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= 023728
         (278 letters)

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

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



>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
          Length = 69

 Score = 32.7 bits (73), Expect = 0.25,   Method: Composition-based stats.
 Identities = 12/21 (57%), Positives = 15/21 (71%)

Query: 211 CTVCLEQVNVGEIVRSLPCLH 231
           CT+CL  +  GE VR LPC+H
Sbjct: 17  CTICLSILEEGEDVRRLPCMH 37


>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
           Finger) Domain Of Ring Finger Protein 126
          Length = 78

 Score = 31.6 bits (70), Expect = 0.45,   Method: Composition-based stats.
 Identities = 17/37 (45%), Positives = 20/37 (54%), Gaps = 4/37 (10%)

Query: 199 SVGNLKTEDE----LTCTVCLEQVNVGEIVRSLPCLH 231
           S G+  TE+     L C VC E   +GE VR LPC H
Sbjct: 2   SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNH 38


>pdb|1UAA|A Chain A, E. Coli Rep HelicaseDNA COMPLEX
 pdb|1UAA|B Chain B, E. Coli Rep HelicaseDNA COMPLEX
          Length = 673

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 18/30 (60%)

Query: 200 VGNLKTEDELTCTVCLEQVNVGEIVRSLPC 229
           VG  + + ELT T+C E+   GE+VR  P 
Sbjct: 598 VGITRAQKELTFTLCKERRQYGELVRPEPS 627


>pdb|1L1L|A Chain A, Crystal Structure Of B-12 Dependent (Class Ii)
           Ribonucleotide Reductase
 pdb|1L1L|B Chain B, Crystal Structure Of B-12 Dependent (Class Ii)
           Ribonucleotide Reductase
 pdb|1L1L|C Chain C, Crystal Structure Of B-12 Dependent (Class Ii)
           Ribonucleotide Reductase
 pdb|1L1L|D Chain D, Crystal Structure Of B-12 Dependent (Class Ii)
           Ribonucleotide Reductase
          Length = 739

 Score = 27.7 bits (60), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 234 FCSSMQIALTHGCGNR--ERAQFANSEQDPVGMKPDKLKWMLHTWFS 278
            C+ +  A+  G   R  E A  +N +QD + MK D+ K M H W S
Sbjct: 304 ICNLIGKAVVAGNVRRSAELALGSNDDQDFISMKQDQEKLMHHRWAS 350


  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
   0.322    0.135    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,412,228
Number of Sequences: 62578
Number of extensions: 191346
Number of successful extensions: 283
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 279
Number of HSP's gapped (non-prelim): 4
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)