RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780858|ref|YP_003065271.1| NADH dehydrogenase I subunit F
[Candidatus Liberibacter asiaticus str. psy62]
         (425 letters)



>gnl|CDD|32078 COG1894, NuoF, NADH:ubiquinone oxidoreductase, NADH-binding (51 kD)
           subunit [Energy production and conversion].
          Length = 424

 Score =  647 bits (1671), Expect = 0.0
 Identities = 249/422 (59%), Positives = 303/422 (71%), Gaps = 6/422 (1%)

Query: 1   MLTDQDR-IFTNLYGLQGKSLSDSMSRGHWDNVDKIL-EKGRDWIINEVKASGLRGRGGA 58
            L +QDR  F NL      SL + ++RG ++ + K L E G D II EVK SGLRGRGGA
Sbjct: 5   FLKNQDRITFRNLGDPDPWSLDEYLARGGYEGLRKALTEMGPDEIIEEVKESGLRGRGGA 64

Query: 59  GFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGA 118
           GF TG+KWSFMPK  SD+  YLV NADE EPGT KDR IM  +PH LIEG +IA++A+GA
Sbjct: 65  GFPTGLKWSFMPKATSDQ-KYLVCNADEGEPGTFKDRLIMEGDPHLLIEGMIIAAYAVGA 123

Query: 119 HCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSK-LGYDVDIIVHHGAGAYICGEETA 177
              +IY+RGE+    E LQ A++E YA+GLLG N    G+D D+ VHHGAGAYICGEETA
Sbjct: 124 TKGYIYIRGEYPEAIERLQKAIEEAYAAGLLGKNILGSGFDFDLYVHHGAGAYICGEETA 183

Query: 178 LLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNR 237
           LLESLEGK+GQPRLKPPFPA  GLYG PT +NNVE++A VP I+RRGA W+   G+ N+R
Sbjct: 184 LLESLEGKRGQPRLKPPFPATSGLYGKPTVINNVETLANVPAIIRRGADWFRSIGKPNSR 243

Query: 238 GTKLFSISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLPAGQ 297
           GTKLFS+SGHV  P   E  M  T  ELIE + GG+RGGW  L AV PGG S PCLP  +
Sbjct: 244 GTKLFSLSGHVKNPGLYEVPMGTTLRELIEDYAGGVRGGW-KLKAVQPGGPSGPCLPE-E 301

Query: 298 MRGAIMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGW 357
           +    MDYD L + GS LGT  +IVMD ST ++KA  RLS FYKHESCG+CTPCREGTGW
Sbjct: 302 LLDTPMDYDSLAKAGSMLGTGGIIVMDDSTCMVKAARRLSEFYKHESCGKCTPCREGTGW 361

Query: 358 MMRVMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERID 417
           M+R++ERLV+G  Q  ++DLL ++   I+G+T CALGDAAAWP+Q  +++FR   E  I 
Sbjct: 362 MVRILERLVRGEGQPEDLDLLEDLCNQIKGKTFCALGDAAAWPVQSALRHFRDEFEAHIK 421

Query: 418 QY 419
             
Sbjct: 422 VG 423


>gnl|CDD|37869 KOG2658, KOG2658, KOG2658, NADH:ubiquinone oxidoreductase,
           NDUFV1/51kDa subunit [Energy production and conversion].
          Length = 478

 Score =  640 bits (1651), Expect = 0.0
 Identities = 277/421 (65%), Positives = 328/421 (77%), Gaps = 1/421 (0%)

Query: 2   LTDQDRIFTNLYGLQGKSLSDSMSRGHWDNVDKILEKGRDWIINEVKASGLRGRGGAGFS 61
           L D+DRIFTNLYG     L  +++RG W    +IL KG DWI+NEVK SGLRGRGGAGF 
Sbjct: 50  LADEDRIFTNLYGRHDWRLKGALARGDWHKTKEILLKGPDWIVNEVKTSGLRGRGGAGFP 109

Query: 62  TGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAHCA 121
           +G+KWSFM K    RP YLVVNADE EPGTCKDR+I+RH+PH LIEGC+IA  A+GA  A
Sbjct: 110 SGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREILRHDPHKLIEGCLIAGRAMGASAA 169

