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= 010837
         (499 letters)

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

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



>pdb|3LIJ|A Chain A, Crystal Structure Of Full Length Cpcdpk3 (Cgd5_820) In
           Complex With Ca2+ And Amppnp
          Length = 494

 Score = 32.7 bits (73), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 300 IDDARRVF--DHMQQKNVFTWTSMIDGYGKNGNPNQALELFC-MMQECC 345
           +D+   VF  DH++ K   TW  MI G   N + +   E FC M+Q+ C
Sbjct: 445 VDELASVFGLDHLESK---TWKEMISGIDSNNDGDVDFEEFCKMIQKLC 490


>pdb|3L19|A Chain A, Crystal Structure Of Calcium Binding Domain Of Cpcdpk3,
           Cgd5_820
 pdb|3L19|B Chain B, Crystal Structure Of Calcium Binding Domain Of Cpcdpk3,
           Cgd5_820
          Length = 214

 Score = 32.3 bits (72), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 300 IDDARRVF--DHMQQKNVFTWTSMIDGYGKNGNPNQALELFC-MMQECC 345
           +D+   VF  DH++ K   TW  MI G   N + +   E FC M+Q+ C
Sbjct: 162 VDELASVFGLDHLESK---TWKEMISGIDSNNDGDVDFEEFCKMIQKLC 207


>pdb|1C1K|A Chain A, Bacteriophage T4 Gene 59 Helicase Assembly Protein
          Length = 217

 Score = 30.0 bits (66), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 19/34 (55%)

Query: 252 NAMIEGYSISIETARKALEVHCQLIKNVFFEDVK 285
           N +   YSI ++  RK L +  Q  KNVF E VK
Sbjct: 180 NLVWNNYSIKLKAYRKILNIDSQKAKNVFIETVK 213


>pdb|2RKW|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding
           Pocket Inside The Subunit B Mutant R416w Of The Energy
           Converter A1ao Atp Synthase
 pdb|2RKW|B Chain B, Intermediate Position Of Atp On Its Trail To The Binding
           Pocket Inside The Subunit B Mutant R416w Of The Energy
           Converter A1ao Atp Synthase
 pdb|3B2Q|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding
           Pocket Inside The Subunit B Mutant R416w Of The Energy
           Converter A1ao Atp Synthase
 pdb|3B2Q|B Chain B, Intermediate Position Of Atp On Its Trail To The Binding
           Pocket Inside The Subunit B Mutant R416w Of The Energy
           Converter A1ao Atp Synthase
 pdb|3EIU|A Chain A, A Second Transient Position Of Atp On Its Trail To The
           Nucleotide- Binding Site Of Subunit B Of The Motor
           Protein A1ao Atp Synthase
 pdb|3EIU|B Chain B, A Second Transient Position Of Atp On Its Trail To The
           Nucleotide- Binding Site Of Subunit B Of The Motor
           Protein A1ao Atp Synthase
          Length = 469

 Score = 28.9 bits (63), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 36/155 (23%), Positives = 65/155 (41%), Gaps = 7/155 (4%)

Query: 188 LYTALVDSY-----VKGGKTSYARIVFDMMLEKNVICSTSMISGFMSQGFVEDAEEIFRK 242
           +YT L   Y     VKG K S  +I    M   ++      +SG++++G +  A E+ RK
Sbjct: 285 MYTDLATLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRK 344

Query: 243 TVEKDIVVYNAMIEGYSISIETARKALEVHCQLIKNVFFEDVKLGSALVDMYAKCGKIDD 302
            +   I V  ++    +  I  A K  E H + + +  +     G  L  + A  GK   
Sbjct: 345 GIYPPINVLPSLSRLMNSGI-GAGKTREDH-KAVSDQMYAGYAEGRDLRGLVAIVGKEAL 402

Query: 303 ARRVFDHMQQKNVFTWTSMIDGYGKNGNPNQALEL 337
           + R    ++  ++F    +  G+ +N      LE+
Sbjct: 403 SERDTKFLEFADLFEDKFVRQGWNENRTIEDTLEI 437


>pdb|3RQT|A Chain A, 1.5 Angstrom Crystal Structure Of The Complex Of Ligand
           Binding Component Of Abc-Type Import System From
           Staphylococcus Aureus With Nickel And Two Histidines
          Length = 486

 Score = 28.9 bits (63), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 23/35 (65%)

Query: 433 DVEMANIAANEIFKLNANDRPGAYVALSNTLAAAG 467
           DV+  +  +N+I KL++ D P +Y+A ++ + AA 
Sbjct: 428 DVKERHNISNDIIKLSSRDVPNSYIAYNDQIVAAN 462


  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
   0.320    0.134    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,699,768
Number of Sequences: 62578
Number of extensions: 595036
Number of successful extensions: 1356
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1346
Number of HSP's gapped (non-prelim): 16
length of query: 499
length of database: 14,973,337
effective HSP length: 103
effective length of query: 396
effective length of database: 8,527,803
effective search space: 3377009988
effective search space used: 3377009988
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: 53 (25.0 bits)