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= 020267
         (328 letters)

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

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



>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family
           Of Plant Myb-Related Dna Binding Motifs Of The
           Arabidopsis Response Regulators
          Length = 64

 Score = 57.0 bits (136), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/56 (53%), Positives = 39/56 (69%), Gaps = 1/56 (1%)

Query: 49  KQRLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYRLA 104
           K R+ WTHELH +F+ AV  LG  +RA PK +L +M V  LT  +V SHLQK+R+A
Sbjct: 5   KPRVLWTHELHNKFLAAVDHLG-VERAVPKKILDLMNVDKLTRENVASHLQKFRVA 59


>pdb|1DGS|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
           Filiformis
 pdb|1DGS|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
           Filiformis
          Length = 667

 Score = 31.2 bits (69), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 22/41 (53%)

Query: 61  RFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKY 101
           R +D V Q+G   R TP GVL  + ++G  +  V  H + Y
Sbjct: 321 RLLDVVFQVGRTGRVTPVGVLEPVFIEGSEVSRVTLHNESY 361


>pdb|1V9P|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase
 pdb|1V9P|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase
          Length = 584

 Score = 31.2 bits (69), Expect = 0.90,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 22/41 (53%)

Query: 61  RFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKY 101
           R +D V Q+G   R TP GVL  + ++G  +  V  H + Y
Sbjct: 324 RLLDVVFQVGRTGRVTPVGVLEPVFIEGSEVSRVTLHNESY 364


>pdb|3DZC|A Chain A, 2.35 Angstrom Resolution Structure Of Wecb (Vc0917), A
           Udp-N- Acetylglucosamine 2-Epimerase From Vibrio
           Cholerae.
 pdb|3DZC|B Chain B, 2.35 Angstrom Resolution Structure Of Wecb (Vc0917), A
           Udp-N- Acetylglucosamine 2-Epimerase From Vibrio
           Cholerae
          Length = 396

 Score = 27.7 bits (60), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 4/59 (6%)

Query: 248 LTPDSGCNVSSPSQSPKGERSMKKQRVDMETAYAKPEMVLTH----PILESSISSSYQQ 302
           +TPD   N+  P Q+  G  S     +    +  +P++VL H        +S+++ YQQ
Sbjct: 77  ITPDFDLNIMEPGQTLNGVTSKILLGMQQVLSSEQPDVVLVHGDTATTFAASLAAYYQQ 135


  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
   0.309    0.126    0.354 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,004,547
Number of Sequences: 62578
Number of extensions: 222869
Number of successful extensions: 328
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 323
Number of HSP's gapped (non-prelim): 5
length of query: 328
length of database: 14,973,337
effective HSP length: 99
effective length of query: 229
effective length of database: 8,778,115
effective search space: 2010188335
effective search space used: 2010188335
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.6 bits)