RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6704
         (332 letters)



>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 = 34.1 bits (77), Expect = 0.075
 Identities = 36/233 (15%), Positives = 64/233 (27%), Gaps = 79/233 (33%)

Query: 3   SDIDVVGDEVKINKLSIRDKMLLKRNFNRLRHSENFQAGRVIEDPGGSPSHTGLHDGKSF 62
            D+      V +NKL      L+++       S                    +      
Sbjct: 397 FDVIKSDVMVVVNKL--HKYSLVEKQPKESTIS--------------------IPS---- 430

Query: 63  TFWALIGLLYLFALINLVLTLTLMTMLRIGWGMETIEMLPLLNMVKLYGDIDLGKLYKDD 122
                   +YL     L + L     L          ++   N+ K +   DL   Y  D
Sbjct: 431 --------IYL----ELKVKLENEYALHR-------SIVDHYNIPKTFDSDDLIPPY-LD 470

Query: 123 GYFSSF------------KDSGLRITGRQGGSVHIDVNFGVNRTRRMLSIEPEGVRVTN- 169
            YF S             + +  R        V +D  F   + R   +       + N 
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLFR-------MVFLDFRFLEQKIRHDSTAWNASGSILNT 523

Query: 170 VKEFNVYDP--TDHLPIFSTGFRS-ADFGLPRGVKKLDVQQVRTSRIISPIED 219
           +++   Y P   D+ P +     +  DF          + ++  + I S   D
Sbjct: 524 LQQLKFYKPYICDNDPKYERLVNAILDF----------LPKIEENLICSKYTD 566


>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
           subunit, ribosomal protein/RNA complex; 8.70A {Canis
           familiaris}
          Length = 421

 Score = 28.7 bits (63), Expect = 2.7
 Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 5/82 (6%)

Query: 96  ETIEMLPLLNMVKLYGDIDLGKLYKDDGYFSSFKDSGLRITGRQGGSVHIDVNFGVNRTR 155
           +T E + LL  +K + DI      +        K    R   R+G  +  + + G+ +  
Sbjct: 163 KTKEAVLLLKKLKAWNDIKKVYASQRMRA-GKGKMRNRRRIQRRGPCIIYNEDNGIIKAF 221

Query: 156 RMLSIEPEGVRVTNVKEFNVYD 177
           R       G+ + NV + N+  
Sbjct: 222 RKH----PGITLLNVSKLNILK 239


>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster,
           transferase; HET: SAM DTB; 3.40A {Escherichia coli}
           SCOP: c.1.28.1
          Length = 369

 Score = 28.1 bits (63), Expect = 3.8
 Identities = 6/11 (54%), Positives = 9/11 (81%)

Query: 320 HNINTSPEHHP 330
           HN++TSPE + 
Sbjct: 175 HNLDTSPEFYG 185


>2vg9_A Bifunctional endo-1,4-beta-xylanase A; hydrolase, glycosidase,
          beta jelly roll, multifunctional enzyme, xylan
          degradation; 2.0A {Neocallimastix patriciarum} PDB:
          2c1f_A
          Length = 217

 Score = 26.8 bits (59), Expect = 7.7
 Identities = 7/18 (38%), Positives = 10/18 (55%)

Query: 48 GGSPSHTGLHDGKSFTFW 65
           G   H G++DG S+  W
Sbjct: 7  NGQNQHKGVNDGFSYEIW 24


>1ejx_C Urease alpha subunit; alpha-beta barrel, nickel metalloenzyme,
          temperature depende structural changes, hydrolase; HET:
          KCX; 1.60A {Klebsiella aerogenes} SCOP: b.92.1.1
          c.1.9.2 PDB: 1ejw_C* 1fwj_C* 1kra_C 2kau_C* 1ef2_A*
          1ejv_C* 1ejt_C* 1eju_C* 1ejs_C* 1ejr_C* 1krc_C 1krb_C*
          1fwi_C* 1fwa_C* 1fwb_C* 1fwc_C* 1fwd_C* 1fwe_C* 1fwg_C*
          1a5k_C ...
          Length = 567

 Score = 27.3 bits (60), Expect = 9.1
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 3/61 (4%)

Query: 2  ESDIDVVGDEVKI--NKLSIRDKMLLKRNFNRLRHSENFQAGRVIEDPGGSPSHTGLHDG 59
          E D+   G+EVK    K  IRD M   +               +++  G   +  G+ DG
Sbjct: 33 EDDLTTYGEEVKFGGGK-VIRDGMGQGQMLAADCVDLVLTNALIVDHWGIVKADIGVKDG 91

Query: 60 K 60
          +
Sbjct: 92 R 92


  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
   0.322    0.140    0.418 

Gapped
Lambda     K      H
   0.267   0.0794    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,199,933
Number of extensions: 320989
Number of successful extensions: 475
Number of sequences better than 10.0: 1
Number of HSP's gapped: 474
Number of HSP's successfully gapped: 10
Length of query: 332
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 238
Effective length of database: 4,077,219
Effective search space: 970378122
Effective search space used: 970378122
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.6 bits)