RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy305
         (130 letters)



>2nw8_A Tryptophan 2,3-dioxygenase; all alpha-helical protein, structural
           genomics, PSI-2, prote structure initiative; HET: TRP
           HEM; 1.60A {Xanthomonas campestris PV} SCOP: a.266.1.1
           PDB: 2nw7_A* 2nw9_A* 3bk9_A* 3e08_A* 1yw0_A
          Length = 306

 Score = 66.6 bits (161), Expect = 3e-14
 Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 7/108 (6%)

Query: 4   VQILVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSN 63
           ++ L +Q S+LET++P ++M FRD L P+SGFQSLQ+R +E  LG K+   ++   +   
Sbjct: 95  LRQLTEQWSVLETLTPSEYMGFRDVLGPSSGFQSLQYRYIEFLLGNKNPQMLQVFAY--- 151

Query: 64  VFHSNSEHLVALELSEQEPSLLNLVEKWLERTPGLEKDGFDFWTKYQR 111
               +      L    + PSL     ++L R        +        
Sbjct: 152 ----DPAGQARLREVLEAPSLYEEFLRYLARFGHAIPQQYQARDWTAA 195


>2nox_A Tryptophan 2,3-dioxygenase; helical bundle, heme protein,
           oxidoreductase; HET: HEM; 2.40A {Cupriavidus
           metallidurans}
          Length = 281

 Score = 57.7 bits (138), Expect = 4e-11
 Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 7/93 (7%)

Query: 4   VQILVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSN 63
           +  LV   ++L TM+P ++   R YL  +SGFQS Q+R +E  LG K+   +R + H   
Sbjct: 94  MDQLVQAWNVLATMTPPEYSAMRPYLGASSGFQSYQYREIEFILGNKNAAMLRPHAHRPE 153

Query: 64  VFHSNSEHLVALELSEQEPSLLNLVEKWLERTP 96
                      +E +   PS+ +   + + R  
Sbjct: 154 HLE-------LVETALHTPSMYDEAIRLMARRG 179


>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 = 33.7 bits (76), Expect = 0.013
 Identities = 19/134 (14%), Positives = 36/134 (26%), Gaps = 40/134 (29%)

Query: 3   SVQILVDQVSIL----ETMSPLDFMQ--------FRDYLTPASGFQSLQFRLMENKLGLK 50
           S  I    +S++         +  +          +          S+   L        
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY 443

Query: 51  SEHRV---RYNQHYSNVFHSNSE---------------HLVALELSEQEPSL----LNLV 88
           + HR     YN   +  F S+                 HL  +E  E+        L+  
Sbjct: 444 ALHRSIVDHYNIPKT--FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF- 500

Query: 89  EKWLERTPGLEKDG 102
            ++LE+   +  D 
Sbjct: 501 -RFLEQK--IRHDS 511



 Score = 27.1 bits (59), Expect = 2.1
 Identities = 23/175 (13%), Positives = 47/175 (26%), Gaps = 63/175 (36%)

Query: 2   LSVQILV--------DQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLK--- 50
           LS +IL+        D +S   T + +        LTP    +     L+   L  +   
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATT-THISLDHHSMTLTPD---EVKS--LLLKYLDCRPQD 317

Query: 51  --------------------SEHRVRYNQHYSNVFHSNSEHLVALELSEQEPSLL----- 85
                                +    +  ++ +V       ++   L+  EP+       
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATW-DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376

Query: 86  ---------NLVEKWLERTPGLEKDGFDFWTKY-QRGVQQMLDKRKDSALVRTDP 130
                    ++    L             W    +  V  +++K    +LV   P
Sbjct: 377 RLSVFPPSAHIPTILLSL----------IWFDVIKSDVMVVVNKLHKYSLVEKQP 421



 Score = 25.6 bits (55), Expect = 6.1
 Identities = 27/136 (19%), Positives = 49/136 (36%), Gaps = 33/136 (24%)

Query: 5   QILVDQVSILE-------TMSPLD--FMQFRDY-LTPA------SGFQS--LQFRLMENK 46
           + +VD  +I +           LD  F     + L         + F+   L FR +E K
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506

Query: 47  LGLKSEHRVRYNQHYSNVFHSNSEHLVALE-----LSEQEPSLLNLVEKWLERTPGLEKD 101
           +        R++    N   S    L  L+     + + +P    LV   L+  P +E++
Sbjct: 507 I--------RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558

Query: 102 GFDFWTKYQRGVQQML 117
                +KY   ++  L
Sbjct: 559 LIC--SKYTDLLRIAL 572


>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 = 31.6 bits (71), Expect = 0.058
 Identities = 20/120 (16%), Positives = 39/120 (32%), Gaps = 32/120 (26%)

Query: 15  ETMSPLD----FMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSNVF-HSNS 69
           E  +P +    F+ +   L   S        L    L L           + N +   N 
Sbjct: 53  EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVL---NLCL---------TEFENCYLEGND 100

Query: 70  EHLVALELSEQEPSLLNLVEKWLERTPGLEKDGFDFWTKYQ--RGVQQMLDKRKDSALVR 127
            H +A +L ++  + L   ++ ++                      ++  DK+ +SAL R
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIK-------------NYITARIMAKRPFDKKSNSALFR 147


  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
   0.319    0.134    0.387 

Gapped
Lambda     K      H
   0.267   0.0676    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,870,845
Number of extensions: 93877
Number of successful extensions: 197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 9
Length of query: 130
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 47
Effective length of database: 4,384,350
Effective search space: 206064450
Effective search space used: 206064450
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 (21.8 bits)
S2: 52 (23.9 bits)