RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6039
         (203 letters)



>gnl|CDD|238247 cd00433, Peptidase_M17, Cytosol aminopeptidase family, N-terminal
           and catalytic domains.  Family M17 contains zinc- and
           manganese-dependent exopeptidases ( EC  3.4.11.1),
           including leucine aminopeptidase. They catalyze removal
           of amino acids from the N-terminus of a protein and play
           a key role in protein degradation and in the metabolism
           of biologically active peptides. They do not contain
           HEXXH motif (which is used as one of the signature
           patterns to group the peptidase families) in the
           metal-binding site. The two associated zinc ions and the
           active site are entirely enclosed within the C-terminal
           catalytic domain in leucine aminopeptidase. The enzyme
           is a hexamer, with the catalytic domains clustered
           around the three-fold axis, and the two trimers related
           to one another by a two-fold rotation. The N-terminal
           domain is structurally similar to the ADP-ribose binding
           Macro domain. This family includes proteins from
           bacteria, archaea, animals and plants.
          Length = 468

 Score = 67.2 bits (165), Expect = 3e-13
 Identities = 34/164 (20%), Positives = 57/164 (34%), Gaps = 13/164 (7%)

Query: 37  DAAYPQPIIKLLQEQSKIDKGFNDDITLLHSS-LPASRFVYAPTGNMTKEYDDVRSYAEA 95
           DAA    +  LL+      KG   +  LL +    A R      G   +E  DV +  +A
Sbjct: 23  DAASSGALAALLKA--SGFKGKAGETLLLPALGGGAKRVALVGLGK--EEDLDVENLRKA 78

Query: 96  AKKGIARALKAGITKPLLALPSDPNFPKSEVVTLLGAMEGLYTNLQYREFKPEIFPKVKV 155
           A        K G     + LP+     ++      GA+ G Y   +Y+  K +    V +
Sbjct: 79  AGAAARALKKLGSKSVAVDLPTLAEDAEAAA---EGALLGAYRFDRYKSKKKKTPLLVVL 135

Query: 156 LGIWSPKLDGAGLESVVSAATTLESARWVARDIGGTDPERMAPP 199
                   +    E+ +     +     +ARD+  T    + P 
Sbjct: 136 ELG-----NDKAAEAALERGEAIAEGVNLARDLVNTPANDLTPT 174


>gnl|CDD|226990 COG4643, COG4643, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 366

 Score = 28.7 bits (64), Expect = 2.3
 Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 150 FPKVKVLGIWS----PKLDGAGLESVVSAATTLESARWVARDIGGTDPERMAP 198
           F   K  G W        DG  L S+V   T +E+A  +  DIG   PE  A 
Sbjct: 46  FDDRKGRGTWFCNYCGHGDGLPLVSLVRQRTGIEAAWEIKGDIGNDAPESKAM 98


>gnl|CDD|133398 cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy
           Metal Resistance transcription regulators.
           Helix-turn-helix (HTH) heavy metal resistance
           transcription regulators (HMRTR): MerR1 (mercury), CueR
           (copper),  CadR (cadmium),  PbrR (lead), ZntR (zinc),
           and other related proteins. These transcription
           regulators mediate responses to heavy metal stress in
           eubacteria. They belong to the MerR superfamily of
           transcription regulators that promote transcription of
           various stress regulons by reconfiguring the operator
           sequence located between the -35 and -10 promoter
           elements. A typical MerR regulator is comprised of two
           distinct domains that harbor the regulatory
           (effector-binding) site and the active (DNA-binding)
           site. Their N-terminal domains are homologous and
           contain a DNA-binding winged HTH motif, while the
           C-terminal domains are often dissimilar and bind
           specific coactivator molecules such as metal ions,
           drugs, and organic substrates.
          Length = 123

 Score = 27.1 bits (61), Expect = 4.0
 Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 7/48 (14%)

