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= 045101
         (153 letters)

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

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



>pdb|1YYC|A Chain A, Solution Structure Of A Putative Late Embryogenesis
           Abundant (Lea) Protein At2g46140.1
          Length = 174

 Score =  194 bits (494), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 89/151 (58%), Positives = 120/151 (79%)

Query: 1   MAQLVDKAKNYVTDKVTNMRKPEASLSKFRLKGVSREGVDYLADVSIDNPYSHSIPICEI 60
           ++ L+DKAK +  +K+ N+  PEA++     KGV+R+GVDY A VS+ NPYS SIPIC+I
Sbjct: 24  ISSLLDKAKGFFAEKLANIPTPEATVDDVDFKGVTRDGVDYHAKVSVKNPYSQSIPICQI 83

Query: 61  SYVLKSDGRVIATGTIPDPGSIKGNDKTVLNVPVKVPHSVLVSLVKDIARDWDIDYLLEV 120
           SY+LKS  R IA+GTIPDPGS+ G+  TVL+VPVKV +S+ VSL+KD+  DWDIDY L++
Sbjct: 84  SYILKSATRTIASGTIPDPGSLVGSGTTVLDVPVKVAYSIAVSLMKDMCTDWDIDYQLDI 143

Query: 121 GLIIDLPLIGNFTIPLSTQGEVKLPTLTDFF 151
           GL  D+P++G+ TIP+STQGE+KLP+L DFF
Sbjct: 144 GLTFDIPVVGDITIPVSTQGEIKLPSLRDFF 174


>pdb|1XO8|A Chain A, Solution Structure Of At1g01470 From Arabidopsis Thaliana
          Length = 151

 Score =  194 bits (493), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 89/151 (58%), Positives = 117/151 (77%)

Query: 1   MAQLVDKAKNYVTDKVTNMRKPEASLSKFRLKGVSREGVDYLADVSIDNPYSHSIPICEI 60
           MA L+DKAK++V DK+T + KPE S++   LK V+R+ V+YLA VS+ NPYSHSIPICEI
Sbjct: 1   MASLLDKAKDFVADKLTAIPKPEGSVTDVDLKDVNRDSVEYLAKVSVTNPYSHSIPICEI 60

Query: 61  SYVLKSDGRVIATGTIPDPGSIKGNDKTVLNVPVKVPHSVLVSLVKDIARDWDIDYLLEV 120
           S+   S GR I  G IPDPGS+K  D T L++PV VP+S+L +L +D+  DWDIDY L++
Sbjct: 61  SFTFHSAGREIGKGKIPDPGSLKAKDMTALDIPVVVPYSILFNLARDVGVDWDIDYELQI 120

Query: 121 GLIIDLPLIGNFTIPLSTQGEVKLPTLTDFF 151
           GL IDLP++G FTIP+S++GE+KLPT  DFF
Sbjct: 121 GLTIDLPVVGEFTIPISSKGEIKLPTFKDFF 151


>pdb|2C5U|A Chain A, T4 Rna Ligase (Rnl1) Crystal Structure
 pdb|2C5U|B Chain B, T4 Rna Ligase (Rnl1) Crystal Structure
          Length = 375

 Score = 29.3 bits (64), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 8/72 (11%)

Query: 48  DNPYSHSIPICEISYVL-KSDGRVIATGTIPDP------GSIKGNDKTVLN-VPVKVPHS 99
           +NP++ +I + ++ Y+L K DG +++T    D       GSIK       N +   + H 
Sbjct: 82  ENPFTXNIDLNDVDYILTKEDGSLVSTYLDGDEILFKSKGSIKSEQALXANGILXNINHH 141

Query: 100 VLVSLVKDIARD 111
            L   +K++A D
Sbjct: 142 RLRDRLKELAED 153


>pdb|3ODH|A Chain A, Structure Of OkraiDNA COMPLEX
 pdb|3ODH|B Chain B, Structure Of OkraiDNA COMPLEX
 pdb|3ODH|E Chain E, Structure Of OkraiDNA COMPLEX
 pdb|3ODH|F Chain F, Structure Of OkraiDNA COMPLEX
          Length = 194

 Score = 26.9 bits (58), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 14/66 (21%)

Query: 10  NYVTDKVTNMRKPEASLS---KFRLKGVSREGVDYLADVSIDNPYSHSIPICEISYVLK- 65
           NY+TD+V N R+ E   S   +F LK        YLA V I+    H     ++S + K 
Sbjct: 138 NYLTDRVGNFRELEPYFSVWRQFNLKDA------YLAIVEIE----HDSVDAQVSLIPKG 187

Query: 66  SDGRVI 71
           +DGR I
Sbjct: 188 TDGRAI 193


>pdb|2I6L|A Chain A, Crystal Structure Of Human Mitogen Activated Protein
           Kinase 6 (Mapk6)
 pdb|2I6L|B Chain B, Crystal Structure Of Human Mitogen Activated Protein
           Kinase 6 (Mapk6)
          Length = 320

 Score = 26.6 bits (57), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 4/40 (10%)

Query: 11  YVTDKVTNMRKPEASLSKFRLKGVSREGVDYLADVSIDNP 50
           Y+ + +T   KP   L    L G+SRE VD+L  +   +P
Sbjct: 259 YIRNDMTEPHKPLTQL----LPGISREAVDFLEQILTFSP 294


  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
   0.317    0.138    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,729,558
Number of Sequences: 62578
Number of extensions: 196248
Number of successful extensions: 316
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 313
Number of HSP's gapped (non-prelim): 6
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)