RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4372
         (50 letters)



>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
           mechanism,X-RAY ligase; 2.10A {Homo sapiens}
          Length = 380

 Score = 39.1 bits (92), Expect = 1e-05
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
             + ++GF  V P   L  F  +ELE + CG  
Sbjct: 230 FLALQKGFNEVIPQHLLKTFDEKELELIICGLG 262


>2oni_A E3 ubiquitin-protein ligase NEDD4-like protein; alpha and beta
           protein (A + B), E3 ligase, HECT domain, UBL-
           conjugation pathway; HET: MSE; 2.20A {Homo sapiens} PDB:
           3jvz_C 3jw0_C 2xbf_A 2xbb_A
          Length = 392

 Score = 38.7 bits (91), Expect = 1e-05
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
           M +F EGF  + P+  + +F   ELE + CG  
Sbjct: 249 MNAFLEGFTELLPIDLIKIFDENELELLMCGLG 281


>1nd7_A WW domain-containing protein 1; HECT, ubiquitin, ligase, WWP1;
           2.10A {Homo sapiens} SCOP: d.148.1.1 PDB: 3tug_A
          Length = 374

 Score = 38.3 bits (90), Expect = 2e-05
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
            ++F +GF  V PL  L  F  +ELE + CG  
Sbjct: 230 TKAFLDGFNEVVPLQWLQYFDEKELEVMLCGMQ 262


>3h1d_A E3 ubiquitin-protein ligase HUWE1; E3ligase, HECT, LOBE,
           alternative splicing, chromosomal rearrangement,
           cytoplasm, differentiation; 1.89A {Homo sapiens} PDB:
           3g1n_A
          Length = 405

 Score = 38.3 bits (90), Expect = 2e-05
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGSD 33
           + +F EGF  + P   +S+F  +ELE +  G  
Sbjct: 254 LAAFLEGFYEIIPKRLISIFTEQELELLISGLP 286


>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
           cerevisiae}
          Length = 429

 Score = 38.4 bits (90), Expect = 2e-05
 Identities = 9/32 (28%), Positives = 17/32 (53%)

Query: 1   MESFREGFECVFPLAQLSMFYPEELEYVFCGS 32
            ++F +GF  + P   +++F   ELE +  G 
Sbjct: 280 FKAFMDGFNELIPEDLVTVFDERELELLIGGI 311


>1c4z_A E6AP, ubiquitin-protein ligase E3A; bilobal structure, elongated
           shape, E3 ubiquitin ligase, E2 ubiquitin conjugating
           enzyme; 2.60A {Homo sapiens} SCOP: d.148.1.1 PDB: 1d5f_A
          Length = 358

 Score = 36.0 bits (84), Expect = 1e-04
 Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 1/34 (2%)

Query: 1   MESFREGFECVFPLAQLS-MFYPEELEYVFCGSD 33
            ++FR GF  V   + L  +F PEE+E + CGS 
Sbjct: 213 FKAFRRGFHMVTNESPLKYLFRPEEIELLICGSR 246


>2eja_A URO-D, UPD, uroporphyrinogen decarboxylase; dimer, X-RAY
           diffraction, structural genomics, NPPSFA; 1.90A {Aquifex
           aeolicus}
          Length = 338

 Score = 24.4 bits (54), Expect = 1.8
 Identities = 11/55 (20%), Positives = 16/55 (29%), Gaps = 22/55 (40%)

Query: 3   SFREGFECVFP----LAQLSMFYPEELEYV------------------FCGSDFT 35
            F EG          ++ L  + P +  YV                  F G+ FT
Sbjct: 88  EFVEGEGPKLSWSGKVSDLKKYDPSQNAYVYEIIKRVKEAQDEVPVIGFAGAPFT 142


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.331    0.142    0.486 

Gapped
Lambda     K      H
   0.267   0.0734    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 762,374
Number of extensions: 27127
Number of successful extensions: 73
Number of sequences better than 10.0: 1
Number of HSP's gapped: 72
Number of HSP's successfully gapped: 8
Length of query: 50
Length of database: 6,701,793
Length adjustment: 23
Effective length of query: 27
Effective length of database: 6,059,610
Effective search space: 163609470
Effective search space used: 163609470
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 51 (23.4 bits)