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= 045262
         (594 letters)

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

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



>pdb|3SUA|D Chain D, Crystal Structure Of The Intracellular Domain Of Plexin-B1
           In Complex With Rac1
 pdb|3SUA|E Chain E, Crystal Structure Of The Intracellular Domain Of Plexin-B1
           In Complex With Rac1
 pdb|3SUA|F Chain F, Crystal Structure Of The Intracellular Domain Of Plexin-B1
           In Complex With Rac1
          Length = 633

 Score = 33.1 bits (74), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 7/67 (10%)

Query: 96  VVDNSMVGLSPS-SRHS-RDNNSYLLPEFNELVKEIDFGGPNVGYHPKKVIVTPKSDVEN 153
           V D + V L P  ++H  R+N  Y+  E   +++++D GG    +H    +V P  + E 
Sbjct: 339 VPDGATVALVPCLTKHVLRENQDYVPGERTPMLEDVDEGGIR-PWH----LVKPSDEPEP 393

Query: 154 PRPCRGS 160
           PRP RGS
Sbjct: 394 PRPRRGS 400


>pdb|3HM6|X Chain X, Crystal Structure Of The Cytoplasmic Domain Of Human
           Plexin B1
          Length = 644

 Score = 33.1 bits (74), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 7/67 (10%)

Query: 96  VVDNSMVGLSPS-SRHS-RDNNSYLLPEFNELVKEIDFGGPNVGYHPKKVIVTPKSDVEN 153
           V D + V L P  ++H  R+N  Y+  E   +++++D GG    +H    +V P  + E 
Sbjct: 350 VPDGATVALVPCLTKHVLRENQDYVPGERTPMLEDVDEGGIR-PWH----LVKPSDEPEP 404

Query: 154 PRPCRGS 160
           PRP RGS
Sbjct: 405 PRPRRGS 411


>pdb|3SU8|X Chain X, Crystal Structure Of A Truncated Intracellular Domain Of
           Plexin-B1 In Complex With Rac1
          Length = 611

 Score = 32.7 bits (73), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 7/67 (10%)

Query: 96  VVDNSMVGLSPS-SRHS-RDNNSYLLPEFNELVKEIDFGGPNVGYHPKKVIVTPKSDVEN 153
           V D + V L P  ++H  R+N  Y+  E   +++++D GG    +H    +V P  + E 
Sbjct: 317 VPDGATVALVPCLTKHVLRENQDYVPGERTPMLEDVDEGGIR-PWH----LVKPSDEPEP 371

Query: 154 PRPCRGS 160
           PRP RGS
Sbjct: 372 PRPRRGS 378


>pdb|1ISA|A Chain A, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
 pdb|1ISA|B Chain B, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
 pdb|1ISB|A Chain A, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
 pdb|1ISB|B Chain B, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
 pdb|1ISC|A Chain A, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
 pdb|1ISC|B Chain B, Structure-Function In E. Coli Iron Superoxide Dismutase:
           Comparisons With The Manganese Enzyme From T.
           Thermophilus
          Length = 192

 Score = 28.9 bits (63), Expect = 8.7,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 185 NLEVELLEYYGLKEQETIVMELQNRLKLNNMEGRLLNLKIESLQADNRRLEAQVADH 241
           ++  E +EY+  K  +T V  L N +K    EG+ L   I S +       AQV +H
Sbjct: 17  HISAETIEYHYGKHHQTYVTNLNNLIKGTAFEGKSLEEIIRSSEGGVFNNAAQVWNH 73


>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
 pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
          Length = 1080

 Score = 28.9 bits (63), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 2/77 (2%)

Query: 298  QSRLQRLKVLEAEAEDLRKSNMKLQLENSQLARRLESTQMLEISVLE--DGEREALNEMS 355
            +S ++RL++ E EA++     + LQ E ++L + L  TQ  + ++ E  D  +    ++ 
Sbjct: 966  RSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLV 1025

Query: 356  QRLREENTSLSKEVEKL 372
              L+E+NT L  E E+L
Sbjct: 1026 SELKEQNTLLKTEKEEL 1042


  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
   0.311    0.127    0.347 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,184,360
Number of Sequences: 62578
Number of extensions: 581125
Number of successful extensions: 1377
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1362
Number of HSP's gapped (non-prelim): 37
length of query: 594
length of database: 14,973,337
effective HSP length: 104
effective length of query: 490
effective length of database: 8,465,225
effective search space: 4147960250
effective search space used: 4147960250
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)