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= 007717
         (591 letters)

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

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



>pdb|2X2E|A Chain A, Dynamin Gtpase Dimer, Long Axis Form
 pdb|2X2E|D Chain D, Dynamin Gtpase Dimer, Long Axis Form
 pdb|2X2F|A Chain A, Dynamin 1 Gtpase Dimer, Short Axis Form
 pdb|2X2F|D Chain D, Dynamin 1 Gtpase Dimer, Short Axis Form
          Length = 353

 Score = 31.6 bits (70), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 15  SDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           SD +N+   +V  ++DP+ +RTI V TKLD
Sbjct: 179 SDLANSDALKVAKEVDPQGQRTIGVITKLD 208


>pdb|3ZYC|A Chain A, Dynamin 1 Gtpase Ged Fusion Dimer Complexed With Gmppcp
 pdb|3ZYC|D Chain D, Dynamin 1 Gtpase Ged Fusion Dimer Complexed With Gmppcp
 pdb|3ZYS|A Chain A, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
 pdb|3ZYS|D Chain D, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
          Length = 353

 Score = 31.6 bits (70), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 15  SDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           SD +N+   +V  ++DP+ +RTI V TKLD
Sbjct: 179 SDLANSDALKVAKEVDPQGQRTIGVITKLD 208


>pdb|1JWY|B Chain B, Crystal Structure Of The Dynamin A Gtpase Domain Complexed
           With Gdp, Determined As Myosin Fusion
 pdb|1JX2|B Chain B, Crystal Structure Of The Nucleotide-Free Dynamin A Gtpase
           Domain, Determined As Myosin Fusion
          Length = 315

 Score = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 24/43 (55%)

Query: 2   QHREFIILCLEDCSDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           +    I+      +D +N+   ++  ++DPE KRTI V TKLD
Sbjct: 167 KQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLD 209


>pdb|3SNH|A Chain A, Crystal Structure Of Nucleotide-Free Human Dynamin1
          Length = 743

 Score = 31.2 bits (69), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 14/30 (46%), Positives = 21/30 (70%)

Query: 15  SDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           SD +N+   +V  ++DP+ +RTI V TKLD
Sbjct: 176 SDLANSDALKVAKEVDPQGQRTIGVITKLD 205


>pdb|2AKA|B Chain B, Structure Of The Nucleotide-Free Myosin Ii Motor Domain
           From Dictyostelium Discoideum Fused To The Gtpase Domain
           Of Dynamin 1 From Rattus Norvegicus
          Length = 299

 Score = 30.8 bits (68), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 15  SDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           SD +N+   ++  ++DP+ +RTI V TKLD
Sbjct: 174 SDLANSDALKIAKEVDPQGQRTIGVITKLD 203


>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
          Length = 772

 Score = 30.4 bits (67), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 15  SDWSNATTRRVVMQIDPELKRTIIVSTKLD 44
           SD +N+   ++  ++DP+ +RTI V TKLD
Sbjct: 199 SDLANSDALKIAKEVDPQGQRTIGVITKLD 228


>pdb|3V7P|A Chain A, Crystal Structure Of Amidohydrolase Nis_0429 (Target
           Efi-500396) From Nitratiruptor Sp. Sb155-2
          Length = 427

 Score = 30.0 bits (66), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 10/97 (10%)

Query: 90  HDSVYSSNEEFKQAIFIREMEDITSLEEKLGRSLSKQERSRIGVSKLRSFLEELLQKRYM 149
           H S    NE FK A+ I     +  +  K    ++K+  S + V     F+E   ++ ++
Sbjct: 162 HQSKKHENERFKAAVAIHSPYSVHYILAKRALDIAKKYGSLVSV----HFMESRAEREWL 217

Query: 150 DSVPMIIPLLEKEYCSTTRKLN------EINKELSTL 180
           D          KE+ + TR +N      E+ KEL TL
Sbjct: 218 DKGSGEFAKFFKEFLNQTRPVNDTKSFLELFKELHTL 254


  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
   0.320    0.135    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,372,840
Number of Sequences: 62578
Number of extensions: 586828
Number of successful extensions: 1384
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1378
Number of HSP's gapped (non-prelim): 7
length of query: 591
length of database: 14,973,337
effective HSP length: 104
effective length of query: 487
effective length of database: 8,465,225
effective search space: 4122564575
effective search space used: 4122564575
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)