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= 028830
         (203 letters)

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

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



>pdb|2D9K|A Chain A, Solution Structure Of The Zf-Traf Domain Of Fln29 Gene
           Product
          Length = 75

 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 31/58 (53%)

Query: 78  HKGENCPQRIVTCDFCEFPLPAVDLAEHQEVCGNRTELCHLCNRYIRLRERYNHESRC 135
           H+   CP R+  C  C+  L  + L EH++ CG RTELC  C R + +++   H   C
Sbjct: 8   HEETECPLRLAVCQHCDLELSILKLKEHEDYCGARTELCGNCGRNVLVKDLKTHPEVC 65


>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein,
          Nmr, Minimized Structure
          Length = 113

 Score = 31.6 bits (70), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 9/68 (13%)

Query: 20 PSSNIDL-HFAHCSRNLERCKVCGDMVPRKYAEEHFLNTHAP-----VACSQCSETMERE 73
          P++N +   FA      E+C  CGD V   YA E  +    P       C++C +++E  
Sbjct: 20 PTTNPNTSKFAQKFGGAEKCSACGDSV---YAAEKVIGAGKPWHKNCFRCAKCGKSLEST 76

Query: 74 ILAIHKGE 81
           L   +GE
Sbjct: 77 TLTEKEGE 84


>pdb|3VPB|A Chain A, Argx From Sulfolobus Tokodaii Complexed With
           Lysw/glu/adp/mg/zn/sulfate
 pdb|3VPB|B Chain B, Argx From Sulfolobus Tokodaii Complexed With
           Lysw/glu/adp/mg/zn/sulfate
 pdb|3VPB|C Chain C, Argx From Sulfolobus Tokodaii Complexed With
           Lysw/glu/adp/mg/zn/sulfate
 pdb|3VPB|D Chain D, Argx From Sulfolobus Tokodaii Complexed With
           Lysw/glu/adp/mg/zn/sulfate
 pdb|3VPC|A Chain A, Argx From Sulfolobus Tokodaii Complexed With Adp
 pdb|3VPC|B Chain B, Argx From Sulfolobus Tokodaii Complexed With Adp
 pdb|3VPC|C Chain C, Argx From Sulfolobus Tokodaii Complexed With Adp
 pdb|3VPC|D Chain D, Argx From Sulfolobus Tokodaii Complexed With Adp
          Length = 282

 Score = 31.2 bits (69), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 20/70 (28%)

Query: 102 LAEHQEVCGNRTELCHLCNRYIRLRERYNHESRCTGVPENTVG-SSRNVRAAESDQGAHR 160
           + EH+E+ GN     H+   YI+ + R   + RC  + E  +G  +RN+           
Sbjct: 149 IIEHRELMGNSALKAHIVQEYIQYKGR---DIRCIAIGEELLGCYARNI----------- 194

Query: 161 RPAPPPPNEF 170
                PPNE+
Sbjct: 195 -----PPNEW 199


>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
 pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
          Length = 170

 Score = 30.0 bits (66), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 26/51 (50%)

Query: 59  APVACSQCSETMEREILAIHKGENCPQRIVTCDFCEFPLPAVDLAEHQEVC 109
           A + C QC    ++  + IH  ++CP+R V+CD C   +   D   H + C
Sbjct: 109 ALMDCPQCQRPFQKFHINIHILKDCPRRQVSCDNCAASMAFEDKEIHDQNC 159


>pdb|2YUC|A Chain A, Solution Structure Of The Traf-Type Zinc Finger Domains
           (102-164) From Human Tnf Receptor Associated Factor 4
          Length = 76

 Score = 28.1 bits (61), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 12/46 (26%), Positives = 21/46 (45%)

Query: 64  SQCSETMEREILAIHKGENCPQRIVTCDFCEFPLPAVDLAEHQEVC 109
           ++C   + R  L  H   +CP+R + C+FC           H+ +C
Sbjct: 21  NRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDFSGEAYESHEGMC 66


>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
          Of Human Transcriptional Repressor Ctcf
          Length = 86

 Score = 26.9 bits (58), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 21/80 (26%)

Query: 5  SDETTKICSHCDRAIPSSNI-DLHFAHCSRNLERCKVCGDMVPRKYAEEHFLNTHAPVAC 63
          + E    CSHCD+      + D+HF                  ++Y + +F+   A   C
Sbjct: 11 TGEKPYACSHCDKTFRQKQLLDMHF------------------KRYHDPNFVP--AAFVC 50

Query: 64 SQCSETMEREILAIHKGENC 83
          S+C +T  R        +NC
Sbjct: 51 SKCGKTFTRRNTMARHADNC 70


  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
   0.323    0.135    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,035,136
Number of Sequences: 62578
Number of extensions: 241281
Number of successful extensions: 418
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 400
Number of HSP's gapped (non-prelim): 26
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)