RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780770|ref|YP_003065183.1| (3R)-hydroxymyristoyl-ACP
dehydratase [Candidatus Liberibacter asiaticus str. psy62]
         (161 letters)



>gnl|CDD|178788 PRK00006, fabZ, (3R)-hydroxymyristoyl-ACP dehydratase; Reviewed.
          Length = 147

 Score =  228 bits (584), Expect = 5e-61
 Identities = 69/141 (48%), Positives = 92/141 (65%), Gaps = 1/141 (0%)

Query: 12  DIVELMRFLPHRYPFLLVDKVVNIQRDESAIGIKNVTFNEPHFMGHFPGRPVMPGVLILE 71
           DI E+++ LPHRYPFLLVD+V+ ++  +S + IKNVT NEP F GHFPG PVMPGVLI+E
Sbjct: 8   DIEEILKLLPHRYPFLLVDRVLELEPGKSIVAIKNVTINEPFFQGHFPGYPVMPGVLIIE 67

Query: 72  GMAQTAGAICAIHNGFDQYAPPYLMSIDKARFRKPVFPGDRLEYHVNKVRNRVDLWKFQC 131
            MAQ AG +             Y   IDKARF++PV PGD+L   V  ++ R  +WKF+ 
Sbjct: 68  AMAQAAGVLALKSEENKGKL-VYFAGIDKARFKRPVVPGDQLILEVELLKQRRGIWKFKG 126

Query: 132 CAKVENTVVAEAEICAMVMHE 152
            A V+  +VAEAE+   +  +
Sbjct: 127 VATVDGKLVAEAELMFAIRDK 147


>gnl|CDD|130811 TIGR01750, fabZ, beta-hydroxyacyl-[acyl carrier protein]
           dehydratase FabZ.  This enzyme, FabZ, shows overlapping
           substrate specificity with FabA with regard to chain
           length in fatty acid biosynthesis. FabZ works
           preferentially on shorter chains and is often designated
           (3R)-hydroxymyristoyl-[acyl carrier protein]
           dehydratase, although its actual specificity is broader.
           Unlike FabA, FabZ does not function as an isomerase and
           cannot initiate unsaturated fatty acid biosynthesis.
           However, only FabZ can act during the elongation of
           unsaturated fatty acid chains.
          Length = 140

 Score =  192 bits (491), Expect = 2e-50
 Identities = 66/140 (47%), Positives = 89/140 (63%), Gaps = 2/140 (1%)

Query: 12  DIVELMRFLPHRYPFLLVDKVVNIQRDESAIGIKNVTFNEPHFMGHFPGRPVMPGVLILE 71
           DI E+M  LPHRYPFLLVD+++ +   +  + IKNVT NEP F GHFP +P+MPGVLI+E
Sbjct: 1   DIQEIMELLPHRYPFLLVDRILELDPGKRIVAIKNVTINEPFFQGHFPEKPIMPGVLIVE 60

Query: 72  GMAQTAGAICAIHNGFDQYAP--PYLMSIDKARFRKPVFPGDRLEYHVNKVRNRVDLWKF 129
            +AQ  G +  +  G +       Y   IDKA+FR+PV PGD+L  H   ++ R  + KF
Sbjct: 61  ALAQAGGVLAILSLGGEIGKGKLVYFAGIDKAKFRRPVVPGDQLILHAEFLKKRRKIGKF 120

Query: 130 QCCAKVENTVVAEAEICAMV 149
           +  A V+  VVAEAEI   +
Sbjct: 121 KGEATVDGKVVAEAEITFAI 140


>gnl|CDD|183883 PRK13188, PRK13188, bifunctional UDP-3-O-[3-hydroxymyristoyl]
           N-acetylglucosamine
           deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein]
           dehydratase; Reviewed.
          Length = 464

 Score =  167 bits (426), Expect = 1e-42
 Identities = 67/146 (45%), Positives = 88/146 (60%), Gaps = 6/146 (4%)

