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= 031072
         (166 letters)

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

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



>pdb|3IXM|A Chain A, Structure Of The Gly74cys Mutant Of Arylmalonate
           Decarboxylase In The Sulfate Ion Associated Form
          Length = 240

 Score = 26.6 bits (57), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 10/50 (20%)

Query: 69  MAKFDTRVLFDSVVRAN----------LSYGGLVGLEGLTQEELFLWLPV 108
           MA+ DT  L D  VRA           LS GGL+ L+ + + E  L +PV
Sbjct: 159 MARVDTATLVDLCVRAFEAAPDSDGILLSCGGLLTLDAIPEVERRLGVPV 208


>pdb|3DG9|A Chain A, Crystal Structure Of Malonate Decarboxylase From
           Bordatella Bronchiseptica
 pdb|3IP8|A Chain A, Crystal Structure Of Arylmalonate Decarboxylase (Amdase)
           From Bordatella Bronchiseptic In Complex With
           Benzylphosphonate
          Length = 248

 Score = 26.6 bits (57), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 68  CMAKFDTRVLFDSVVRAN----------LSYGGLVGLEGLTQEELFLWLPV 108
            MA+ DT  L D  VRA           LS GGL+ L+ + + E  L +PV
Sbjct: 158 AMARVDTATLVDLCVRAFEAAPDSDGILLSCGGLLTLDAIPEVERRLGVPV 208


>pdb|3DTV|A Chain A, Crystal Structure Of Arylmalonate Decarboxylase
          Length = 240

 Score = 26.6 bits (57), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 68  CMAKFDTRVLFDSVVRAN----------LSYGGLVGLEGLTQEELFLWLPV 108
            MA+ DT  L D  VRA           LS GGL+ L+ + + E  L +PV
Sbjct: 158 AMARVDTATLVDLCVRAFEAAPDSDGILLSCGGLLTLDAIPEVERRLGVPV 208


>pdb|3DTV|B Chain B, Crystal Structure Of Arylmalonate Decarboxylase
 pdb|3DTV|C Chain C, Crystal Structure Of Arylmalonate Decarboxylase
          Length = 240

 Score = 26.6 bits (57), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 68  CMAKFDTRVLFDSVVRAN----------LSYGGLVGLEGLTQEELFLWLPV 108
            MA+ DT  L D  VRA           LS GGL+ L+ + + E  L +PV
Sbjct: 158 AMARVDTATLVDLCVRAFEAAPDSDGILLSCGGLLTLDAIPEVERRLGVPV 208


>pdb|2VLB|A Chain A, Structure Of Unliganded Arylmalonate Decarboxylase
 pdb|2VLB|B Chain B, Structure Of Unliganded Arylmalonate Decarboxylase
 pdb|2VLB|C Chain C, Structure Of Unliganded Arylmalonate Decarboxylase
 pdb|2VLB|D Chain D, Structure Of Unliganded Arylmalonate Decarboxylase
          Length = 251

 Score = 26.6 bits (57), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 68  CMAKFDTRVLFDSVVRAN----------LSYGGLVGLEGLTQEELFLWLPV 108
            MA+ DT  L D  VRA           LS GGL+ L+ + + E  L +PV
Sbjct: 160 AMARVDTATLVDLCVRAFEAAPDSDGILLSCGGLLTLDAIPEVERRLGVPV 210


>pdb|3DXT|A Chain A, Crystal Structure Of The Catalytic Core Domain Of Jmjd2d
          Length = 354

 Score = 26.2 bits (56), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 16/29 (55%)

Query: 40  LPGGLFPENVKSYNLDQNGRLEVYLEGPC 68
           + G LF EN K +NL   G ++  LE  C
Sbjct: 140 ISGSLFDENTKQWNLGHLGTIQDLLEKEC 168


>pdb|3DXU|A Chain A, The Crystal Structure Of Core Jmjd2d Complexed With Fe And
           N- Oxalylglycine
          Length = 337

 Score = 26.2 bits (56), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 16/29 (55%)

Query: 40  LPGGLFPENVKSYNLDQNGRLEVYLEGPC 68
           + G LF EN K +NL   G ++  LE  C
Sbjct: 133 ISGSLFDENTKQWNLGHLGTIQDLLEKEC 161


  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    0.143    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,315,382
Number of Sequences: 62578
Number of extensions: 161943
Number of successful extensions: 320
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 315
Number of HSP's gapped (non-prelim): 13
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
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: 47 (22.7 bits)