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= 042777
         (482 letters)

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

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



>pdb|3QFX|A Chain A, Trypanosoma Brucei Dihydrofolate Reductase Pyrimethamine
           Complex
 pdb|3QFX|B Chain B, Trypanosoma Brucei Dihydrofolate Reductase Pyrimethamine
           Complex
          Length = 241

 Score = 32.3 bits (72), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 384 QPESKDELETSKKKLEGATAKIRELRNRVEQAMTRADAAERAKAGLEDQIRR 435
            P  ++ +   +K  +    K R L NR+   ++R+   E+  AG+ D I+R
Sbjct: 73  SPSKRNAVVMGRKTWDSLPPKFRPLSNRLNVVLSRSATKEQLLAGIPDPIKR 124


>pdb|3RG9|A Chain A, Trypanosoma Brucei Dihydrofolate Reductase (Tbdhfr) In
           Complex With Wr99210
 pdb|3RG9|B Chain B, Trypanosoma Brucei Dihydrofolate Reductase (Tbdhfr) In
           Complex With Wr99210
          Length = 240

 Score = 32.3 bits (72), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 384 QPESKDELETSKKKLEGATAKIRELRNRVEQAMTRADAAERAKAGLEDQIRR 435
            P  ++ +   +K  +    K R L NR+   ++R+   E+  AG+ D I+R
Sbjct: 73  SPSKRNAVVMGRKTWDSLPPKFRPLSNRLNVVLSRSATKEQLLAGIPDPIKR 124


>pdb|4I6M|B Chain B, Structure Of Arp7-arp9-snf2(hsa)-rtt102 Subcomplex Of
           Swi/snf Chromatin Remodeler
          Length = 439

 Score = 30.8 bits (68), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 25/48 (52%)

Query: 386 ESKDELETSKKKLEGATAKIRELRNRVEQAMTRADAAERAKAGLEDQI 433
           E  +E++  K++ +G    I+ + NRV   +   D   +AKA  E+ I
Sbjct: 259 EKGNEIKVGKQRFQGCNNLIKNISNRVGLTLDNIDDINKAKAVWENII 306


>pdb|3CRX|A Chain A, Cre RecombinaseDNA COMPLEX INTERMEDIATE I
 pdb|3CRX|B Chain B, Cre RecombinaseDNA COMPLEX INTERMEDIATE I
          Length = 343

 Score = 28.5 bits (62), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 310 KKENVAKAEIVESALINTRVEFQQVDELENVTEEIREDQNGAFVVISAEEYDLLVKKA 367
           +KENV   E  + AL   R +F QV  L   ++  ++ +N AF+ I+   Y+ L+K A
Sbjct: 121 RKENVDAGERAKQALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIA---YNTLLKIA 175


>pdb|4CRX|A Chain A, Asymmetric Dna-Bending In The Cre-Loxp Site-Specific
           Recombination Synapse
 pdb|4CRX|B Chain B, Asymmetric Dna-Bending In The Cre-Loxp Site-Specific
           Recombination Synapse
          Length = 322

 Score = 28.5 bits (62), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 310 KKENVAKAEIVESALINTRVEFQQVDELENVTEEIREDQNGAFVVISAEEYDLLVKKA 367
           +KENV   E  + AL   R +F QV  L   ++  ++ +N AF+ I+   Y+ L+K A
Sbjct: 102 RKENVDAGERAKQALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIA---YNTLLKIA 156


>pdb|1XO0|A Chain A, High Resolution Structure Of The Holliday Junction
           Intermediate In Cre-Loxp Site-Specific Recombination
 pdb|1XO0|B Chain B, High Resolution Structure Of The Holliday Junction
           Intermediate In Cre-Loxp Site-Specific Recombination
          Length = 324

 Score = 28.5 bits (62), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 310 KKENVAKAEIVESALINTRVEFQQVDELENVTEEIREDQNGAFVVISAEEYDLLVKKA 367
           +KENV   E  + AL   R +F QV  L   ++  ++ +N AF+ I+   Y+ L+K A
Sbjct: 102 RKENVDAGERAKQALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIA---YNTLLKIA 156


>pdb|1PVP|A Chain A, Basis For A Switch In Substrate Specificity: Crystal
           Structure Of Selected Variant Of Cre Site-Specific
           Recombinase, Alshg Bound To The Engineered Recognition
           Site Loxm7
 pdb|1PVP|B Chain B, Basis For A Switch In Substrate Specificity: Crystal
           Structure Of Selected Variant Of Cre Site-Specific
           Recombinase, Alshg Bound To The Engineered Recognition
           Site Loxm7
          Length = 349

 Score = 28.5 bits (62), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 310 KKENVAKAEIVESALINTRVEFQQVDELENVTEEIREDQNGAFVVISAEEYDLLVKKA 367
           +KENV   E  + AL   R +F QV  L   ++  ++ +N AF+ I+   Y+ L++ A
Sbjct: 127 RKENVDAGERAKQALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIA---YNTLLRAA 181


  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
   0.310    0.125    0.318 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,416,040
Number of Sequences: 62578
Number of extensions: 358105
Number of successful extensions: 1694
Number of sequences better than 100.0: 86
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 59
Number of HSP's that attempted gapping in prelim test: 1587
Number of HSP's gapped (non-prelim): 153
length of query: 482
length of database: 14,973,337
effective HSP length: 103
effective length of query: 379
effective length of database: 8,527,803
effective search space: 3232037337
effective search space used: 3232037337
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)