTAYARDKKNTPSGFTLKLRKHIRTRRLEDVRQLGYDR 105
           V ++ ++ ++LL +     RL  T    D    P  F    RKH+    +E ++Q+G DR
Sbjct: 38  VRQNRQNHQLLLSIHPNFSRLQLTTKKYDNPFNPPMFARVFRKHLEGGIIESIKQIGNDR 97

Query: 106 II 107
            I
Sbjct: 98  RI 99


>pdb|1VKZ|A Chain A, Crystal Structure Of Phosphoribosylamine--Glycine Ligase
           (Tm1250) From Thermotoga Maritima At 2.30 A Resolution
 pdb|1VKZ|B Chain B, Crystal Structure Of Phosphoribosylamine--Glycine Ligase
           (Tm1250) From Thermotoga Maritima At 2.30 A Resolution
          Length = 412

 Score = 29.3 bits (64), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 814 KHGIETTQFDLSEEDKHVERTATVRDKPYISKAERRKLKKGQGSSVVDPKVE 865
           K+GI T +F+++E  + +         PY+ KA+   L +G+G  ++D K E
Sbjct: 116 KYGIRTARFEVAETPEELREKIKKFSPPYVIKAD--GLARGKGVLILDSKEE 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
   0.315    0.131    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,156,301
Number of Sequences: 62578
Number of extensions: 1067648
Number of successful extensions: 2559
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: 2556
Number of HSP's gapped (non-prelim): 8
length of query: 934
length of database: 14,973,337
effective HSP length: 108
effective length of query: 826
effective length of database: 8,214,913
effective search space: 6785518138
effective search space used: 6785518138
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 56 (26.2 bits)