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= 035729
         (208 letters)

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

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



>pdb|2CT7|A Chain A, Solution Structure Of The Ibr Domain Of The Ring Finger
           Protein 31 Protein
          Length = 86

 Score = 30.4 bits (67), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 136 KAQCPNCKHWFCFRCKLKW---HGGYHCEESGNLRDRND 171
           +A CP C   FC RCK +W   H G  CE+  N +  N 
Sbjct: 43  EATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRMNS 81


>pdb|1WIM|A Chain A, Solution Structure Of The Ring Finger Domain Of The
          Human Ubcm4-Interacting Protein 4
          Length = 94

 Score = 28.1 bits (61), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 11/52 (21%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 49 FCQECIAKYIQVMVQDNNTAKIECPGLNC--QKNLDPFSCKPMIPSSLFSKW 98
          FC  C+ +Y+++++++     I CP   C  Q +L     + M+ + +  ++
Sbjct: 30 FCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQRY 81


>pdb|1LIT|A Chain A, Human Lithostathine
          Length = 144

 Score = 28.1 bits (61), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 18/32 (56%)

Query: 74  GLNCQKNLDPFSCKPMIPSSLFSKWCDLLCED 105
           G+    +++P  C  +  S+ F KW D+ CED
Sbjct: 103 GIGAPSSVNPGYCVSLTSSTGFQKWKDVPCED 134


>pdb|1QDD|A Chain A, Crystal Structure Of Human Lithostathine To 1.3 A
           Resolution
          Length = 144

 Score = 28.1 bits (61), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 18/32 (56%)

Query: 74  GLNCQKNLDPFSCKPMIPSSLFSKWCDLLCED 105
           G+    +++P  C  +  S+ F KW D+ CED
Sbjct: 103 GIGAPSSVNPGYCVSLTSSTGFQKWKDVPCED 134


>pdb|4ESJ|A Chain A, Restriction Endonuclease Dpni In Complex With Target Dna
 pdb|4ESJ|B Chain B, Restriction Endonuclease Dpni In Complex With Target Dna
          Length = 257

 Score = 26.9 bits (58), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 27/103 (26%), Positives = 40/103 (38%), Gaps = 16/103 (15%)

Query: 96  SKWCDLLCEDYVRGYERSYCPNRNCMALVVNECERKGRMKKAQCPNCKHWFCFRCKLKWH 155
           S+   +L ED+V  Y +SYCP  NC    +N  E    +    C +C   F  + K    
Sbjct: 20  SQKARILTEDWV--YRQSYCP--NCGNNPLNHFENNRPVADFYCNHCSEEFELKSK---- 71

Query: 156 GGYHCEESGNLRDR-NDIAFGQLAERMKWARCPGCGHCVQRKN 197
                   GN     ND A+  + +R++    P        KN
Sbjct: 72  -------KGNFSSTINDGAYATMMKRVQADNNPNFFFLTYTKN 107


  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
   0.326    0.138    0.489 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,337,688
Number of Sequences: 62578
Number of extensions: 250837
Number of successful extensions: 581
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 17
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 49 (23.5 bits)