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= 029912
         (185 letters)

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

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



>pdb|1RWZ|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From A. Fulgidus
 pdb|1RXM|A Chain A, C-Terminal Region Of Fen-1 Bound To A. Fulgidus Pcna
 pdb|1RXZ|A Chain A, C-Terminal Region Of A. Fulgidus Fen-1 Complexed With A.
           Fulgidus Pcna
 pdb|3P83|A Chain A, Structure Of The Pcna:rnase Hii Complex From Archaeoglobus
           Fulgidus.
 pdb|3P83|B Chain B, Structure Of The Pcna:rnase Hii Complex From Archaeoglobus
           Fulgidus.
 pdb|3P83|C Chain C, Structure Of The Pcna:rnase Hii Complex From Archaeoglobus
           Fulgidus
          Length = 245

 Score = 29.3 bits (64), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 76  HVRQVDPL-WPTVLDDVPRKPFQACNVDEFQVTG 108
           H R VDP     V+ D+P+  F+  N+DE +  G
Sbjct: 35  HSRAVDPANVAMVIVDIPKDSFEVYNIDEEKTIG 68


>pdb|3VF1|A Chain A, Structure Of A Calcium-Dependent 11r-Lipoxygenase
          Suggests A Mechanism For Ca-Regulation
 pdb|3VF1|B Chain B, Structure Of A Calcium-Dependent 11r-Lipoxygenase
          Suggests A Mechanism For Ca-Regulation
          Length = 698

 Score = 28.9 bits (63), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 16 LAMLAGGDEGAPKSKNKENCTYAVTIETTCTKGAETSNPVSLRF 59
          +A + GG +    S +  +  Y +T+ET   +GA T   VS++ 
Sbjct: 1  MASMTGGQQMGRGSMHHHHMKYKITVETGDLRGAGTDASVSIKL 44


>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
           Complex With N-Oxalylglycine
 pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
           Complex With N-Oxalylglycine
 pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
           Complex With Alpha-Ketoglutarate
 pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
           Complex With Alpha-Ketoglutarate
          Length = 488

 Score = 26.9 bits (58), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 53  NPVSLRFGDTKSTDILVKHLNSKHVRQVDPLWPTVLDDVPRKPF 96
           N +SL F DTK ++++     +K +  V+  WP   D V  KPF
Sbjct: 224 NVISLEFSDTKMSELVEVPDIAKKLSWVENYWPD--DSVFPKPF 265


>pdb|3KV9|A Chain A, Structure Of Kiaa1718 Jumonji Domain
 pdb|3KVA|A Chain A, Structure Of Kiaa1718 Jumonji Domain In Complex With
           Alpha- Ketoglutarate
 pdb|3KVB|A Chain A, Structure Of Kiaa1718 Jumonji Domain In Complex With N-
           Oxalylglycine
 pdb|3U78|A Chain A, E67-2 Selectively Inhibits Kiaa1718, A Human Histone H3
           Lysine 9 Jumonji Demethylase
          Length = 397

 Score = 26.6 bits (57), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 53  NPVSLRFGDTKSTDILVKHLNSKHVRQVDPLWPTVLDDVPRKPF 96
           N +SL F DTK ++++     +K +  V+  WP   D V  KPF
Sbjct: 133 NVISLEFSDTKMSELVEVPDIAKKLSWVENYWPD--DSVFPKPF 174


  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    0.139    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,910,870
Number of Sequences: 62578
Number of extensions: 239183
Number of successful extensions: 439
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 438
Number of HSP's gapped (non-prelim): 4
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)