RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254781037|ref|YP_003065450.1| porphobilinogen deaminase
[Candidatus Liberibacter asiaticus str. psy62]
         (307 letters)



>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear
           tetrapyrrole, all alpha/beta; HET: DPM; 1.66A
           {Escherichia coli} (A:1-103,A:194-219)
          Length = 129

 Score =  132 bits (335), Expect = 4e-32
 Identities = 43/105 (40%), Positives = 59/105 (56%), Gaps = 2/105 (1%)

Query: 1   MEKKPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGG 60
           M     RI TR SPLAL  A   +  LM  H  P   + ++P+ T+GD I +  L ++GG
Sbjct: 1   MLDNVLRIATRQSPLALWQAHYVKDKLMASH--PGLVVELVPMVTRGDVILDTPLAKVGG 58

Query: 61  KGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPRED 105
           KGLF +E+E  L+    D AVHS KD+P +  +GL +     RED
Sbjct: 59  KGLFVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICERED 103


>3ecr_A Porphobilinogen deaminase; heme biosynthesis,
           porphobilinogen hinge, alternative splicing, cytoplasm,
           disease mutation, porphyrin biosynthesis; HET: DPM;
           2.18A {Homo sapiens} PDB: 3eq1_A* (A:1-120,A:217-241)
          Length = 145

 Score =  123 bits (311), Expect = 2e-29
 Identities = 41/104 (39%), Positives = 56/104 (53%), Gaps = 2/104 (1%)

Query: 3   KKPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGGKG 62
            +  R+GTR S LA        ++L   +  P     II +ST GD+I +  L++IG K 
Sbjct: 21  MRVIRVGTRKSQLARIQTDSVVATLKASY--PGLQFEIIAMSTTGDKILDTALSKIGEKS 78

Query: 63  LFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDI 106
           LFT+E+E  L   E+D  VHS KD+PT L  G  I A   RE +
Sbjct: 79  LFTKELEHALEKNEVDLVVHSLKDLPTVLPPGFTIGAICKREAV 122


>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear
           tetrapyrrole, all alpha/beta; HET: DPM; 1.66A
           {Escherichia coli} (A:104-193)
          Length = 90

 Score =  104 bits (262), Expect = 1e-23
 Identities = 39/88 (44%), Positives = 53/88 (60%)

Query: 107 RDVFISHTAQSLKDLALHSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKLNNNKA 166
           RD F+S+   SL  L   S++GTSSLRR+  L   R D+ +   RG + TRL+KL+N + 
Sbjct: 2   RDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEY 61

Query: 167 HAILLAYAGIKRLKKEKVIKEILNIEDF 194
            AI+LA AG+KRL  E  I+  L  E  
Sbjct: 62  DAIILAVAGLKRLGLESRIRAALPPEIS 89


>3ecr_A Porphobilinogen deaminase; heme biosynthesis,
           porphobilinogen hinge, alternative splicing, cytoplasm,
           disease mutation, porphyrin biosynthesis; HET: DPM;
           2.18A {Homo sapiens} PDB: 3eq1_A* (A:121-216)
          Length = 96

 Score = 98.3 bits (245), Expect = 1e-21
 Identities = 33/94 (35%), Positives = 51/94 (54%), Gaps = 4/94 (4%)

Query: 105 DIRDVFISH---TAQSLKDLALHSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKL 161
           +  D  + H     ++L+ L   SV+GTSSLRR A L R    +     RG + TRL KL
Sbjct: 1   NPHDAVVFHPKFVGKTLETLPEKSVVGTSSLRRAAQLQRKFPHLEFRSIRGNLNTRLRKL 60

Query: 162 N-NNKAHAILLAYAGIKRLKKEKVIKEILNIEDF 194
           +   +  AI+LA AG++R+     + +IL+ E+ 
Sbjct: 61  DEQQEFSAIILATAGLQRMGWHNRVGQILHPEEC 94


>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear
           tetrapyrrole, all alpha/beta; HET: DPM; 1.66A
           {Escherichia coli} (A:220-313)
          Length = 94

 Score = 82.1 bits (203), Expect = 8e-17
 Identities = 22/76 (28%), Positives = 32/76 (42%)

Query: 222 NHEDTWDSVNCERAFLAELDGSCKSAIAGFAYCKGSTLYFYGIVLASDGKIFHEVSRNGN 281
           NH +T   V  ERA    L+G C+  I  +A      ++   +V A DG       R G 
Sbjct: 1   NHHETALRVTAERAMNTRLEGGCQVPIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGA 60

