RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4453
         (187 letters)



>3p0j_A Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
           AARS, tyrrs, pseudod translation, ATP-binding,
           nucleotide-binding, ligase; HET: TYE; 2.89A {Leishmania
           major} PDB: 3p0i_A* 3p0h_A*
          Length = 690

 Score = 28.3 bits (63), Expect = 1.8
 Identities = 9/60 (15%), Positives = 20/60 (33%), Gaps = 5/60 (8%)

Query: 20  DIEWIFGSSYEELLHRTKQFTVDLIDCCRDASEVEIVLKRRKGTALMK-SRFKYPLLMVA 78
            ++ +  +    +L     F V +I   R      +  +   G  +    +    L+ VA
Sbjct: 459 SVKIVTENEV--ILGNCDDFWVSVIGIARKNLLSHV--EELYGGEVRNAGQVIAALMRVA 514



 Score = 26.7 bits (59), Expect = 5.2
 Identities = 8/64 (12%), Positives = 20/64 (31%), Gaps = 10/64 (15%)

Query: 21  IEWIFGSSYEELLHRTKQFTVDLIDCCRDASE------VEIVLKRRKGTALMKSRFKYPL 74
           + +++ S           +   ++D  R  +         I+ K         ++  YPL
Sbjct: 118 VLFLWSSEEI--TSHADTYWRMVLDIGRQNTIARIKKCCTIMGKTEGTLTA--AQVLYPL 173

Query: 75  LMVA 78
           +   
Sbjct: 174 MQCC 177


>3sx6_A Sulfide-quinone reductase, putative; sulfide:quinone
           oxidoreductase, Cys356Ala variant, integral membrane
           protein; HET: FAD LMT DCQ; 1.80A {Acidithiobacillus
           ferrooxidans} PDB: 3t0k_A* 3szc_A* 3sz0_A* 3t2z_A*
           3t31_A* 3sy4_A* 3syi_A* 3sxi_A* 3t14_A* 3t2k_A* 3szw_A*
           3szf_A* 3kpg_A* 3kpi_A* 3t2y_A* 3kpk_A*
          Length = 437

 Score = 27.0 bits (60), Expect = 4.0
 Identities = 12/75 (16%), Positives = 28/75 (37%), Gaps = 2/75 (2%)

Query: 56  VLKRRKGTALMKSRFKYPLLMVA-MDYRQKEFVAHPNVQQMLDCIW-IGDWIDWEKYSQP 113
           +    +G    ++   +  +  A M  R   F+A P ++     ++  G W+   K +  
Sbjct: 339 IKADLEGRKGEQTMGTWNAVAFADMGDRGAAFIALPQLKPRKVDVFAYGRWVHLAKVAFE 398

Query: 114 YKFLIILSRIFLLPW 128
             F+  +      P+
Sbjct: 399 KYFIRKMKMGVSEPF 413


>1pp7_U 39 kDa initiator binding protein; core promoter, transcription
           initation, IBP39, T. vaginalis, transcription/DNA
           complex; 2.45A {Trichomonas vaginalis} SCOP: a.4.5.44
           PDB: 1pp8_U
          Length = 131

 Score = 26.3 bits (57), Expect = 4.1
 Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 5/45 (11%)

Query: 59  RRKGTALMKSRFKYPLLMVAMDYRQKEFVAHPNVQQMLDCIWIGD 103
           +RK +    SRF   L M+ + Y       +P +++ +   WI D
Sbjct: 23  KRKSSRDPNSRFPRKLHML-LTYLAS----NPQLEEEIGLSWISD 62


>2j5v_A Glutamate 5-kinase; proline biosynthesis, gamma glutamyl kinase,
           amino-acid biosynthesis, transferase, feedback
           regulation, PUA domain; HET: RGP; 2.5A {Escherichia
           coli} PDB: 2j5t_A* 2w21_A
          Length = 367

 Score = 26.3 bits (59), Expect = 7.5
 Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 1/24 (4%)

Query: 13  LLRSHTSDIEWIFG-SSYEELLHR 35
           +   H+ +I+ I G       +HR
Sbjct: 338 IAGHHSQEIDAILGYEYGPVAVHR 361


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.330    0.142    0.457 

Gapped
Lambda     K      H
   0.267   0.0648    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,853,834
Number of extensions: 154988
Number of successful extensions: 351
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 7
Length of query: 187
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 99
Effective length of database: 4,244,745
Effective search space: 420229755
Effective search space used: 420229755
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 54 (24.7 bits)