RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6577
         (96 letters)



>gnl|CDD|215689 pfam00067, p450, Cytochrome P450.  Cytochrome P450s are
           haem-thiolate proteins involved in the oxidative
           degradation of various compounds. They are particularly
           well known for their role in the degradation of
           environmental toxins and mutagens. They can be divided
           into 4 classes, according to the method by which
           electrons from NAD(P)H are delivered to the catalytic
           site. Sequence conservation is relatively low within the
           family - there are only 3 absolutely conserved residues
           - but their general topography and structural fold are
           highly conserved. The conserved core is composed of a
           coil termed the 'meander', a four-helix bundle, helices
           J and K, and two sets of beta-sheets. These constitute
           the haem-binding loop (with an absolutely conserved
           cysteine that serves as the 5th ligand for the haem
           iron), the proton-transfer groove and the absolutely
           conserved EXXR motif in helix K. While prokaryotic P450s
           are soluble proteins, most eukaryotic P450s are
           associated with microsomal membranes. their general
           enzymatic function is to catalyze regiospecific and
           stereospecific oxidation of non-activated hydrocarbons
           at physiological temperatures.
          Length = 461

 Score = 48.4 bits (116), Expect = 5e-08
 Identities = 24/93 (25%), Positives = 43/93 (46%), Gaps = 5/93 (5%)

Query: 3   QLQMGQGILTNVNTEVWKKQRKILTPTFHFKILHSYIQYFYEESQLLCNIIREEAQDGAE 62
              +G+GI+   N   W++ R+ LTPTF      S+     EE++ L   +R+ A  G  
Sbjct: 80  GPFLGKGIV-FANGPRWRQLRRFLTPTFTSFGKLSFEPRVEEEARDLVEKLRKTA--GEP 136

Query: 63  TKTDMK--LKLAGFDMIVRNVLGIQINAQRNPR 93
              D+   L  A  ++I   + G +  +  +P+
Sbjct: 137 GVIDITDLLFRAALNVICSILFGERFGSLEDPK 169


>gnl|CDD|215393 PLN02738, PLN02738, carotene beta-ring hydroxylase.
          Length = 633

 Score = 41.4 bits (97), Expect = 1e-05
 Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 1/76 (1%)

Query: 6   MGQGILTNVNTEVWKKQRKILTPTFHFKILHSYIQYFYEESQLLCNIIREEAQDGAETKT 65
           MG+G L   + E+W+ +R+ + P  H K + + I  F + S  LC  +   A DG + + 
Sbjct: 210 MGKG-LIPADGEIWRVRRRAIVPALHQKYVAAMISLFGQASDRLCQKLDAAASDGEDVEM 268

Query: 66  DMKLKLAGFDMIVRNV 81
           +        D+I + V
Sbjct: 269 ESLFSRLTLDIIGKAV 284


>gnl|CDD|215627 PLN03195, PLN03195, fatty acid omega-hydroxylase; Provisional.
          Length = 516

 Score = 33.2 bits (76), Expect = 0.009
 Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 9/71 (12%)

Query: 1   MEQLQMGQGILTNVNTEVWKKQRKILTPTFHF--KILHSYIQYFYEESQL-LCNIIREEA 57
           ME L +G GI  NV+ E+W+KQRK  T +F F  K L  +    + E  L L +I+ + +
Sbjct: 107 MEVL-LGDGIF-NVDGELWRKQRK--TASFEFASKNLRDFSTVVFREYSLKLSSILSQAS 162

Query: 58  QDGAETKTDMK 68
              A    DM+
Sbjct: 163 F--ANQVVDMQ 171


>gnl|CDD|215164 PLN02290, PLN02290, cytokinin trans-hydroxylase.
          Length = 516

 Score = 29.4 bits (66), Expect = 0.20
 Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 6   MGQGILTNVNTEVWKKQRKILTPTFHFKILHSYIQYFYEESQLLCNIIREEAQDGA 61
           +G+G+L   N   W  QR I  P F    L  Y  +  E ++ +   +++  + G 
Sbjct: 140 IGRGLLM-ANGADWYHQRHIAAPAFMGDRLKGYAGHMVECTKQMLQSLQKAVESGQ 194


>gnl|CDD|212153 cd11546, NTP-PPase_His4, Nucleoside Triphosphate
          Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain
          found in His4-like fungal histidine biosynthesis
          trifunctional proteins and their homologs.  This family
          includes fungal histidine biosynthesis trifunctional
          proteins and their homologs from eukaryotes and
          bacteria. Some family members contain three domains
          responsible for phosphoribosyl-AMP cyclohydrolase
          (PRAMP-CH), phosphoribosyl-ATP pyrophosphohydrolase
          (PRATP-PH), and histidinol dehydrogenase
          (Histidinol-DH) activity, respectively. Some others do
          not have Histidinol-DH domain, but have an additional
          N-terminal TIM phosphate binding domain. This family
          corresponds to the domain for PRATP-PH activity, which
          shows significant sequence similarity to Mycobacterium
          tuberculosis PRATP-PH that catalyzes the second step in
          the histidine-biosynthetic pathway, irreversibly
          hydrolyzing phosphoribosyl-ATP (PRATP) to
          phosphoribosyl-AMP (PRAMP) and pyrophosphate.
          Length = 84

 Score = 28.4 bits (64), Expect = 0.24
 Identities = 11/29 (37%), Positives = 16/29 (55%)

Query: 37 SYIQYFYEESQLLCNIIREEAQDGAETKT 65
          SY    + + +LL   I EEA++  E KT
Sbjct: 20 SYTARLFNDEKLLRAKIMEEAEELCEAKT 48