Query: 122 FIYVRGEFIRERESLQAAVDECYASGLLGSNS-KLGYDVDIIVHHGAGAYICGEETALLE 180
           +IY+RGEF  E  +LQ A+ E YA+GLLG N+   GYD D+ VH GAGAYICGEETAL+E
Sbjct: 170 YIYIRGEFYNEACNLQKAIIEAYAAGLLGKNACGTGYDFDVFVHRGAGAYICGEETALIE 229

Query: 181 SLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNRGTK 240
           SLEGK+G+PRLKPPFPA+ GL+GCPTTV NVE++AV PTI RRG  W++ FGR  NRGTK
Sbjct: 230 SLEGKQGKPRLKPPFPADSGLFGCPTTVTNVETVAVSPTICRRGGKWFASFGRPRNRGTK 289

Query: 241 LFSISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLPAGQMRG 300
           LF ISGHVN PCTVEE MSI   +LIE+H GG+RGGWDNLLA+IPGGSS P +P      
Sbjct: 290 LFCISGHVNNPCTVEEEMSIPLKDLIERHAGGVRGGWDNLLAIIPGGSSTPLIPKNVCEQ 349

Query: 301 AIMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGWMMR 360
            +MD+D LK   SGLGT AVIVM++STDI+KAI RL  FYKHESCGQCTPCREG  W+  
Sbjct: 350 VLMDFDSLKAAQSGLGTGAVIVMNKSTDIVKAIARLIKFYKHESCGQCTPCREGVEWLNE 409

Query: 361 VMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYH 420
           +M R V G A   EID+L+E+SK IEG TICALGD+AAWP+QGLI++FRP IEER+ +  
Sbjct: 410 IMARFVDGQAHPSEIDMLFEISKQIEGHTICALGDSAAWPVQGLIRHFRPEIEERMKKRA 469

Query: 421 R 421
           +
Sbjct: 470 K 470


>gnl|CDD|144926 pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd
           subunit. 
          Length = 150

 Score =  187 bits (478), Expect = 4e-48
 Identities = 69/172 (40%), Positives = 92/172 (53%), Gaps = 23/172 (13%)

Query: 47  VKASGLRGRGGAGFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLI 106
           +K +G+ GRGGAGF T +K S        +  YL+VN  E EPG  KDR +MR  PH +I
Sbjct: 1   IKEAGIVGRGGAGFPTHVKLSPPAD---KKIKYLIVNGAECEPGLTKDRRLMRERPHEII 57

Query: 107 EGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDVDIIVHHG 166
           EG +IA++A+GA    I +         +L+ A+ E  A+G            DI V   
Sbjct: 58  EGILIAAYALGAKKGVIGIEDNKPEAIAALEKAIAEAPAAG------------DIEVVLL 105

Query: 167 AGAYICGEETALLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVP 218
            G Y CGEE AL+ SL G +  PR     PA+VG+      VNNVE++A VP
Sbjct: 106 PGKYPCGEEKALIYSLTG-REVPRGGL--PADVGV-----VVNNVETLAAVP 149


>gnl|CDD|34275 COG4656, RnfC, Predicted NADH:ubiquinone oxidoreductase, subunit
           RnfC [Energy production and conversion].
          Length = 529

 Score = 55.7 bits (134), Expect = 3e-08
 Identities = 43/180 (23%), Positives = 72/180 (40%), Gaps = 31/180 (17%)

Query: 40  RDWIINEVKASGLRGRGGAGFSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMR 99
            + ++ ++K +G+ G GGAGF T +K     K    +   L++NA E EP    D  +MR
Sbjct: 122 PEELLEKIKQAGIVGLGGAGFPTAVKLQAGCK----KIETLIINAAECEPYITADDRLMR 177

Query: 100 HEPHTLIEGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDV 159
                +++G  I    +      I +         +L+AA+                   
Sbjct: 178 EHAEEIVKGIQILRKILKPKEVVIAIEDNKPEAIAALRAALFGDR--------------- 222

Query: 160 DIIVHHGAGAYICGEETALLESLEGKKGQPRLKPP--FPANVGLYGCPTTVNNVESIAVV 217
           DI +H     Y  G E  L++ L G++      P    P++VG+      V NV +   V
Sbjct: 223 DIKIHVLPTKYPSGGEKQLIKILTGRE-----VPKGGLPSDVGV-----LVQNVGTAYAV 272


>gnl|CDD|144436 pfam00840, Glyco_hydro_7, Glycosyl hydrolase family 7. 
          Length = 432

 Score = 28.2 bits (63), Expect = 4.2
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 6/46 (13%)