Query: 12  DIVELMRFLPHRYPFLLVDKVVNIQRDESAIGIKNVTFNEPHFMGHFPGRPVMPGVLILE 71
           DI  +M+ LPHRYPFLLVDK++ +  D   +GIKNVT NEP F GHFPG PVMPGVL +E
Sbjct: 322 DINRIMKILPHRYPFLLVDKIIELG-DTKIVGIKNVTMNEPFFQGHFPGNPVMPGVLQIE 380

Query: 72  GMAQTAGAICAIHNGFDQYAPPYLMSIDKARFRKPVFPGDRLEYHVN---KVRNRVDLWK 128
            MAQT G +        +    Y M IDK +FR+ V PGD L + V     +R  +   +
Sbjct: 381 AMAQTGGILVLNTVPDPENYSTYFMKIDKVKFRQKVVPGDTLIFKVELLSPIRRGIC--Q 438

Query: 129 FQCCAKVENTVVAEAEICAMVMHEKK 154
            Q  A V   +V EAE+ A ++ +K+
Sbjct: 439 MQGKAYVNGKLVCEAELMAQIVKKKE 464


>gnl|CDD|149192 pfam07977, FabA, FabA-like domain.  This enzyme domain has a HotDog
           fold.
          Length = 133

 Score =  135 bits (341), Expect = 7e-33
 Identities = 54/134 (40%), Positives = 68/134 (50%), Gaps = 10/134 (7%)

Query: 20  LPHRYPFLLVDKVVNIQRDE-----SAIGIKNVTFNEPHFMGHFPGRPVMPGVLILEGMA 74
           LPHRYPFL++D+V  I  +        +  KNVT NE  F GHFPG PVMPGVL LE MA
Sbjct: 1   LPHRYPFLMIDRVTEIDPEGGKFKGYIVAEKNVTPNEWFFQGHFPGDPVMPGVLGLEAMA 60

Query: 75  QTAGAICAIHNGFDQYAPPYLMSIDKARFRKPVFPGD---RLEYHVNKVRN-RVDLWKFQ 130
           Q  G       G +         ID+ +FR  V PGD   R E  + ++   R  +    
Sbjct: 61  QLGGFYLLWLGGGEGKGRARF-GIDEVKFRGQVTPGDKQLRYEVEIKRIGPRRGVIGIAD 119

Query: 131 CCAKVENTVVAEAE 144
             A V+  +V EAE
Sbjct: 120 GRALVDGKLVYEAE 133


>gnl|CDD|179953 PRK05174, PRK05174, 3-hydroxydecanoyl-(acyl carrier protein)
          dehydratase; Validated.
          Length = 172

 Score = 38.3 bits (90), Expect = 9e-04
 Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 6/60 (10%)

Query: 25 PFLLVDKVVNIQRDESAIG---IK---NVTFNEPHFMGHFPGRPVMPGVLILEGMAQTAG 78
          P L++D++  I       G   I    ++  +   F  HF G PVMPG L L+ M Q  G
Sbjct: 33 PMLMMDRITEISETGGEFGKGYIVAELDINPDLWFFGCHFIGDPVMPGCLGLDAMWQLVG 92


>gnl|CDD|130810 TIGR01749, fabA, beta-hydroxyacyl-[acyl carrier protein]
          dehydratase FabA.  This enzyme, FabA, shows overlapping
          substrate specificity with FabZ with regard to chain
          length in fatty acid biosynthesis. It is commonly
          designated 3-hydroxydecanoyl-[acyl-carrier-protein]
          dehydratase (EC 4.2.1.60) as if it were specific for
          that chain length, but its specificity is broader; it
          is active even in the initiation of fatty acid
          biosynthesis. This enzyme can also isomerize
          trans-2-decenoyl-ACP to cis-3-decenoyl-ACP to bypass
          reduction by FabI and instead allow biosynthesis of
          unsaturated fatty acids. FabA cannot elongate
          unsaturated fatty acids.
          Length = 169

 Score = 35.2 bits (81), Expect = 0.008
 Identities = 23/61 (37%), Positives = 28/61 (45%), Gaps = 8/61 (13%)

