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= 019929
         (334 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 = 34.7 bits (78), Expect = 0.074,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 8/69 (11%)

Query: 226 LCEAVIPGAQKF-YCPFKDCSAMLIDDGEEVIQESECPNCRRLFCAQCQVPW---HSGIN 281
           L E V+    KF +C    CS   I + E++  E+ CP C + FC +C+  W   H G +
Sbjct: 14  LTEGVLMRDPKFLWCA--QCSFGFIYEREQL--EATCPQCHQTFCVRCKRQWEEQHRGRS 69

Query: 282 CVEFQKLNK 290
           C +FQ   +
Sbjct: 70  CEDFQNWKR 78


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

 Score = 33.9 bits (76), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 3/78 (3%)

Query: 148 GPFVCEICAEQKTVHKSFHIKGCSHAYCTDCMVKYVAAKLEENI-TAIRCPVVDC--RGL 204
           G   C++C  +  V +   I  C   +CT C+ +YV   ++E + TAI CP   C  +G 
Sbjct: 4   GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGH 63

Query: 205 LEPEYCRDILPQDVFDRW 222
           L+      ++  ++  R+
Sbjct: 64  LQENEIECMVAAEIMQRY 81


>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
           Of Human Zinc Finger Protein 297b
          Length = 110

 Score = 32.0 bits (71), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 6/49 (12%)

Query: 149 PFVCEICAEQKTVHKSFHIKGCSHAYCTDCMVKYVAAKLEENITAIRCP 197
           P+ C ICA++     SFH       + T C   Y AAK E+N T    P
Sbjct: 65  PYECNICAKRFMWRDSFH------RHVTSCTKSYEAAKAEQNTTEASGP 107


>pdb|4DUR|A Chain A, The X-Ray Crystal Structure Of Full-Length Type Ii Human
           Plasminogen
 pdb|4DUR|B Chain B, The X-Ray Crystal Structure Of Full-Length Type Ii Human
           Plasminogen
 pdb|4DUU|A Chain A, The X-Ray Crystal Structure Of Full-Length Type I Human
           Plasminogen
 pdb|4A5T|S Chain S, Structural Basis For The Conformational Modulation
          Length = 791

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 5/78 (6%)

Query: 185 AKLEENITAIRCPVVDCRGLLEPEYCRDILPQDVFDRWGAALCEAVIPGAQKFYCPFKDC 244
           A  E +  +I  P  + R  LE  YCR+    DV    G   C    P     YC    C
Sbjct: 487 AAQEPHRHSIFTPETNPRAGLEKNYCRNPD-GDV----GGPWCYTTNPRKLYDYCDVPQC 541

Query: 245 SAMLIDDGEEVIQESECP 262
           +A   D G+  ++  +CP
Sbjct: 542 AAPSFDCGKPQVEPKKCP 559


>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
 pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
          Length = 99

 Score = 28.1 bits (61), Expect = 6.6,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 10/57 (17%)

Query: 152 CEICAEQKTVHKSFHIKGCSHAYCTDCMVKYVAAKLEENITAIRCPVVDCRGLLEPE 208
           C IC E   +  +  I  CSH YC+ C+ K+++ K +       CP   C  + EP+
Sbjct: 25  CGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQ-------CPTC-CVTVTEPD 71


  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
   0.319    0.134    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,716,246
Number of Sequences: 62578
Number of extensions: 394232
Number of successful extensions: 925
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 919
Number of HSP's gapped (non-prelim): 23
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)