RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16824
         (85 letters)



>1k8k_E P21, ARP2/3 complex 21 kDa subunit, P21-ARC; beta-propeller,
           structural protein; 2.00A {Bos taurus} SCOP: a.148.1.1
           PDB: 1tyq_E* 1u2v_E* 2p9i_E* 2p9k_E* 2p9l_E 2p9n_E*
           2p9p_E* 2p9s_E* 2p9u_E* 3dxk_E* 3dxm_E* 3rse_E
          Length = 178

 Score =  146 bits (371), Expect = 5e-47
 Identities = 48/84 (57%), Positives = 67/84 (79%)

Query: 1   MYSLALAKFDLPGEAGFPLNSVYAKPQSQNEADLMKNYLTQVRQETGLRVCERVFNTPDG 60
           MY+L +  F +PGE GFPLN++YAKP ++ E ++M+ YL Q+RQETGLR+CE+VF+  + 
Sbjct: 95  MYTLGITNFPIPGEPGFPLNAIYAKPANKQEDEVMRAYLQQLRQETGLRLCEKVFDPQND 154

Query: 61  KPSKWWLCFSKKRFMDKSLTALGQ 84
           KPSKWW CF K++FM+KSL+  GQ
Sbjct: 155 KPSKWWTCFVKRQFMNKSLSGPGQ 178


>3dwl_E Actin-related protein 2/3 complex subunit 3; propellor,
           actin-binding, ATP-binding, cytoskeleton, nucleot
           binding, WD repeat; HET: ATP; 3.78A {Schizosaccharomyces
           pombe}
          Length = 174

 Score =  139 bits (352), Expect = 3e-44
 Identities = 43/79 (54%), Positives = 56/79 (70%)

Query: 1   MYSLALAKFDLPGEAGFPLNSVYAKPQSQNEADLMKNYLTQVRQETGLRVCERVFNTPDG 60
           + SLAL  F +PG AGFPLN++YA P S  +A++M+ YLTQ RQE   R+   V+ T   
Sbjct: 96  LNSLALENFSIPGSAGFPLNALYAPPLSPQDAEIMRTYLTQFRQELAYRLLSHVYATEKD 155

Query: 61  KPSKWWLCFSKKRFMDKSL 79
            PSKWW CFSK+RFM+K+L
Sbjct: 156 HPSKWWTCFSKRRFMNKAL 174


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 28.9 bits (64), Expect = 0.15
 Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 8/54 (14%)

Query: 9   FDLPGEAGFPLNSVYAKP-QSQNEADLMKNYLTQVRQETGLRVCERVFNTPDGK 61
           F LP  +  P +S    P       DL+KN ++   ++  +++   V++T DG 
Sbjct: 420 F-LPVAS--PFHSHLLVPASDLINKDLVKNNVSFNAKD--IQI--PVYDTFDGS 466


>2fok_A R.FOKI, FOKI restriction endonuclease; nucleic acid recognition,
           DNA-binding protein, type IIS restriction endonuclease;
           2.30A {Planomicrobium okeanokoites} SCOP: a.4.5.12
           a.4.5.12 a.4.5.12 c.52.1.12 PDB: 1fok_A*
          Length = 579

 Score = 27.4 bits (60), Expect = 0.52
 Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 13/49 (26%)

Query: 23  YAKPQSQNEADLMKNYLTQVRQETGLRVCERVFNTPDGKPSKWWLCFSK 71
           Y  P  Q  AD M+ Y+ + +                  P++WW  +  
Sbjct: 475 YNLPIGQ--ADEMQRYVEENQTRNKHI-----------NPNEWWKVYPS 510


>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 = 26.7 bits (58), Expect = 0.96
 Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 22/82 (26%)

Query: 6   LAKF------DLPGEA--GFPLN-SVYAKPQSQNEADLMKNY--LTQVRQETGLRVCERV 54
           L K+      DLP E     P   S+ A+   ++      N+  +   +  T +     V
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAE-SIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 55  FNTPDGKPSKWWLCFSKKRFMD 76
               +           +K F  
Sbjct: 366 LEPAE----------YRKMFDR 377


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 24.1 bits (51), Expect = 5.8
 Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 7/28 (25%)

Query: 36 KNYLTQVRQETGLRVCERVFNTPDGKPS 63
          K  L ++  +  L++        D  P+
Sbjct: 19 KQALKKL--QASLKLYA-----DDSAPA 39


  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
   0.318    0.132    0.408 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,234,644
Number of extensions: 55037
Number of successful extensions: 130
Number of sequences better than 10.0: 1
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 6
Length of query: 85
Length of database: 6,701,793
Length adjustment: 53
Effective length of query: 32
Effective length of database: 5,221,980
Effective search space: 167103360
Effective search space used: 167103360
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.7 bits)