Query: 25 PFLLVDKVVNIQRDESAIGIKNVTFNE----P---HFMGHFPGRPVMPGVLILEGMAQTA 77
          P L++D++V I       G K     E    P    F  HF G PVMPG L L+ M Q  
Sbjct: 30 PMLMIDRIVEISETGGKFG-KGYVEAELDIRPDLWFFGCHFIGDPVMPGCLGLDAMWQLV 88

Query: 78 G 78
          G
Sbjct: 89 G 89


>gnl|CDD|181636 PRK09070, PRK09070, hypothetical protein; Validated.
          Length = 447

 Score = 28.9 bits (65), Expect = 0.58
 Identities = 9/17 (52%), Positives = 11/17 (64%)

Query: 12 DIVELMRFLPHRYPFLL 28
          D++ L R  P RYP LL
Sbjct: 12 DLLALHRLAPERYPALL 28


>gnl|CDD|183724 PRK12754, PRK12754, transketolase; Reviewed.
          Length = 663

 Score = 26.9 bits (59), Expect = 2.8
 Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)

Query: 72  GMAQTAGAICAIHNGFDQYAPPYLMSIDKAR 102
           GM   A  I A+H GF  Y   +LM ++ AR
Sbjct: 413 GMTAIANGI-ALHGGFLPYTSTFLMFVEYAR 442


>gnl|CDD|180281 PRK05839, PRK05839, hypothetical protein; Provisional.
          Length = 374

 Score = 26.6 bits (59), Expect = 2.9
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 8/59 (13%)

Query: 29  VDKVVNIQRDESAI----GIKNVTFNEPHFMGHFPGRPVM----PGVLILEGMAQTAGA 79
             +   I+  E+ +    G + V FN P F+      P +    P   I EG A  + A
Sbjct: 73  FKRRFKIELKENELIPTFGTREVLFNFPQFVLFDKQNPTIAYPNPFYQIYEGAAIASRA 131


>gnl|CDD|178086 PLN02467, PLN02467, betaine aldehyde dehydrogenase.
          Length = 503

 Score = 26.6 bits (59), Expect = 3.2
 Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)

Query: 65  PGVL-ILEGMAQTAGAICAIHNGFDQYA 91
           PGVL ++ G+   AGA  A H G D+ A
Sbjct: 208 PGVLNVVTGLGTEAGAPLASHPGVDKIA 235


>gnl|CDD|107069 PHA01756, PHA01756, hypothetical protein.
          Length = 268

 Score = 26.1 bits (57), Expect = 4.1
 Identities = 9/17 (52%), Positives = 11/17 (64%)

Query: 106 PVFPGDRLEYHVNKVRN 122
           P+ PGD LE+HV    N
Sbjct: 233 PILPGDSLEFHVRNPSN 249


>gnl|CDD|185318 PRK15420, fucU, L-fucose mutarotase; Provisional.
          Length = 140

 Score = 26.0 bits (57), Expect = 4.5
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 57 HFPGRPVMPGVLILEGMAQTAGAICAIHNGF--DQYAPPYLM 96
          HFP   + P V+  +G+   +  + AI   F  D YAPP +M
Sbjct: 32 HFPAHSMGPQVIRADGL-LVSDLLQAIIPLFELDSYAPPLVM 72


>gnl|CDD|130895 TIGR01836, PHA_synth_III_C, poly(R)-hydroxyalkanoic acid
          synthase, class III, PhaC subunit.  This model
          represents the PhaC subunit of a heterodimeric form of
          polyhydroxyalkanoic acid (PHA) synthase. Excepting the
          PhaC of Bacillus megaterium (which needs PhaR), all
          members require PhaE (TIGR01834) for activity and are
          designated class III. This enzyme builds ester polymers
          for carbon and energy storage that accumulate in
          inclusions, and both this enzyme and the depolymerase
          associate with the inclusions. Class III enzymes
          polymerize short-chain-length hydroxyalkanoates.
          Length = 350

 Score = 25.9 bits (57), Expect = 5.1
 Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 11/43 (25%)

Query: 11 KDIVELMRFLP-----HRYPFLLVDKVVN------IQRDESAI 42
          +D V L R+ P     H+ P L+V  +VN      +Q D S +
Sbjct: 45 EDKVVLYRYTPVKDNTHKTPLLIVYALVNRPYMLDLQEDRSLV 87


