RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780820|ref|YP_003065233.1| acetyl-CoA carboxylase subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
         (284 letters)



>gnl|CDD|180184 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta; Validated.
          Length = 292

 Score =  478 bits (1232), Expect = e-136
 Identities = 157/282 (55%), Positives = 204/282 (72%), Gaps = 1/282 (0%)

Query: 1   MNWITNFVRPRINSVFGRRA-IPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPA 59
           M+W   F+  +I S   R+A +PE LW KCP  G ++Y K+L+ N  V      HM+I A
Sbjct: 1   MSWFDKFLPKKIKSSLPRKAEVPEGLWTKCPSCGQVLYRKELEANLNVCPKCGHHMRISA 60

Query: 60  KERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119
           +ERL  L D   +  LD     +DPLKFRD+KKY DRLK  + KTGL D++V+  G +  
Sbjct: 61  RERLDLLLDEGSFVELDAELEPKDPLKFRDSKKYKDRLKAAQKKTGLKDAVVTGKGTIEG 120

Query: 120 FKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQL 179
             +V  V +FSF+GGS+G   GE IV++ ERAI EKCPLV+F+ASGGARMQEG+LSLMQ+
Sbjct: 121 MPVVLAVMDFSFMGGSMGSVVGEKIVRAVERAIEEKCPLVIFSASGGARMQEGLLSLMQM 180

Query: 180 PRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTV 239
            +T+ A+  L +AGLPYI VLT+PTTGGV+AS+AMLGDI +AEP A IGFAG RVIEQTV
Sbjct: 181 AKTSAALKRLSEAGLPYISVLTDPTTGGVSASFAMLGDIIIAEPKALIGFAGPRVIEQTV 240

Query: 240 REKLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILTK 281
           REKLP+GFQR+E+L+EHG ID IVHR ++ + ++SL  + TK
Sbjct: 241 REKLPEGFQRAEFLLEHGAIDMIVHRRELRDTLASLLALHTK 282


>gnl|CDD|129606 TIGR00515, accD, acetyl-CoA carboxylase, carboxyl transferase, beta
           subunit.  The enzyme acetyl-CoA carboxylase contains a
           biotin carboxyl carrier protein or domain, a biotin
           carboxylase, and a carboxyl transferase. This model
           represents the beta chain of the carboxyl transferase
           for cases in which the architecture of the protein is as
           in E. coli, in which the carboxyltransferase portion
           consists of two non-identical subnits, alpha and beta.
          Length = 285

 Score =  329 bits (844), Expect = 7e-91
 Identities = 129/279 (46%), Positives = 192/279 (68%), Gaps = 3/279 (1%)

Query: 2   NWITNFVRPRINSVFGRRAIPENLWVKCPETGAMVYHKDLKENQWVISSSDFHMKIPAKE 61
           +   +  +        +  +PE +W KCP+ G ++Y K+L+ N  V    D HM++ A+E
Sbjct: 5   DRFKSKKKITSTR---KAEVPEGVWTKCPKCGQVLYTKELERNLEVCPKCDHHMRMDARE 61

Query: 62  RLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRDFK 121
           R++ L D   +   +     +DPLKF+D+KKY DR+ + + +TG  D++V+  G +    
Sbjct: 62  RIESLLDEGSFEEFNSHLEPKDPLKFKDSKKYKDRIAKAQKETGEKDAVVTGKGTLYGMP 121

Query: 122 LVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGILSLMQLPR 181
           +V  V +F+F+GGS+G   GE  V++ E+A+ + CPL++F+ASGGARMQE +LSLMQ+ +
Sbjct: 122 IVVAVFDFAFMGGSMGSVVGEKFVRAIEKALEDNCPLIIFSASGGARMQEALLSLMQMAK 181

Query: 182 TTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVRE 241
           T+ A+  + + GLPYI VLT+PTTGGV+AS+AMLGD+++AEP A IGFAG RVIEQTVRE
Sbjct: 182 TSAALAKMSERGLPYISVLTDPTTGGVSASFAMLGDLNIAEPKALIGFAGPRVIEQTVRE 241

Query: 242 KLPDGFQRSEYLVEHGMIDRIVHRHDIPEVVSSLCKILT 280
           KLP+GFQ SE+L+EHG ID IVHR ++ + ++SL   L 
Sbjct: 242 KLPEGFQTSEFLLEHGAIDMIVHRPEMKKTLASLLAKLQ 280


