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= psy4181
         (73 letters)

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

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



>pdb|1UH6|A Chain A, Solution Structure Of The Murine Ubiquitin-Like 5 Protein
           From Riken Cdna 0610031k06
          Length = 100

 Score =  140 bits (352), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 65/73 (89%), Positives = 68/73 (93%)

Query: 1   MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60
           MIE+ CNDRLGKKVRVKCN DDTIGDLKKLIAAQTGTRW KIVLKKWYTIFKDH+ + DY
Sbjct: 28  MIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDY 87

Query: 61  EIHDGMNLELYYQ 73
           EIHDGMNLELYYQ
Sbjct: 88  EIHDGMNLELYYQ 100


>pdb|1P0R|A Chain A, Solution Structure Of Ubl5 A Human Ubiquitin-Like
          Protein
          Length = 93

 Score =  138 bits (348), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 65/73 (89%), Positives = 68/73 (93%)

Query: 1  MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60
          MIE+ CNDRLGKKVRVKCN DDTIGDLKKLIAAQTGTRW KIVLKKWYTIFKDH+ + DY
Sbjct: 21 MIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDY 80

Query: 61 EIHDGMNLELYYQ 73
          EIHDGMNLELYYQ
Sbjct: 81 EIHDGMNLELYYQ 93


>pdb|1M94|A Chain A, Solution Structure Of The Yeast Ubiquitin-Like Modifier
          Protein Hub1
          Length = 93

 Score = 96.3 bits (238), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 43/72 (59%), Positives = 56/72 (77%)

Query: 1  MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60
          MIE+  NDRLGKKVRVKC  +D++GD KK+++ Q GT+  KIVL+K  ++ KDHI + DY
Sbjct: 21 MIEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDY 80

Query: 61 EIHDGMNLELYY 72
          E+HD  NLELYY
Sbjct: 81 EVHDQTNLELYY 92


>pdb|3PLU|A Chain A, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
          (Hindi)
 pdb|3PLU|B Chain B, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
          (Hindi)
 pdb|3PLV|A Chain A, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
          (hindii)
          Length = 93

 Score = 95.9 bits (237), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 43/72 (59%), Positives = 56/72 (77%)

Query: 1  MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60
          MIE+  NDRLGKKVRVKC  +D++GD KK+++ Q GT+  KIVL+K  ++ KDHI + DY
Sbjct: 21 MIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDY 80

Query: 61 EIHDGMNLELYY 72
          E+HD  NLELYY
Sbjct: 81 EVHDQTNLELYY 92


>pdb|1JB0|B Chain B, Crystal Structure Of Photosystem I: A Photosynthetic
          Reaction Center And Core Antenna System From
          Cyanobacteria
 pdb|3PCQ|B Chain B, Femtosecond X-Ray Protein Nanocrystallography
 pdb|4FE1|B Chain B, Improving The Accuracy Of Macromolecular Structure
          Refinement At 7 A Resolution
          Length = 740

 Score = 27.3 bits (59), Expect = 1.9,   Method: Composition-based stats.
 Identities = 13/27 (48%), Positives = 14/27 (51%), Gaps = 4/27 (14%)

Query: 47 WYTIFKDHIRIMDYEIHDGMNLELYYQ 73
          WY I   H    D+E HDGM  E  YQ
Sbjct: 21 WYAIAMAH----DFESHDGMTEENLYQ 43


>pdb|1J8C|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Hplic-2
          Length = 125

 Score = 25.8 bits (55), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 12/50 (24%), Positives = 28/50 (56%)

Query: 21  DDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70
           + ++   K+ I+ +  ++ +++VL     I KD   ++ + IHDG+ + L
Sbjct: 51  NSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHL 100


  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
   0.324    0.141    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,358,665
Number of Sequences: 62578
Number of extensions: 77839
Number of successful extensions: 186
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 181
Number of HSP's gapped (non-prelim): 11
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)