RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780868|ref|YP_003065281.1| birA bifunctional protein
[Candidatus Liberibacter asiaticus str. psy62]
         (252 letters)



>gnl|CDD|30688 COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme
           metabolism].
          Length = 238

 Score =  196 bits (500), Expect = 5e-51
 Identities = 97/238 (40%), Positives = 135/238 (56%), Gaps = 9/238 (3%)

Query: 19  FDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKG-NLYASLLLIDSIS 77
           FD I STN E  +RA SG      +VA  QTAGRGRR  KW S KG  LY SLLL   + 
Sbjct: 1   FDEIDSTNTEAKERAASGAPEGTVVVAEEQTAGRGRRGRKWSSPKGGGLYMSLLLRPDLP 60

Query: 78  KDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQA 137
              L  LS    +A+   +      G DV+IKWPND+L+  +K+AGIL+E +  +NGL A
Sbjct: 61  PAELPSLSLVAGLAVAEALRK---FGIDVRIKWPNDVLLNGKKLAGILVEAVGDENGLLA 117

Query: 138 VVVGIGLNVKHCPVDTP---YPVTSLQREGGCIDLKDIFSLLFQDVARVLDLWKKDTGRE 194
           VVVGIG+NV + P D      P TSLQ EG  ID +++ + L +++ + L  + +  G  
Sbjct: 118 VVVGIGINVNNPPPDFEDIGQPATSLQEEGEEIDREELLAKLLKELEKYLRQFLR-EGFA 176

Query: 195 EIMNLWRCFACGIGDLITIKLSYGSILG-RFVGVDDFGYLLLEEKKGCVRQIFTGDIF 251
            I+  WR  +  +G  + + L  G I G    G+D+ G LLLE   G V+ I++G++ 
Sbjct: 177 PILARWRARSLSLGKEVRLTLGGGVIFGGIAKGIDEDGALLLETDDGEVQTIYSGEVS 234


>gnl|CDD|145963 pfam03099, BPL_LplA_LipB, Biotin/lipoate A/B protein ligase family.
            This family includes biotin protein ligase,
           lipoate-protein ligase A and B. Biotin is covalently
           attached at the active site of certain enzymes that
           transfer carbon dioxide from bicarbonate to organic
           acids to form cellular metabolites. Biotin protein
           ligase (BPL) is the enzyme responsible for attaching
           biotin to a specific lysine at the active site of biotin
           enzymes. Each organism probably has only one BPL. Biotin
           attachment is a two step reaction that results in the
           formation of an amide linkage between the carboxyl group
           of biotin and the epsilon-amino group of the modified
           lysine. Lipoate-protein ligase A (LPLA) catalyses the
           formation of an amide linkage between lipoic acid and a
           specific lysine residue in lipoate dependent enzymes.
           The unusual biosynthesis pathway of lipoic acid is
           mechanistically intertwined with attachment of the
           cofactor.
          Length = 124

 Score = 82.5 bits (204), Expect = 9e-17
 Identities = 44/132 (33%), Positives = 57/132 (43%), Gaps = 12/132 (9%)

Query: 18  FFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLL---ID 74
                 ST +E     L        +VA  QT GR      W S  GNL  SLLL   + 
Sbjct: 1   LGRRQKSTKEEVNLEGLEEGG---VVVARRQTGGR----RVWHSPGGNLAYSLLLLPELK 53

Query: 75  SISKDSLTLLSFAIAVAM-RSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKN 133
           S     L      + +A+  ++       G  V+IKWPND+LV  +KIAGIL E      
Sbjct: 54  SFKPSDLPAYVLLLVLAVLEALGPKAGIPGIWVRIKWPNDVLVNGKKIAGILQEIRRGG- 112

Query: 134 GLQAVVVGIGLN 145
            L    +GIG+N
Sbjct: 113 TLHHGTLGIGIN 124


>gnl|CDD|36749 KOG1536, KOG1536, KOG1536, Biotin holocarboxylase
           synthetase/biotin-protein ligase [Coenzyme transport and
           metabolism].
          Length = 649

 Score = 66.6 bits (162), Expect = 6e-12
 Identities = 62/254 (24%), Positives = 101/254 (39%), Gaps = 32/254 (12%)

