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= 020908
         (320 letters)

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

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



>pdb|3FHH|A Chain A, Crystal Structure Of The HemeHEMOGLOBIN OUTER MEMBRANE
           Transporter Shua From Shigella Dysenteriae
          Length = 640

 Score = 30.8 bits (68), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 199 RIWGLIDFDVEISFPLDLYSLPRGYQKQKSKDSDQPHIIT 238
           +IWG   +DV   +  DL+SL   Y + + KD+D    I+
Sbjct: 506 KIWG---WDVMTKYTTDLFSLDVAYNRTRGKDTDTGEYIS 542


>pdb|3LA8|A Chain A, The Crystal Structure Of Smu.1229 From Streptococcus
           Mutans Ua159
 pdb|3LBA|A Chain A, The Crystal Structure Of Smu.1229 From Streptococcus
           Mutans Ua159 Bound To Hypoxanthine
          Length = 303

 Score = 28.5 bits (62), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 51/124 (41%), Gaps = 21/124 (16%)

Query: 38  SDLKLALHDVLDSIGTDTTFAREAREGFYSQIKRLSNVERETSISINKCVDLGKTALHIA 97
           +D +   H V D IG       +  EG Y  +   S    ET   I     LG  A    
Sbjct: 194 ADYREVAHQVADKIGI------KLDEGVYIGV---SGPSYETPAEIRAFKTLGADA---- 240

Query: 98  AEDDSLISHSSVPLPVDALISQLDDLSVGYCSHYSSGFRS--SPESVLESIERYLFDKKG 155
                 +  S+VP  + A+ S L  L +   ++Y++GF+S  + E V+   ++   D KG
Sbjct: 241 ------VGMSTVPEVIVAVHSGLKVLGISAITNYAAGFQSELNHEEVVAVTQQIKEDFKG 294

Query: 156 FRRT 159
             + 
Sbjct: 295 LVKA 298


>pdb|3SE3|A Chain A, Human Ifna2-Ifnar Ternary Complex
 pdb|3SE4|A Chain A, Human Ifnw-Ifnar Ternary Complex
          Length = 414

 Score = 28.1 bits (61), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 1/39 (2%)

Query: 89  LGKTALHIAAEDDSLISHSSVPLPVDALISQLDDLSVGY 127
           +G   +H+ AED +++ H S P   D+++  LD LS  Y
Sbjct: 106 IGPPEVHLEAEDKAIVIHIS-PGTKDSVMWALDGLSFTY 143


>pdb|3CFZ|A Chain A, Crystal Structure Of M. Jannaschii Periplasmic Binding
           Protein ModaWTPA WITH BOUND TUNGSTATE
          Length = 292

 Score = 28.1 bits (61), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 60  EAREGFYSQIKRLSNVERETSISI---NKCVDLGKTALHIAAEDDSLISHSSVP 110
           E  E  + +     +VERE + S+    K +DLGK A  +A+ D SLI    +P
Sbjct: 20  EEYEKMFEKEHPNVDVEREPAGSVACVRKIIDLGKKADILASADYSLIPQMMMP 73


  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
   0.321    0.134    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,382,784
Number of Sequences: 62578
Number of extensions: 302019
Number of successful extensions: 621
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 621
Number of HSP's gapped (non-prelim): 4
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
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: 51 (24.3 bits)