RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780369|ref|YP_003064782.1| Electron transfer flavoprotein
alpha subunit [Candidatus Liberibacter asiaticus str. psy62]
         (318 letters)



>gnl|CDD|177660 PLN00022, PLN00022, electron transfer flavoprotein subunit alpha;
           Provisional.
          Length = 356

 Score =  278 bits (714), Expect = 1e-75
 Identities = 132/324 (40%), Positives = 199/324 (61%), Gaps = 15/324 (4%)

Query: 9   LLLADYNQENLSEQTARIVTAAQKI---SHDIHVLVLG--DNIENIAQQAARIQ-GVTQV 62
           L++A++   ++  Q+   V AA+ +   S  I +L+ G   +++  A  AA     V++V
Sbjct: 30  LVVAEHEGGSVKPQSLSAVAAAKSLLGESSPISLLLAGSGPSLQQAASHAASSHPSVSEV 89

Query: 63  IVAQSTIFRHKLAGPVSDFVVSIAR--DYKTIMASANAMGKDILPRVAAMLDVMQVSEVI 120
           +VA S    H LA P +  VV   +   Y  I+A++ + GK++LPR AA+LDV  +++V+
Sbjct: 90  LVADSDKLTHPLAEPWAKLVVLAQQKGGYSHILAASTSFGKNVLPRAAALLDVSPITDVV 149

Query: 121 EIISPKIFKRPSYTGNIIQTIETTDTYQ-IITIRAIAFPPAPKA----EKVASIHKISAE 175
            I+    F RP Y GN + T+    +   +++IR  +FP  P         A I ++   
Sbjct: 150 RILDSNTFVRPIYAGNALATVRYKGSGPCMLSIRPTSFPVTPALANSESNEAPISQVDLS 209

Query: 176 VL-EKYISNTRFIKEERTSLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIG 234
           +L E  +  +R++          DL SAK+V++GG+   S ENF K+L  LA KLG A+G
Sbjct: 210 LLDEDSVGKSRWVGLSVQDTERPDLGSAKVVVTGGRGLKSAENF-KMLEKLADKLGGAVG 268

Query: 235 ATRDAVDAGFAPNDWQIGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAP 294
           A+R AVDAGF PND Q+GQTG  V+PELYIA GISGAIQH++GMKDSKVIV+IN D +AP
Sbjct: 269 ASRAAVDAGFVPNDLQVGQTGKIVAPELYIAVGISGAIQHLAGMKDSKVIVAINKDADAP 328

Query: 295 IFKISDYFIVGDIFKILPEIEKNL 318
           IF+++DY +V D+F+ +PE+ + L
Sbjct: 329 IFQVADYGLVADLFEAVPELLEKL 352


>gnl|CDD|183380 PRK11916, PRK11916, electron transfer flavoprotein subunit YdiR;
           Provisional.
          Length = 312

 Score =  102 bits (256), Expect = 1e-22
 Identities = 83/315 (26%), Positives = 147/315 (46%), Gaps = 36/315 (11%)

Query: 21  EQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARIQGVTQVIVAQSTI-------FRHK 73
           E+ A +   AQ+    ++ +V   +      QA    G   + V +          +   
Sbjct: 15  ERYAELFGGAQQWGQQVYAIVQNTDQ----AQAVMPYGPKCIYVLEQNDALQRTENYAES 70

Query: 74  LAGPVSDFVVSIARDYKTIMASANAMGKDILPRVAAMLDVMQVSEV--IEIISPKIFKRP 131
           +A  + D   ++      ++ +A   GK +  R++  L+   V++   ++I+   I    
Sbjct: 71  IAALLKDKHPAM------LLLAATKRGKALAARLSVQLNAALVNDATAVDIVDGHICAEH 124

Query: 132 SYTGNIIQTIETTDTYQ-IITIRAIAFPPAPKAEKVASI---HKISAEVLEKYISNTRFI 187
              G +    E  ++   IIT+       AP  ++  +    H+   E +  Y++    I
Sbjct: 125 RMYGGLAFAQEKINSPLAIITL-------APGVQEPCTSDTSHQCPTETV-PYVAPRHEI 176

Query: 188 --KEERT-SLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIGATRD-AVDAG 243
             +E R  + S  DLS AK V+  G+   + ++  K++  LA  L A +G +R  A    
Sbjct: 177 LCRERRAKAASSVDLSKAKRVVGVGRGLAAQDDL-KMVHELAAVLNAEVGCSRPIAEGEN 235

Query: 244 FAPNDWQIGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAPIFKISDYFI 303
           +   +  IG +GV +  +LY+  GISG IQH+ G   +KVIV+IN D+NAPIF  +DY +
Sbjct: 236 WMERERYIGVSGVLLKSDLYLTLGISGQIQHMVGGNGAKVIVAINKDKNAPIFNYADYGL 295

