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= psy8734
         (264 letters)

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

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



>pdb|3NR1|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
           Role In Starvation Responses
 pdb|3NR1|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
           Role In Starvation Responses
          Length = 178

 Score =  173 bits (439), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 86/168 (51%), Positives = 111/168 (66%)

Query: 86  NIVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISALLHXXXXX 145
            +++A DFA+ KH  QRRKDPEGTPYI HP+ VA ILTH   +++ VV+ +ALLH     
Sbjct: 6   QLLEAADFAARKHRQQRRKDPEGTPYINHPIGVARILTHEAGITDIVVLQAALLHDTVED 65

Query: 146 XXXXXXXXXXXFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKLADKLHN 205
                      FG +VR +VEE+TD+K + + ERKR Q+  APHSS  AKLVKLADKL+N
Sbjct: 66  TDTTLDEVELHFGAQVRRLVEEVTDDKTLPKLERKRLQVEQAPHSSPGAKLVKLADKLYN 125

Query: 206 LRDIERSLPVNWTEERKTQYFNWARDVVQGLRGTNAPIEAELDALFAK 253
           LRD+ R  P  W+E R  +YF WA  VV+GL+GTN  +E  L  LF +
Sbjct: 126 LRDLNRCTPEGWSEHRVQEYFEWAAQVVKGLQGTNRQLEEALKHLFKQ 173


>pdb|3NQW|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
           Role In Starvation Responses
 pdb|3NQW|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
           Role In Starvation Responses
          Length = 179

 Score =  153 bits (387), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 74/165 (44%), Positives = 105/165 (63%)

Query: 87  IVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISALLHXXXXXX 146
            ++   +A+ KH  QRRKDP+ TPY+ H + V+ IL+    +++  V+++ALLH      
Sbjct: 9   FMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDT 68

Query: 147 XXXXXXXXXXFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKLADKLHNL 206
                     FGP V  +V E+TD+K + + ERKR QI +A  SS  AKL+KLADKL NL
Sbjct: 69  DASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKLADKLDNL 128

Query: 207 RDIERSLPVNWTEERKTQYFNWARDVVQGLRGTNAPIEAELDALF 251
           RD++ + P  WT+ER+ QYF WA+ VV  LRGTNA +E +LD +F
Sbjct: 129 RDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIF 173


>pdb|1VJ7|A Chain A, Crystal Structure Of The Bifunctional Catalytic Fragment
           Of Relseq, The RelaSPOT HOMOLOG FROM STREPTOCOCCUS
           EQUISIMILIS.
 pdb|1VJ7|B Chain B, Crystal Structure Of The Bifunctional Catalytic Fragment
           Of Relseq, The RelaSPOT HOMOLOG FROM STREPTOCOCCUS
           EQUISIMILIS
          Length = 393

 Score = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/142 (31%), Positives = 64/142 (45%), Gaps = 17/142 (11%)

Query: 78  MHSPDAIMNIVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISA 137
           M+  DA   + KA D+A+  H +Q RK   G PYI HP+ VA IL  L    + V +   
Sbjct: 20  MNETDAAF-VKKALDYATAAHFYQVRK--SGEPYIVHPIQVAGILADLH--LDAVTVACG 74

Query: 138 LLHXXXXXXXXXXXXXXXXFGPRVRSVVEELTD---------NKHMTRDERKRCQILHAP 188
            LH                FG  VR +V+ +T           + +  + RK   +L A 
Sbjct: 75  FLHDVVEDTDITLDNIEFDFGKDVRDIVDGVTKLGKVEYKSHEEQLAENHRK---MLMAM 131

Query: 189 HSSHEAKLVKLADKLHNLRDIE 210
                  LVKLAD+LHN+R ++
Sbjct: 132 SKDIRVILVKLADRLHNMRTLK 153


>pdb|2LRQ|A Chain A, Chemical Shift Assignment And Solution Structure Of
          Fr822a From Drosophila Melanogaster. Northeast
          Structural Genomics Consortium Target Fr822a
          Length = 85

 Score = 27.3 bits (59), Expect = 7.7,   Method: Composition-based stats.
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 39 PLMYVPMVRKGKPEAPAVEVHVHEA 63
          PL+Y   V K KP+A  VE ++H A
Sbjct: 25 PLIYEAKVLKTKPDATPVEYYIHYA 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
   0.319    0.134    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,850,263
Number of Sequences: 62578
Number of extensions: 312202
Number of successful extensions: 603
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: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)