>gnl|CDD|215196 PLN02346, PLN02346, histidine biosynthesis bifunctional protein
           hisIE.
          Length = 271

 Score = 28.2 bits (63), Expect = 0.54
 Identities = 10/27 (37%), Positives = 18/27 (66%)

Query: 37  SYIQYFYEESQLLCNIIREEAQDGAET 63
           S+ +   ++ +LLC+ IREEA +  +T
Sbjct: 186 SWTKRLLQDPELLCSKIREEAGELCQT 212


>gnl|CDD|225035 COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis,
           transport, and catabolism].
          Length = 411

 Score = 27.8 bits (62), Expect = 0.74
 Identities = 19/82 (23%), Positives = 31/82 (37%), Gaps = 11/82 (13%)

Query: 6   MGQGILTNVNTEVWKKQRKILTPTFHFKILHSYIQYFYEESQLLCNIIREEAQDGAETKT 65
           +G G L  ++     + RK+L P F  + L  Y         L+  I      D  +   
Sbjct: 86  LGDGSLLTLDGPEHTRLRKLLAPAFTPRALRGY-------RPLIREIADRLLDDLWQGGA 138

Query: 66  DMKLKLAG---FDMIVRNVLGI 84
           D+ L  A      +I   +LG+
Sbjct: 139 DLVLDFAAELTLRVIAE-LLGV 159


>gnl|CDD|215221 PLN02394, PLN02394, trans-cinnamate 4-monooxygenase.
          Length = 503

 Score = 27.4 bits (61), Expect = 1.2
 Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 2/45 (4%)

Query: 7   GQGILTNVNTEVWKKQRKILT-PTFHFKILHSYIQYFYEESQLLC 50
           GQ ++  V  + W+K R+I+T P F  K++  Y +Y +EE   L 
Sbjct: 112 GQDMVFTVYGDHWRKMRRIMTVPFFTNKVVQQY-RYGWEEEADLV 155


>gnl|CDD|213396 cd12153, F1-ATPase_epsilon, eukaryotic mitochondrial ATP synthase
          epsilon subunit.  The F-ATPase is found in bacterial
          plasma membranes, mitochondrial inner membranes, and in
          chloroplast thylakoid membranes. It uses a proton
          gradient to drive ATP synthesis and hydrolyzes ATP to
          build the proton gradient. The extrinsic membrane
          domain, F1, is composed of alpha, beta, gamma, delta,
          and epsilon subunits (only found in eukaryotes, lacking
          in bacteria) with a stoichiometry of 3:3:1:1:1. Alpha
          and beta subunit form the globular catalytic moiety, a
          hexameric ring of alternating subunits. Gamma, delta
          and epsilon subunits form a stalk, connecting F1 to F0,
          the integral membrane proton translocating domain.The
          epsilon subunit is thought to be involved in the
          regulation of ATP synthase, since a null mutation
          increased oligomycin sensitivity and decreased
          inhibition by inhibitor protein IF1.
          Length = 45

 Score = 25.7 bits (57), Expect = 1.3
 Identities = 8/34 (23%), Positives = 18/34 (52%)

Query: 37 SYIQYFYEESQLLCNIIREEAQDGAETKTDMKLK 70
          SY++Y    ++ L   ++E  +  A  + + +LK
Sbjct: 8  SYLRYSNICARALRRALKEPFRAKALKREETELK 41


>gnl|CDD|178524 PLN02936, PLN02936, epsilon-ring hydroxylase.
          Length = 489

 Score = 26.7 bits (59), Expect = 2.3
 Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 17  EVWKKQRKILTPTFHFKILHSYI-QYFYEESQLLCNIIREEAQDGAETKTDMKLKLAGFD 75
           E+W  +R+ + P+ H + L   + + F + ++ L   +   A  G     + K      D
Sbjct: 105 ELWTARRRAVVPSLHRRYLSVMVDRVFCKCAERLVEKLEPVALSGEAVNMEAKFSQLTLD 164

Query: 76  MI 77
           +I
Sbjct: 165 VI 166


>gnl|CDD|224729 COG1816, Add, Adenosine deaminase [Nucleotide transport and
          metabolism].
          Length = 345

 Score = 25.7 bits (57), Expect = 4.5
 Identities = 6/41 (14%), Positives = 14/41 (34%)

Query: 9  GILTNVNTEVWKKQRKILTPTFHFKILHSYIQYFYEESQLL 49
          GI             ++      F  L  +++ +Y  + +L
Sbjct: 37 GIALPPAEFDETILEELRAEYNKFNDLQEFLEKYYRGASVL 77


>gnl|CDD|131508 TIGR02455, TreS_stutzeri, trehalose synthase, Pseudomonas stutzeri
           type.  Trehalose synthase catalyzes a one-step
           conversion of maltose to trehalose. This is an
           alternative to the OtsAB and TreYZ pathways. This family
           includes a characterized example from Pseudomonas
           stutzeri plus very closely related sequences from other
           Pseudomonads. Cutoff scores are set to find a more
           distantly related sequence from Desulfovibrio vulgaris,
           likely to be functionally equivalent, between trusted
           and noise limits [Energy metabolism, Biosynthesis and
           degradation of polysaccharides, Cellular processes,
           Adaptations to atypical conditions].
          Length = 688

 Score = 25.3 bits (55), Expect = 6.5
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 31  HFKILHSYIQYFYEESQLLCNIIREEAQD 59
           HF  LH++  Y Y+   L    +RE  ++
Sbjct: 411 HFWTLHAHDHYHYKGQTLPGGHLREHIRE 439


  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
   0.323    0.137    0.396 

Gapped
Lambda     K      H
   0.267   0.0727    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,726,650
Number of extensions: 376102
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 16
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)