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= psy5286
         (311 letters)

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

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



>pdb|3F5F|A Chain A, Crystal Structure Of Heparan Sulfate 2-O-Sulfotransferase
           From Gallus Gallus As A Maltose Binding Protein Fusion
          Length = 658

 Score =  342 bits (876), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 153/284 (53%), Positives = 203/284 (71%), Gaps = 2/284 (0%)

Query: 27  DTVIIYNRVPKTGSTSFVNMAYDMCRKKRFNVLHVNVTGNNHVLSLADQYRFVNNVTKWR 86
           D VIIYNRVPKT STSF N+AYD+C K R++VLH+N T NN V+SL DQ RFV NVT W+
Sbjct: 375 DVVIIYNRVPKTASTSFTNIAYDLCAKNRYHVLHINTTKNNPVMSLQDQVRFVKNVTSWK 434

Query: 87  DRRPALYHGHFGFIDFQQFGSKEQPLFINILRKPLDRLVSYYYFLRYGDNYRPHLVRKKH 146
           + +P  YHGH  ++DF +FG K++P++IN++R P++RLVSYYYFLR+GD+YRP L R+K 
Sbjct: 435 EMKPGFYHGHVSYLDFAKFGVKKKPIYINVIRDPIERLVSYYYFLRFGDDYRPGLRRRKQ 494

Query: 147 GDKTTFDECIRLNRTECSLENMWLQVPFLCGHAAACWVPGNPWALEKAKENLVTKYLLVG 206
           GDK TFDEC+    ++C+ E +WLQ+PF CGH++ CW  G+ WALE+AK NL+ +Y LVG
Sbjct: 495 GDKKTFDECVAAGGSDCAPEKLWLQIPFFCGHSSECWNVGSRWALEQAKYNLINEYFLVG 554

Query: 207 VTEELTDFVSLLEAALPSFFRGGTDHFLTSNKSHLRRTNRKIDPSEETVQQIKKSKIWXX 266
           VTEEL DF+ LLEAALP FFRG T+ + T  KSHLR+T  K  P+  T+ ++++S+IW  
Sbjct: 555 VTEELEDFIMLLEAALPRFFRGATELYRTGKKSHLRKTTEKKLPTAATIAKLQQSEIWKM 614

Query: 267 XXXXXXXXXXQFHFVKKHNLVYNKVLGYEADKGKQFMYEKIYPK 310
                     QF FV+ H +   +  G      + F YEKIYPK
Sbjct: 615 ENEFYEFALEQFQFVRAHAV--REKDGELYILAQNFFYEKIYPK 656


>pdb|2AL3|A Chain A, Solution Structure And Backbone Dynamics Of An
          N-Terminal Ubiquitin-Like Domain In The Glut4-Tethering
          Protein, Tug
          Length = 90

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 23/43 (53%)

Query: 38 TGSTSFVNMAYDMCRKKRFNVLHVNVTGNNHVLSLADQYRFVN 80
          T ST  + +  D CR++ FN    ++     VL L+ Q+RF N
Sbjct: 27 TPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFAN 69


>pdb|1N4P|B Chain B, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4P|D Chain D, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4P|F Chain F, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4P|H Chain H, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4P|J Chain J, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4P|L Chain L, Protein Geranylgeranyltransferase Type-I Complexed With
           Geranylgeranyl Diphosphate
 pdb|1N4Q|B Chain B, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4Q|D Chain D, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4Q|F Chain F, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4Q|H Chain H, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4Q|J Chain J, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4Q|L Chain L, Protein Geranylgeranyltransferase Type-I Complexed With A
           Ggpp Analog And A Kkksktkcvil Peptide
 pdb|1N4R|B Chain B, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4R|D Chain D, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4R|F Chain F, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4R|H Chain H, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4R|J Chain J, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4R|L Chain L, Protein Geranylgeranyltransferase Type-I Complexed With A
           Geranylgeranylated Kkksktkcvil Peptide Product
 pdb|1N4S|B Chain B, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1N4S|D Chain D, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1N4S|F Chain F, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1N4S|H Chain H, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1N4S|J Chain J, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1N4S|L Chain L, Protein Geranylgeranyltransferase Type-I Complexed With
           Ggpp And A Geranylgeranylated Kkksktkcvil Peptide
           Product
 pdb|1S64|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1S64|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1S64|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1S64|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1S64|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1S64|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With L-778,123 And A Sulfate Anion
 pdb|1TNB|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNB|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNB|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNB|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNB|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNB|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Substrate Kksktkcvif Peptide
           Derived From Tc21
 pdb|1TNO|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNO|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNO|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNO|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNO|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNO|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Kkksktkcvim Peptide Derived
           From K- Ras4b
 pdb|1TNU|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNU|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNU|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNU|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNU|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNU|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Gcincckvl Peptide Derived From
           Rhob
 pdb|1TNY|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNY|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNY|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNY|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNY|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNY|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Frekkffcail Peptide Derived
           From The Heterotrimeric G Protein Gamma-2 Subunit
 pdb|1TNZ|B Chain B, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
 pdb|1TNZ|D Chain D, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
 pdb|1TNZ|F Chain F, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
 pdb|1TNZ|H Chain H, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
 pdb|1TNZ|J Chain J, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
 pdb|1TNZ|L Chain L, Rat Protein Geranylgeranyltransferase Type-I Complexed
           With A Ggpp Analog And A Rrcvll Peptide Derived From
           Cdc42 Splice Isoform-2
          Length = 377

 Score = 28.5 bits (62), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 2/33 (6%)

Query: 67  NHVLSLADQYRFVNNVTKWRDRRPALYHGHFGF 99
           N++LS  D  R V    KW D  P   H +FG 
Sbjct: 296 NYILSTQD--RLVGGFAKWPDSHPDALHAYFGI 326


>pdb|1SZH|A Chain A, Crystal Structure Of C. Elegans Her-1
 pdb|1SZH|B Chain B, Crystal Structure Of C. Elegans Her-1
          Length = 161

 Score = 28.5 bits (62), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 18/38 (47%)

Query: 149 KTTFDECIRLNRTECSLENMWLQVPFLCGHAAACWVPG 186
           K   ++C   NR EC +E M    P  CG+     +PG
Sbjct: 12  KDAAEKCCTRNRQECCIEIMKFGTPIRCGYDRDPKLPG 49


  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
   0.322    0.137    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,566,263
Number of Sequences: 62578
Number of extensions: 387830
Number of successful extensions: 601
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 597
Number of HSP's gapped (non-prelim): 4
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)