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= 025301
         (255 letters)

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

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



>pdb|3LCU|A Chain A, Crystal Structure Of Antibiotic Related Methyltransferase
 pdb|3LCV|B Chain B, Crystal Structure Of Antibiotic Related Methyltransferase
          Length = 281

 Score = 36.2 bits (82), Expect = 0.017,   Method: Compositional matrix adjust.
 Identities = 30/105 (28%), Positives = 48/105 (45%), Gaps = 12/105 (11%)

Query: 101 DAAD--KIKALLVDYDSIHVRRGDRLKTRKDRYGVDRSLFPHLDRDTRPEAILCRIKNWV 158
           DA D   ++A L+   S+H+   +RL    + Y   R LF HL R      + C +    
Sbjct: 91  DAGDDEAVRAALLRAXSVHISTRERLPHLDEFY---RELFRHLPRPNTLRDLACGLNPLA 147

Query: 159 PP-----GRTLFIASN--ERTPGFFSPLAVRYNLAYSSNFSDILD 196
            P       T++IAS+   R  GF      R N+ + +N +D+L+
Sbjct: 148 APWXGLPAETVYIASDIDARLVGFVDEALTRLNVPHRTNVADLLE 192


>pdb|1EI3|B Chain B, Crystal Structure Of Native Chicken Fibrinogen
 pdb|1EI3|E Chain E, Crystal Structure Of Native Chicken Fibrinogen
 pdb|1M1J|B Chain B, Crystal Structure Of Native Chicken Fibrinogen With Two
           Different Bound Ligands
 pdb|1M1J|E Chain E, Crystal Structure Of Native Chicken Fibrinogen With Two
           Different Bound Ligands
          Length = 464

 Score = 29.3 bits (64), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 182 RYNLAYSSNFSDILDLVVENNYQLFMVERLILMGARTFIKTYKEDDNDLSLTDDPKK 238
           +Y L+ S+   +  + ++E   QL+   R + +    +  TY + DND  LT DP+K
Sbjct: 341 KYQLSVSNYKGNAGNALMEGASQLYGENRTMTIHNGMYFSTY-DRDNDGWLTTDPRK 396


>pdb|3U43|A Chain A, Crystal Structure Of The Colicin E2 Dnase-Im2 Complex
          Length = 94

 Score = 28.9 bits (63), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 118 VRRGDRLKTRKDRYGVDRSLFPHLDRDTRPEAILCRIKNW-VPPGRTLF 165
           VR  +RL    D  G D   +P  DR+  PE I+  IK W    G++ F
Sbjct: 37  VREFERLTEHPD--GSDLIYYPRDDREDSPEGIVKEIKEWRAANGKSGF 83


>pdb|2WPT|A Chain A, The Crystal Structure Of Im2 In Complex With Colicin E9
           Dnase
          Length = 86

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 118 VRRGDRLKTRKDRYGVDRSLFPHLDRDTRPEAILCRIKNW-VPPGRTLF 165
           VR  +RL    D  G D   +P  DR+  PE I+  IK W    G++ F
Sbjct: 37  VREFERLTEHPD--GSDLIYYPRDDREDSPEGIVKEIKEWRAANGKSGF 83


>pdb|2NO8|A Chain A, Nmr Structure Analysis Of The Colicin Immuntiy Protein Im2
          Length = 86

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 118 VRRGDRLKTRKDRYGVDRSLFPHLDRDTRPEAILCRIKNW-VPPGRTLF 165
           VR  +RL    D  G D   +P  DR+  PE I+  IK W    G++ F
Sbjct: 37  VREFERLTEHPD--GSDLIYYPRDDREDSPEGIVKEIKEWRAANGKSGF 83


>pdb|1JB0|E Chain E, Crystal Structure Of Photosystem I: A Photosynthetic
           Reaction Center And Core Antenna System From
           Cyanobacteria
 pdb|3PCQ|E Chain E, Femtosecond X-Ray Protein Nanocrystallography
 pdb|4FE1|E Chain E, Improving The Accuracy Of Macromolecular Structure
           Refinement At 7 A Resolution
          Length = 75

 Score = 27.7 bits (60), Expect = 6.5,   Method: Composition-based stats.
 Identities = 14/46 (30%), Positives = 25/46 (54%)

Query: 166 IASNERTPGFFSPLAVRYNLAYSSNFSDILDLVVENNYQLFMVERL 211
           +AS ++TPG   P+ VR++    + +S     V  NN+ L  V+ +
Sbjct: 23  VASVDQTPGVKYPVIVRFDKVNYTGYSGSASGVNTNNFALHEVQEV 68


  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    0.136    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,512,027
Number of Sequences: 62578
Number of extensions: 293904
Number of successful extensions: 720
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 719
Number of HSP's gapped (non-prelim): 10
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
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: 50 (23.9 bits)