RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8677
         (99 letters)



>gnl|CDD|217864 pfam04053, Coatomer_WDAD, Coatomer WD associated region.  This
           region is composed of WD40 repeats.
          Length = 429

 Score = 36.4 bits (85), Expect = 9e-04
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 4/86 (4%)

Query: 8   LNEAFQFVEAHPHPRLWKLLADKSLDLLSLNHAEQALVNCQDYAGLQLIKSLRALPDDIM 67
           L+ A +  +       WK L D +L   ++  AE+A    +D+  L L+       + + 
Sbjct: 320 LDVALEIAKELDDEHKWKRLGDAALSQGNIKLAEEAYQKAKDFDKLLLLYLSTGNKEKLK 379

Query: 68  KHAYIAQHQG----RFQTAVYCDIIE 89
           K A IA+ +G     FQ A+Y   +E
Sbjct: 380 KLAKIAEERGDYNSAFQNALYLGDVE 405


>gnl|CDD|240310 PTZ00200, PTZ00200, cysteine proteinase; Provisional.
          Length = 448

 Score = 28.9 bits (65), Expect = 0.36
 Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 5/26 (19%)

Query: 23  LWKLLADKSLDLLSLNHAEQALVNCQ 48
           L+K+  DKS+DL     +EQ LVNC 
Sbjct: 271 LYKIYRDKSVDL-----SEQELVNCD 291


>gnl|CDD|237089 PRK12398, PRK12398, pyruvoyl-dependent arginine decarboxylase;
           Provisional.
          Length = 162

 Score = 28.2 bits (63), Expect = 0.62
 Identities = 6/25 (24%), Positives = 14/25 (56%)

Query: 61  ALPDDIMKHAYIAQHQGRFQTAVYC 85
           A+P+D   + Y++++ G  +T    
Sbjct: 89  AIPEDQSLNGYLSEYHGYGETEEDA 113


>gnl|CDD|233929 TIGR02563, cas_Csy4, CRISPR-associated protein Cas6/Csy4, subtype
           I-F/YPEST.  CRISPR (Clustered Regularly Interspaced
           Short Palindromic Repeats) is a widespread family of
           prokaryotic direct repeats with spacers of unique
           sequence between consecutive repeats. This protein
           family, typified by YPO2462 of Yersinia pestis, is a
           CRISPR-associated (Cas) family strictly associated with
           the Ypest subtype of CRISPR/Cas locus. This family is
           designated Csy4, for CRISPR/Cas Subtype Ypest protein 4
           [Mobile and extrachromosomal element functions, Other].
          Length = 185

 Score = 27.4 bits (61), Expect = 1.1
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 4/44 (9%)

Query: 33  DLLSLNHAEQALVNCQDYAGLQLIKSLRALPDDIMKHAYIAQHQ 76
           DL  L H+ + L    DYA    I  +  +P D +K   + + Q
Sbjct: 63  DLDKL-HSRRWLSGLSDYA---SISEISTVPADCVKRRTVRRKQ 102


>gnl|CDD|226591 COG4106, Tam, Trans-aconitate methyltransferase [General function
           prediction only].
          Length = 257

 Score = 26.6 bits (59), Expect = 2.1
 Identities = 9/22 (40%), Positives = 11/22 (50%), Gaps = 2/22 (9%)

Query: 9   NEAFQFVEAHPH--PRLWKLLA 28
           N   Q++  HP   PRL   LA
Sbjct: 99  NAVLQWLPDHPELLPRLVSQLA 120


>gnl|CDD|226682 COG4229, COG4229, Predicted enolase-phosphatase [Energy production
           and conversion].
          Length = 229

 Score = 25.9 bits (57), Expect = 3.7
 Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 13/93 (13%)

Query: 13  QFVEAHPHPRLWKLLADKSLDLLSLNHAEQALVNCQDYAGLQLI------KSLRALPDDI 66
            FV  +      K + D+ L    + ++E+ALV       L+ I        L+AL   I
Sbjct: 35  DFVRENTEDSEVKKIVDEVLSEFGIANSEEALVALL----LEWIAEDSKDTPLKALQGMI 90

Query: 67  MKHAYIAQHQGRFQTAVYCDIIEYLRRRKDSTM 99
             H Y     G  +  +Y D ++ ++R K   M
Sbjct: 91  WAHGY---ESGELKAHLYPDAVQAIKRWKALGM 120


>gnl|CDD|238479 cd00978, chitosanase_glyco_hydro_46, Glycosyl hydrolase family 46
           chitosanase domain. This family are composed of the
           chitosanase enzymes which hydrolyzes chitosan, a
           biopolymer of beta (1,4)-linked -D-glucosamine (GlcN)
           residues produced by partial or full deacetylation of
           chitin. Chitosanases play a role in defense against
           pathogens such as fungi and are found in microorganisms,
           fungi, viruses, and plants. Microbial chitosanases who
           members are the most prevalent can be divided into 3
           subclasses based on the specificity of the cleavage
           positions for partial acetylated chitosan.  Subclass I
           chitosanases such as N174 can split GlcN-GlcN and
           GlcNAc-GlcN linkages, whereas subclass II chitosanases
           such as Bacillus sp. no. 7-M can cleave only GlcN-GlcN
           linkages. Subclass III chitosanases such as MH-K1
           chitosanase are the most versatile and can split both
           GlcN-GlcN and GlcN-GlcNAc linkages.
          Length = 221