Query: 304 VGDIFKILPEIEKNL 318
           VGDI+K++P +   L
Sbjct: 296 VGDIYKVVPALISQL 310


>gnl|CDD|179570 PRK03363, fixB, putative electron transfer flavoprotein FixB;
           Provisional.
          Length = 313

 Score =  102 bits (255), Expect = 1e-22
 Identities = 68/188 (36%), Positives = 100/188 (53%), Gaps = 6/188 (3%)

Query: 133 YTGNIIQTIETTDTYQIITIRAIAFPPA-PKAEKVASIHKISAEVLEKYISNTRFIKEER 191
           Y G  I        Y ++TI +  F  A P A +    H  + E     ++ TR   + R
Sbjct: 128 YGGLAIGEERIATPYAVLTISSGTFDAAQPDASRTGETH--TVEWQAPAVAITRTATQAR 185

Query: 192 TSLSPTDLSSAKIVISGGKSFGSMENFHKLLLPLAKKLGAAIGATRD-AVDAGFAPNDWQ 250
            S +  DL  A++V+S G+  GS EN   L   L K +GA +  +R  A +  +  ++  
Sbjct: 186 QS-NSVDLDKARLVVSVGRGIGSKENI-ALAEQLCKAIGAELACSRPVAENEKWMEHERY 243

Query: 251 IGQTGVTVSPELYIAAGISGAIQHISGMKDSKVIVSINTDENAPIFKISDYFIVGDIFKI 310
           +G + + + PELY+A GISG IQH+ G   S+ I +IN D+NAPIF+ +DY IVGD  KI
Sbjct: 244 VGISNLMLKPELYLAVGISGQIQHMVGANASQTIFAINKDKNAPIFQYADYGIVGDAVKI 303

Query: 311 LPEIEKNL 318
           LP +   L
Sbjct: 304 LPALTAAL 311


>gnl|CDD|183886 PRK13192, PRK13192, bifunctional urease subunit gamma/beta;
           Reviewed.
          Length = 208

 Score = 31.5 bits (72), Expect = 0.28
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 7/45 (15%)

Query: 78  VSDFVVSIARDYKTIMASANAMGK------DILPRVAAMLDVMQV 116
           ++D V+  ARD ++ +A    +G+      D+LP VA M+  +QV
Sbjct: 39  IADEVLEAARDGRS-VAELIDLGRTILTTDDVLPGVADMVPEVQV 82


>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
          Length = 275

 Score = 29.6 bits (67), Expect = 1.1
 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 8/59 (13%)

Query: 9  LLLADYNQENLSEQTARIVTAAQKISHDIHVLVLG----DNIENIAQQAARIQGVTQVI 63
          +LLADYN+ENL E  A+ +  A     D+    +     ++++ +A  A  +  VT ++
Sbjct: 27 VLLADYNEENL-EAAAKTLREA---GFDVSTQEVDVSSRESVKALAATAQTLGPVTGLV 81


>gnl|CDD|166881 PRK00275, glnD, PII uridylyl-transferase; Provisional.
          Length = 895

 Score = 29.6 bits (67), Expect = 1.2
 Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)

Query: 16  QENLSEQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARIQGVTQVIV 64
           Q NL+   ARI+T++ + + D ++ VL D+ E I    ARI+ + + + 
Sbjct: 727 QLNLNIHDARIITSSSQFTLDTYI-VLDDDGEPIGDNPARIEQIREGLT 774


>gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era.  Era is an essential
           GTPase in Escherichia coli and many other bacteria. It
           plays a role in ribosome biogenesis. Few bacteria lack
           this protein.
          Length = 270

 Score = 28.9 bits (65), Expect = 1.7
 Identities = 15/33 (45%), Positives = 15/33 (45%), Gaps = 4/33 (12%)

Query: 120 IEIISPKIFKRPSYTGNIIQTIETTDTYQIITI 152
           I I SPK       T N I  I TT   QII I
Sbjct: 25  ISITSPK----AQTTRNRISGIHTTGASQIIFI 53


>gnl|CDD|149868 pfam08934, Rb_C, Rb C-terminal domain.  The Rb C-terminal domain is
           required for high-affinity binding to E2F-DP complexes
           and for maximal repression of E2F-responsive promoters,
           thereby acting as a growth suppressor by blocking the
           G1-S transition of the cell cycle. This domain has a
           strand-loop-helix structure, which directly interacts
           with both E2F1 and DP1, followed by a tail segment that
           lacks regular secondary structure.
          Length = 155

 Score = 27.2 bits (60), Expect = 5.7
 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 5/77 (6%)

Query: 148 QIITIRAIAFPPAPKAEKVASIHKISAEVLEKYISNTRFIK--EERTSLSPTDLS-SAKI 204
           Q  + R     P P   +  S +K     L    SN  +I   +  + +SPT ++  ++I
Sbjct: 3   QYASTRPPTLSPIPHIPR--SPYKFPNSPLRVPGSNNIYISPLKSPSRMSPTKMTPRSRI 60

