RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy484
         (195 letters)



>gnl|CDD|217617 pfam03567, Sulfotransfer_2, Sulfotransferase family.  This family
           includes a variety of sulfotransferase enzymes.
           Chondroitin 6-sulfotransferase catalyzes the transfer of
           sulfate to position 6 of the N-acetylgalactosamine
           residue of chondroitin. This family also includes
           Heparan sulfate 2-O-sulfotransferase (HS2ST) and Heparan
           sulfate 6-sulfotransferase (HS6ST). Heparan sulfate (HS)
           is a co-receptor for a number of growth factors,
           morphogens, and adhesion proteins. HS biosynthetic
           modifications may determine the strength and outcome of
           HS-ligand interactions. Mice that lack HS2ST undergo
           developmental failure only after midgestation,the most
           dramatic effect being the complete failure of kidney
           development. Heparan sulphate 6- O -sulfotransferase
           (HS6ST) catalyzes the transfer of sulphate from
           adenosine 3'-phosphate, 5'-phosphosulphate to the 6th
           position of the N -sulphoglucosamine residue in heparan
           sulphate.
          Length = 238

 Score =  115 bits (291), Expect = 2e-32
 Identities = 49/180 (27%), Positives = 72/180 (40%), Gaps = 22/180 (12%)

Query: 27  PSLHDLESAISAPSSVSFVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAILRKYRPLA 86
             L   E          F  VR PFER +SAYR+K        +     S +  K R   
Sbjct: 61  SELTSCEIRKRLRKYFKFAFVRDPFERFVSAYRNKC-------VGANYGSDMRCKGRKPT 113

Query: 87  ATKSTSRRATFEEFVLYLLDTFRSNETGLDMHWAPVVQFCTPCLINFNVILKFETLQEDQ 146
              S     +FEEFV  LL+      T  D HWAP    C PCLI ++++ K+ETL+ED 
Sbjct: 114 DDGS---GVSFEEFVECLLNLAPER-TYFDRHWAPQCDLCHPCLIKYDLVGKYETLEEDA 169

Query: 147 RYLIELTGLSHLIKPEWINEGK-----------GGSTNQMIGKFYSELSADQLYQLYNVY 195
             ++ L G             +             ST ++  +++  +      +LY +Y
Sbjct: 170 SAILRLLGRLRRQGVPLFGLEEIPRDLETAHSTHRSTKRLEAEYFVRIDPKLRRRLYEIY 229


>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family.  Emg1 and Nop14 are novel
           proteins whose interaction is required for the
           maturation of the 18S rRNA and for 40S ribosome
           production.
          Length = 809

 Score = 30.0 bits (68), Expect = 0.85
 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 7/53 (13%)

Query: 40  SSVSFVIVRHPFERLLSAYRDKIYNSLPNTIHRAL------SSAILRKYRPLA 86
              +F  +  PF  LL   R K+   LP  +   L       +  L + RPLA
Sbjct: 664 DLSAFPEIFEPFLALLKHLR-KLPKPLPEKLQSLLDKLSKLLALALLERRPLA 715


>gnl|CDD|215467 PLN02866, PLN02866, phospholipase D.
          Length = 1068

 Score = 29.3 bits (66), Expect = 1.5
 Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 19  LARRKYPRPSLHDLESAISAPSSVSFVIVRHPFERLLSAYRDKIYN 64
           L RRKYPR   HD+  A+  P      + RH  +R   A R+K  N
Sbjct: 510 LDRRKYPRMPWHDVHCALWGPPCRD--VARHFVQRWNYAKRNKAPN 553


>gnl|CDD|152683 pfam12248, Methyltransf_FA, Farnesoic acid 0-methyl transferase.
           This domain family is found in bacteria and eukaryotes,
           and is approximately 110 amino acids in length.Farnesoic
           acid O-methyl transferase (FAMeT) is the enzyme that
           catalyzes the formation of methyl farnesoate (MF) from
           farnesoic acid (FA) in the biosynthetic pathway of
           juvenile hormone (JH).
          Length = 103

 Score = 26.9 bits (60), Expect = 3.0
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 3/62 (4%)

