RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780728|ref|YP_003065141.1| pilus assembly protein
[Candidatus Liberibacter asiaticus str. psy62]
         (263 letters)



>gnl|CDD|33540 COG3745, CpaB, Flp pilus assembly protein CpaB [Intracellular
           trafficking and secretion].
          Length = 276

 Score =  157 bits (397), Expect = 4e-39
 Identities = 88/259 (33%), Positives = 131/259 (50%), Gaps = 7/259 (2%)

Query: 1   MKLTRLMGIVVSGVFALVAGIIAMRLVSPHHVQTEEVITENPAKFINVLISKGDLAVGMV 60
           M+  RL+ ++V+   A +AG++A  +     V               VL++  DL VG  
Sbjct: 1   MRPKRLIILIVALAAAGLAGVLAASIWLAPAVPATAEPVAPGKPTKPVLVAAVDLPVGQR 60

Query: 61  VTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEKLVDRGNGG 120
           ++ + L W  +P ++V  G I   + P+A+  L G +VRVPI  G+P+   KL   G   
Sbjct: 61  LSADQLRWQPWPADSVPAGAISRENAPDALTGLAGRIVRVPIGAGEPVLPSKLSGPGTRT 120

Query: 121 LSSLLPKGKRAATMDISISSAVGGMIKPNDHVDVVMVRSLSER----KPTVTVVLSNIRV 176
           LSS+LP GKRA  + +     VGG + P D VDV++     +           VL NIRV
Sbjct: 121 LSSVLPPGKRAVAIRVDEVVGVGGFVLPGDRVDVILTVRKDDAGADSSKLAETVLPNIRV 180

Query: 177 IAIDHNIDSDE--RVLVGSTATLELTPMQAKALVAAQSVAKLSLVLRSIADLNPSSSEDS 234
           +A+D  I   E    +VG TATLE+TP QA+ L  AQ +  LSL LRS+AD     +  +
Sbjct: 181 LAVDQTISEREDGSPVVGRTATLEVTPDQAEKLTLAQQMGTLSLALRSVADAQEPDTGAA 240

Query: 235 DVWDVQEEGK-EIQIIKAG 252
               + +     +Q+IK G
Sbjct: 241 TGLLLGDPVAATVQLIKGG 259


>gnl|CDD|73256 cd01302, Cyclic_amidohydrolases, Cyclic amidohydrolases, including
           hydantoinase, dihydropyrimidinase, allantoinase, and
           dihydroorotase, are involved in the metabolism of
           pyrimidines and purines, sharing the property of
           hydrolyzing the cyclic amide bond of each substrate to
           the corresponding N-carbamyl amino acids. Allantoinases
           catalyze the degradation of purines, while
           dihydropyrimidinases and hydantoinases, a microbial
           counterpart of dihydropyrimidinase, are involved in
           pyrimidine degradation. Dihydroorotase participates in
           the de novo synthesis of pyrimidines..
          Length = 337

 Score = 28.7 bits (64), Expect = 1.6
 Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 7/45 (15%)

Query: 36  EVITENPAKFINVLISKGDLAVG-----MVVTPNILEWVAFPEEN 75
           E+++ENPA+    L  KG +AVG     ++V P   EW    EE 
Sbjct: 274 EILSENPARIFG-LYPKGTIAVGYDADLVIVDPKK-EWKVTAEEI 316


>gnl|CDD|119323 cd06581, TM_PBP1_LivM_like, Transmembrane subunit (TM) of
          Escherichia coli LivM and related proteins. LivM is one
          of two TMs of the E. coli LIV-1/LS transporter, a
          Periplasmic Binding Protein (PBP)-dependent ATP-Binding
          Cassette (ABC) transporter involved in the uptake of
          branched-chain amino acids (AAs). These types of
          transporters generally bind type 1 PBPs. PBP-dependent
          ABC transporters consist of a PBP, two TMs, and two
          cytoplasmic ABCs, and are mainly involved in importing
          solutes from the environment. The solute is captured by
          the PBP, which delivers it to a gated translocation
          pathway formed by the two TMs. The two ABCs bind and
          hydrolyze ATP and drive the transport reaction. E. coli
          LivM forms a heterodimer with another TM, LivH, to
          generate the transmembrane pore. LivH is not included
          in this subgroup. The LIV-1/LS transporter is comprised
          of two TMs (LivM and LivH), two ABCs (LivG and LivF),
          and one of two alternative PBPs, LivJ (LIV-BP) or LivK
          (LS-BP). In addition to transporting branched-chain AAs
          including leucine, isoleucine and valine, the E. coli
          LIV-1/LS transporter is involved in the uptake of the
          aromatic AA, phenylalanine..
          Length = 268

