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= 006578
         (640 letters)

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

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



>pdb|1IR6|A Chain A, Crystal Structure Of Exonuclease Recj Bound To Manganese
          Length = 424

 Score = 37.0 bits (84), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 35/143 (24%), Positives = 61/143 (42%), Gaps = 9/143 (6%)

Query: 336 GLSHSLPWDDLLNAFHTLGNQILYLWNTFLMFHRANRRKIMEYLRDAWASDRRAEWSIWM 395
           GL   L + DL           L+ WN  L+     +  +      +W   R    ++  
Sbjct: 164 GLPPPLEYADLAAVGTIADVAPLWGWNRALV-----KEGLARIPASSWVGLRLLAEAVGY 218

Query: 396 VYSKVELPHHFISSRVDESSYPGTRGKALSLRKFGISDDPAQSAAMRAELHRRSIAQMRI 455
               VE+    I+ R++ +S  G   KAL L    ++DD A++ A+  ELHR +  +  +
Sbjct: 219 TGKAVEVAFR-IAPRINAASRLGEAEKALRLL---LTDDAAEAQALVGELHRLNARRQTL 274

Query: 456 NNRSLQDMYIFGDPSSIPIVIVD 478
               L+ +    DP +  IV++D
Sbjct: 275 EEAMLRKLLPQADPEAKAIVLLD 297


>pdb|2ZXO|A Chain A, Crystal Structure Of Recj From Thermus Thermophilus Hb8
 pdb|2ZXP|A Chain A, Crystal Structure Of Recj In Complex With Mn2+ From
           Thermus Thermophilus Hb8
 pdb|2ZXR|A Chain A, Crystal Structure Of Recj In Complex With Mg2+ From
           Thermus Thermophilus Hb8
          Length = 666

 Score = 36.2 bits (82), Expect = 0.062,   Method: Compositional matrix adjust.
 Identities = 35/143 (24%), Positives = 61/143 (42%), Gaps = 9/143 (6%)

Query: 336 GLSHSLPWDDLLNAFHTLGNQILYLWNTFLMFHRANRRKIMEYLRDAWASDRRAEWSIWM 395
           GL   L + DL           L+ WN  L+     +  +      +W   R    ++  
Sbjct: 203 GLPPPLEYADLAAVGTIADVAPLWGWNRALV-----KEGLARIPASSWVGLRLLAEAVGY 257

Query: 396 VYSKVELPHHFISSRVDESSYPGTRGKALSLRKFGISDDPAQSAAMRAELHRRSIAQMRI 455
               VE+    I+ R++ +S  G   KAL L    ++DD A++ A+  ELHR +  +  +
Sbjct: 258 TGKAVEVAFR-IAPRINAASRLGEAEKALRLL---LTDDAAEAQALVGELHRLNARRQTL 313

Query: 456 NNRSLQDMYIFGDPSSIPIVIVD 478
               L+ +    DP +  IV++D
Sbjct: 314 EEAMLRKLLPQADPEAKAIVLLD 336


>pdb|2VKZ|G Chain G, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
            Synthase Type I Multienzyme Complex
 pdb|2VKZ|H Chain H, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
            Synthase Type I Multienzyme Complex
 pdb|2VKZ|I Chain I, Structure Of The Cerulenin-Inhibited Fungal Fatty Acid
            Synthase Type I Multienzyme Complex
 pdb|3HMJ|G Chain G, Saccharomyces Cerevisiae Fas Type I
 pdb|3HMJ|H Chain H, Saccharomyces Cerevisiae Fas Type I
 pdb|3HMJ|I Chain I, Saccharomyces Cerevisiae Fas Type I
 pdb|2UV8|G Chain G, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
            Acyl Carrier Protein At 3.1 Angstrom Resolution
 pdb|2UV8|H Chain H, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
            Acyl Carrier Protein At 3.1 Angstrom Resolution
 pdb|2UV8|I Chain I, Crystal Structure Of Yeast Fatty Acid Synthase With Stalled
            Acyl Carrier Protein At 3.1 Angstrom Resolution
          Length = 2051

 Score = 30.4 bits (67), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 5/78 (6%)

Query: 558  KIEFLMSEVNEDKTYGDFR-EMGQRLAEEVISFVKRKMDKAS----RSGNLRDIMLSFVG 612
            K E +  E+NE  T   FR E G   A +        M+KA+    +S  L     +F G
Sbjct: 1747 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG 1806

Query: 613  HSIGNIIIRAALAGVYTI 630
            HS+G     A+LA V +I
Sbjct: 1807 HSLGEYAALASLADVMSI 1824


>pdb|2PFF|B Chain B, Structural Insights Of Yeast Fatty Acid Synthase
 pdb|2PFF|E Chain E, Structural Insights Of Yeast Fatty Acid Synthase
 pdb|2PFF|H Chain H, Structural Insights Of Yeast Fatty Acid Synthase
          Length = 2006

 Score = 30.0 bits (66), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 5/78 (6%)

Query: 558  KIEFLMSEVNEDKTYGDFR-EMGQRLAEEVISFVKRKMDKAS----RSGNLRDIMLSFVG 612
            K E +  E+NE  T   FR E G   A +        M+KA+    +S  L     +F G
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG 1761

Query: 613  HSIGNIIIRAALAGVYTI 630
            HS+G     A+LA V +I
Sbjct: 1762 HSLGEYAALASLADVMSI 1779


  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    0.134    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,131,274
Number of Sequences: 62578
Number of extensions: 655561
Number of successful extensions: 1299
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1297
Number of HSP's gapped (non-prelim): 9
length of query: 640
length of database: 14,973,337
effective HSP length: 105
effective length of query: 535
effective length of database: 8,402,647
effective search space: 4495416145
effective search space used: 4495416145
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: 55 (25.8 bits)