Query: 282 RCDAINIGRDAAQYIR 297
             DA  +G   A+ + 
Sbjct: 61  PQDAEQMGISLAEELL 76


>3ecr_A Porphobilinogen deaminase; heme biosynthesis,
           porphobilinogen hinge, alternative splicing, cytoplasm,
           disease mutation, porphyrin biosynthesis; HET: DPM;
           2.18A {Homo sapiens} PDB: 3eq1_A* (A:242-364)
          Length = 123

 Score = 78.8 bits (194), Expect = 9e-16
 Identities = 17/76 (22%), Positives = 25/76 (32%)

Query: 222 NHEDTWDSVNCERAFLAELDGSCKSAIAGFAYCKGSTLYFYGIVLASDGKIFHEVSRNGN 281
           +  +T      ERAFL  L+G C   +A     K   LY  G V + DG    + +    
Sbjct: 1   HDPETLLRCIAERAFLRHLEGGCSVPVAVHTAMKDGQLYLTGGVWSLDGSDSIQETMQAT 60

Query: 282 RCDAINIGRDAAQYIR 297
                          +
Sbjct: 61  IHVPAQHEDGPEDDPQ 76


>1qwj_A Cytidine monophospho-N-acetylneuraminic acid synthetase;
          CMP-5-N-acetylneuraminic acid synthetase, CMP-NEU5AC,
          sialic acid, glycosylation; HET: NCC; 2.80A {Mus
          musculus} (A:1-206)
          Length = 206

 Score = 28.8 bits (63), Expect = 0.94
 Identities = 8/49 (16%), Positives = 15/49 (30%)

Query: 34 PPHNIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAVH 82
          PPH   ++        I  + +  + G  L    +   L +G       
Sbjct: 1  PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWV 49


>2p5x_A ASMTL, N-acetylserotonin O-methyltransferase-like protein;
           structural genomics, structural genomics consortium,
           SGC, unknown function; 2.00A {Homo sapiens} (A:)
          Length = 230

 Score = 27.3 bits (60), Expect = 3.0
 Identities = 24/134 (17%), Positives = 43/134 (32%), Gaps = 18/134 (13%)

Query: 126 VIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLKKEKVI 185
           V+ ++S RR+ +L        V+  + K +           +A+  A       K  +V 
Sbjct: 7   VLASASPRRQEILSNAGLRFEVVPSKFKEKLDKASFATPYGYAMETAKQ-----KALEVA 61

Query: 186 KEILNIEDFPPSPGQGA-ICIETHVNNPKAQELVKVINHEDTWDSVNCERAFLAELDGSC 244
             +   +   P    GA   +           L K ++ +D           L+ L G  
Sbjct: 62  NRLYQKDLRAPDVVIGADTIVTVG-----GLILEKPVDKQDA-------YRMLSRLSGRE 109

Query: 245 KSAIAGFAYCKGST 258
            S   G A    S+
Sbjct: 110 HSVFTGVAIVHCSS 123


>2gno_A DNA polymerase III, gamma subunit-related protein; TM0771,
           structural genomics, PSI, protein structure initiative;
           HET: DNA; 2.00A {Thermotoga maritima MSB8} (A:141-305)
          Length = 165

 Score = 26.9 bits (59), Expect = 3.1
 Identities = 9/21 (42%), Positives = 16/21 (76%)

Query: 215 QELVKVINHEDTWDSVNCERA 235
           Q L ++I HE+TW+SV  +++
Sbjct: 106 QRLTRIILHENTWESVEDQKS 126


>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor,
           translation, antitumor protein; 1.15A {Mus musculus}
           (A:)
          Length = 129

 Score = 26.7 bits (59), Expect = 4.2
 Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 1/60 (1%)

Query: 64  FTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISHTAQSLKDLAL 123
           F  E+  + I   ++    SA  M   LLK L  S+ +  + ++  +       + D+ L
Sbjct: 38  FHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYER-IYNEIPDINL 96


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.321    0.137    0.401 

Gapped
Lambda     K      H
   0.267   0.0641    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,326,204
Number of extensions: 104573
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 16
Length of query: 307
Length of database: 4,956,049
Length adjustment: 88
Effective length of query: 219
Effective length of database: 1,981,209
Effective search space: 433884771
Effective search space used: 433884771
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: 54 (24.8 bits)