>gnl|CDD|183723 PRK12753, PRK12753, transketolase; Reviewed.
          Length = 663

 Score = 25.8 bits (57), Expect = 5.6
 Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 1/31 (3%)

Query: 72  GMAQTAGAICAIHNGFDQYAPPYLMSIDKAR 102
           GM   A  I A H GF  Y   +LM ++ AR
Sbjct: 413 GMTAIANGI-AHHGGFVPYTATFLMFVEYAR 442


>gnl|CDD|152362 pfam11927, DUF3445, Protein of unknown function (DUF3445).  This
          family of proteins are functionally uncharacterized.
          This protein is found in bacteria and eukaryotes.
          Proteins in this family are typically between 264 to
          418 amino acids in length. This protein has a conserved
          RLP sequence motif. This protein has two completely
          conserved R residues that may be functionally
          important.
          Length = 246

 Score = 25.6 bits (57), Expect = 6.1
 Identities = 6/23 (26%), Positives = 13/23 (56%), Gaps = 2/23 (8%)

Query: 3  SDLACLDAKDIVELMRFLPHRYP 25
          ++ A  +  +   ++ +LP RYP
Sbjct: 43 AEPAAWELLE--LVLEYLPARYP 63


>gnl|CDD|177996 PLN02368, PLN02368, alanine transaminase.
          Length = 407

 Score = 25.5 bits (56), Expect = 6.7
 Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 7   CLDAKDIVELMRFLPHRYPFLLVDKV--VNIQRDE 39
           CL   ++ E+++F       LL D+V   NI +DE
Sbjct: 226 CLSEANLREILKFCYQERLVLLGDEVYQQNIYQDE 260


>gnl|CDD|152107 pfam11671, Apis_Csd, Complementary sex determiner protein.  This
           family of proteins represents the complementary sex
           determiner in the honeybee. In the honeybee, the
           mechanism of sex determination depends on the csd gene
           which produces an SR-type protein. Males are homozygous
           while females are homozygous for the csd gene.
           Heterozygosity generates an active protein which
           initiates female development.
          Length = 146

 Score = 25.1 bits (54), Expect = 8.4
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 8/60 (13%)

Query: 52  PHFMGHFPGRPVM--PGVLILEGMAQTAGAICAIHNGFDQYAPPYLMSIDKARFRKPVFP 109
           P + G+FP RP+M  P V + E + +        + G     PP  +  +  RFR P+ P
Sbjct: 87  PVYYGNFPPRPIMVRPWVSMQEQVPRFR------YIGPLTPFPPRFIPPNMYRFRPPLNP 140


>gnl|CDD|147801 pfam05843, Suf, Suppressor of forked protein (Suf).  This family
           consists of several eukaryotic suppressor of forked
           (Suf) like proteins. The Drosophila melanogaster
           Suppressor of forked [Su(f)] protein shares homology
           with the yeast RNA14 protein and the 77-kDa subunit of
           human cleavage stimulation factor, which are proteins
           involved in mRNA 3' end formation. This suggests a role
           for Su(f) in mRNA 3' end formation in Drosophila. The
           su(f) gene produces three transcripts; two of them are
           polyadenylated at the end of the transcription unit, and
           one is a truncated transcript, polyadenylated in intron
           4. It is thought that su(f) plays a role in the
           regulation of poly(A) site utilisation and an important
           role of the GU-rich sequence for this regulation to
           occur.
          Length = 275

 Score = 25.0 bits (55), Expect = 9.7
 Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 4/32 (12%)

Query: 11  KDIVELMRFLPHRY----PFLLVDKVVNIQRD 38
            +IV L+  LP+      P    +K+V++ R 
Sbjct: 240 PEIVALLSVLPNAQYFDGPRFDPEKLVDLLRQ 271


  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
   0.325    0.140    0.438 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,678,667
Number of extensions: 163023
Number of successful extensions: 328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 24
Length of query: 161
Length of database: 5,994,473
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,136,185
Effective search space: 310213875
Effective search space used: 310213875
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: 40 (21.6 bits)
S2: 53 (24.3 bits)