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= 030849
         (170 letters)

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

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



>pdb|3MTR|A Chain A, Crystal Structure Of The Ig5-Fn1 Tandem Of Human Ncam
 pdb|3MTR|B Chain B, Crystal Structure Of The Ig5-Fn1 Tandem Of Human Ncam
          Length = 215

 Score = 31.6 bits (70), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 12/36 (33%), Positives = 20/36 (55%)

Query: 27  LVACDRSGSPSMEDIEAFCTTYRARLDEAEIAKSIP 62
           LV  D   SPS++ +E + +T + + DE E    +P
Sbjct: 108 LVQADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVP 143


>pdb|2VKX|A Chain A, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
 pdb|2VKX|B Chain B, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
 pdb|2VKX|C Chain C, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
 pdb|2VKX|D Chain D, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
 pdb|2VKX|E Chain E, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
 pdb|2VKX|F Chain F, Human Ncam, Fn3 Domains 1 And 2, M610r Mutant
          Length = 209

 Score = 30.4 bits (67), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 27 LVACDRSGSPSMEDIEAFCTTYRARLDEAEIAKSIP 62
          L   D   SPS++ +E + +T + + DE E    +P
Sbjct: 3  LAQADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVP 38


>pdb|2VKW|A Chain A, Human Ncam, Fn3 Domains 1 And 2
 pdb|2VKW|B Chain B, Human Ncam, Fn3 Domains 1 And 2
          Length = 209

 Score = 30.4 bits (67), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 27 LVACDRSGSPSMEDIEAFCTTYRARLDEAEIAKSIP 62
          L   D   SPS++ +E + +T + + DE E    +P
Sbjct: 3  LAQADTPSSPSIDQVEPYSSTAQVQFDEPEATGGVP 38


>pdb|4AH6|A Chain A, Human Mitochondrial Aspartyl-Trna Synthetase
 pdb|4AH6|B Chain B, Human Mitochondrial Aspartyl-Trna Synthetase
 pdb|4AH6|C Chain C, Human Mitochondrial Aspartyl-Trna Synthetase
 pdb|4AH6|D Chain D, Human Mitochondrial Aspartyl-Trna Synthetase
          Length = 617

 Score = 28.5 bits (62), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 7/64 (10%)

Query: 5   DEKKLKHRNRVLNNKMP------LWLTQLVACDRSGSPSMEDIEAFCTTYRARLDEAEIA 58
           D K L H  + L+   P      L L +L+ C  +GSPS+ D+ AF  ++R     +   
Sbjct: 521 DVKMLSHLLQALDYGAPPHGGIALGLDRLI-CLVTGSPSIRDVIAFPKSFRGHDLMSNTP 579

Query: 59  KSIP 62
            S+P
Sbjct: 580 DSVP 583


>pdb|2HAZ|A Chain A, Crystal Structure Of The First Fibronectin Domain Of
          Human Ncam1
          Length = 105

 Score = 28.5 bits (62), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 31 DRSGSPSMEDIEAFCTTYRARLDEAEIAKSIP 62
          D   SPS++ +E + +T + + DE E    +P
Sbjct: 5  DTPSSPSIDQVEPYSSTAQVQFDEPEATGGVP 36


>pdb|3FZ0|A Chain A, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|B Chain B, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|C Chain C, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|D Chain D, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
          Length = 360

 Score = 28.5 bits (62), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 126 TWGLADVRINREKAGKGRPLSKKQREWR--LNTTFDSLR-LVRLHSD 169
           TWG  D  +NRE    GR ++  Q +W+  +   F  L    R+H D
Sbjct: 217 TWGFYDKLVNRESTPNGR-VAVNQNKWQEFIEKLFQRLEAFTRIHDD 262


  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
   0.318    0.133    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,023,350
Number of Sequences: 62578
Number of extensions: 188528
Number of successful extensions: 468
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 464
Number of HSP's gapped (non-prelim): 7
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
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: 48 (23.1 bits)