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= psy14745
         (854 letters)

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

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



>pdb|4FO9|A Chain A, Crystal Structure Of The E3 Sumo Ligase Pias2
          Length = 360

 Score = 84.7 bits (208), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 67/226 (29%), Positives = 104/226 (46%), Gaps = 21/226 (9%)

Query: 49  LELQLK-CFHHEDRQMNTNWPASVQVSVNA--------TPLMIDRGENKTSHRPLYLKEV 99
           +++QL+ C          N+P S+ + VN          P   +  E K   RPL +  +
Sbjct: 79  VQVQLRLCLAETSCPQEDNYPNSLCIKVNGKLFPLPGYAPPPKNGIEQKRPGRPLNITSL 138

Query: 100 CQPGR---NTIQIT-VSACCCSHLFVLQLVHRPSVKSVLQGLLRKRLLTADHCIAKIKRX 155
            +      N I I+  S    ++   + LV + +   +LQ L  K +   DH  A IK  
Sbjct: 139 VRLSSAVPNQISISWASEIGKNYSMSVYLVRQLTSAMLLQRLKMKGIRNPDHSRALIKEK 198

Query: 156 XXXXXXXXXXXXXXIEQTALKVSLKCPITFKKITLPARGHDCKHIQCFDLESYLQLNCER 215
                         I  T+L+VSL CP+   ++T+P R   C H+QCFD   YLQ+N ++
Sbjct: 199 LTADPDSE------IATTSLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKK 252

Query: 216 GSWRCPVCNKPAQLEGLEVDQYMWGILNTLNNSEVEEVTIDATANW 261
            +W CPVC+K A  E L +D     ILN  + S+V+E+      +W
Sbjct: 253 PTWICPVCDKKAAYESLILDGLFMEILN--DCSDVDEIKFQEDGSW 296


>pdb|3I2D|A Chain A, Crystal Structure Of S. Cerevisiae Sumo E3 Ligase Siz1
          Length = 371

 Score = 67.8 bits (164), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 52/89 (58%), Gaps = 1/89 (1%)

Query: 173 TALKVSLKCPITFKKITLPARGHDCKHIQCFDLESYLQLNCERGSWRCPVCNKPAQLEGL 232
           T+  +SL+CPI++ ++  P++  +CKH+QCFD   +L    +  +W+CPVC     LE L
Sbjct: 244 TSTIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENL 303

Query: 233 EVDQYMWGILNTLNNSEVEEVTIDATANW 261
            + +++  IL     + VE+V + +   W
Sbjct: 304 AISEFVDDILQNCQKN-VEQVELTSDGKW 331


>pdb|4GYJ|A Chain A, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1)
 pdb|4GYJ|B Chain B, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1)
 pdb|4GYK|A Chain A, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1211)
 pdb|4GYK|B Chain B, Crystal Structure Of Mutant (D318n) Bacillus Subtilus
           Family 3 Glycoside Hydrolase (Nagz) In Complex With
           Glcnac-Murnac (Space Group P1211)
          Length = 648

 Score = 30.0 bits (66), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 8/65 (12%)

Query: 263 VPRGMHVVKNEEDSESCANSKRGMCAGKAMSP-------GSMTLPTMSNWEMGQSMSPYI 315
           VPRG H+      +E+ A SKR + A + ++        G M +P   NW+     SP  
Sbjct: 15  VPRGSHMFFGARQTEASA-SKRAIDANQIVNRMSLDEKLGQMLMPDFRNWQKEGESSPQA 73

Query: 316 PPDMN 320
              MN
Sbjct: 74  LTKMN 78


  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
   0.317    0.133    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,234,300
Number of Sequences: 62578
Number of extensions: 706784
Number of successful extensions: 1308
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1306
Number of HSP's gapped (non-prelim): 8
length of query: 854
length of database: 14,973,337
effective HSP length: 107
effective length of query: 747
effective length of database: 8,277,491
effective search space: 6183285777
effective search space used: 6183285777
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)