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= psy10339
         (476 letters)

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

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



>pdb|1SNL|A Chain A, Nmr Solution Structure Of The Calcium-Binding Domain Of
           Nucleobindin (Calnuc)
          Length = 103

 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 49/84 (58%)

Query: 256 LEEVWQEQDHMGNTEFNPKAFFAMHDLDGNHVWDEEEVKMLFLKELDKMYKEGMPQNDLX 315
           L+EVW+E D +    FNPK FF +HD++ + V DE+E++ LF KEL+K+Y     ++D+ 
Sbjct: 5   LKEVWEELDGLDPNRFNPKTFFILHDINSDGVLDEQELEALFTKELEKVYDPKNEEDDMR 64

Query: 316 XXXXXXXXXXXHVFKEADVNRDHL 339
                      HV K  D N+D L
Sbjct: 65  EMEEERLRMREHVMKNVDTNQDRL 88


>pdb|2AYN|A Chain A, Structure Of Usp14, A Proteasome-Associated
           Deubiquitinating Enzyme
 pdb|2AYN|B Chain B, Structure Of Usp14, A Proteasome-Associated
           Deubiquitinating Enzyme
 pdb|2AYN|C Chain C, Structure Of Usp14, A Proteasome-Associated
           Deubiquitinating Enzyme
 pdb|2AYO|A Chain A, Structure Of Usp14 Bound To Ubquitin Aldehyde
          Length = 404

 Score = 30.0 bits (66), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 86  YLNEVVEALESDPEFRKKLENASEADIRSGKIAQELEYVNHQVRSKLDELKRT 138
           Y+N  V+ + S PE +  L+  + A   SG++A   +Y+   +R   D + +T
Sbjct: 25  YMNATVQCIRSVPELKDALKRYAGALRASGEMASA-QYITAALRDLFDSMDKT 76


>pdb|2SAS|A Chain A, Structure Of A Sarcoplasmic Calcium-Binding Protein From
           Amphioxus Refined At 2.4 Angstroms Resolution
          Length = 185

 Score = 30.0 bits (66), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 10/17 (58%), Positives = 15/17 (88%)

Query: 389 ADVNRDRLISWEEFLEM 405
           AD+N+D ++SWEE+L M
Sbjct: 69  ADINKDDVVSWEEYLAM 85


>pdb|2ODU|A Chain A, Crystal Structure Of A Fragment Of The Plakin Domain Of
           Plectin
          Length = 235

 Score = 28.5 bits (62), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 387 KEADVNRDRLISWEEFLEMTRRQEFNQDPGWKPIDQEQVYSQAEVEAYERQRQ--AEVDR 444
           KEAD NR + I ++      +  +    PG+ P+D E+ + +  V   ER++Q  +E +R
Sbjct: 64  KEADKNRSKGI-YQSLEGAVQAGQLKVPPGYHPLDVEKEWGKLHVAILEREKQLRSEFER 122

Query: 445 L 445
           L
Sbjct: 123 L 123


>pdb|2ODV|A Chain A, Crystal Structure Of A Fragment Of The Plakin Domain Of
           Plectin, Cys To Ala Mutant
          Length = 235

 Score = 28.5 bits (62), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 387 KEADVNRDRLISWEEFLEMTRRQEFNQDPGWKPIDQEQVYSQAEVEAYERQRQ--AEVDR 444
           KEAD NR + I ++      +  +    PG+ P+D E+ + +  V   ER++Q  +E +R
Sbjct: 64  KEADKNRSKGI-YQSLEGAVQAGQLKVPPGYHPLDVEKEWGKLHVAILEREKQLRSEFER 122

Query: 445 L 445
           L
Sbjct: 123 L 123


  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
   0.316    0.134    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,820,575
Number of Sequences: 62578
Number of extensions: 481297
Number of successful extensions: 1530
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1524
Number of HSP's gapped (non-prelim): 15
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)