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= 004844
         (728 letters)

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

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



>pdb|2YPD|A Chain A, Crystal Structure Of The Jumonji Domain Of Human Jumonji
           Domain Containing 1c Protein
 pdb|2YPD|B Chain B, Crystal Structure Of The Jumonji Domain Of Human Jumonji
           Domain Containing 1c Protein
          Length = 392

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 92/175 (52%), Gaps = 14/175 (8%)

Query: 301 FQKHWIKGEPVIVRNVLDKVTGLSWEPMVMWRALCENVDSEVSSKMSEVKAIDCLASCEV 360
           F++ W +G+P +V  V  K+       + +W+A  E++  +     +++  ++C  S   
Sbjct: 27  FKECWKQGQPAVVSGVHKKMN------ISLWKA--ESISLDFGDHQADL--LNCKDSIIS 76

Query: 361 EISTRQFFKGYTQ-GRTYDNFWPE--MLKLKDWPPSDKFEDLMPRHCDEFISALPFQEYS 417
             + ++F+ G+ +  +   N   E  +LKLKDWP  + F+ +MP   ++ + +LP  EY 
Sbjct: 77  NANVKEFWDGFEEVSKRQKNKSGETVVLKLKDWPSGEDFKTMMPARYEDLLKSLPLPEYC 136

Query: 418 DPRAGILNLAVKLPSGVLKPDLGPKTYIAYGVAEELGRGDSVTKLHCDMSDAVNI 472
           +P  G  NLA  LP   ++PDLGP+   AYGV          T LH ++SD VNI
Sbjct: 137 NPE-GKFNLASHLPGFFVRPDLGPRLCSAYGVVAAKDHDIGTTNLHIEVSDVVNI 190



 Score = 86.7 bits (213), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 53/130 (40%), Positives = 72/130 (55%), Gaps = 5/130 (3%)

Query: 571 GALWDIFRRQDVPKLEAYLRKHFKEFRHVYCSPVEQVIHPIHDQCFYXXXXXXXXXXXXF 630
           GALW I+  +DV K+  +L+K  KE + +   P      PI DQ +Y            +
Sbjct: 233 GALWHIYAGKDVDKIREFLQKISKE-QGLEVLPEHD---PIRDQSWYVNKKLRQRLLEEY 288

Query: 631 GVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLTKEFRLLPKN 690
           GV   T  Q LG+A+ +PAG  HQV+N  SC +V  DFVSPE++ E   LT+E RLL K 
Sbjct: 289 GVRTCTLIQFLGDAIVLPAGALHQVQNFHSCIQVTEDFVSPEHLVESFHLTQELRLL-KE 347

Query: 691 HRAREDKLEV 700
               +DKL+V
Sbjct: 348 EINYDDKLQV 357


>pdb|3LD8|A Chain A, Structure Of Jmjd6 And Fab Fragments
 pdb|3LDB|A Chain A, Structure Of Jmjd6 Complexd With Alpha-Ketoglutarate And
           Fab Fragment
          Length = 334

 Score = 34.7 bits (78), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)

Query: 639 QKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLT---------KEFRLLPK 689
           QK GE VF+P G  H V NL +   +  +F S  N       T         K +R+L +
Sbjct: 259 QKPGETVFVPGGWWHVVLNLDTTIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRILKQ 318

Query: 690 NH 691
            H
Sbjct: 319 EH 320


>pdb|3K2O|A Chain A, Structure Of An Oxygenase
 pdb|3K2O|B Chain B, Structure Of An Oxygenase
          Length = 336

 Score = 34.7 bits (78), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)

Query: 639 QKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLT---------KEFRLLPK 689
           QK GE VF+P G  H V NL +   +  +F S  N       T         K +R+L +
Sbjct: 260 QKPGETVFVPGGWWHVVLNLDTTIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRILKQ 319

Query: 690 NH 691
            H
Sbjct: 320 EH 321


>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
           10- Formyltetrahydrofolate Dehydrogenase
          Length = 310

 Score = 31.2 bits (69), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 21/39 (53%)

Query: 525 DTDVSEINDSELLPSGIRGEFKMSRDEMQGTAFTCPHSE 563
           D  VS + +  L P GI+G  +  R   +GTA  CP SE
Sbjct: 157 DDTVSTLYNRFLFPEGIKGMVQAVRLIAEGTAPRCPQSE 195


  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    0.137    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,703,070
Number of Sequences: 62578
Number of extensions: 908547
Number of successful extensions: 2038
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2030
Number of HSP's gapped (non-prelim): 8
length of query: 728
length of database: 14,973,337
effective HSP length: 106
effective length of query: 622
effective length of database: 8,340,069
effective search space: 5187522918
effective search space used: 5187522918
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: 55 (25.8 bits)