>gnl|CDD|130187 TIGR01117, mmdA, methylmalonyl-CoA decarboxylase alpha subunit.
           This model describes methymalonyl-CoA decarboxylase
           aplha subunit in archaea and bacteria. Metylmalonyl-CoA
           decarboxylase Na+ pump is a representative of a class of
           Na+ transport decarboxylases that couples the energy
           derived by decarboxylation of carboxylic acid substrates
           to drive the extrusion of Na+ ion across the membrane.
          Length = 512

 Score = 56.8 bits (137), Expect = 6e-09
 Identities = 53/193 (27%), Positives = 88/193 (45%), Gaps = 23/193 (11%)

Query: 56  KIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDSIVSAVG 115
           K+ A+ERL  LFD   +  +D   V      F  +KK +             + +V+  G
Sbjct: 30  KMTARERLALLFDPGSFVEID-QFVKHRCTNFGMDKKELPA-----------EGVVTGYG 77

Query: 116 NVRDFKLVAV-VHEFSFIGGSIGIAAGEAIVKSCERAIAEKCPLVMFTASGGARMQEGIL 174
            + D +LV     +F+ +GGS+G      IVK  + A+    P+V    SGGAR+QE + 
Sbjct: 78  TI-DGRLVYAFAQDFTVMGGSLGEMHAAKIVKIMDLAMKMGAPVVGLNDSGGARIQEAVD 136

Query: 175 SLMQ----LPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFA 230
           +L        R TIA  +     +P I  +  P  GG   S A+   I++ +  +++   
Sbjct: 137 ALKGYGDIFYRNTIASGV-----VPQISAIMGPCAGGAVYSPALTDFIYMVDNTSQMFIT 191

Query: 231 GRRVIEQTVREKL 243
           G +VI+    E++
Sbjct: 192 GPQVIKTVTGEEV 204


>gnl|CDD|132177 TIGR03133, malonate_beta, malonate decarboxylase, beta subunit.
           Members of this protein family are the beta subunit of
           malonate decarboxylase. Malonate decarboxylase may be a
           soluble enzyme, or linked to membrane subunits and
           active as a sodium pump. In the malonate decarboxylase
           complex, the beta subunit appears to act as a
           malonyl-CoA decarboxylase.
          Length = 274

 Score = 43.1 bits (102), Expect = 7e-05
 Identities = 38/137 (27%), Positives = 57/137 (41%), Gaps = 9/137 (6%)

Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEKC-----PLVMFT 162
           D +V   G +    +V    E  F GGS+G   G  IV +   AI +        +V+  
Sbjct: 47  DGVVVGRGTIDGKPVVVAAQEGRFQGGSVGEVHGAKIVGALRLAIEDNRKGQPTAVVLLL 106

Query: 163 ASGGARMQEGILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTT--GGVTASYAMLGDIHL 220
            +GG R+QE    L+ +     AI   + A  P I V+       GG+  + A L    +
Sbjct: 107 DTGGVRLQEANAGLIAIAEIMRAILDARAAV-PVIGVIGGRVGCFGGMGIA-AGLCSYLI 164

Query: 221 AEPGAEIGFAGRRVIEQ 237
                 +G +G  VIEQ
Sbjct: 165 MTEEGRLGLSGPEVIEQ 181


>gnl|CDD|180869 PRK07189, PRK07189, malonate decarboxylase subunit beta; Reviewed.
          Length = 301

 Score = 34.5 bits (80), Expect = 0.035
 Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 7/70 (10%)

Query: 108 DSIVSAVGNVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCERAIAEK------CPLVMF 161
           D +V   G +    +V    E  F+GGS+G   G  +  + E A  +         L++F
Sbjct: 56  DGVVVGKGTLDGRPVVVAAQEGRFMGGSVGEVHGAKLAGALELAAEDNRNGIPTAVLLLF 115

Query: 162 TASGGARMQE 171
             +GG R+QE
Sbjct: 116 E-TGGVRLQE 124


>gnl|CDD|148509 pfam06934, CTI, Fatty acid cis/trans isomerase (CTI).  This family
           consists of several fatty acid cis/trans isomerase
           proteins which appear to be found exclusively in
           bacteria of the orders Vibrionales and Pseudomonadales.
           Cis/trans isomerase (CTI) catalyses the cis-trans
           isomerisation of esterified fatty acids in
           phospholipids, mainly cis-oleic acid (C(16:1,9)) and
           cis-vaccenic acid (C(18:1,11)), in response to solvents.
           The CTI protein has been shown to be involved in solvent
           resistance in Pseudomonas putida.
          Length = 688

 Score = 29.1 bits (66), Expect = 1.4
 Identities = 9/16 (56%), Positives = 13/16 (81%)