Query: 90  RSYAEAAK---KGIARALKAGIT----KPLLALPSDPNFPKSEVVTLL 130
           R Y EA     + I RA   G +    + LL+L  D   P +EV  LL
Sbjct: 37  RLYGEADLARLRFIRRAQALGFSLAEIRELLSLRDDGAAPCAEVRALL 84


>gnl|CDD|219421 pfam07470, Glyco_hydro_88, Glycosyl Hydrolase Family 88.
           Unsaturated glucuronyl hydrolase catalyzes the
           hydrolytic release of unsaturated glucuronic acids from
           oligosaccharides (EC:3.2.1.-) produced by the reactions
           of polysaccharide lyases.
          Length = 342

 Score = 27.7 bits (62), Expect = 4.2
 Identities = 23/97 (23%), Positives = 38/97 (39%), Gaps = 12/97 (12%)

Query: 26  GIVLVSNKVPEDAAYPQPIIKLLQEQSKIDKGFNDDITLLH---------SSLPASR--- 73
           G+  V   +PE       +I +L++  K    + D+  L +         S L +S    
Sbjct: 198 GLADVLELLPEKHPGRPELINVLRDMVKSLAKYQDESGLWYQILDDPSRDSYLESSASAG 257

Query: 74  FVYAPTGNMTKEYDDVRSYAEAAKKGIARALKAGITK 110
           FVY     + K Y D + Y   A+K     LK  + +
Sbjct: 258 FVYGLAKGVNKGYLDDKKYKPVAQKAWKGLLKHFVDE 294


>gnl|CDD|235733 PRK06190, PRK06190, enoyl-CoA hydratase; Provisional.
          Length = 258

 Score = 27.2 bits (61), Expect = 5.0
 Identities = 9/27 (33%), Positives = 12/27 (44%)

Query: 171 VVSAATTLESARWVARDIGGTDPERMA 197
           VV     L  AR +A  I G +P  + 
Sbjct: 179 VVPHDELLPRARRLAASIAGNNPAAVR 205


>gnl|CDD|217527 pfam03387, Herpes_UL46, Herpesvirus UL46 protein. 
          Length = 443

 Score = 27.4 bits (61), Expect = 5.7
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 5/45 (11%)

Query: 66  HSSLPASRFVYAPTGNMTKEYDDVRSYAEAAKKGIARALKAGITK 110
            + +P S  V    G+   EY  +R+Y  AAK+ +AR   AG++K
Sbjct: 61  SNKVPESLIVSCVAGDTRDEY--IRNYDAAAKRRLAR---AGLSK 100


>gnl|CDD|217232 pfam02789, Peptidase_M17_N, Cytosol aminopeptidase family,
           N-terminal domain. 
          Length = 126

 Score = 25.8 bits (57), Expect = 9.4
 Identities = 9/60 (15%), Positives = 18/60 (30%), Gaps = 4/60 (6%)

Query: 88  DVRSYAEAAKKGIARALKAGITKPLLALPSDPNFPKSEVVTL-LGAMEGLYTNLQYREFK 146
              +  +AA           +    + LP+              GA+ G Y   ++  +K
Sbjct: 67  SAEALRKAAGAAARALKGLKVKTVAVDLPTLNIDAAEVARAAAEGALLGAY---RFDRYK 123


>gnl|CDD|183230 PRK11613, folP, dihydropteroate synthase; Provisional.
          Length = 282

 Score = 26.6 bits (59), Expect = 9.9
 Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 3/38 (7%)

Query: 85  EYDDVRSYAEA-AKKGIARALKAGITKPLLALPSDPNF 121
           +YDDV +       + IAR   AGI K  L L  DP F
Sbjct: 153 KYDDVFAEVNRYFIEQIARCEAAGIAKEKLLL--DPGF 188


  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
   0.313    0.133    0.380 

Gapped
Lambda     K      H
   0.267   0.0700    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,545,926
Number of extensions: 976442
Number of successful extensions: 696
Number of sequences better than 10.0: 1
Number of HSP's gapped: 695
Number of HSP's successfully gapped: 19
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (25.8 bits)