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= psy16211
         (340 letters)

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

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



>pdb|4F99|A Chain A, Human Cdc7 Kinase In Complex With Dbf4 And Nucleotide
 pdb|4F9A|A Chain A, Human Cdc7 Kinase In Complex With Dbf4 And Nucleotide
 pdb|4F9A|C Chain C, Human Cdc7 Kinase In Complex With Dbf4 And Nucleotide
 pdb|4F9B|A Chain A, Human Cdc7 Kinase In Complex With Dbf4 And Pha767491
 pdb|4F9B|C Chain C, Human Cdc7 Kinase In Complex With Dbf4 And Pha767491
 pdb|4F9C|A Chain A, Human Cdc7 Kinase In Complex With Dbf4 And Xl413
          Length = 361

 Score = 33.1 bits (74), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 170 LRELFQFRYMQTDPNWSNFFYNKDTKQLILLDFG 203
           L+ + QF  +  D   SNF YN+  K+  L+DFG
Sbjct: 130 LKRIHQFGIVHRDVKPSNFLYNRRLKKYALVDFG 163


>pdb|2X4F|A Chain A, The Crystal Structure Of The Human Myosin Light Chain
           Kinase Loc340156.
 pdb|2X4F|B Chain B, The Crystal Structure Of The Human Myosin Light Chain
           Kinase Loc340156
          Length = 373

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 5/78 (6%)

Query: 136 ILTTELIEGVPV-DQCVDLDYESRKHICKLVM-ELC--LRELFQFRYMQTDPNWSNFF-Y 190
           +L  E ++G  + D+ +D  Y   +    L M ++C  +R + Q   +  D    N    
Sbjct: 162 VLVMEYVDGGELFDRIIDESYNLTELDTILFMKQICEGIRHMHQMYILHLDLKPENILCV 221

Query: 191 NKDTKQLILLDFGATRAY 208
           N+D KQ+ ++DFG  R Y
Sbjct: 222 NRDAKQIKIIDFGLARRY 239


>pdb|2QKW|B Chain B, Structural Basis For Activation Of Plant Immunity By
          Bacterial Effector Protein Avrpto
          Length = 321

 Score = 28.9 bits (63), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 20/26 (76%)

Query: 36 GQVHAGLLKDGTEVAMKIQYPGVAKG 61
          G+V+ G+L+DG +VA+K + P  ++G
Sbjct: 53 GKVYKGVLRDGAKVALKRRTPESSQG 78


>pdb|3HGK|A Chain A, Crystal Structure Of Effect Protein Avrptob Complexed
          With Kinase Pto
 pdb|3HGK|B Chain B, Crystal Structure Of Effect Protein Avrptob Complexed
          With Kinase Pto
 pdb|3HGK|C Chain C, Crystal Structure Of Effect Protein Avrptob Complexed
          With Kinase Pto
 pdb|3HGK|D Chain D, Crystal Structure Of Effect Protein Avrptob Complexed
          With Kinase Pto
          Length = 327

 Score = 28.9 bits (63), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 20/26 (76%)

Query: 36 GQVHAGLLKDGTEVAMKIQYPGVAKG 61
          G+V+ G+L+DG +VA+K + P  ++G
Sbjct: 53 GKVYKGVLRDGAKVALKRRTPESSQG 78


>pdb|2DF4|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Mn2+
 pdb|2DQN|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Asn
 pdb|2G5H|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
 pdb|2G5I|A Chain A, Structure Of Trna-dependent Amidotransferase Gatcab
           Complexed With Adp-alf4
 pdb|3IP4|A Chain A, The High Resolution Structure Of Gatcab
 pdb|2F2A|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
           Complexed With Gln
          Length = 485

 Score = 28.5 bits (62), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 12/79 (15%)

Query: 226 GDKDKVLT------ISRKM--GFLTGYESKIMEEAHVNTVMILSEVFSEKIGEFDFGGQD 277
           G KD ++T       + KM  GF+  YES +ME+ H    +++ ++    + EF  GG  
Sbjct: 77  GIKDNIITNGLETTCASKMLEGFVPIYESTVMEKLHKENAVLIGKL---NMDEFAMGGST 133

Query: 278 TTKRITELVPTILNHRLCP 296
            T    + V    +H+  P
Sbjct: 134 ETSYFKKTV-NPFDHKAVP 151


>pdb|3RR5|A Chain A, Dna Ligase From The Archaeon Thermococcus Sp. 1519
          Length = 570

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 22/44 (50%)

Query: 27  LKPFAAASIGQVHAGLLKDGTEVAMKIQYPGVAKGIESDIDNLI 70
           ++P  A +   V   L++ G E A +I+Y G    +  D D +I
Sbjct: 233 IRPMLAQNAASVKEALIEMGGEAAFEIKYDGARVQVHRDGDRVI 276


  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    0.139    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,629,762
Number of Sequences: 62578
Number of extensions: 446455
Number of successful extensions: 1092
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1088
Number of HSP's gapped (non-prelim): 12
length of query: 340
length of database: 14,973,337
effective HSP length: 99
effective length of query: 241
effective length of database: 8,778,115
effective search space: 2115525715
effective search space used: 2115525715
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: 52 (24.6 bits)