Query: 57  IPAKERLKFLFDNAKY 72
           IPA+ R +F+ DNA+Y
Sbjct: 263 IPARARYQFMLDNAQY 278


>gnl|CDD|179176 PRK00943, PRK00943, selenophosphate synthetase; Provisional.
          Length = 347

 Score = 29.0 bits (66), Expect = 1.6
 Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 5/39 (12%)

Query: 21 IPENLWVKCPETG--AMVYHKDLKENQWVISSSDFHMKI 57
          +  NL V   ET   A VY  DL +   +IS++DF M I
Sbjct: 38 VDPNLLVG-NETRDDAAVY--DLNDGTGIISTTDFFMPI 73


>gnl|CDD|182817 PRK10895, PRK10895, lipopolysaccharide ABC transporter ATP-binding
           protein; Provisional.
          Length = 241

 Score = 28.7 bits (64), Expect = 1.7
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 69  NAKYCLLDQPQVCQDPLKFRDNKKYIDRLKE 99
           N K+ LLD+P    DP+   D K+ I+ L++
Sbjct: 155 NPKFILLDEPFAGVDPISVIDIKRIIEHLRD 185


>gnl|CDD|182156 PRK09939, PRK09939, putative oxidoreductase; Provisional.
          Length = 759

 Score = 28.9 bits (64), Expect = 1.7
 Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 11/83 (13%)

Query: 127 HEFSFIG--GSIGIAAGEAIVKSCERAIAEKCPLVMFTA----SGGARMQEGILSLMQLP 180
           HE + +G   SIG+  G  +++       EKC LV+       +   RM   + +L++  
Sbjct: 183 HEPTSVGLAASIGVGKGTVLLED-----FEKCDLVICIGHNPGTNHPRMLTSLRALVKRG 237

Query: 181 RTTIAINMLKDAGLPYIVVLTNP 203
              IAIN L++ GL       NP
Sbjct: 238 AKMIAINPLQERGLERFTAPQNP 260


>gnl|CDD|166227 PLN02586, PLN02586, probable cinnamyl alcohol dehydrogenase.
          Length = 360

 Score = 28.3 bits (63), Expect = 2.1
 Identities = 35/136 (25%), Positives = 55/136 (40%), Gaps = 29/136 (21%)

Query: 107 IDSIVSAVG-NVRDFKLVAVVHEFSFIGGSIGIAAGEAIVKSCE---RAIAEKCPLVMFT 162
           I  IV+ +G NV+ FK           G  +G+       KSCE   + +   CP ++FT
Sbjct: 74  IVGIVTKLGKNVKKFKE----------GDRVGVGVIVGSCKSCESCDQDLENYCPKMIFT 123

Query: 163 ----ASGGARMQEG---ILSLMQLPRTTIAINMLKDAGLPYIVVLTNPTTGGVTASYAML 215
                  G +   G   ++ + Q        N+  DAG P +         G+T  Y+ +
Sbjct: 124 YNSIGHDGTKNYGGYSDMIVVDQHFVLRFPDNLPLDAGAPLLC-------AGITV-YSPM 175

Query: 216 GDIHLAEPGAEIGFAG 231
               + EPG  +G AG
Sbjct: 176 KYYGMTEPGKHLGVAG 191


>gnl|CDD|140204 PTZ00176, PTZ00176, erythrocyte membrane protein 1 (PfEMP1);
           Provisional.
          Length = 1317

 Score = 28.1 bits (62), Expect = 3.1
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 86  KFRDNKKYIDRLKENRSKTGLIDSIVSAVGNVRD 119
           K  +  KY D+LK +  +    D + S+ G+VR 
Sbjct: 29  KRENESKYTDKLKGSLWEARFSDGLSSSFGDVRS 62


>gnl|CDD|179035 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
          Length = 196

 Score = 27.8 bits (63), Expect = 3.6
 Identities = 8/16 (50%), Positives = 12/16 (75%)

Query: 186 INMLKDAGLPYIVVLT 201
           I  LK+ G+P ++VLT
Sbjct: 128 IEWLKEYGIPVLIVLT 143


>gnl|CDD|179095 PRK00719, PRK00719, alkanesulfonate monooxygenase; Provisional.
          Length = 378

 Score = 27.6 bits (62), Expect = 3.7
 Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 4/24 (16%)

