RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780215|ref|YP_003064628.1| hypothetical protein
CLIBASIA_00500 [Candidatus Liberibacter asiaticus str. psy62]
         (262 letters)



>gnl|CDD|161662 TIGR00010, TIGR00010, hydrolase, TatD family.  Several genomes have
           multiple paralogs related to this family. However, a set
           of 17 proteins can be found, one each from 17 of the
           first 20 genomes, such that each member forms a
           bidirectional best hit across genomes with all other
           members of the set. This core set (and one other
           near-perfect member), but not the other paralogs, form
           the seed for this model. Additionally, members of the
           seed alignment and all trusted hits, but not all
           paralogs, have a conserved motif DxHxH near the amino
           end. The member from E. coli was recently shown to have
           DNase activity.
          Length = 252

 Score =  251 bits (644), Expect = 1e-67
 Identities = 110/254 (43%), Positives = 165/254 (64%), Gaps = 3/254 (1%)

Query: 2   LIDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCSV 61
           LID HCHL   DF+ED  +VI RA  A V  ++A+   ++DF+  ++L + YP+ ++ +V
Sbjct: 1   LIDAHCHLDFLDFEEDVEEVIERAKAAGVTAVVAVGTDLEDFLRALELAEKYPN-VYAAV 59

Query: 62  GTHPCHAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRI 121
           G HP    ++ +  + EL  LA+HP+VVAIGETGLD Y        Q+ VF   ++ +  
Sbjct: 60  GVHPLDVDDDTKEDIKELERLAAHPKVVAIGETGLDYYKADEYKRRQEEVFRAQLQLAEE 119

Query: 122 TGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTGMIT 181
             +P++IH+R A++D+  IL+EE  K     V+HCF+   +LA   L+LG YIS +G++T
Sbjct: 120 LNLPVIIHARDAEEDVLDILREE--KPKVGGVLHCFTGDAELAKKLLDLGFYISISGIVT 177

Query: 182 FPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVSYED 241
           F    +LR + R IP++R+LVETDSPY+ PV  +GKRNEPA+V  T +A+A+ K +  E+
Sbjct: 178 FKNAKSLREVVRKIPLERLLVETDSPYLAPVPYRGKRNEPAFVRYTVEAIAEIKGMDVEE 237

Query: 242 LMEETTKNALKLFS 255
           L + TTKNA +LF 
Sbjct: 238 LAQITTKNAKRLFG 251


>gnl|CDD|182752 PRK10812, PRK10812, putative DNAse; Provisional.
          Length = 265

 Score =  197 bits (503), Expect = 2e-51
 Identities = 103/257 (40%), Positives = 152/257 (59%), Gaps = 7/257 (2%)

Query: 1   MLIDTHCHLLLPDFD---EDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSI 57
            L+D+HCHL   D+    +D  DV+ +A   +V   +A+A  +  +  +  L  +  + +
Sbjct: 2   FLVDSHCHLDGLDYQSLHKDVDDVLAKAAARDVKFCLAVATTLPGYRHMRDLVGERDNVV 61

Query: 58  FCSVGTHPCHAHEENEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIE 117
           F S G HP +  E  +V  +EL  LA+   VVA+GETGLD Y+   T   Q+  F  HI+
Sbjct: 62  F-SCGVHPLNQDEPYDV--EELRRLAAEEGVVAMGETGLDYYYTPETKVRQQESFRHHIQ 118

Query: 118 ASRITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFT 177
             R    P+++H+R A  D  AIL+EE K      V+HCF+  ++ A   L+LG YISF+
Sbjct: 119 IGRELNKPVIVHTRDARADTLAILREE-KVTDCGGVLHCFTEDRETAGKLLDLGFYISFS 177

Query: 178 GMITFPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDV 237
           G++TF   + LR  AR +P+DR+LVETDSPY+ PV  +GK N+PA V + A+ +A  K V
Sbjct: 178 GIVTFRNAEQLRDAARYVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAEYMAVLKGV 237

Query: 238 SYEDLMEETTKNALKLF 254
           S E+L + TT N  +LF
Sbjct: 238 SVEELAQVTTDNFARLF 254


>gnl|CDD|182449 PRK10425, PRK10425, DNase TatD; Provisional.
          Length = 258

 Score =  138 bits (349), Expect = 2e-33
 Identities = 81/252 (32%), Positives = 126/252 (50%), Gaps = 15/252 (5%)

Query: 12  PDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCSVGTHPCHAHEE 71
             F +DR DV+ RA  A V  M+     +++     KL + YPS  + + G HP  + + 
Sbjct: 11  SQFAKDRDDVVARAFAAGVNGMLITGTNLRESQQAQKLARQYPSC-WSTAGVHPHDSSQW 69