Query: 284 IPGGSSVP---CLPAGQMRGAI---MDYDGLKEMGSGLGTAAVIVM 323
           IPG +S+    C       G      +  GL +MG  L    V+VM
Sbjct: 320 IPGVNSITDDFCAAQKAAFGDTNSFAEKGGLAQMGEALSRGMVLVM 365


>gnl|CDD|34940 COG5377, COG5377, Phage-related protein, predicted endonuclease
           [DNA replication, recombination, and repair].
          Length = 319

 Score = 28.1 bits (62), Expect = 5.4
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 363 ERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERID 417
           E L    + KR+I  L + +K IE R    L +A           ++P+   R+D
Sbjct: 232 EALAVLHSIKRDISELEDFAKEIENRLKNELKEAEYGFTADYDAVWKPVDSNRVD 286


>gnl|CDD|147768 pfam05794, Tcp11, T-complex protein 11.  This family consists of
           several eukaryotic T-complex protein 11 (Tcp11) related
           sequences. Tcp11 is only expressed in fertile adult
           mammalian testes and is thought to be important in sperm
           function and fertility. The family also contains the
           yeast Sok1 protein which is known to suppress cyclic
           AMP-dependent protein kinase mutants.
          Length = 423

 Score = 28.0 bits (63), Expect = 5.6
 Identities = 22/106 (20%), Positives = 44/106 (41%), Gaps = 32/106 (30%)

Query: 326 STDIIK-AIWRLSVFYKHESCGQCTPCREGTGWMMRVMERLVKGIAQKREI----DLL-Y 379
           + DI+K A + +++  K      C P R+    + ++ E++V  +   R I    +L+  
Sbjct: 96  ALDIVKLAKFIINLLKKL-----CAPARDE--EVKKLKEKIVDIVEGLRGIFEVLELMKL 148

Query: 380 EVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYHRCNFQ 425
           +++                      I++ RPL+ E   +Y R  FQ
Sbjct: 149 DMAN-------------------HQIRSLRPLLIENSVEYERKKFQ 175


>gnl|CDD|153086 cd01677, PFL2_DhaB_BssA, Pyruvate formate lyase 2 and related
           enzymes.  This family includes pyruvate formate lyase 2
           (PFL2), B12-independent glycerol dehydratase (DhaB) and
           the alpha subunit of benzylsuccinate synthase (BssA),
           all of which have a highly conserved ten-stranded
           alpha/beta barrel domain, which is similar to those of
           PFL1 (pyruvate formate lyase 1) and RNR (ribonucleotide
           reductase). Pyruvate formate lyase catalyzes a key step
           in anaerobic glycolysis, the conversion of pyruvate and
           CoenzymeA to formate and acetylCoA. DhaB catalyzes the
           first step in the conversion of glycerol to
           1,3-propanediol while BssA catalyzes the first step in
           the anaerobic mineralization of both toluene and
           m-xylene.
          Length = 781

 Score = 27.6 bits (62), Expect = 6.5
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 6/51 (11%)

Query: 1   MLTDQDRIFTNLYGLQGKSLSDSMSR--GHWD-NVDKILEKGRDWIINEVK 48
              ++  I          +         GH   +  K+LEKG D +I E K
Sbjct: 129 YFPEETLIAMAA---GVFTEFMYFFSGPGHVAVDYPKVLEKGLDGLIEEAK 176


>gnl|CDD|34048 COG4326, Spo0M, Sporulation control protein [General function
           prediction only].
          Length = 270

 Score = 27.6 bits (61), Expect = 6.9
 Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 1/60 (1%)

Query: 60  FSTGMKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAH 119
           F   + W+  P    D   ++    D +      D+DI+   PH +++G + A  A+G  
Sbjct: 112 FELSLPWN-TPVTIGDAKVWVETGLDIALAIDPTDKDILTVRPHPMMDGVLSAIEALGFR 170


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.321    0.139    0.437 

Gapped
Lambda     K      H
   0.267   0.0745    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,308,852
Number of extensions: 282896
Number of successful extensions: 644
Number of sequences better than 10.0: 1
Number of HSP's gapped: 634
Number of HSP's successfully gapped: 14
Length of query: 425
Length of database: 6,263,737
Length adjustment: 96
Effective length of query: 329
Effective length of database: 4,189,273
Effective search space: 1378270817
Effective search space used: 1378270817
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: 59 (26.5 bits)