Query: 43 ENQWVISSSDFHMKIPAKERLKFL 66
          E+ W++++S     IP  +RLKFL
Sbjct: 54 EDAWLVAAS----LIPVTQRLKFL 73


>gnl|CDD|132588 TIGR03549, TIGR03549, conserved hypothetical protein TIGR03549.
           This family consists of remarkably well-conserved
           proteins from gamma and beta Proteobacteria, heavily
           skewed towards organisms of marine environments. This
           family has an OsmC-like N-terminal domain. It shares a
           central domain, modeled by pfam02624 and TIGR00702, with
           other families of smaller proteins. The function is
           unknown. Fifteen of the first sixteen members of this
           family are from selenouridine-positive genomes, but this
           correlation may be fortuitous.
          Length = 718

 Score = 27.5 bits (61), Expect = 4.7
 Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 5/30 (16%)

Query: 188 MLKDAGL----PYI-VVLTNPTTGGVTASY 212
           ++KDA L    P + V L NP TGGV AS+
Sbjct: 390 LVKDASLGGQFPVMCVTLMNPRTGGVFASF 419


>gnl|CDD|130828 TIGR01767, MTRK, 5-methylthioribose kinase.  This enzyme is
           involved in the methionine salvage pathway in certain
           bacteria.
          Length = 370

 Score = 27.2 bits (60), Expect = 5.6
 Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 22/105 (20%)

Query: 50  SSDFHMKIPAKERLKFLFDNAKYCLLDQPQVCQDPLKFRDNKKYIDRLKENRSKTGLIDS 109
           SSD+ ++   K+ L   F N + C + +  V  DP    D   + + L            
Sbjct: 116 SSDYALEPKVKKALVAQFTNPELCDITERLVFTDPYFDHDTNDFEEEL----------RP 165

Query: 110 IVSAVGNVRDFKLVAVVHEFSFIG------------GSIGIAAGE 142
            V+ + N    K+ A   + SF+             GSI ++  E
Sbjct: 166 FVAKLRNDDSLKIEAAKLKHSFLASAETLLHGDLHSGSIFVSEHE 210


>gnl|CDD|180991 PRK07475, PRK07475, hypothetical protein; Provisional.
          Length = 245

 Score = 26.8 bits (60), Expect = 5.7
 Identities = 30/143 (20%), Positives = 47/143 (32%), Gaps = 39/143 (27%)

Query: 143 AIVKSC------ERAIAEKCPLVMFTASGGARMQEGILSLMQLPRTTIAINMLKDAGLPY 196
           AI  SC      +R +A    + + T+S           L+Q+P        L  A LP 
Sbjct: 81  AITTSCGFLALFQRELAAALGVPVATSS-----------LLQVP--------LIQALLP- 120

Query: 197 IVVLTNPTTGGVTASYAMLGDIHLAEPGAEIGFAGRRVIEQTVREKLPDG--FQRSEYLV 254
                    G +TA  + L   HL   G                  L +G  F+R+  L 
Sbjct: 121 ----AGQKVGILTADASSLTPAHLLAVGVPPD------TSSLPIAGLEEGGEFRRN-ILE 169

Query: 255 EHGMIDRIVHRHDIPEVVSSLCK 277
             G +D      ++     +L +
Sbjct: 170 NRGELDNEAAEQEVVAAARALLE 192


>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU.  This alignment
           models orthologs of translation elongation factor EF-Tu
           in bacteria, mitochondria, and chloroplasts, one of
           several GTP-binding translation factors found by the
           more general pfam model GTP_EFTU. The eukaryotic
           conterpart, eukaryotic translation elongation factor 1
           (eEF-1 alpha), is excluded from this model. EF-Tu is one
           of the most abundant proteins in bacteria, as well as
           one of the most highly conserved, and in a number of
           species the gene is duplicated with identical function.
           When bound to GTP, EF-Tu can form a complex with any
           (correctly) aminoacylated tRNA except those for
           initiation and for selenocysteine, in which case EF-Tu
           is replaced by other factors. Transfer RNA is carried to
           the ribosome in these complexes for protein translation.
          Length = 394

 Score = 26.7 bits (59), Expect = 6.5
 Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 164 SGGARMQEGILSLMQ----LPRTTIAINMLKDAGLPYIVVLTN 202
           +G A+M   IL +      +P+T   I + +  G+PYIVV  N
Sbjct: 94  TGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLN 136


  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
   0.322    0.138    0.411 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,746,941
Number of extensions: 309355
Number of successful extensions: 694
Number of sequences better than 10.0: 1
Number of HSP's gapped: 691
Number of HSP's successfully gapped: 24
Length of query: 284
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 192
Effective length of database: 4,006,537
Effective search space: 769255104
Effective search space used: 769255104
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 (21.9 bits)
S2: 57 (25.8 bits)