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= 025342
         (254 letters)

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

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



>pdb|1U61|A Chain A, Crystal Structure Of Putative Ribonuclease Iii From
           Bacillus Cereus
          Length = 138

 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 4/117 (3%)

Query: 117 FNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
            N+ +LAY GD +YE Y R H L    +   + +    + V  + Q  ++  LL  ++L+
Sbjct: 10  LNSLALAYXGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLT 69

Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLY-LTNANRLEDVMSK 231
            EE  V+R G+N  S      +      Y  +++ E L GY + L N  RL++++ K
Sbjct: 70  EEEEAVLRRGRNANSGT--VPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYK 124


>pdb|2GSL|A Chain A, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1.
 pdb|2GSL|B Chain B, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1.
 pdb|2GSL|C Chain C, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1.
 pdb|2GSL|D Chain D, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1.
 pdb|2GSL|E Chain E, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1.
 pdb|2GSL|F Chain F, X-Ray Crystal Structure Of Protein Fn1578 From
           Fusobacterium Nucleatum. Northeast Structural Genomics
           Consortium Target Nr1
          Length = 137

 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 54/104 (51%), Gaps = 6/104 (5%)

Query: 117 FNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
           ++   LA++GD I+EL  R+++L    +I   N  V A V  + Q  + +K++ND     
Sbjct: 13  YSGLELAFLGDAIWELEIRKYYLQFGYNIPTLNKYVKAKVNAKYQSLIYKKIIND---LD 69

Query: 177 EERDVVRWGKNVGSANTRT-KRRAGAAVYNRASSLETLAGYLYL 219
           EE  V+  GK   ++N +T  R      Y  A++LE + G  YL
Sbjct: 70  EEFKVI--GKRAKNSNIKTFPRSCTVXEYKEATALEAIIGAXYL 111


>pdb|2BVU|A Chain A, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
 pdb|2BVU|B Chain B, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
 pdb|2BVU|C Chain C, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
 pdb|2BVU|D Chain D, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
          Length = 126

 Score = 28.9 bits (63), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 24/47 (51%)

Query: 125 IGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLND 171
           IG  I     RR  + PP  + +   +V+  V C+T +A  ++L ND
Sbjct: 41  IGWAIKTTNMRRLSVDPPCGVLDPKEKVLMAVSCDTFNAATERLNND 87


>pdb|3LSO|B Chain B, Crystal Structure Of Putative Membrane Anchored Protein
           From Corynebacterium Diphtheriae
          Length = 489

 Score = 28.1 bits (61), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 187 NVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMI 243
           +   + T T R   A  YN A   ET+   +   +  + ED  S  G  NGS+T ++
Sbjct: 255 DTSGSKTITARFIDAEGYNPAPDGETIIPVVTELDTKKPEDTDSYTGLINGSATSLL 311


>pdb|3LSO|A Chain A, Crystal Structure Of Putative Membrane Anchored Protein
           From Corynebacterium Diphtheriae
          Length = 489

 Score = 28.1 bits (61), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 26/57 (45%)

Query: 187 NVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMI 243
           +   + T T R   A  YN A   ET+   +   +  + ED  S  G  NGS+T ++
Sbjct: 255 DTSGSKTITARFIDAEGYNPAPDGETIIPVVTELDTKKPEDTDSYTGLINGSATSLL 311


  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
   0.317    0.131    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,823,212
Number of Sequences: 62578
Number of extensions: 196130
Number of successful extensions: 404
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 5
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)