RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

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



>d1pdaa1 c.94.1.1 (A:3-219) Porphobilinogen deaminase
           (hydroxymethylbilane synthase), N-terminal domain
           {Escherichia coli [TaxId: 562]}
          Length = 217

 Score =  167 bits (425), Expect = 8e-43
 Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 2/218 (0%)

Query: 4   KPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGGKGL 63
              RI TR SPLAL  A   +  LM  H  P   + ++P+ T+GD I +  L ++GGKGL
Sbjct: 2   NVLRIATRQSPLALWQAHYVKDKLMASH--PGLVVELVPMVTRGDVILDTPLAKVGGKGL 59

Query: 64  FTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISHTAQSLKDLAL 123
           F +E+E  L+    D AVHS KD+P +  +GL +     RED RD F+S+   SL  L  
Sbjct: 60  FVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPA 119

Query: 124 HSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLKKEK 183
            S++GTSSLRR+  L   R D+ +   RG + TRL+KL+N +  AI+LA AG+KRL  E 
Sbjct: 120 GSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLES 179

Query: 184 VIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVI 221
            I+  L  E   P+ GQGA+ IE  +++ + +EL+  +
Sbjct: 180 RIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAAL 217


>d1pdaa2 d.50.2.1 (A:220-307) Porphobilinogen deaminase
           (hydroxymethylbilane synthase), C-terminal domain
           {Escherichia coli [TaxId: 562]}
          Length = 88

 Score = 76.0 bits (187), Expect = 4e-15
 Identities = 23/76 (30%), Positives = 34/76 (44%)

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

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


>d1qwja_ c.68.1.13 (A:) CMP acylneuraminate synthetase {Mouse (Mus
          musculus) [TaxId: 10090]}
          Length = 228

 Score = 28.5 bits (62), Expect = 0.82
 Identities = 8/48 (16%), Positives = 15/48 (31%)

Query: 34 PPHNIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAV 81
          PPH   ++        I  + +  + G  L    +   L +G      
Sbjct: 1  PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVW 48


>d1wpxb1 b.17.1.1 (B:501-719) Carboxypeptidase Y inhibitor {Baker's
           yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 219

 Score = 27.8 bits (61), Expect = 1.3
 Identities = 10/31 (32%), Positives = 17/31 (54%)

Query: 167 HAILLAYAGIKRLKKEKVIKEILNIEDFPPS 197
            AI  A A I   KK  +++++++   F PS
Sbjct: 3   QAIDFAQASIDSYKKHGILEDVIHDTSFQPS 33


>d1zcha1 d.90.1.1 (A:1-249) Hypothetical oxidoreductase YcnD
           {Bacillus subtilis [TaxId: 1423]}
          Length = 249

 Score = 27.1 bits (59), Expect = 2.1
 Identities = 8/60 (13%), Positives = 24/60 (40%)

Query: 182 EKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHEDTWDSVNCERAFLAELD 241
            + + E+L +  +        I      +  K +   + +NH++T+ + +   + +   D
Sbjct: 142 PQELIELLELPKYVFPLSGLVIGHPADRSAKKPRLPQEAVNHQETYLNQDELTSHIQAYD 201


>d2gnoa1 a.80.1.1 (A:209-306) gamma subunit {Thermotoga maritima
           [TaxId: 2336]}
          Length = 98

 Score = 26.5 bits (58), Expect = 2.6
 Identities = 9/20 (45%), Positives = 15/20 (75%)

Query: 215 QELVKVINHEDTWDSVNCER 234
           Q L ++I HE+TW+SV  ++
Sbjct: 45  QRLTRIILHENTWESVEDQK 64


>d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation
           specificity factor subunit 3 {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 451

 Score = 26.7 bits (57), Expect = 2.8
 Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 16/76 (21%)

Query: 38  IVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQI 97
           ++I PL             E+G   +  E   +K++   +DC +H   +     +  L  
Sbjct: 4   LLIRPLGAGQ---------EVGRSCIILEFKGRKIM---LDCGIHPGLEG----MDALPY 47

Query: 98  SAYLPREDIRDVFISH 113
              +   +I  + ISH
Sbjct: 48  IDLIDPAEIDLLLISH 63


>d1eyra_ c.68.1.13 (A:) CMP acylneuraminate synthetase {Neisseria
          meningitidis [TaxId: 487]}
          Length = 225

