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= 037700
         (309 letters)

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

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



>pdb|2FV2|A Chain A, Crystal Structure Analysis Of Human Rcd-1 Conserved Region
 pdb|2FV2|B Chain B, Crystal Structure Analysis Of Human Rcd-1 Conserved Region
 pdb|2FV2|C Chain C, Crystal Structure Analysis Of Human Rcd-1 Conserved Region
 pdb|2FV2|D Chain D, Crystal Structure Analysis Of Human Rcd-1 Conserved Region
          Length = 268

 Score =  240 bits (612), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 133/267 (49%), Positives = 168/267 (62%), Gaps = 25/267 (9%)

Query: 31  WIQALQSHETKERALLILSQNKEIRKDLAPLLWNSIGTISALLQEIISVYRTLSSPNLTE 90
           WI  L S ET+E ALL LS+ +E   DLAP+LW+S GTI+ALLQEI+++Y +++ P LT 
Sbjct: 8   WINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTA 67

Query: 91  TASTRVSNALALFQVTFTSIGSSFAILKVYNCMATFRAIKSSMTRLISVLMVLAKLPLYL 150
             S RV NALAL Q                 C+A+    +S+         + A +PL+L
Sbjct: 68  HQSNRVCNALALLQ-----------------CVASHPETRSAF--------LAAHIPLFL 102

Query: 151 YPFLNTKDKEKPHEYLRLTSLGVIGTLVKSDDPEAIRFLLQTEIFPCCLTSMEVGSDLSK 210
           YPFL+T  K +P EYLRLTSLGVIG LVK+D+ E I FLL TEI P CL  ME GS+LSK
Sbjct: 103 YPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSK 162

Query: 211 QVATFIIYKILLHEEGLKYCCVLADRFFAVARALAQMTEKLVEQPSPRLLKHIICCYHRL 270
            VATFI+ KILL + GL Y C   +RF  VA  L +M  +L ++PS RLLKH++ CY RL
Sbjct: 163 TVATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRL 222

Query: 271 SQSPRACDGLRCCLPLWFGDRKFTSQL 297
           S +PRA + LR CLP    D  F   L
Sbjct: 223 SDNPRAREALRQCLPDQLKDTTFAQVL 249


>pdb|4GMO|A Chain A, Crystal Structure Of Syo1
          Length = 684

 Score = 38.5 bits (88), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 6/109 (5%)

Query: 157 KDKEKPHEYLRLTSLGVIGTLVKSDDPEAIRFLLQTEIFPCCLTSMEVGSDLSKQVATFI 216
           KD + P    R T+ G I  +V+  D +  + LL+ ++    LT     +++  + A + 
Sbjct: 41  KDLKSPDAKSRTTAAGAIANIVQ--DAKCRKLLLREQVVHIVLTETLTDNNIDSRAAGWE 98

Query: 217 IYKILLHEEGLKYCCVL--ADRFFAVARALAQMTEKLV--EQPSPRLLK 261
           I K+L  EE   +C  L   D   A+  A   + E L   E P  +LLK
Sbjct: 99  ILKVLAQEEEADFCVHLYRLDVLTAIEHAAKAVLETLTTSEPPFSKLLK 147


>pdb|4GMN|A Chain A, Structural Basis Of Rpl5 Recognition By Syo1
          Length = 676

 Score = 38.5 bits (88), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 6/109 (5%)

Query: 157 KDKEKPHEYLRLTSLGVIGTLVKSDDPEAIRFLLQTEIFPCCLTSMEVGSDLSKQVATFI 216
           KD + P    R T+ G I  +V+  D +  + LL+ ++    LT     +++  + A + 
Sbjct: 41  KDLKSPDAKSRTTAAGAIANIVQ--DAKCRKLLLREQVVHIVLTETLTDNNIDSRAAGWE 98

Query: 217 IYKILLHEEGLKYCCVL--ADRFFAVARALAQMTEKLV--EQPSPRLLK 261
           I K+L  EE   +C  L   D   A+  A   + E L   E P  +LLK
Sbjct: 99  ILKVLAQEEEADFCVHLYRLDVLTAIEHAAKAVLETLTTSEPPFSKLLK 147


>pdb|3IZ6|I Chain I, Localization Of The Small Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 149

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 8/62 (12%)

Query: 239 AVARALAQMTEKLVEQPSPRLLKHIICCYHR--LSQSPRACDGLRCCLPLWFGDRKFTSQ 296
           A+A+AL    +K V++ S + +K I   Y R  L   PR C+      P  FG R   ++
Sbjct: 90  AIAKALVAYYQKYVDEASKKEVKDIFARYDRTLLVADPRRCE------PKKFGGRGARAR 143

Query: 297 LH 298
             
Sbjct: 144 FQ 145


>pdb|1ZBS|A Chain A, Crystal Structure Of The Putative N-acetylglucosamine
           Kinase (pg1100) From Porphyromonas Gingivalis, Northeast
           Structural Genomics Target Pgr18
          Length = 291

 Score = 28.9 bits (63), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 15  YSTPDLPVHGPASVAYWIQALQSHETKERALLILS 49
           Y+ PDLP+H   SVA+  + + S   K+R L + S
Sbjct: 231 YNRPDLPLHFIGSVAFHYREVLSSVIKKRGLTLGS 265


>pdb|2OR8|A Chain A, Tim-1
 pdb|2OR8|B Chain B, Tim-1
          Length = 116

 Score = 28.1 bits (61), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 3/30 (10%)

Query: 279 GLRCC---LPLWFGDRKFTSQLHVRSSKTP 305
           GL CC   +P WF D+K T  L V+    P
Sbjct: 86  GLYCCRVEIPGWFNDQKVTFSLQVKPELVP 115


  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
   0.323    0.135    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,793,033
Number of Sequences: 62578
Number of extensions: 267354
Number of successful extensions: 523
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 9
length of query: 309
length of database: 14,973,337
effective HSP length: 99
effective length of query: 210
effective length of database: 8,778,115
effective search space: 1843404150
effective search space used: 1843404150
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)