Query: 72  NEVLVDELVCLASHPRVVAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSR 131
                + ++ LA+ P VVAIGE GLD   N  T EEQ+  F+  +  +    +P+ +H R
Sbjct: 70  QAATEEAIIELAAQPEVVAIGECGLDFNRNFSTPEEQERAFVAQLAIAAELNMPVFMHCR 129

Query: 132 SADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTGMITFPKYD----- 186
            A +   A+L+  + K P   V+HCF+ +++    CL  G YI  TG +     D     
Sbjct: 130 DAHERFMALLEPWLDKLPGA-VLHCFTGTREEMQACLARGLYIGITGWVC----DERRGL 184

Query: 187 ALRAIARGIPMDRVLVETDSPYIVPVSCQGK----RNEPAYVVNTAKALAKEKDVSYEDL 242
            LR +   IP +R+L+ETD+PY++P     K    RNEPA++ +  + +A  +      L
Sbjct: 185 ELRELLPLIPAERLLLETDAPYLLPRDLTPKPASRRNEPAFLPHILQRIAHWRGEDAAWL 244

Query: 243 MEETTKNALKLF 254
              T  NA  LF
Sbjct: 245 AATTDANARTLF 256


>gnl|CDD|171118 PRK11449, PRK11449, putative deoxyribonuclease YjjV; Provisional.
          Length = 258

 Score =  123 bits (309), Expect = 6e-29
 Identities = 75/255 (29%), Positives = 128/255 (50%), Gaps = 5/255 (1%)

Query: 2   LIDTHCHLLLPDFDEDRHDVIMRAHQANVLKMIAIAIKVKDFVPLIKLCQDYPSSIFCSV 61
            IDTHCH   P F  D    + RA QA V K+I  A + ++F  ++ L + Y   ++ ++
Sbjct: 5   FIDTHCHFDFPPFSGDEEASLQRAAQAGVGKIIVPATEAENFARVLALAERYQP-LYAAL 63

Query: 62  GTHPCHAHEENEVLVDELV-CLASHP-RVVAIGETGLDRYHNAHTIEEQKVVFLRHIEAS 119
           G HP    + ++V +D+L   L   P +VVA+GE GLD + +    E Q+ +    ++ +
Sbjct: 64  GLHPGMLEKHSDVSLDQLQQALERRPAKVVAVGEIGLDLFGDDPQFERQQWLLDEQLKLA 123

Query: 120 RITGIPLVIHSRSADDDMAAILQEEMKKGPFPFVIHCFSSSQKLADICLELGGYISFTGM 179
           +   +P+++HSR   D +A  L+      P   V+H FS S + A+  ++LG  I   G 
Sbjct: 124 KRYDLPVILHSRRTHDKLAMHLKRH--DLPRTGVVHGFSGSLQQAERFVQLGYKIGVGGT 181

Query: 180 ITFPKYDALRAIARGIPMDRVLVETDSPYIVPVSCQGKRNEPAYVVNTAKALAKEKDVSY 239
           IT+P+    R +   +P+  +L+ETD+P +     QG+ N P         L + +    
Sbjct: 182 ITYPRASKTRDVIAKLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFDVLCELRPEPA 241

Query: 240 EDLMEETTKNALKLF 254
           +++ E    N   LF
Sbjct: 242 DEIAEVLLNNTYTLF 256


>gnl|CDD|180280 PRK05835, PRK05835, fructose-bisphosphate aldolase; Provisional.
          Length = 307

 Score = 30.3 bits (68), Expect = 0.48
 Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 7/54 (12%)

Query: 107 EQKVVFLRHIEASRITGIPLVIHSRSA--DDDMAAILQE--EMK--KG-PFPFV 153
           E K+ F R  E  R+T IPLV+H  SA  DD   + L    ++K  KG PF F+
Sbjct: 188 EPKLDFERLQEVKRLTNIPLVLHGASAIPDDVRKSYLDAGGDLKGSKGVPFEFL 241


>gnl|CDD|180713 PRK06826, dnaE, DNA polymerase III DnaE; Reviewed.
          Length = 1151

 Score = 29.9 bits (68), Expect = 0.76
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 103 HTIEEQKVVFLRHIEASRITGIPLV 127
           H I EQ+ V    I+ S+  GIPLV
Sbjct: 179 HGIPEQRKVNEELIKLSKELGIPLV 203


>gnl|CDD|132639 TIGR03600, phage_DnaB, phage replicative helicase, DnaB family,
           HK022 subfamily.  Members of this family are phage (or
           prophage-region) homologs of the bacterial homohexameric
           replicative helicase DnaB. Some phage may rely on host
           DnaB, while others encode their own verions. This model
           describes the largest phage-specific clade among the
           close homologs of DnaB, but there are, or course, other
           DnaB homologs from phage that fall outside the scope of
           this model.
          Length = 421