 Score = 25.8 bits (57), Expect = 4.3
 Identities = 15/57 (26%), Positives = 19/57 (33%)

Query: 16  EAHPHPRLWKLLADKSLDLLSLNHAEQALVNCQDYAGLQLIKSLRALPDDIMKHAYI 72
            A P   L K L        + +H       C  + GL   K+ RA  DD     Y 
Sbjct: 63  AAKPGNNLAKYLPALRAVNGTDSHTGLGKGFCGAWKGLANDKAFRAAQDDERDRVYF 119


>gnl|CDD|203115 pfam04896, AmoC, Ammonia monooxygenase/methane monooxygenase,
           subunit C.  Ammonia monooxygenase plays a key role in
           the nitrogen cycle and degrades a wide range of
           hydrocarbons and halogenated hydrocarbons. This family
           represents the AmoC subunit. It also includes the
           particulate methane monooxygenase subunit PmoC from
           methanotrophic bacteria.
          Length = 241

 Score = 25.4 bits (56), Expect = 4.9
 Identities = 11/19 (57%), Positives = 12/19 (63%), Gaps = 3/19 (15%)

Query: 1   MYLKNVGLNE---AFQFVE 16
           M L NVGLNE    F F+E
Sbjct: 178 MILPNVGLNEWGHTFWFME 196


>gnl|CDD|219534 pfam07720, TPR_3, Tetratricopeptide repeat.  This Pfam entry
          includes tetratricopeptide-like repeats found in the
          LcrH/SycD-like chaperones.
          Length = 34

 Score = 23.6 bits (52), Expect = 5.8
 Identities = 4/21 (19%), Positives = 10/21 (47%)

Query: 63 PDDIMKHAYIAQHQGRFQTAV 83
           + +   A +   +G++Q A 
Sbjct: 1  LEYLYSLAAVFYLKGKYQEAR 21


>gnl|CDD|132122 TIGR03078, CH4_NH3mon_ox_C, methane monooxygenase/ammonia
           monooxygenase, subunit C.  Both ammonia oxidizers such
           as Nitrosomonas europaea and methanotrophs (obligate
           methane oxidizers) such as Methylococcus capsulatus each
           can grow only on their own characteristic substrate.
           However, both groups have the ability to oxidize both
           substrates, and so the relevant enzymes must be named
           here according to their ability to oxidze both. The
           protein family represented here reflects subunit C of
           both the particulate methane monooxygenase of
           methylotrophs and the ammonia monooxygenase of
           nitrifying bacteria.
          Length = 229

 Score = 25.1 bits (55), Expect = 5.9
 Identities = 11/19 (57%), Positives = 12/19 (63%), Gaps = 3/19 (15%)

Query: 1   MYLKNVGLNE---AFQFVE 16
           M L NVGLNE    F F+E
Sbjct: 177 MILPNVGLNEWGHTFWFME 195


>gnl|CDD|140280 PTZ00253, PTZ00253, tryparedoxin peroxidase; Provisional.
          Length = 199

 Score = 25.3 bits (55), Expect = 6.4
 Identities = 12/20 (60%), Positives = 12/20 (60%), Gaps = 2/20 (10%)

Query: 8   LNEAFQFVEAHPH--PRLWK 25
           L EAFQFVE H    P  WK
Sbjct: 159 LLEAFQFVEKHGEVCPANWK 178


>gnl|CDD|182711 PRK10766, PRK10766, DNA-binding transcriptional regulator TorR;
          Provisional.
          Length = 221

 Score = 25.0 bits (55), Expect = 7.9
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 6/52 (11%)

Query: 9  NEAFQFVEAHPHPRLWKLLADKSLDLLSLNHAEQALVNCQDYAGLQLIKSLR 60
           E +   EA     + +++ ++ +DL+ L+      +N     GL L + LR
Sbjct: 24 QEGYTVSEAASGAGMREIMQNQHVDLILLD------INLPGEDGLMLTRELR 69


>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1. The 20S
           proteasome, multisubunit proteolytic complex, is the
           central enzyme of nonlysosomal protein degradation in
           both the cytosol and nucleus. It is composed of 28
           subunits arranged as four homoheptameric rings that
           stack on top of one another forming an elongated
           alpha-beta-beta-alpha cylinder with a central cavity.
           The proteasome alpha and beta subunits are members of
           the N-terminal nucleophile (Ntn)-hydrolase superfamily.
           Their N-terminal threonine residues are exposed as a
           nucleophile in peptide bond hydrolysis. Mammals have 7
           alpha and 7 beta proteasome subunits while archaea have
           one of each.
          Length = 211

 Score = 24.9 bits (55), Expect = 8.8
 Identities = 9/30 (30%), Positives = 15/30 (50%)

Query: 2   YLKNVGLNEAFQFVEAHPHPRLWKLLADKS 31
           Y++   LN  F +    P  RL   +A+K+
Sbjct: 82  YMRQECLNYRFVYDSPIPVSRLVSKVAEKA 111


  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
   0.325    0.137    0.414 

Gapped
Lambda     K      H
   0.267   0.0690    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,066,587
Number of extensions: 412681
Number of successful extensions: 517
Number of sequences better than 10.0: 1
Number of HSP's gapped: 517
Number of HSP's successfully gapped: 24
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
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)