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= 013938
         (433 letters)

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

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



>pdb|1XC3|A Chain A, Structure Of A Putative Fructokinase From Bacillus
           Subtilis
          Length = 302

 Score = 30.4 bits (67), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 4/67 (5%)

Query: 218 AELLEAIPKPFLS-LHLRFEPDMVAYSQCEYQG---LSPTSMQAIEAARGDRKPWTGEVA 273
             LL+ +  P +  +++R  PD V   +C Y G       S  AIEA  G +     ++A
Sbjct: 143 GRLLQGLSHPEMGHIYIRRHPDDVYQGKCPYHGDCFEGLASGPAIEARWGKKAADLSDIA 202

Query: 274 HIWRRRG 280
            +W   G
Sbjct: 203 QVWELEG 209


>pdb|3LUI|A Chain A, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
 pdb|3LUI|B Chain B, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
 pdb|3LUI|C Chain C, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
          Length = 115

 Score = 30.0 bits (66), Expect = 2.8,   Method: Composition-based stats.
 Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)

Query: 163 DYVESVLPALLEHKYISLTPA-MSQRRDRYPRFAKA 197
           +Y  +VLPA    K  SLTPA + QRR++  ++ +A
Sbjct: 53  EYGANVLPAFPPKKLFSLTPAEVEQRREQLEKYMQA 88


>pdb|1XT9|A Chain A, Crystal Structure Of Den1 In Complex With Nedd8
          Length = 212

 Score = 29.3 bits (64), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 19/39 (48%)

Query: 281 KCPLTPNETALILQALSIPTNTNIYLAAGDGLMEIEGLT 319
           KC   P E A+ L+ L +P    ++LA  D   +  G T
Sbjct: 63  KCTSNPAEIAMFLEPLDLPNKRVVFLAINDNSNQAAGGT 101


>pdb|3LM9|A Chain A, Crystal Structure Of Fructokinase With Adp And Fructose
           Bound In The Active Site
          Length = 302

 Score = 28.9 bits (63), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 4/67 (5%)

Query: 218 AELLEAIPKPFLS-LHLRFEPDMVAYSQCEYQG---LSPTSMQAIEAARGDRKPWTGEVA 273
             LL+ +  P    +++R  PD V   +C Y G       S  AIEA  G +     ++A
Sbjct: 143 GRLLQGLSHPEXGHIYIRRHPDDVYQGKCPYHGDCFEGLASGPAIEARWGKKAADLSDIA 202

Query: 274 HIWRRRG 280
            +W   G
Sbjct: 203 QVWELEG 209


>pdb|2BKQ|A Chain A, Nedd8 Protease
 pdb|2BKQ|B Chain B, Nedd8 Protease
 pdb|2BKQ|C Chain C, Nedd8 Protease
 pdb|2BKQ|D Chain D, Nedd8 Protease
 pdb|2BKR|A Chain A, Nedd8 Nedp1 Complex
          Length = 212

 Score = 28.9 bits (63), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 18/37 (48%)

Query: 281 KCPLTPNETALILQALSIPTNTNIYLAAGDGLMEIEG 317
           KC   P E A+ L+ L +P    ++LA  D   +  G
Sbjct: 63  KCTSNPAEIAMFLEPLDLPNKRVVFLAINDNSNQAAG 99


>pdb|3FOG|A Chain A, Crystal Structure Of The Px Domain Of Sorting Nexin-17
           (Snx17)
          Length = 115

 Score = 28.1 bits (61), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)

Query: 163 DYVESVLPALLEHKYISLTPA-MSQRRDRYPRFAKA 197
           +Y  +VLPA    K  SLTPA + QRR++  ++ +A
Sbjct: 50  EYGANVLPAFPPKKLFSLTPAEVEQRREQLEKYMQA 85


  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
   0.323    0.136    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,432,024
Number of Sequences: 62578
Number of extensions: 503577
Number of successful extensions: 1107
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1103
Number of HSP's gapped (non-prelim): 13
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)