 Score = 28.5 bits (64), Expect = 1.8
 Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 8/58 (13%)

Query: 186 DALRAIARGI-----PMDRVLVETDSPYIVPVSCQGKRNEP-AYVVNTAKALAKEKDV 237
             +R+IAR I      +D ++V  D   ++  +    RNE    +    KALAKE DV
Sbjct: 290 AQIRSIARRIKRKKGGLDLIVV--DYIQLMAPTRGRDRNEELGGISRGLKALAKELDV 345


>gnl|CDD|182210 PRK10050, PRK10050, curli assembly protein CsgF; Provisional.
          Length = 138

 Score = 28.0 bits (62), Expect = 2.3
 Identities = 15/41 (36%), Positives = 23/41 (56%)

Query: 216 GKRNEPAYVVNTAKALAKEKDVSYEDLMEETTKNALKLFSK 256
           G  N  A+++N+A+A    KD SY D     T +AL  F++
Sbjct: 33  GNPNNGAFLLNSAQAQNSYKDPSYNDDFGIETPSALDNFTQ 73


>gnl|CDD|179185 PRK00962, PRK00962, hypothetical protein; Provisional.
          Length = 165

 Score = 28.1 bits (63), Expect = 2.4
 Identities = 13/33 (39%), Positives = 15/33 (45%)

Query: 220 EPAYVVNTAKALAKEKDVSYEDLMEETTKNALK 252
           EP YV    KA  +E D+    LM E  KN   
Sbjct: 66  EPDYVYKYIKAYNEENDLLVAKLMAEALKNKTN 98


>gnl|CDD|182623 PRK10657, PRK10657, isoaspartyl dipeptidase; Provisional.
          Length = 388

 Score = 27.5 bits (62), Expect = 3.7
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 11/57 (19%)

Query: 160 SQKLADICLEL---GGYISFTGMITF-------PKYDAL-RAIARGIPMDRVLVETD 205
           ++ L +  LE    GG I  T               +AL RA+  G+P+ RV + +D
Sbjct: 229 NEPLFEQALEFAKKGGVIDLTTSDPDFLGEGEVAPAEALKRALEAGVPLSRVTLSSD 285


>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
          Length = 251

 Score = 27.0 bits (60), Expect = 4.7
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 181 TFPKYDALRAIARGIPMDRV 200
              + +A R +ARG+P+ R+
Sbjct: 197 RLGEEEATRKLARGVPLGRL 216


>gnl|CDD|180765 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase;
          Provisional.
          Length = 397

 Score = 27.1 bits (61), Expect = 4.7
 Identities = 7/18 (38%), Positives = 12/18 (66%)

Query: 82 LASHPRVVAIGETGLDRY 99
          LA+HP ++A  +  LD +
Sbjct: 55 LANHPELIAAAKAALDSH 72


>gnl|CDD|115893 pfam07268, EppA_BapA, Exported protein precursor (EppA/BapA).  This
           family consists of a number of exported protein
           precursor (EppA and BapA) sequences which seem to be
           specific to Borrelia burgdorferi (Lyme disease
           spirochete). bapA gene sequences are quite stable but
           the encoded proteins do not provoke a strong immune
           response in most individuals. Conversely, EppA proteins
           are much more antigenic but are more variable in
           sequence. It is thought that BapA and EppA play
           important roles during the Borrelia burgdorferi
           infectious cycle.
          Length = 163

 Score = 26.6 bits (59), Expect = 5.7
 Identities = 10/27 (37%), Positives = 15/27 (55%)

Query: 32  KMIAIAIKVKDFVPLIKLCQDYPSSIF 58
           K+I  +I + D   +  L + YP SIF
Sbjct: 99  KIITDSIFLSDIDNINNLIEGYPDSIF 125


>gnl|CDD|161739 TIGR00167, cbbA, ketose-bisphosphate aldolases.
           fructose-bisphosphate and tagatose-bisphosphate
           aldolase.
          Length = 288

 Score = 26.9 bits (60), Expect = 5.9
 Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 11/60 (18%)

Query: 89  VAIGETGLDRYHNAHTIEEQKVVFLRHIEASRITGIPLVIHSRSADDDMAAILQEEMKKG 148
            AIG       H  +  E + + F R  E  +   +PLV+H  S       I  EE+KK 
Sbjct: 177 AAIGNV-----HGVYKGEPKGLDFERLEEIQKYVNLPLVLHGGS------GIPDEEIKKA 225


>gnl|CDD|183417 PRK12299, obgE, GTPase CgtA; Reviewed.
          Length = 335

 Score = 26.6 bits (60), Expect = 6.0
 Identities = 11/40 (27%), Positives = 21/40 (52%), Gaps = 9/40 (22%)