Query: 205 VISGGKSFGSMENFHKL 221
           ++S G+SFG+ E F K+
Sbjct: 61  LVSIGESFGTAEKFQKI 77


>gnl|CDD|162392 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate
           synthase.  A mutation study of the FolC gene of E. coli
           suggests that both activitities belong to the same
           active site. Because some examples are monofunctional
           (and these cannot be separated phylogenetically), the
           model is treated as subfamily, not equivalog.
          Length = 397

 Score = 27.2 bits (61), Expect = 6.4
 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 4/39 (10%)

Query: 18  NLSEQTARIVTAAQKISHDIHVLVLGDNIENIAQQAARI 56
           N+ E    ++T    I  D H  +LGD +E IA + A I
Sbjct: 128 NVIEPLVSVIT---SIGLD-HTEILGDTLEEIAWEKAGI 162


>gnl|CDD|178854 PRK00089, era, GTPase Era; Reviewed.
          Length = 292

 Score = 26.9 bits (61), Expect = 6.4
 Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 4/31 (12%)

Query: 120 IEIISPKIFKRPSYTGNIIQTIETTDTYQII 150
           I I+SPK    P  T + I+ I T D  QII
Sbjct: 30  ISIVSPK----PQTTRHRIRGIVTEDDAQII 56


>gnl|CDD|179397 PRK02256, PRK02256, putative aminopeptidase 1; Provisional.
          Length = 462

 Score = 27.1 bits (61), Expect = 7.0
 Identities = 11/20 (55%), Positives = 14/20 (70%)

Query: 281 SKVIVSINTDENAPIFKISD 300
           +KV + I  DEN P+F ISD
Sbjct: 153 TKVEIVIGEDENDPVFTISD 172


>gnl|CDD|152370 pfam11935, DUF3453, Domain of unknown function (DUF3453).  This
           presumed domain is functionally uncharacterized. This
           domain is found in eukaryotes. This domain is typically
           between 239 to 261 amino acids in length.
          Length = 241

 Score = 26.9 bits (60), Expect = 7.2
 Identities = 20/102 (19%), Positives = 38/102 (37%), Gaps = 15/102 (14%)

Query: 59  VTQVIVAQST--IFRHKLAGPVSDFVVSIARDYKTIMASAN--AMGKDILPRVAAMLDVM 114
           V +VI+ Q+          G  +DF +S       ++   N  A    +L R   +LDV+
Sbjct: 69  VERVILVQTPGPSDSDPRRGDENDFSLSKVPPNHPLIKYQNLEAEANGLLDR---LLDVL 125

Query: 115 QVSE--------VIEIISPKIFKRPSYTGNIIQTIETTDTYQ 148
           Q            +  ++    +RP +   I+  +   +  Q
Sbjct: 126 QEDSISSPLLTATLNSLAVIAKQRPQFANRILNALLNFNPNQ 167


>gnl|CDD|163083 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS.  This
           protein, TorS, is part of a regulatory system for the
           torCAD operon that encodes the pterin molybdenum
           cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
           reductase (TorA), a cognate chaperone (TorD), and a
           penta-haem cytochrome (TorC). TorS works together with
           the inducer-binding protein TorT and the response
           regulator TorR. TorS contains histidine kinase ATPase
           (pfam02518), HAMP (pfam00672), phosphoacceptor
           (pfam00512), and phosphotransfer (pfam01627) domains and
           a response regulator receiver domain (pfam00072).
          Length = 968

 Score = 26.7 bits (59), Expect = 7.8
 Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 98  AMGKDILPRVAAMLDVMQVSEVIEIISPKIFKRPSYTGNIIQTIETTDTY--QIITIRA 154
           A+GK +  +   +L  ++    +      + +      +II T+        + IT++A
Sbjct: 77  AIGKKLTLQSETLLHSLKALGELPFNEDLLARLEVLVKDIIDTLAQLGLSVGERITLQA 135


>gnl|CDD|184504 PRK14097, pgi, glucose-6-phosphate isomerase; Provisional.
          Length = 448

 Score = 26.7 bits (60), Expect = 9.1
 Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 8/37 (21%)

Query: 5  DMPVLLLADYNQENLSEQTARIVTAAQKISHDIHVLV 41
          D+P     +Y++E      ARI  AA+KI  D  VLV
Sbjct: 49 DLPE----NYDKEEF----ARIKKAAEKIKSDSDVLV 77


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.318    0.133    0.367 

Gapped
Lambda     K      H
   0.267   0.0600    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,131,910
Number of extensions: 333390
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 712
Number of HSP's successfully gapped: 26
Length of query: 318
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 225
Effective length of database: 3,984,929
Effective search space: 896609025
Effective search space used: 896609025
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: 57 (26.0 bits)