 Score = 28.6 bits (65), Expect = 1.8
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 6  LMGIVVSGVFALVAGIIAMRL 26
          L   +V+ +  L+ G+ A+RL
Sbjct: 52 LAAGLVAALVGLLLGLPALRL 72


>gnl|CDD|37955 KOG2744, KOG2744, KOG2744, DNA-binding proteins Bright/BRCAA1/RBP1
           and related proteins containing BRIGHT domain
           [Transcription].
          Length = 512

 Score = 28.1 bits (62), Expect = 2.2
 Identities = 9/37 (24%), Positives = 20/37 (54%), Gaps = 2/37 (5%)

Query: 77  FDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEKL 113
            + F++D+ +   M++    +  +PI+ G P+ L  L
Sbjct: 164 SEEFMEDLRRF--MKKRGTKVKSIPIIGGQPLDLHWL 198


>gnl|CDD|33350 COG3548, COG3548, Predicted integral membrane protein [Function
          unknown].
          Length = 197

 Score = 27.5 bits (61), Expect = 4.3
 Identities = 11/51 (21%), Positives = 20/51 (39%), Gaps = 1/51 (1%)

Query: 1  MKLTRLMGIVVSGVFALVAGIIAMRLVSPHHVQTEEVITENPAKFINVLIS 51
          M   RL       VFA++  I+ + +  P      + + E  +  I   +S
Sbjct: 10 MGKGRLEAFT-DAVFAIIMTIMVLEIKVPKGGGRLQALAELLSSLIIYALS 59


>gnl|CDD|32643 COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport
           and metabolism].
          Length = 394

 Score = 26.7 bits (59), Expect = 5.9
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 3   LTRLMGIVVSGVFALVAGIIAMRLVSPHHV 32
           L R +  +  GVF  +A  +A RLV P   
Sbjct: 106 LARALAGLAHGVFWSIAAALAARLVPPGKR 135


>gnl|CDD|176912 cd08903, START_STARD5-like, Lipid-binding START domain of mammalian
           STARD5 and related proteins.  This subgroup includes the
           steroidogenic acute regulatory protein (StAR)-related
           lipid transfer (START) domains of mammalian STARD5, and
           related domains. It belongs to the START domain family,
           and in turn to the SRPBCC
           (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
           superfamily of proteins that bind hydrophobic ligands.
           SRPBCC domains have a deep hydrophobic ligand-binding
           pocket. STARD5 is ubiquitously expressed, with highest
           levels in liver and kidney. STARD5 functions in the
           kidney within the proximal tubule cells where it is
           associated with the Endoplasmic Reticulum (ER), and may
           participate in ER-associated cholesterol transport. It
           binds cholesterol and 25-hydroxycholesterol. Expression
           of the gene encoding STARD5 is increased by ER stress,
           and its mRNA and protein levels are elevated in a type I
           diabetic mouse model of human diabetic nephropathy.
          Length = 208

 Score = 26.7 bits (59), Expect = 6.2
 Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 5/33 (15%)

Query: 131 AATMDISIS-----SAVGGMIKPNDHVDVVMVR 158
           A + D+S+      SA   +I P D VDVV+V+
Sbjct: 88  AISDDVSVCRTVTPSAAMKIISPRDFVDVVLVK 120


>gnl|CDD|147331 pfam05099, TerB, Tellurite resistance protein TerB.  This family
           contains the TerB tellurite resistance proteins from a a
           number of bacteria.
          Length = 140

