RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy8042
         (90 letters)



>gnl|CDD|179655 PRK03822, lplA, lipoate-protein ligase A; Provisional.
          Length = 338

 Score = 30.4 bits (69), Expect = 0.071
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 1   ISGTAAKLGRPSSYHHCTLLVNVNKSRLSQSL 32
           +SG+A +  +   +HH TLL+N + SRL+  L
Sbjct: 135 VSGSAYRETKDRGFHHGTLLLNADLSRLANYL 166


>gnl|CDD|172552 PRK14061, PRK14061, unknown domain/lipoate-protein ligase A fusion
           protein; Provisional.
          Length = 562

 Score = 30.5 bits (68), Expect = 0.077
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 1   ISGTAAKLGRPSSYHHCTLLVNVNKSRLSQSLH 33
           +SG+A +  +   +HH TLL+N + SRL+  L+
Sbjct: 359 VSGSAYRETKDRGFHHGTLLLNADLSRLANYLN 391


>gnl|CDD|161920 TIGR00545, lipoyltrans, lipoyltransferase and lipoate-protein
           ligase.  One member of this group of proteins is bovine
           lipoyltransferase, which transfers the lipoyl group from
           lipoyl-AMP to the specific Lys of lipoate-dependent
           enzymes. However, it does not first activate lipoic acid
           with ATP to create lipoyl-AMP and pyrophosphate. Another
           member of this group, lipoate-protein ligase A from E.
           coli, catalyzes both the activation and the transfer of
           lipoate. Homology between the two is full-length, except
           for the bovine mitochondrial targeting signal, but is
           strongest toward the N-terminus [Protein fate, Protein
           modification and repair].
          Length = 324

 Score = 30.6 bits (69), Expect = 0.080
 Identities = 12/32 (37%), Positives = 21/32 (65%)

Query: 1   ISGTAAKLGRPSSYHHCTLLVNVNKSRLSQSL 32
           ISG+A  + +   +HH TLL + + S+L++ L
Sbjct: 133 ISGSAYYITKDRGFHHGTLLFDADLSKLAKYL 164


>gnl|CDD|217367 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) catalyzes 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 = 29.7 bits (67), Expect = 0.11
 Identities = 8/24 (33%), Positives = 14/24 (58%)

Query: 1   ISGTAAKLGRPSSYHHCTLLVNVN 24
           I+G   ++ R  + HH TL + +N
Sbjct: 101 IAGILQEIRRGGTLHHGTLGIGIN 124


>gnl|CDD|223173 COG0095, LplA, Lipoate-protein ligase A [Coenzyme metabolism].
          Length = 248

 Score = 27.7 bits (62), Expect = 0.77
 Identities = 11/32 (34%), Positives = 20/32 (62%)

Query: 1   ISGTAAKLGRPSSYHHCTLLVNVNKSRLSQSL 32
           ISG+A +  +    HH TLL++++   L++ L
Sbjct: 138 ISGSAQRRTKGRILHHGTLLLDIDLELLARVL 169


>gnl|CDD|227605 COG5280, COG5280, Phage-related minor tail protein [Function
           unknown].
          Length = 634

 Score = 27.5 bits (61), Expect = 1.1
 Identities = 8/22 (36%), Positives = 11/22 (50%)

Query: 49  SKSFILDLIGWQRSFSDLVKWI 70
            KSFI+D  G      ++ K I
Sbjct: 496 IKSFIVDKEGLFTKLDEIKKDI 517


>gnl|CDD|220468 pfam09913, DUF2142, Predicted membrane protein (DUF2142).  This
           domain, found in various hypothetical prokaryotic
           proteins, has no known function.
          Length = 390

 Score = 26.9 bits (60), Expect = 1.2
 Identities = 8/49 (16%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 35  HAINSCPEDLVKTLSKSFILDLIGWQRSF-SDLVKWIRLPMTNWISPTF 82
             + + P D V+   ++ +         F S  + W+  P+ +W+    
Sbjct: 275 GYLLAHPLDYVRLFIRNVLSLPSVLAGQFISGGLGWLDTPLPSWLYFIA 323


>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed.
          Length = 215

 Score = 26.4 bits (59), Expect = 1.9
 Identities = 8/11 (72%), Positives = 9/11 (81%)

Query: 80  PTFHVPIGIED 90
           PTFHV +G ED
Sbjct: 160 PTFHVRVGTED 170


>gnl|CDD|224366 COG1449, COG1449, Alpha-amylase/alpha-mannosidase [Carbohydrate
           transport and metabolism].
          Length = 615

 Score = 26.3 bits (58), Expect = 2.5
 Identities = 7/37 (18%), Positives = 11/37 (29%)

Query: 40  CPEDLVKTLSKSFILDLIGWQRSFSDLVKWIRLPMTN 76
              +    ++K      I W     DL  W+  P   
Sbjct: 388 NQHEPEALITKPHYGGTISWADIERDLSNWLGNPAQR 424


>gnl|CDD|178234 PLN02627, PLN02627, glutamyl-tRNA synthetase.
          Length = 535

 Score = 25.5 bits (56), Expect = 5.0
 Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 7/58 (12%)

Query: 5   AAKLGRPSSYHHCTLLVNVNKSRLSQSLHHHAINSCPE-DLVKTLSKSFI--LDLIGW 59
           A     P  + H +L++  ++S+LS+    H   S  +   +  L  + +  L L+GW
Sbjct: 272 ALGFPMPR-FAHVSLILAPDRSKLSK---RHGATSVGQFREMGYLPDAMVNYLALLGW 325


>gnl|CDD|234270 TIGR03590, PseG, pseudaminic acid biosynthesis-associated protein
           PseG.  This protein is found in association with enzymes
           involved in the biosynthesis of pseudaminic acid , a
           component of polysaccharide in certain Pseudomonas
           strains as well as a modification of flagellin in
           Campylobacter and Hellicobacter. The role of this
           protein is unclear, although it may participate in
           N-acetylation in conjunction with, or in the absence of
           PseH (TIGR03585) as it often scores above the trusted
           cutoff to pfam00583 representing a family of
           acetyltransferases.
          Length = 279

 Score = 24.6 bits (54), Expect = 8.0
 Identities = 6/26 (23%), Positives = 10/26 (38%)

Query: 15  HHCTLLVNVNKSRLSQSLHHHAINSC 40
           H C LL++ N    +         +C
Sbjct: 117 HDCDLLLDQNLGADASDYQGLVPANC 142


>gnl|CDD|140265 PTZ00238, PTZ00238, expression site-associated gene (ESAG);
           Provisional.
          Length = 326

 Score = 24.7 bits (54), Expect = 8.2
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 12/66 (18%)

Query: 13  SYHHCTLLVNVNKSRLSQSLHHHAINSCPEDLVKTLSKSFILDLI-------GWQRSFSD 65
             H C L   V++S L         + C E  V + S S  L+L        G  ++ SD
Sbjct: 193 GDHTCPLRNGVSESTL-----QKYKDGCLEINVMSGSVSECLNLPRNNLYKSGAVKNSSD 247

Query: 66  LVKWIR 71
           +++W  
Sbjct: 248 VLEWRE 253


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.322    0.135    0.434 

Gapped
Lambda     K      H
   0.267   0.0702    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,496,344
Number of extensions: 342671
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 18
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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: 53 (24.2 bits)