RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781087|ref|YP_003065500.1| H+transporting two-sector
ATPase C subunit [Candidatus Liberibacter asiaticus str. psy62]
         (91 letters)



>gnl|CDD|181027 PRK07558, PRK07558, F0F1 ATP synthase subunit C; Validated.
          Length = 74

 Score = 61.1 bits (149), Expect = 6e-11
 Identities = 36/70 (51%), Positives = 47/70 (67%)

Query: 21 AAKYVAVGMACLGMGLVALAVSNIFTTYLSGAFRNPCAASAHKTEVLIFAVIAESLGLFL 80
          A K++  G+AC+GM   AL V NIF  YLSGA RNP AA +    +LI A +AE+LG+F 
Sbjct: 5  ALKFIGAGLACIGMAGAALGVGNIFGNYLSGALRNPSAADSQFGYLLIGAALAEALGIFS 64

Query: 81 LLVVMLLLFV 90
           L+ +LLLF 
Sbjct: 65 FLIALLLLFA 74


>gnl|CDD|162950 TIGR02614, ftsW, cell division protein FtsW.  This family consists
           of FtsW, an integral membrane protein with ten
           transmembrane segments. In general, it is one of two
           paralogs involved in peptidoglycan biosynthesis, the
           other being RodA, and is essential for cell division.
           All members of the seed alignment for this model are
           encoded in operons for the biosynthesis of
           UDP-N-acetylmuramoyl-pentapeptide, a precursor of murein
           (peptidoglycan). The FtsW designation is not used in
           endospore-forming bacterial (e.g. Bacillus subtilis),
           where the member of this family is designated SpoVE and
           three or more RodA/FtsW/SpoVE family paralogs are
           present. SpoVE acts in spore cortex formation and is
           dispensible for growth. Biological rolls for FtsW in
           cell division include recruitment of penicillin-binding
           protein 3 to the division site.
          Length = 356

 Score = 28.7 bits (65), Expect = 0.31
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 68  IFAVIAESLGLFLLLVVMLLLFVI 91
           IFAVI E LG   +L+V+LL   +
Sbjct: 257 IFAVIGEELGFIGVLIVILLFAFL 280


>gnl|CDD|168839 PRK07159, PRK07159, F0F1 ATP synthase subunit C; Validated.
          Length = 100

 Score = 28.7 bits (64), Expect = 0.32
 Identities = 23/77 (29%), Positives = 36/77 (46%)

Query: 14 ANGYYSLAAKYVAVGMACLGMGLVALAVSNIFTTYLSGAFRNPCAASAHKTEVLIFAVIA 73
          A     L A Y+  G+A +G+  V L     F   +    RNP A       + I + I+
Sbjct: 23 AADSSGLKAAYIGAGLAMIGVIGVGLGQGYAFGKAVEAIARNPEAQKQVFKLLFIGSAIS 82

Query: 74 ESLGLFLLLVVMLLLFV 90
          E+  ++ LLV  +L+FV
Sbjct: 83 ETSSIYALLVAFILIFV 99


>gnl|CDD|140227 PTZ00200, PTZ00200, cysteine proteinase; Provisional.
          Length = 448

 Score = 28.5 bits (64), Expect = 0.39
 Identities = 9/25 (36%), Positives = 12/25 (48%)

Query: 36  LVALAVSNIFTTYLSGAFRNPCAAS 60
           +V +AVS     Y SG +   C  S
Sbjct: 361 VVYIAVSRELLKYKSGVYNGECGKS 385


>gnl|CDD|184069 PRK13471, PRK13471, F0F1 ATP synthase subunit C; Provisional.
          Length = 85

 Score = 26.8 bits (59), Expect = 1.2
 Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 3/74 (4%)

Query: 20 LAAKYVAVGMACLGMGLVALAVS--NIFTTYLSGAFRNPCAASAHKTEVLIFAVIAESLG 77
          L  KY+  G+ C+G+G +   +   NI    +    R P       T +L+   +AE+ G
Sbjct: 13 LLGKYIGAGL-CMGIGAIGPGIGEGNIGAHAMDAMARQPEMVGTITTRMLLADAVAETTG 71