Query: 76  SAILRKYR-PLAATKSTSRRATFEEFVLYLLDTFRSN--ETGLDMHWAPVVQFCTPCLIN 132
           SAI R+ R    A   T    +  E  ++ ++ F+    E G D    P ++F  P  I 
Sbjct: 29  SAIRRQKRNDDLAEVQTPGLLSPFEPRMFWIEIFQDGEIEVGKDGDDEPFLEFTDPSPIP 88

Query: 133 FN 134
            N
Sbjct: 89  VN 90


>gnl|CDD|241162 cd12718, RRM_BRAP2, RNA recognition motif in BRCA1-associated
           protein (BRAP2).  This subgroup corresponds to the RRM
           of BRAP2, also termed impedes mitogenic signal
           propagation (IMP), or ring finger protein 52, or renal
           carcinoma antigen NY-REN-63, a novel cytoplasmic protein
           interacting with the two functional nuclear localisation
           signal (NLS) motifs of BRCA1, a nuclear protein linked
           to breast cancer. It also binds to the SV40 large T
           antigen NLS motif and the bipartite NLS motif found in
           mitosin. BRAP2 may serve as a cytoplasmic retention
           protein and play a role in the regulation of nuclear
           protein transport. It contains an N-terminal RNA
           recognition motif (RRM), also termed RBD (RNA binding
           domain) or RNP (ribonucleoprotein domain), followed by a
           C3HC4-type ring finger domain and a UBP-type zinc
           finger. .
          Length = 84

 Score = 25.7 bits (57), Expect = 6.2
 Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 168 KGGSTNQ--MIGKFYSELSADQLYQLYN 193
           +  + NQ  ++ KF S+  AD+ Y+ YN
Sbjct: 36  RDSTPNQYMVLLKFRSQTDADEFYKTYN 63


>gnl|CDD|233947 TIGR02600, Verru_Chthon_A, Verru_Chthon cassette protein A.  In
            Verrucomicrobium spinosum and Chthoniobacter flavus, a
            four-gene operon that includes proteins with an
            N-terminal signal sequence for cleavage and methylation
            recurs many times. Each operon is likely to encode a
            membrane complex, the function of which is unknown. This
            model represents a long protein from this putative
            membrame complex, with members averaging about 1300 amino
            acids. The N-terminal region includes an apparent signal
            sequence. The function is unknown. Most cassettes are
            adjacent to an unusually large protein with both an outer
            membrane autotransporter region and PEP-CTERM putative
            protein-sorting motif [Cell envelope, Surface
            structures].
          Length = 1265

 Score = 27.1 bits (60), Expect = 6.9
 Identities = 20/73 (27%), Positives = 26/73 (35%), Gaps = 19/73 (26%)

Query: 115  LDMHWAPVVQ-------FCTPCLINFNV-ILKFETLQEDQRYLIELTGLSHLIKPEWI-- 164
            LD+ W PVV+       F T   IN N  IL F        ++   TGL  ++K      
Sbjct: 1019 LDLFWMPVVEPYAISEPFSTAGKINMNYQILPF-------THIKRATGLHAVLKSVLPTA 1071

Query: 165  --NEGKGGSTNQM 175
                G G      
Sbjct: 1072 IPLSGVGNYNFTT 1084


>gnl|CDD|168165 PRK05671, PRK05671, aspartate-semialdehyde dehydrogenase;
          Reviewed.
          Length = 336

 Score = 26.6 bits (59), Expect = 8.7
 Identities = 12/26 (46%), Positives = 15/26 (57%)

Query: 19 LARRKYPRPSLHDLESAISAPSSVSF 44
          L  R +P  +LH L S+ SA  SV F
Sbjct: 24 LEERDFPVGTLHLLASSESAGHSVPF 49


  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    0.397 

Gapped
Lambda     K      H
   0.267   0.0741    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,919,692
Number of extensions: 904613
Number of successful extensions: 764
Number of sequences better than 10.0: 1
Number of HSP's gapped: 761
Number of HSP's successfully gapped: 18
Length of query: 195
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 103
Effective length of database: 6,857,034
Effective search space: 706274502
Effective search space used: 706274502
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: 56 (25.3 bits)