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= 044496
         (142 letters)

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

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



>pdb|3MXN|B Chain B, Crystal Structure Of The Rmi Core Complex
 pdb|4DAY|B Chain B, Crystal Structure Of The Rmi Core Complex With Mm2 Peptide
           From Fancm
          Length = 150

 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 56/133 (42%), Gaps = 20/133 (15%)

Query: 8   LKLLCVQLK-DARESP-----SQNAVTLGGILFQRVWLQGVLVSPPXXXXXXXXXXXXXV 61
           LK+L  QL+ DA   P     S+ A   G +    VW+QG +V                 
Sbjct: 26  LKVLAEQLRRDAEGGPGAWRLSRAAAGRGPLDLAAVWMQGRVV----------MADRGEA 75

Query: 62  VQIYLSGDFRIR---RWNTGVFFFDFWMYVMVVGGFVIRTDDIPVIKVHKIVDLSAFPDR 118
                SGDF +R   R   G        YVMV+G  V      P ++  K+ DLS  P  
Sbjct: 76  RLRDPSGDFSVRGLERVPRGRPCLVPGKYVMVMG-VVQACSPEPCLQAVKMTDLSDNPIH 134

Query: 119 EAMWYLEVMEAYK 131
           E+MW LEV + ++
Sbjct: 135 ESMWELEVEDLHR 147


>pdb|3NBH|B Chain B, Crystal Structure Of Human Rmi1c-Rmi2 Complex
          Length = 147

 Score = 29.3 bits (64), Expect = 0.76,   Method: Compositional matrix adjust.
 Identities = 36/136 (26%), Positives = 51/136 (37%), Gaps = 26/136 (19%)

Query: 8   LKLLCVQLK-DARESP-----SQNAVTLGGILFQRVWLQGVLVSPPXXXXXXXXXXXXXV 61
           LK+L  QL+ DA   P     S+ A   G +    VW QG +V                 
Sbjct: 23  LKVLAEQLRRDAEGGPGAWRLSRAAAGRGPLDLAAVWXQGRVVX----------ADRGEA 72

Query: 62  VQIYLSGDFRIRRWNTGVFFFDFWMYVMVVGGFVIR------TDDIPVIKVHKIVDLSAF 115
                SGDF +R    G+         +V G +V            P ++  K  DLS  
Sbjct: 73  RLRDPSGDFSVR----GLERVPRGRPCLVPGKYVXVXGVVQACSPEPCLQAVKXTDLSDN 128

Query: 116 PDREAMWYLEVMEAYK 131
           P  E+ W LEV + ++
Sbjct: 129 PIHESXWELEVEDLHR 144


  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
   0.330    0.145    0.461 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,845,266
Number of Sequences: 62578
Number of extensions: 129495
Number of successful extensions: 210
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 208
Number of HSP's gapped (non-prelim): 2
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)