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= psy17735
         (96 letters)

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

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



>pdb|1OKK|D Chain D, Homo-Heterodimeric Complex Of The Srp Gtpases
 pdb|2XKV|D Chain D, Atomic Model Of The Srp-Ftsy Early Conformation
          Length = 303

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 10/53 (18%)

Query: 44  LETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSVS 96
           ++T   +H  ++LM+  K          +++  I     E+ KE WLV+D+V+
Sbjct: 189 VDTAGRLHTKHNLMEELK----------KVKRAIAKADPEEPKEVWLVLDAVT 231


>pdb|2Q9A|A Chain A, Structure Of Apo Ftsy
 pdb|2Q9A|B Chain B, Structure Of Apo Ftsy
 pdb|2Q9B|A Chain A, Structure Of Ftsy:gmppnp Complex
 pdb|2Q9B|B Chain B, Structure Of Ftsy:gmppnp Complex
 pdb|2Q9C|A Chain A, Structure Of Ftsy:gmppnp With Mgcl Complex
 pdb|2Q9C|B Chain B, Structure Of Ftsy:gmppnp With Mgcl Complex
          Length = 304

 Score = 26.9 bits (58), Expect = 3.3,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 10/53 (18%)

Query: 44  LETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSVS 96
           ++T   +H  ++LM+  K          +++  I     E+ KE WLV+D+V+
Sbjct: 190 VDTAGRLHTKHNLMEELK----------KVKRAIAKADPEEPKEVWLVLDAVT 232


>pdb|1RJ9|A Chain A, Structure Of The Heterodimer Of The Conserved Gtpase
           Domains Signal Recognition Particle (Ffh) And Its
           Receptor (Ftsy)
          Length = 304

 Score = 26.6 bits (57), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 10/53 (18%)

Query: 44  LETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSVS 96
           ++T   +H  ++LM+  K          +++  I     E+ KE WLV+D+V+
Sbjct: 190 VDTAGRLHTKHNLMEELK----------KVKRAIAKADPEEPKEVWLVLDAVT 232


>pdb|2J7P|D Chain D, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
           And Ftsy
 pdb|2J7P|E Chain E, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
           And Ftsy
          Length = 283

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 10/53 (18%)

Query: 44  LETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSVS 96
           ++T   +H  ++LM+         E+K +++  I     E+ KE WLV+D+V+
Sbjct: 169 VDTAGRLHTKHNLME---------ELK-KVKRAIAKADPEEPKEVWLVLDAVT 211


>pdb|2CNW|D Chain D, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
 pdb|2CNW|E Chain E, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
 pdb|2CNW|F Chain F, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
 pdb|2IYL|D Chain D, Structure Of An Ftsy:gdp Complex
          Length = 284

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 10/53 (18%)

Query: 44  LETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVKEKWLVIDSVS 96
           ++T   +H  ++LM+         E+K +++  I     E+ KE WLV+D+V+
Sbjct: 170 VDTAGRLHTKHNLME---------ELK-KVKRAIAKADPEEPKEVWLVLDAVT 212


>pdb|2Z2U|A Chain A, Crystal Structure Of Archaeal Tyw1
          Length = 311

 Score = 25.4 bits (54), Expect = 8.3,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 6/62 (9%)

Query: 27  FFRSDTLVGTVNVKLQPLETKCTIHDAYDLMDGRKTLGGKLEVKIRIRNPIVSKQLEQVK 86
           F  S+ ++  V  K++P +   ++ DAYDL   R+  GGK E    I N      L+ +K
Sbjct: 160 FVVSNGILTDVIEKIEPTQLYISL-DAYDLDSYRRICGGKKEYWESILN-----TLDILK 213

Query: 87  EK 88
           EK
Sbjct: 214 EK 215


  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
   0.321    0.136    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,623,090
Number of Sequences: 62578
Number of extensions: 84267
Number of successful extensions: 125
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 124
Number of HSP's gapped (non-prelim): 7
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
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: 45 (21.9 bits)