Query: 18  FFDTISSTND--ECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLLIDS 75
           +   ++ST D  +     L  ++G L +VA+ QT+GRGR  N W+S KG   +S  +  S
Sbjct: 390 WAPVLTSTMDILDHNFSELPSEVG-LVVVANIQTSGRGRGGNVWLSPKGCAMSSFTI--S 446

Query: 76  ISKDS----LTLLSFAIAVAMRSVIASTLP--VGTDVKIKWPNDILVFQR-KIAGILIET 128
           +   S    L      +A+          P      V+IKWPND+ V    K+ GIL+ +
Sbjct: 447 MPLKSRVVPLIPFVQHLALVAVVEAVRYAPGYPDIPVRIKWPNDLYVNGYLKVGGILVTS 506

Query: 129 LNLKNGLQAVVVGIGLNVKHCPVDTPYPVTSLQ-------REGGCIDLKDIFSLLFQDVA 181
               N    V +G G+N     V    P T L         E   + L      L   V 
Sbjct: 507 TYRSNKFN-VSIGCGIN-----VTNDGPTTCLNDLLDEMNEERNLLHLAIKAEKLIAAVF 560

Query: 182 RVLDLWKK---DTGREEIMNLWRCFACGIGDLITIKLSYGSILGRFVGVDDFGYLLLEEK 238
              + + K   D G + I+ L+  +       + ++    +++    G DD G+L +   
Sbjct: 561 NKFEKYFKLFMDQGPKSILPLYYEYWLHSNQRVILEDKGEAVI--IGGTDDIGFLQVSGL 618

Query: 239 KGCVRQIFTGDIFT 252
              V    T  ++ 
Sbjct: 619 LLAVG--DTNKVYE 630


>gnl|CDD|111161 pfam02237, BPL_C, Biotin protein ligase C terminal domain.  The
           function of this structural domain is unknown. It is
           found to the C terminus of the biotin protein ligase
           catalytic domain pfam01317.
          Length = 47

 Score = 41.7 bits (99), Expect = 2e-04
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 206 GIGDLITIKLSYGSILGRFVGVDDFGYLLLEEKKGCVRQIFTGDIF 251
            +G  + +    G + G  VG+DD G LLLE   G +R I +GDI 
Sbjct: 1   HLGKEVKVTTGGGKVEGIAVGIDDDGRLLLETDDG-IRIIISGDIS 45


>gnl|CDD|147326 pfam05091, eIF-3_zeta, Eukaryotic translation initiation factor 3
           subunit 7 (eIF-3).  This family is made up of eukaryotic
           translation initiation factor 3 subunit 7 (eIF-3
           zeta/eIF3 p66/eIF3d). Eukaryotic initiation factor 3 is
           a multi-subunit complex that is required for binding of
           mRNA to 40 S ribosomal subunits, stabilisation of
           ternary complex binding to 40 S subunits, and
           dissociation of 40 and 60 S subunits. These functions
           and the complex nature of eIF3 suggest multiple
           interactions with many components of the translational
           machinery. The gene coding for the protein has been
           implicated in cancer in mammals.
          Length = 509

 Score = 26.9 bits (60), Expect = 5.1
 Identities = 11/66 (16%), Positives = 24/66 (36%), Gaps = 13/66 (19%)

Query: 13  SFRYEFFDTISSTNDECMKRALSGDLGNLW----IVASCQTAGRG---------RRDNKW 59
                 F  +++++D  ++       G ++    I+A+   A R          +  NK 
Sbjct: 203 ELNDRDFYNVTTSDDPVIRELAEKTEGTVFATDEILAALMCATRSVYSWDIVITKVGNKL 262

Query: 60  ISDKGN 65
             DK +
Sbjct: 263 FFDKRD 268


  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
   0.324    0.141    0.433 

Gapped
Lambda     K      H
   0.267   0.0733    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,070,905
Number of extensions: 158687
Number of successful extensions: 321
Number of sequences better than 10.0: 1
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 9
Length of query: 252
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 160
Effective length of database: 4,275,709
Effective search space: 684113440
Effective search space used: 684113440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.3 bits)