 Score = 26.8 bits (60), Expect = 6.4
 Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 2/39 (5%)

Query: 174 IRVIAIDHNIDSDERVLVGS--TATLELTPMQAKALVAA 210
             V   D  +D +ER  +     +   L P +A AL+  
Sbjct: 31  AEVAKADGQVDEEERQAIRRLLRSRFGLDPEEAAALIEL 69


>gnl|CDD|145132 pfam01808, AICARFT_IMPCHas, AICARFT/IMPCHase bienzyme.  This is a
           family of bifunctional enzymes catalysing the last two
           steps in de novo purine biosynthesis. The bifunctional
           enzyme is found in both prokaryotes and eukaryotes. The
           second last step is catalysed by
           5-aminoimidazole-4-carboxamide ribonucleotide
           formyltransferase EC:2.1.2.3 (AICARFT), this enzyme
           catalyses the formylation of AICAR with
           10-formyl-tetrahydrofolate to yield FAICAR and
           tetrahydrofolate. The last step is catalysed by IMP
           (Inosine monophosphate) cyclohydrolase EC:3.5.4.10
           (IMPCHase), cyclizing FAICAR
           (5-formylaminoimidazole-4-carboxamide ribonucleotide) to
           IMP.
          Length = 315

 Score = 26.6 bits (59), Expect = 7.5
 Identities = 12/23 (52%), Positives = 15/23 (65%)

Query: 140 SAVGGMIKPNDHVDVVMVRSLSE 162
           SA GG+I  ND VDV   + +SE
Sbjct: 169 SAFGGIIALNDEVDVETAKEISE 191


>gnl|CDD|36133 KOG0915, KOG0915, KOG0915, Uncharacterized conserved protein
           [Function unknown].
          Length = 1702

 Score = 26.5 bits (58), Expect = 8.0
 Identities = 22/129 (17%), Positives = 43/129 (33%), Gaps = 10/129 (7%)

Query: 10  VVSGVFALVAGIIAMRLVSPHHVQ----TEEVITENPAKFIN----VLISKG-DLAVGMV 60
           VV  V  ++  +   R+ S H VQ        +    +  +     + +  G D A   V
Sbjct: 43  VVRQVLEILTHVNK-RVKSQHEVQLPVLALLKLYAAQSTMVRNFAIIYVEMGFDRAPPKV 101

Query: 61  VTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEKLVDRGNGG 120
           V P + E ++    + +   I    +   +     +L+  P  +G          + N  
Sbjct: 102 VGPCLAEKISPDVSHKYRSLITSQDKDLILDFCLHLLLYQPSSQGQGSSPGLSPFQVNRI 161

Query: 121 LSSLLPKGK 129
           +     KG 
Sbjct: 162 IGEFALKGD 170


>gnl|CDD|31205 COG1001, AdeC, Adenine deaminase [Nucleotide transport and
           metabolism].
          Length = 584

 Score = 26.3 bits (58), Expect = 9.3
 Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 144 GMIKPNDHVDVVMVRSLSERKPTVTVVLSNIRVIA 178
           G+I P    D+V++  L  R   VT VL   RV+A
Sbjct: 326 GLIAPGRRADLVILEDL--RNFKVTSVLIKGRVVA 358


>gnl|CDD|176969 CHL00028, clpP, ATP-dependent Clp protease proteolytic subunit.
          Length = 200

 Score = 26.0 bits (58), Expect = 9.8
 Identities = 10/25 (40%), Positives = 12/25 (48%), Gaps = 1/25 (4%)

Query: 7   MGIVVS-GVFALVAGIIAMRLVSPH 30
           +G+  S   F L  G I  RL  PH
Sbjct: 96  LGLAASMASFILAGGEITKRLAFPH 120


  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
   0.317    0.135    0.370 

Gapped
Lambda     K      H
   0.267   0.0788    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,993,263
Number of extensions: 155806
Number of successful extensions: 452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 26
Length of query: 263
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 171
Effective length of database: 4,275,709
Effective search space: 731146239
Effective search space used: 731146239
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 (21.6 bits)
S2: 56 (25.2 bits)