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= 017446
         (371 letters)

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

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



>pdb|3IPL|A Chain A, Crystal Structure Of O-Succinylbenzoic Acid-Coa Ligase
           From Staphylococcus Aureus Subsp. Aureus Mu50
 pdb|3IPL|B Chain B, Crystal Structure Of O-Succinylbenzoic Acid-Coa Ligase
           From Staphylococcus Aureus Subsp. Aureus Mu50
 pdb|3IPL|C Chain C, Crystal Structure Of O-Succinylbenzoic Acid-Coa Ligase
           From Staphylococcus Aureus Subsp. Aureus Mu50
          Length = 501

 Score = 32.7 bits (73), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 2/84 (2%)

Query: 88  AIMTTRSMELNWKTRALQVLPIFLLPGLSALAYSAFVSFN-RMCDRKD-QKTLERLRVER 145
           AI    S+  +  T  L VLPI+ + GLS L  +    F  R+ D+ + ++ L  ++ ER
Sbjct: 192 AIGCKESLGFDRDTNWLSVLPIYHISGLSVLLRAVIEGFTVRIVDKFNAEQILTMIKNER 251

Query: 146 KAKIDELKERTNYYTTQQLIQRYD 169
              I  + +  N+   Q L + Y+
Sbjct: 252 ITHISLVPQTLNWLMQQGLHEPYN 275


>pdb|3R45|A Chain A, Structure Of A Cenp-A-Histone H4 Heterodimer In Complex
           With Chaperone Hjurp
          Length = 156

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 6/53 (11%)

Query: 61  RRSQTW----RRM--SRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVL 107
           RR Q W    R++  S HL+I  + F  +A    +  TR ++ NW+ +AL  L
Sbjct: 58  RRRQGWLKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLAL 110


>pdb|3AN2|A Chain A, The Structure Of The Centromeric Nucleosome Containing
           Cenp-A
 pdb|3AN2|E Chain E, The Structure Of The Centromeric Nucleosome Containing
           Cenp-A
          Length = 143

 Score = 29.6 bits (65), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 6/53 (11%)

Query: 61  RRSQTW----RRM--SRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVL 107
           RR Q W    R++  S HL+I  + F  +A    +  TR ++ NW+ +AL  L
Sbjct: 45  RRRQGWLKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLAL 97


>pdb|3NQU|A Chain A, Crystal Structure Of Partially Trypsinized (Cenp-AH4)2
           HETEROTETRAMER
          Length = 140

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 6/53 (11%)

Query: 61  RRSQTW----RRM--SRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVL 107
           RR Q W    R++  S HL+I  + F  +A    +  TR ++ NW+ +AL  L
Sbjct: 42  RRRQGWLKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLAL 94


>pdb|3UY8|A Chain A, Designed Protein Ke59 R5_115F
 pdb|3UY8|B Chain B, Designed Protein Ke59 R5_115F
          Length = 247

 Score = 28.1 bits (61), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 27/50 (54%)

Query: 42 EKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAIMT 91
          E+ L++  +   AI+A  KR+S +   + R  I +    E  AVG AI+T
Sbjct: 34 ERILEFNKRNNTAIIAVYKRKSPSGLDVERDPIEYAKFMERYAVGLAILT 83


  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    0.135    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,390,291
Number of Sequences: 62578
Number of extensions: 391359
Number of successful extensions: 889
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 881
Number of HSP's gapped (non-prelim): 22
length of query: 371
length of database: 14,973,337
effective HSP length: 100
effective length of query: 271
effective length of database: 8,715,537
effective search space: 2361910527
effective search space used: 2361910527
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)