 Score = 26.3 bits (56), Expect = 3.5
 Identities = 9/42 (21%), Positives = 15/42 (35%)

Query: 37 NIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEID 78
          NI +I        +  + L ++ G  L    I   + S   D
Sbjct: 5  NIAVILARQNSKGLPLKNLRKMNGISLLGHTINAAISSKCFD 46


>d1wtea_ c.52.1.29 (A:) Restriction endonuclease EcoO109IR
           {Escherichia coli [TaxId: 562]}
          Length = 272

 Score = 25.8 bits (56), Expect = 4.5
 Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 146 SVIDFRGKIETRLNK-----LNNNKAHAILLAYAGIKRLKKEKVIKE 187
           +VID R K+     K     LNN +A        GI+R  KE  IKE
Sbjct: 187 NVIDIRDKVHVYAGKEFWSWLNNGEAETQHWVLEGIERAVKEADIKE 233


>d1re5a_ a.127.1.1 (A:) 3-carboxy-cis,cis-muconate cycloisomerase
           (CMLE) {Pseudomonas putida, strain KT2440 [TaxId: 303]}
          Length = 448

 Score = 25.8 bits (55), Expect = 4.9
 Identities = 12/68 (17%), Positives = 17/68 (25%), Gaps = 9/68 (13%)

Query: 143 SDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLKKEKVIKEILNIEDFPPSPGQGA 202
           SD   +      E          A A   A AG+        I+     E +       A
Sbjct: 18  SDRGRLQGMLDFE---------AALARAEASAGLVPHSAVAAIEAACQAERYDTGALANA 68

Query: 203 ICIETHVN 210
           I    +  
Sbjct: 69  IATAGNSA 76


>d2dkfa1 d.157.1.10 (A:1-431) Putative RNA-degradation protein
           TTHA0252 {Thermus thermophilus [TaxId: 274]}
          Length = 431

 Score = 25.3 bits (54), Expect = 6.4
 Identities = 7/57 (12%), Positives = 20/57 (35%), Gaps = 8/57 (14%)

Query: 57  EIGGKGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISH 113
           E+ G         ++++   +DC +   K+                 +++  V ++H
Sbjct: 11  EVTGSAHLLLAGGRRVL---LDCGMFQGKEEARNHAP-----FGFDPKEVDAVLLTH 59


>d1xs5a_ c.94.1.1 (A:) Putative lipoprotein (NlpA family) {Treponema
           pallidum [TaxId: 160]}
          Length = 240

 Score = 24.7 bits (53), Expect = 9.4
 Identities = 17/183 (9%), Positives = 45/183 (24%), Gaps = 29/183 (15%)

Query: 72  LISGEIDCAVHSAKDMPTKLLK--GLQISAYLPREDIRDVFISHTAQSLKDLALHSVIGT 129
           ++ G+I            +  +     + +            S T + + D    +VI  
Sbjct: 47  VMRGDILMNFFQHVPHMQQFNQEHNGDLVSVGNVHVEPLALYSRTYRHVSDFPAGAVIAI 106

Query: 130 S-------------------SLRRKALLLRWRSDISVIDFRGKI-----ETRLNKLNNNK 165
                                +R  + L     D+        +            +   
Sbjct: 107 PNDSSNEARALRLLEAAGFIRMRAGSGLFATVEDVQQNVRNVVLQEVESALLPRVFDQVD 166

Query: 166 AHAILLAYAGIKRLKKEKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHED 225
              I   YA +  L   +   + L +E    +     +    +  + + Q +++ +    
Sbjct: 167 GAVINGNYAIMAGLSARR---DGLAVEPDASAYANVLVVKRGNEADARVQAVLRALCGGR 223

Query: 226 TWD 228
              
Sbjct: 224 VRT 226


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.321    0.137    0.401 

Gapped
Lambda     K      H
   0.267   0.0628    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,162,788
Number of extensions: 55112
Number of successful extensions: 164
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 19
Length of query: 307
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 222
Effective length of database: 1,240,546
Effective search space: 275401212
Effective search space used: 275401212
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: 53 (24.4 bits)