RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 018977
         (348 letters)



>1iuq_A Glycerol-3-phosphate acyltransferase; open twisted alpha/beta, four
           helix bundle; 1.55A {Cucurbita moschata} SCOP: c.112.1.1
           PDB: 1k30_A
          Length = 367

 Score = 52.9 bits (126), Expect = 6e-08
 Identities = 34/207 (16%), Positives = 64/207 (30%), Gaps = 43/207 (20%)

Query: 160 WATLTVSPFLKLE---IEGLENLPS------SDTPAVYVSNHQSFLD---IYTLL----- 202
           +    + P +      +  L                V +SNHQ+  D   I  LL     
Sbjct: 97  FGQNYIRPLIDFGNSFVGNLSLFKDIEEKLQQGHNVVLISNHQTEADPAIISLLLEKTNP 156

Query: 203 TLGKSFKFISKTGIFLFPVIGWAMSMMGVI------------PLKRMDSRSQLECLKRCM 250
            + ++  F++   +   P+         +I             L     ++    LK   
Sbjct: 157 YIAENTIFVAGDRVLADPLCKPFSIGRNLICVYSKKHMFDIPELTETKRKANTRSLKEMA 216

Query: 251 ELIKKGASV-CFFPEGTRS-KDGKLGAFKKGAFS---------VAAKTGVP--VVPITLV 297
            L++ G+ +    P G R   D   G +    F          +   + VP  + P+ L+
Sbjct: 217 LLLRGGSQLIWIAPSGGRDRPDPSTGEWYPAPFDASSVDNMRRLIQHSDVPGHLFPLALL 276

Query: 298 GTGKIMPSGMEGMLNEGTIKVVIHKPI 324
               IMP   +  +  G  +V+     
Sbjct: 277 -CHDIMPPPSQVEIEIGEKRVIAFNGA 302


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 29.4 bits (65), Expect = 2.0
 Identities = 32/215 (14%), Positives = 53/215 (24%), Gaps = 66/215 (30%)

Query: 1   MEVAAAYPSFSLLHLRSRKSSTHSCLSRLCPYKGLGCSAYNQAVLRNPYSSAQNGFQCIT 60
           M V      +SL+  +  K ST S  S     K       N+  L             + 
Sbjct: 405 MVVVNKLHKYSLV-EKQPKESTISIPSIYLELK---VKLENEYALHR---------SIVD 451

Query: 61  RKRVGFSWPNFDLKLN--------------------------RRCY-DIKFSRNVVVRSQ 93
              +  ++ + DL                             R  + D +F    +    
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS 511

Query: 94  LAGTGTPDAAYPLSELKLGSKVRGICFYAVTAVVAIFLIVLMLVGHPFVLLLDRYRRKFH 153
            A   +      L +LK       IC                    P     +R      
Sbjct: 512 TAWNASGSILNTLQQLKFYKPY--IC-----------------DNDP---KYERLVNAIL 549

Query: 154 HFIAKLWATLTVSPFLKLEIEGLENLPSSDTPAVY 188
            F+ K+   L  S +  L    L      +  A++
Sbjct: 550 DFLPKIEENLICSKYTDLLRIALMA----EDEAIF 580


>3mx6_A Methionine aminopeptidase; seattle structural genomics center for
           infectious disease, S aminopeptidase, protease,
           epidermic typhus; 1.70A {Rickettsia prowazekii} PDB:
           3mr1_A
          Length = 262

 Score = 27.9 bits (63), Expect = 4.7
 Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 4/30 (13%)

Query: 298 GTGKIMPSGM----EGMLNEGTIKVVIHKP 323
           GTG  +  GM    E M+N G    ++ K 
Sbjct: 191 GTGLTLKEGMFFTVEPMINAGNYDTILSKL 220


>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex
           (helicase/DNA), DNA unwinding, hydrolase/DNA complex;
           HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19
           c.37.1.19
          Length = 673

 Score = 27.9 bits (63), Expect = 6.4
 Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 2/26 (7%)

Query: 129 IFLIVLMLVGHPFVLLLDRYRRKFHH 154
           I L  L+L  +  V    R++ K  +
Sbjct: 187 ILLPTLLLQANEEVR--KRWQNKIRY 210


>3daq_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis, amino-ACI
           biosynthesis, diaminopimelate biosynthesis, lyase,
           schiff B; 1.45A {Staphylococcus aureus} PDB: 3di1_A
           3di0_A
          Length = 292

 Score = 27.4 bits (62), Expect = 6.7
 Identities = 7/39 (17%), Positives = 13/39 (33%), Gaps = 7/39 (17%)

Query: 224 WAMSMMGVI------PLKRMDSRSQLECLKRCMELIKKG 256
              S +G        PL  ++     + L+   +  K G
Sbjct: 254 ALTSYLGFGNYELRLPLVSLEDTDT-KVLREAYDTFKAG 291


>2v9d_A YAGE; dihydrodipicolinic acid synthase, N-acetyl neuraminate lyase,
           NAL, lyase, DHDPS, prophage; 2.15A {Escherichia coli}
           PDB: 2v8z_A 3nev_A* 3n2x_A*
          Length = 343

 Score = 27.2 bits (61), Expect = 8.2
 Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 8/39 (20%)

Query: 220 PVIGWAMSMMGVI-------PLKRMDSRSQLECLKRCME 251
            VI  A+ + G         P   +D   +   LK  ++
Sbjct: 285 NVIKEAIVLCGRPVSTHVLPPASPLDEPRK-AQLKTLLQ 322


  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
   0.324    0.138    0.419 

Gapped
Lambda     K      H
   0.267   0.0806    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,278,690
Number of extensions: 314798
Number of successful extensions: 791
Number of sequences better than 10.0: 1
Number of HSP's gapped: 788
Number of HSP's successfully gapped: 11
Length of query: 348
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 254
Effective length of database: 4,077,219
Effective search space: 1035613626
Effective search space used: 1035613626
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.0 bits)