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= 043519
         (130 letters)

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

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



>pdb|3DRX|A Chain A, X-Ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In High- Salt Buffer
 pdb|3DRX|B Chain B, X-Ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In High- Salt Buffer
 pdb|3DRX|C Chain C, X-Ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In High- Salt Buffer
 pdb|3DRX|D Chain D, X-Ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In High- Salt Buffer
 pdb|3DRX|E Chain E, X-Ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In High- Salt Buffer
 pdb|3DRY|A Chain A, X-ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In Low- Salt Buffer
 pdb|3DRY|B Chain B, X-ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In Low- Salt Buffer
 pdb|3DRY|C Chain C, X-ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In Low- Salt Buffer
 pdb|3DRY|D Chain D, X-ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In Low- Salt Buffer
 pdb|3DRY|E Chain E, X-ray Crystal Structure Of Human Kctd5 Protein
           Crystallized In Low- Salt Buffer
          Length = 202

 Score = 25.8 bits (55), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 65  GKLIVNGVVRNKDFILEAPFYNMTPITVL 93
           GKL++N  +  +  + EA FYN+T +  L
Sbjct: 77  GKLVINKDLAEEGVLEEAEFYNITSLIKL 105


>pdb|1B77|A Chain A, Building A Replisome Structure From Interacting Pieces: A
           Sliding Clamp Complexed With An Interaction Peptide From
           Dna Polymerase
 pdb|1B77|B Chain B, Building A Replisome Structure From Interacting Pieces: A
           Sliding Clamp Complexed With An Interaction Peptide From
           Dna Polymerase
 pdb|1B77|C Chain C, Building A Replisome Structure From Interacting Pieces: A
           Sliding Clamp Complexed With An Interaction Peptide From
           Dna Polymerase
 pdb|1B8H|A Chain A, Sliding Clamp, Dna Polymerase
 pdb|1B8H|B Chain B, Sliding Clamp, Dna Polymerase
 pdb|1B8H|C Chain C, Sliding Clamp, Dna Polymerase
          Length = 228

 Score = 25.8 bits (55), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 28/42 (66%), Gaps = 1/42 (2%)

Query: 64  EGKLIVNGVVRNKDFILEAPFYNMTPITVLENSNSYDLLVCL 105
           +GK+++NG  + +D  L  P Y++T +T  + SN+++ ++ +
Sbjct: 144 DGKIVINGYNKVEDSGLTRPKYSLT-LTDYDGSNNFNFVINM 184


>pdb|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
           From Bacteroides Thetaiotaomicron
 pdb|3RMG|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
           From Bacteroides Thetaiotaomicron
          Length = 334

 Score = 25.8 bits (55), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 14/65 (21%), Positives = 29/65 (44%)

Query: 65  GKLIVNGVVRNKDFILEAPFYNMTPITVLENSNSYDLLVCLDELADHIPSSLDFKYQHHG 124
           G+L VN +  NK  +L   +   T +   E +N+Y+++  +  L   +      +  +  
Sbjct: 98  GQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVS 157

Query: 125 NPSIA 129
           N S +
Sbjct: 158 NHSFS 162


>pdb|3DRZ|A Chain A, X-Ray Crystal Structure Of The N-Terminal Btb Domain Of
          Human Kctd5 Protein
 pdb|3DRZ|B Chain B, X-Ray Crystal Structure Of The N-Terminal Btb Domain Of
          Human Kctd5 Protein
 pdb|3DRZ|C Chain C, X-Ray Crystal Structure Of The N-Terminal Btb Domain Of
          Human Kctd5 Protein
 pdb|3DRZ|D Chain D, X-Ray Crystal Structure Of The N-Terminal Btb Domain Of
          Human Kctd5 Protein
 pdb|3DRZ|E Chain E, X-Ray Crystal Structure Of The N-Terminal Btb Domain Of
          Human Kctd5 Protein
          Length = 107

 Score = 25.4 bits (54), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 65 GKLIVNGVVRNKDFILEAPFYNMTPITVL 93
          GKL++N  +  +  + EA FYN+T +  L
Sbjct: 71 GKLVINKDLAEEGVLEEAEFYNITSLIKL 99


  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
   0.321    0.141    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,157,264
Number of Sequences: 62578
Number of extensions: 164991
Number of successful extensions: 355
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 352
Number of HSP's gapped (non-prelim): 4
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)