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= 037964
         (202 letters)

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

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



>pdb|3VTI|C Chain C, Crystal Structure Of Hype-Hypf Complex
 pdb|3VTI|D Chain D, Crystal Structure Of Hype-Hypf Complex
          Length = 314

 Score = 29.3 bits (64), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 3/47 (6%)

Query: 67  SLKIFED-LSHYQSVLSKSLCELRCLDSLKLVNESNMLGILQIDIAE 112
            +KI+E+ L   +SV  KS CE   +D L L NE  ++ +++ D AE
Sbjct: 219 GIKIYEEKLPVKESV--KSACEFMGIDFLHLANEGKVVVVVERDYAE 263


>pdb|3MTV|A Chain A, The Crystal Structure Of The Prrsv Nonstructural Protein
           Nsp1
          Length = 203

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 6   IDHTPEDIWKMHKLRHLN-FGYIKLHAHPGKYCSALENLNFISAL 49
           +D  P ++ +  ++RH N FGY   H  PGKY      +N + A+
Sbjct: 95  LDSLPPEV-QYKEIRHANQFGYQTKHGVPGKYLQRRLQVNGLRAV 138


>pdb|1CFR|A Chain A, Crystal Structure Of Citrobacter Freundii Restriction
           Endonuclease Cfr10i At 2.15 Angstroms Resolution
          Length = 285

 Score = 27.7 bits (60), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 6/82 (7%)

Query: 51  LSSCTRDILGRLPNLQSLKIFEDLSHYQSVLSKSLCELR---CLDSLKLVNESNMLGILQ 107
           L S T  I+ ++PN  S   F+ +S Y+S LS+ + +LR    L+++ L+  +    I+ 
Sbjct: 83  LESETNFIVVKMPNATS---FDVMSIYKSCLSEFIYDLRSKLSLNNVNLITSNPDFSIID 139

Query: 108 IDIAEYQFPQSLTHLSLTNTKL 129
           I     +    L  +S +N  L
Sbjct: 140 IRGRREELKSMLKDISFSNISL 161


>pdb|3A24|A Chain A, Crystal Structure Of Bt1871 Retaining Glycosidase
 pdb|3A24|B Chain B, Crystal Structure Of Bt1871 Retaining Glycosidase
          Length = 641

 Score = 27.3 bits (59), Expect = 5.4,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 29  LHAHPGKYCSALENLNFISALHLSSCTRDILGRLPNLQSL 68
           L  +PG Y SA E  N +S++H     R + G    LQ L
Sbjct: 191 LENYPGLYLSASEGANRLSSMHAPYPKRTVQGGHNQLQML 230


>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
          Length = 562

 Score = 26.9 bits (58), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 55/121 (45%), Gaps = 11/121 (9%)

Query: 16  MHKLRHLNFGYIKLHAHPGKYCSALENLNFISALHLSSCTRDILGRLP--NLQSLKIFED 73
           M  LRHL+  +      P   C    NL  ++ L LS+     L  LP  +L    I  D
Sbjct: 120 MASLRHLDLSFNDFDVLP--VCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLD 177

Query: 74  LSHY--QSVLSKSLCELRCLDSLKLVNESNMLGILQIDIAEYQFPQSLTHLSLTNTKLKD 131
           L  Y  +   ++SL ++     L LV   N L  +Q++++      +L HL L+N KL D
Sbjct: 178 LVSYHIKGGETESL-QIPNTTVLHLVFHPNSLFSVQVNMSV----NALGHLQLSNIKLND 232

Query: 132 D 132
           +
Sbjct: 233 E 233


  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
   0.323    0.137    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,798,615
Number of Sequences: 62578
Number of extensions: 195486
Number of successful extensions: 409
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 407
Number of HSP's gapped (non-prelim): 6
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 49 (23.5 bits)