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= 047095
         (188 letters)

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

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



>pdb|4EBY|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
           Kinase
 pdb|4EBZ|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
           Kinase
          Length = 212

 Score =  171 bits (433), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 83/164 (50%), Positives = 119/164 (72%), Gaps = 3/164 (1%)

Query: 13  DNILSFNPQVPDKDILSVGSRIKVPFKCNCINGQFLANNFSYKIISHDTYAKVAETYYAN 72
           D IL +N  + DKD + +GSR+ VPF C C  G FL +NFSY +   DTY +VA + YAN
Sbjct: 40  DPILRYNSNIKDKDRIQMGSRVLVPFPCECQPGDFLGHNFSYSVRQEDTYERVAISNYAN 99

Query: 73  LTTVDWLRANNIFPDNNIPDVNTTINVVVNCSCGDKKVSKDYGLFLTYPIELGENLSTIA 132
           LTT++ L+A N FP  NIP ++ T+NV+VNCSCGD+ VSKD+GLF+TYP+   ++LS+IA
Sbjct: 100 LTTMESLQARNPFPATNIP-LSATLNVLVNCSCGDESVSKDFGLFVTYPLRPEDSLSSIA 158

Query: 133 NMSGLSPELLQSYNRGSDFSS--GLVFIPEKDQSGKYPPLQMSR 174
             SG+S ++LQ YN G +F+S  G+V++P +D +G +PP + S+
Sbjct: 159 RSSGVSADILQRYNPGVNFNSGNGIVYVPGRDPNGAFPPFKSSK 202


>pdb|3RV1|A Chain A, Crystal Structure Of The N-Terminal And Rnase Iii Domains
           Of K. Polysporus Dcr1 E224q Mutant
 pdb|3RV1|B Chain B, Crystal Structure Of The N-Terminal And Rnase Iii Domains
           Of K. Polysporus Dcr1 E224q Mutant
          Length = 246

 Score = 28.1 bits (61), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 29/123 (23%), Positives = 50/123 (40%), Gaps = 36/123 (29%)

Query: 19  NPQVPDKDILSVGSRIKVPFKCNCINGQFLANNFSYKIISHDTYAKVAETYYANLTTVDW 78
           NP V D+++L++G+                 N   Y I++  T   VA+T   N  ++D 
Sbjct: 29  NPLVTDQNVLNLGTA---------------ENTIDYTILNTPTL-NVAKTLLGNRYSLDL 72

Query: 79  LRANNIFPDNNIPDVNTTINVVVNCSCGDKKVSKDYGLFLTYPIELGENLSTIANMSGLS 138
           +   ++F  ++  D NT                 D  +F+ YP+   ENL  +A M    
Sbjct: 73  I---DLFQSHDFKDSNT-----------------DVDMFIKYPVVYDENLENLAFMHKSF 112

Query: 139 PEL 141
           P +
Sbjct: 113 PNM 115


>pdb|3RV0|A Chain A, Crystal Structure Of K. Polysporus Dcr1 Without The
           C-Terminal Dsrbd
 pdb|3RV0|B Chain B, Crystal Structure Of K. Polysporus Dcr1 Without The
           C-Terminal Dsrbd
 pdb|3RV0|C Chain C, Crystal Structure Of K. Polysporus Dcr1 Without The
           C-Terminal Dsrbd
 pdb|3RV0|D Chain D, Crystal Structure Of K. Polysporus Dcr1 Without The
           C-Terminal Dsrbd
          Length = 341

 Score = 28.1 bits (61), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 29/123 (23%), Positives = 50/123 (40%), Gaps = 36/123 (29%)

Query: 19  NPQVPDKDILSVGSRIKVPFKCNCINGQFLANNFSYKIISHDTYAKVAETYYANLTTVDW 78
           NP V D+++L++G+                 N   Y I++  T   VA+T   N  ++D 
Sbjct: 29  NPLVTDQNVLNLGT---------------AENTIDYTILNTPTL-NVAKTLLGNRYSLDL 72

Query: 79  LRANNIFPDNNIPDVNTTINVVVNCSCGDKKVSKDYGLFLTYPIELGENLSTIANMSGLS 138
           +   ++F  ++  D NT                 D  +F+ YP+   ENL  +A M    
Sbjct: 73  I---DLFQSHDFKDSNT-----------------DVDMFIKYPVVYDENLENLAFMHKSF 112

Query: 139 PEL 141
           P +
Sbjct: 113 PNM 115


>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 = 26.9 bits (58), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 84  IFPDNNIPDVNTTINVVVNCSCGDKKVSKD-YGLFLTYPIELGENLS 129
           +F  NN P ++  +N +     G K +S+D + +FL +   +G +LS
Sbjct: 129 VFTQNNPPVLDQWLNFLTENPSGIKGISRDTWNMFLNFTQVIGPDLS 175


  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
   0.319    0.137    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,764,006
Number of Sequences: 62578
Number of extensions: 228904
Number of successful extensions: 541
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 537
Number of HSP's gapped (non-prelim): 17
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)