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= 031438
         (159 letters)

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

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



>pdb|2HL7|A Chain A, Crystal Structure Of The Periplasmic Domain Of Ccmh From
          Pseudomonas Aeruginosa
          Length = 84

 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 38/63 (60%)

Query: 17 RARNISRNVRCTDCGSQSIEDSQADIAILLRKLIRDEIQAGKTDKEVYKKLEDDFGETVL 76
          R RN+++ +RC  C +Q I DS A IA  LRK I  ++Q GK+D E+   +   +G+ V 
Sbjct: 19 RFRNLTQELRCPKCQNQDIADSNAPIAADLRKQIYGQLQQGKSDGEIVDYMVARYGDFVR 78

Query: 77 YAP 79
          Y P
Sbjct: 79 YKP 81


>pdb|2KW0|A Chain A, Solution Structure Of N-Terminal Domain Of Ccmh From
          Escherichia.Coli
          Length = 90

 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%)

Query: 10 KKQMADARARNISRNVRCTDCGSQSIEDSQADIAILLRKLIRDEIQAGKTDKEVYKKLED 69
          K +  + + R ++  +RC  C + SI DS + IA  LR+ + + +Q GK+ KE+   +  
Sbjct: 9  KDEAQEQQFRQLTEELRCPKCQNNSIADSNSMIATDLRQKVYELMQEGKSKKEIVDYMVA 68

Query: 70 DFGETVLYAP 79
           +G  V Y P
Sbjct: 69 RYGNFVTYDP 78


>pdb|1Y2M|A Chain A, Crystal Structure Of Phenylalanine Ammonia-Lyase From
           Yeast Rhododporidium Toruloides
 pdb|1Y2M|B Chain B, Crystal Structure Of Phenylalanine Ammonia-Lyase From
           Yeast Rhododporidium Toruloides
 pdb|1Y2M|C Chain C, Crystal Structure Of Phenylalanine Ammonia-Lyase From
           Yeast Rhododporidium Toruloides
 pdb|1Y2M|D Chain D, Crystal Structure Of Phenylalanine Ammonia-Lyase From
           Yeast Rhododporidium Toruloides
          Length = 716

 Score = 29.6 bits (65), Expect = 0.85,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 4/57 (7%)

Query: 38  SQADIAILLRKLIRDEIQAGKTDKEVYKKLEDDFGETVLYAPKFDLQTAALWLSPLL 94
           +Q ++A  +RKL+     A   ++EV  K++DD  E +L   ++ L+T+  WL PL+
Sbjct: 324 TQIEVAGNIRKLLEGSRFAVHHEEEV--KVKDD--EGILRQDRYPLRTSPQWLGPLV 376


>pdb|1T6J|A Chain A, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6J|B Chain B, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|A Chain A, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|B Chain B, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|C Chain C, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|D Chain D, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|E Chain E, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|F Chain F, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|G Chain G, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
 pdb|1T6P|H Chain H, Crystal Structure Of Phenylalanine Ammonia Lyase From
           Rhodosporidium Toruloides
          Length = 714

 Score = 29.6 bits (65), Expect = 0.85,   Method: Composition-based stats.
 Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 4/57 (7%)

Query: 38  SQADIAILLRKLIRDEIQAGKTDKEVYKKLEDDFGETVLYAPKFDLQTAALWLSPLL 94
           +Q ++A  +RKL+     A   ++EV  K++DD  E +L   ++ L+T+  WL PL+
Sbjct: 322 TQIEVAGNIRKLLEGSRFAVHHEEEV--KVKDD--EGILRQDRYPLRTSPQWLGPLV 374


>pdb|1XOC|A Chain A, The Structure Of The Oligopeptide-Binding Protein, Appa,
           From Bacillus Subtilis In Complex With A Nonapeptide
          Length = 520

 Score = 26.6 bits (57), Expect = 7.1,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 25/44 (56%)

Query: 36  EDSQADIAILLRKLIRDEIQAGKTDKEVYKKLEDDFGETVLYAP 79
           ++++AD  +   K I D  Q  K  +++Y+K+ +D   T LY P
Sbjct: 446 KNAEADKLMKDAKSISDRKQYSKEYEQIYQKIAEDQPYTFLYYP 489


  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
   0.317    0.132    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,772,295
Number of Sequences: 62578
Number of extensions: 133525
Number of successful extensions: 383
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 376
Number of HSP's gapped (non-prelim): 9
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)