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= psy12033
         (79 letters)

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

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



>pdb|4GBA|A Chain A, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
 pdb|4GBA|B Chain B, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
          Length = 221

 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 38/74 (51%), Positives = 50/74 (67%), Gaps = 4/74 (5%)

Query: 6   KFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIP 65
           +FTF+FGLDS  GQR L  ++AI LWKLVF+     +   +L  WLNFL+++   ++GI 
Sbjct: 101 RFTFQFGLDSEEGQRSLHREIAIALWKLVFTQ----NNPPVLDQWLNFLTENPSGIKGIS 156

Query: 66  RDTWNMFLTFYDTI 79
           RDTWNMFL F   I
Sbjct: 157 RDTWNMFLNFTQVI 170


>pdb|4GAO|A Chain A, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
 pdb|4GAO|B Chain B, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
 pdb|4GAO|D Chain D, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
 pdb|4GAO|G Chain G, Dcnl Complex With N-terminally Acetylated Nedd8 E2 Peptide
          Length = 200

 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 41/76 (53%), Gaps = 9/76 (11%)

Query: 4   FSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRG 63
           F +FTF F    + GQ+ L ++MA+  WKLV S R        L  W  FL +H    R 
Sbjct: 98  FYQFTFTFA--KNPGQKGLDLEMAVAYWKLVLSGRFK-----FLDLWNTFLMEHHK--RS 148

Query: 64  IPRDTWNMFLTFYDTI 79
           IPRDTWN+ L F + I
Sbjct: 149 IPRDTWNLLLDFGNMI 164


>pdb|3TDU|A Chain A, N-Terminal Acetylation Acts As An Avidity Enhancer Within
           An Interconnected Multiprotein Complex: Structure Of A
           Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
 pdb|3TDU|B Chain B, N-Terminal Acetylation Acts As An Avidity Enhancer Within
           An Interconnected Multiprotein Complex: Structure Of A
           Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
 pdb|3TDZ|A Chain A, N-Terminal Acetylation Acts As An Avidity Enhancer Within
           An Interconnected Multiprotein Complex: Structure Of A
           Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
 pdb|3TDZ|B Chain B, N-Terminal Acetylation Acts As An Avidity Enhancer Within
           An Interconnected Multiprotein Complex: Structure Of A
           Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
          Length = 200

 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 38/72 (52%), Gaps = 9/72 (12%)

Query: 4   FSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRG 63
           F +FTF F    + GQ+ L ++MAI  W LV + R        L  W  FL +H    R 
Sbjct: 98  FYQFTFNFA--KNPGQKGLDLEMAIAYWNLVLNGRFK-----FLDLWNKFLLEHHK--RS 148

Query: 64  IPRDTWNMFLTF 75
           IP+DTWN+ L F
Sbjct: 149 IPKDTWNLLLDF 160


>pdb|3KEV|A Chain A, X-Ray Crystal Structure Of A Dcun1 Domain-Containing
           Protein From Galdieria Sulfuraria
          Length = 199

 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 10/72 (13%)

Query: 4   FSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRG 63
           F +F F++  + S  QR LP + A  LW ++   R S     +L +WL FL  +TH    
Sbjct: 100 FYQFVFQYSKEPS--QRSLPAETAXALWDVLLRGRFS-----LLDSWLEFLKNNTH---S 149

Query: 64  IPRDTWNMFLTF 75
           I RDTWN+   F
Sbjct: 150 ISRDTWNLLYDF 161


>pdb|3O2P|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb)
 pdb|3O6B|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb) Low Resolution
 pdb|3O6B|C Chain C, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb) Low Resolution
 pdb|3O6B|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb) Low Resolution
 pdb|3O6B|G Chain G, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb) Low Resolution
 pdb|3O6B|I Chain I, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
           Dcn1(P)-Cdc53(Whb) Low Resolution
 pdb|3TDI|B Chain B, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
 pdb|3TDI|A Chain A, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
          Length = 202

 Score = 33.1 bits (74), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 7   FTFRFGLDSSCGQRILPIDMAIILWKLVFS----IRVSCDESFILTAWLNFLSQHTHVVR 62
           + + F L     ++ +  D  I  WKL F     +R+  D   +L AW  FL        
Sbjct: 100 YNYAFNLILDPNRKDIDTDEGIQYWKLFFQPEYPVRMEPD---LLEAWFRFLRDEGKTT- 155

Query: 63  GIPRDTWNMFLTFY 76
            I +DTW M L F+
Sbjct: 156 -ISKDTWRMLLLFF 168


>pdb|2IS9|A Chain A, Structure Of Yeast Dcn-1
          Length = 204

 Score = 33.1 bits (74), Expect = 0.040,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 7   FTFRFGLDSSCGQRILPIDMAIILWKLVFS----IRVSCDESFILTAWLNFLSQHTHVVR 62
           + + F L     ++ +  D  I  WKL F     +R+  D   +L AW  FL        
Sbjct: 102 YNYAFNLILDPNRKDIDTDEGIQYWKLFFQPEYPVRMEPD---LLEAWFRFLRDEGKTT- 157

Query: 63  GIPRDTWNMFLTFY 76
            I +DTW M L F+
Sbjct: 158 -ISKDTWRMLLLFF 170


>pdb|1U2C|A Chain A, Crystal Structure Of A-Dystroglycan
          Length = 246

 Score = 27.3 bits (59), Expect = 2.1,   Method: Composition-based stats.
 Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 37 IRVSCDESFILTAWLNFLSQHTHVVRGIPRDT 68
          I+VS      L +WL++   H+H++ G+P DT
Sbjct: 35 IKVSAAGKEALPSWLHW-DPHSHILEGLPLDT 65


  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
   0.335    0.145    0.493 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,338,820
Number of Sequences: 62578
Number of extensions: 68551
Number of successful extensions: 193
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 186
Number of HSP's gapped (non-prelim): 7
length of query: 79
length of database: 14,973,337
effective HSP length: 48
effective length of query: 31
effective length of database: 11,969,593
effective search space: 371057383
effective search space used: 371057383
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 45 (21.9 bits)