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= 033096
         (127 letters)

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

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



>pdb|3ZEY|W Chain W, High-resolution Cryo-electron Microscopy Structure Of The
           Trypanosoma Brucei Ribosome
          Length = 86

 Score = 33.5 bits (75), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 48  RRLLAYPRGA-RHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCF 105
           RRL+  P      VKC  C+ +  V+ +H   +VKC  CA LL  P G  ++  + C F
Sbjct: 23  RRLVQGPNSYFMDVKCPGCKNIT-VVYSHATSEVKCNGCATLLCRPTGGKAMLVTGCGF 80


>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
          Finger) Domain Tripartite Motif Protein 30
          Length = 85

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 4/57 (7%)

Query: 40 AQMVCGSCRRLLAYPRGA--RHVKCSCCQTVNFVLEAHQVGQVKCASCAVLLMYPYG 94
           ++ C  C  LL  P  A   H  C  C T+N+    +  G+  C  C V   YP+G
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV--PYPFG 72


>pdb|1V98|A Chain A, Crystal Structure Analysis Of Thioredoxin From Thermus
           Thermophilus
 pdb|1V98|B Chain B, Crystal Structure Analysis Of Thioredoxin From Thermus
           Thermophilus
          Length = 140

 Score = 26.6 bits (57), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)

Query: 44  CGSCRRLLAYPRGARHVKCSCCQT-VNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSS 102
           CG+  RL   P G   V C  C+T + +V+EA + G  +  + A L +  + AP   C  
Sbjct: 8   CGAKNRLGTPPPGQVPV-CGACKTPLPWVVEADEKGFAQEVAGAPLTLVDFFAPW--CGP 64

Query: 103 CCFVTEI 109
           C  V+ I
Sbjct: 65  CRLVSPI 71


>pdb|3FN8|A Chain A, Crystal Structure Of Merb Complexed With Mercury
 pdb|3FN8|B Chain B, Crystal Structure Of Merb Complexed With Mercury
          Length = 220

 Score = 25.4 bits (54), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 55  RGARHVKCSCCQT---VNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCFV 106
           R AR V   C  T   V+  +   ++  V+ A  AV L+ P  A  VR S CC V
Sbjct: 109 RTAR-VSSHCAATGAPVSLTVSPSEIQAVEPAGMAVSLVLPQEAADVRQSFCCHV 162


>pdb|1S6L|A Chain A, Solution Structure Of Merb, The Organomercurial Lyase
           Involved In The Bacterial Mercury Resistance System
 pdb|3F0O|A Chain A, Crystal Structure Of Merb, The Organomercurial Lyase
           Involved In A Bacterial Mercury Resistance System
 pdb|3F0O|B Chain B, Crystal Structure Of Merb, The Organomercurial Lyase
           Involved In A Bacterial Mercury Resistance System
 pdb|3F0P|A Chain A, Crystal Structure Of The Mercury-Bound Form Of Merb, The
           Organomercurial Lyase Involved In A Bacterial Mercury
           Resistance System
 pdb|3F0P|B Chain B, Crystal Structure Of The Mercury-Bound Form Of Merb, The
           Organomercurial Lyase Involved In A Bacterial Mercury
           Resistance System
 pdb|3F2F|A Chain A, Crystal Structure Of The Mercury-Bound Form Of Merb, The
           Organomercurial Lyase Involved In A Bacterial Mercury
           Resistance System
 pdb|3F2F|B Chain B, Crystal Structure Of The Mercury-Bound Form Of Merb, The
           Organomercurial Lyase Involved In A Bacterial Mercury
           Resistance System
          Length = 212

 Score = 25.4 bits (54), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 55  RGARHVKCSCCQT---VNFVLEAHQVGQVKCASCAVLLMYPYGAPSVRCSSCCFV 106
           R AR V   C  T   V+  +   ++  V+ A  AV L+ P  A  VR S CC V
Sbjct: 109 RTAR-VSSHCAATGAPVSLTVSPSEIQAVEPAGMAVSLVLPQEAADVRQSFCCHV 162


  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
   0.332    0.138    0.475 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,357,772
Number of Sequences: 62578
Number of extensions: 72940
Number of successful extensions: 195
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 191
Number of HSP's gapped (non-prelim): 16
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 45 (21.9 bits)