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= 009393
         (535 letters)

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

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



>pdb|3QE7|A Chain A, Crystal Structure Of Uracil Transporter--Uraa
          Length = 429

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 4/148 (2%)

Query: 270 APWIRVPYPFQWGAPSFDAGESFAMMAASFVALVESTGAFIAVSRYASATPLPPSILSRG 329
           A W  +P  +    P F+      ++ A+ V + E  G  +  +       L    L R 
Sbjct: 210 AHWFALPTLYT---PRFEWFAILTILPAALVVIAEHVGHLVVTANIVKKDLLRDPGLHRS 266

Query: 330 IGWQGVGILISGMFGTGNGSSVSVENAGLLALTRVGSRRVVQISAGFMIFFSILGKFGAV 389
           +   G+  +ISG FG+   ++   EN G++A+TRV S  V+  +A F I  S +GK  A 
Sbjct: 267 MFANGLSTVISGFFGSTPNTTYG-ENIGVMAITRVYSTWVIGGAAIFAILLSCVGKLAAA 325

Query: 390 FASIPAPIVAALYCLFFAYVGAGGLSFL 417
              IP P++  +  L +  +GA G+  L
Sbjct: 326 IQMIPLPVMGGVSLLLYGVIGASGIRVL 353



 Score = 35.4 bits (80), Expect = 0.088,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 16/85 (18%)

Query: 30  AYCITSPPPWPEAILLGFQHYLVMLGTTVLIPT--HLVPQMGGGNEEKAKMIQTLLFVAG 87
           A  ++  PP  + I L  QH   M G TVL+P   H+ P              T+L   G
Sbjct: 5   AIGVSERPPLLQTIPLSLQHLFAMFGATVLVPVLFHINP-------------ATVLLFNG 51

Query: 88  LNTLFQTFFGT-RLPAVIGGSYTYV 111
           + TL   F    ++PA +G S+ ++
Sbjct: 52  IGTLLYLFICKGKIPAYLGSSFAFI 76


>pdb|3G65|B Chain B, Crystal Structure Of The Human Rad9-Rad1-Hus1 Dna Damage
           Checkpoint Complex
 pdb|3GGR|C Chain C, Crystal Structure Of The Human Rad9-Hus1-Rad1 Complex
          Length = 282

 Score = 32.3 bits (72), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 46/107 (42%), Gaps = 16/107 (14%)

Query: 343 FGTGNGSSVSVENAGLL---ALTRVG---SRRVVQISAGFMIFFSILGKFGAVFASIPAP 396
           F T NG  V+VENA  +   A  + G     +V + S  F I  ++L    ++F S P P
Sbjct: 43  FATKNGIKVTVENAKCVQANAFIQAGIFQEFKVQEESVTFRINLTVLLDCLSIFGSSPMP 102

Query: 397 IVAALYCLFFAYVGAGG--LSFLQ------FCNLNSFRTKFILGFSF 435
               L  L   Y G G   + FL+       C +N+   +  L F F
Sbjct: 103 --GTLTALRMCYQGYGYPLMLFLEEGGVVTVCKINTQEPEETLDFDF 147


>pdb|3U1B|A Chain A, Crystal Structure Of The S238r Mutant Of Mycrocine
           Immunity Protein (Mccf) With Amp
 pdb|3U1B|B Chain B, Crystal Structure Of The S238r Mutant Of Mycrocine
           Immunity Protein (Mccf) With Amp
          Length = 336

 Score = 28.9 bits (63), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 13/47 (27%), Positives = 22/47 (46%)

Query: 475 EPFVAGLLAYVLDVTLHKKDNATRKDRGMHWWDRFRSFKTDTRSEEF 521
           EPFV     Y L+  LH +       + + W D F +++  T+ +E 
Sbjct: 146 EPFVDDTYKYFLETLLHDQALPYNIKQPLFWSDEFINWEEKTKEKEL 192


  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
   0.326    0.142    0.445 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,027,328
Number of Sequences: 62578
Number of extensions: 680338
Number of successful extensions: 1498
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1493
Number of HSP's gapped (non-prelim): 7
length of query: 535
length of database: 14,973,337
effective HSP length: 103
effective length of query: 432
effective length of database: 8,527,803
effective search space: 3684010896
effective search space used: 3684010896
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)