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= psy8228
         (149 letters)

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

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



>pdb|2RAD|A Chain A, Crystal Structure Of The Succinoglycan Biosynthesis
           Protein. Northeast Structural Genomics Consortium Target
           Bcr135
 pdb|2RAD|B Chain B, Crystal Structure Of The Succinoglycan Biosynthesis
           Protein. Northeast Structural Genomics Consortium Target
           Bcr135
 pdb|3B55|A Chain A, Crystal Structure Of The Q81bn2_baccr Protein From
           Bacillus Cereus. Nesg Target Bcr135
          Length = 451

 Score = 29.6 bits (65), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 19/80 (23%)

Query: 38  GVLKKIKLFQVFTSMKRQQCIRAFLTYKFIMAI----------------WLWKNWTLVDV 81
           G++   K    F S+ +++  +  L  K I A+                W+ +N  +++ 
Sbjct: 205 GLIPVTKDXNTFESLTKEEKEKYVLDAKTISALLEENKSYLNGKSKEFAWIKQNARIIEQ 264

Query: 82  FKTQVAKHPNKPA---LKHD 98
           F T +A  P+KPA   LKHD
Sbjct: 265 FTTXLATPPDKPADFYLKHD 284


>pdb|3ENO|A Chain A, Crystal Structure Of Pyrococcus Furiosus Pcc1 In Complex
           With Thermoplasma Acidophilum Kae1
 pdb|3ENO|B Chain B, Crystal Structure Of Pyrococcus Furiosus Pcc1 In Complex
           With Thermoplasma Acidophilum Kae1
          Length = 334

 Score = 28.1 bits (61), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 52/107 (48%), Gaps = 16/107 (14%)

Query: 4   ENVATSEVEDALSKIVQLKDAAVY-GVETSALNTLGVLKKIKLFQVFTSMKRQQCIRAFL 62
           E+++ S  E A + +V++ + A+Y   +   L   GV    +L  + T+M R+  IR++L
Sbjct: 223 EDISYSIQETAFAMLVEVLERALYVSGKDEILMAGGVALNRRLRDMVTNMAREAGIRSYL 282

Query: 63  TYK------FIM----AIWLWKNWTLVDVFKTQVAKHPNKPALKHDE 99
           T +       IM    A+ ++K+   + V +T V      P  + DE
Sbjct: 283 TDREYCMDNGIMIAQAALLMYKSGVRMSVEETAV-----NPRFRIDE 324


>pdb|3IVR|A Chain A, Crystal Structure Of Putative Long-Chain-Fatty-Acid Coa
           Ligase From Rhodopseudomonas Palustris Cga009
 pdb|3IVR|B Chain B, Crystal Structure Of Putative Long-Chain-Fatty-Acid Coa
           Ligase From Rhodopseudomonas Palustris Cga009
          Length = 509

 Score = 27.7 bits (60), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/27 (51%), Positives = 17/27 (62%)

Query: 3   GENVATSEVEDALSKIVQLKDAAVYGV 29
           GENV  +EVE AL +   + DA V GV
Sbjct: 407 GENVYPAEVEGALKQHPAIADAVVIGV 433


>pdb|2VSQ|A Chain A, Structure Of Surfactin A Synthetase C (Srfa-C), A
           Nonribosomal Peptide Synthetase Termination Module
          Length = 1304

 Score = 27.7 bits (60), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 82  FKTQVAKHPNKPALKHDEQTMSFQE 106
           FK  V  +P+ PAL +  QT+S++E
Sbjct: 470 FKEAVNANPDAPALTYSGQTLSYRE 494


>pdb|4DG8|A Chain A, Structure Of Pa1221, An Nrps Protein Containing
           Adenylation And Pcp Domains
 pdb|4DG9|A Chain A, Structure Of Holo-Pa1221, An Nrps Protein Containing
           Adenylation And Pcp Domains Bound To Vinylsulfonamide
           Inhibitor
          Length = 620

 Score = 26.9 bits (58), Expect = 4.8,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 33/68 (48%)

Query: 72  LWKNWTLVDVFKTQVAKHPNKPALKHDEQTMSFQECILKRSGFNENAFYFPEEPGILIGM 131
           L+ + T+V  F    A HP++ A++    ++ +++ +      ++       +PG+ +G+
Sbjct: 23  LYAHPTVVARFSEMAALHPHREAIRDRFGSVDYRQLLDSAEQLSDYLLEHYPQPGVCLGV 82

Query: 132 IKESRAES 139
             E   ES
Sbjct: 83  YGEYSRES 90


>pdb|1X9N|A Chain A, Crystal Structure Of Human Dna Ligase I Bound To
           5'-Adenylated, Nicked Dna
          Length = 688

 Score = 26.2 bits (56), Expect = 7.4,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 33/57 (57%), Gaps = 2/57 (3%)

Query: 2   RGENVATSEVEDALSKIVQLKDAAV--YGVETSALNTLGVLKKIKLFQVFTSMKRQQ 56
           R +   T +  D +S+I ++K  +V  + ++T A+      K+I+ FQV T+ KR++
Sbjct: 358 RNQEDNTGKYPDIISRIPKIKLPSVTSFILDTEAVAWDREKKQIQPFQVLTTRKRKE 414


  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
   0.322    0.135    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,155,578
Number of Sequences: 62578
Number of extensions: 144263
Number of successful extensions: 347
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 337
Number of HSP's gapped (non-prelim): 12
length of query: 149
length of database: 14,973,337
effective HSP length: 90
effective length of query: 59
effective length of database: 9,341,317
effective search space: 551137703
effective search space used: 551137703
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: 47 (22.7 bits)