Query: 78 LFLLLVVMLLLFVI 91
          ++ LL+  L+L V+
Sbjct: 72 IYSLLIAFLILLVL 85


>gnl|CDD|182737 PRK10794, PRK10794, cell wall shape-determining protein;
           Provisional.
          Length = 370

 Score = 26.6 bits (59), Expect = 1.6
 Identities = 12/25 (48%), Positives = 19/25 (76%), Gaps = 1/25 (4%)

Query: 68  IFAVIAESLGLF-LLLVVMLLLFVI 91
           IFAV+AE LGL  +L+++ L + +I
Sbjct: 264 IFAVLAEELGLVGVLILLALYILLI 288


>gnl|CDD|162763 TIGR02210, rodA_shape, rod shape-determining protein RodA.  This
           protein is a member of the FtsW/RodA/SpoVE family
           (pfam01098). It is found only in species with rod (or
           spiral) shapes. In many species, mutation of rodA has
           been shown to correlate with loss of the normal rod
           shape. Note that RodA homologs are found, scoring below
           the cutoffs for this model, in a number of both
           rod-shaped and coccoid bacteria, including four proteins
           in Bacillus anthracis, for example.
          Length = 352

 Score = 25.2 bits (56), Expect = 4.5
 Identities = 10/24 (41%), Positives = 16/24 (66%)

Query: 68  IFAVIAESLGLFLLLVVMLLLFVI 91
           IF+V+AE  G    LV++LL  ++
Sbjct: 252 IFSVLAEEFGFVGGLVLLLLYLLL 275


>gnl|CDD|182719 PRK10774, PRK10774, cell division protein FtsW; Provisional.
          Length = 404

 Score = 24.7 bits (54), Expect = 5.8
 Identities = 8/24 (33%), Positives = 17/24 (70%)

Query: 68  IFAVIAESLGLFLLLVVMLLLFVI 91
           IF++I E LG   +++ +L++F +
Sbjct: 289 IFSIIGEELGYIGVVLALLMVFFV 312


>gnl|CDD|184357 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
          Length = 811

 Score = 24.1 bits (53), Expect = 7.5
 Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 15/43 (34%)

Query: 32  LGMGLVALAVSNIFTTYLSGAFRNPCAASAHKTEVLIFAVIAE 74
           LG+G VALA                CAAS+   + LI  V+AE
Sbjct: 749 LGLGPVALAF---------------CAASSKADQALIDRVLAE 776


>gnl|CDD|130622 TIGR01559, squal_synth, farnesyl-diphosphate farnesyltransferase.
           This model describes farnesyl-diphosphate
           farnesyltransferase, also known as squalene synthase, as
           found in eukaryotes. This family is related to phytoene
           synthases. Tentatively identified archaeal homologs
           (excluded from this model) lack the C-terminal predicted
           transmembrane region universally conserved among members
           of this family.
          Length = 336

 Score = 23.9 bits (52), Expect = 9.4
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 19/63 (30%)

Query: 18  YSLAAKYVAVGMACLGMGLVALAVSNIFTTYLSGAFRNPCAASAHKTEVLIFAVIAESLG 77
           Y     YVA        GLV + +S +F   ++  F +P   S  ++E      ++ S+G
Sbjct: 134 YDKYCHYVA--------GLVGIGLSRLF---VASGFEDP---SLGESEA-----LSNSMG 174

Query: 78  LFL 80
           LFL
Sbjct: 175 LFL 177


  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
   0.330    0.138    0.387 

Gapped
Lambda     K      H
   0.267   0.0834    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,408,114
Number of extensions: 78009
Number of successful extensions: 368
Number of sequences better than 10.0: 1
Number of HSP's gapped: 365
Number of HSP's successfully gapped: 60
Length of query: 91
Length of database: 5,994,473
Length adjustment: 59
Effective length of query: 32
Effective length of database: 4,719,601
Effective search space: 151027232
Effective search space used: 151027232
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 50 (22.8 bits)