Query: 112 FLRHIEASRITGIPLVIH--SRSADDDMAA--ILQEEMKK 147
           FL+HIE +R+     ++H     A D +     ++ E++K
Sbjct: 230 FLKHIERTRL-----LLHLVDIEAVDPVEDYKTIRNELEK 264


>gnl|CDD|162608 TIGR01928, menC_lowGC/arch, o-succinylbenzoic acid (OSB)
           synthetase.  This model describes the enzyme
           o-succinylbenzoic acid synthetase (menC) that is
           involved in one of the steps of the menaquinone
           biosynthesis pathway. It takes SHCHC and makes it into
           2-succinylbenzoate. Included in this model are low GC
           gram positive bacteria and archaea. Also included in the
           seed and in the model are enzymes with the com-name of
           N-acylamino acid racemase (or the more general term,
           racemase / racemase family), which refers to the
           enzyme's industrial application as racemases, and not to
           its biological function as o-succinylbenzoic acid
           synthetase.
          Length = 324

 Score = 26.7 bits (59), Expect = 6.1
 Identities = 25/90 (27%), Positives = 33/90 (36%), Gaps = 6/90 (6%)

Query: 96  LDRYHNAHTIEE----QKVVFLRHIEASRITGIPLVIHSRSADDDMAAI-LQEEMKKGPF 150
           LDRY   + IEE      +  L  +    IT I L     S DD    I L         
Sbjct: 195 LDRYQLLY-IEEPFKIDDLSMLDELAKGTITPICLDESITSLDDARNLIELGNVKVINIK 253

Query: 151 PFVIHCFSSSQKLADICLELGGYISFTGMI 180
           P  +   +  QK  + C E G  +   GM+
Sbjct: 254 PGRLGGLTEVQKAIETCREHGAKVWIGGML 283


>gnl|CDD|148409 pfam06787, UPF0254, Uncharacterized protein family (UPF0254). 
          Length = 160

 Score = 26.6 bits (59), Expect = 6.4
 Identities = 11/33 (33%), Positives = 15/33 (45%)

Query: 220 EPAYVVNTAKALAKEKDVSYEDLMEETTKNALK 252
           EP YV+   KA  +E D+    +M E  K    
Sbjct: 66  EPDYVIKYIKAYNEENDLKVAKMMAEAVKEKTN 98


>gnl|CDD|162204 TIGR01107, Na_K_ATPase_bet, Sodium Potassium ATPase beta subunit.
           This model describes the Na+/K+ ATPase beta subunit in
           eukaryotes. Na+/K+ ATPase(also called Sodium-Potassium
           pump) is intimately associated with the plasma membrane.
           It couples the energy released by the hydrolysis of ATP
           to extrude 3 Na+ ions, with the concomitant uptake of
           2K+ ions, against their ionic gradients.
          Length = 289

 Score = 26.2 bits (58), Expect = 8.3
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 1/29 (3%)

Query: 195 IPMDRVL-VETDSPYIVPVSCQGKRNEPA 222
           I M+R++  +  +P + PV C GKR+E  
Sbjct: 180 IKMNRIIGFKPKNPGVPPVDCTGKRDEDD 208


>gnl|CDD|182483 PRK10468, PRK10468, hydrogenase 2 small subunit; Provisional.
          Length = 371

 Score = 26.3 bits (58), Expect = 9.2
 Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 18/90 (20%)

Query: 63  THPCHAHEENEVLVDELVCLASHPRV-VAIGETGLDRYHNAHTIEEQKVVFLRHIEAS-- 119
           THP       E LV E + L  H  +  A G    +  HNA  +E+ K  ++  ++ S  
Sbjct: 70  THP-----TVENLVLETISLEYHEVLSAAFGHQVEENKHNA--LEKYKGQYVLVVDGSIP 122

Query: 120 --------RITGIPLVIHSRSADDDMAAIL 141
                    + G P+V H R A +  AAI+
Sbjct: 123 LKDNGIYCMVAGEPIVDHIRKAAEGAAAII 152


>gnl|CDD|179353 PRK01917, PRK01917, cation-binding hemerythrin HHE family protein;
           Provisional.
          Length = 139

 Score = 26.3 bits (58), Expect = 9.2
 Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 3/33 (9%)

Query: 66  CHAHEENEVLVDELVCLASHPRVVAIGETGLDR 98
           CH  E +EVL    V      +V   G+  L R
Sbjct: 71  CHRAEHDEVLA---VAADVREKVARDGDFELGR 100


  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
   0.323    0.137    0.409 

Gapped
Lambda     K      H
   0.267   0.0761    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,319,627
Number of extensions: 278471
Number of successful extensions: 672
Number of sequences better than 10.0: 1
Number of HSP's gapped: 663
Number of HSP's successfully gapped: 32
Length of query: 262
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 170
Effective length of database: 4,006,537
Effective search space: 681111290
Effective search space used: 681111290
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.3 bits)