RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9122
         (169 letters)



>gnl|CDD|220552 pfam10074, DUF2285, Uncharacterized conserved protein (DUF2285). 
          This domain, found in various hypothetical bacterial
          proteins, has no known function.
          Length = 106

 Score = 32.2 bits (74), Expect = 0.032
 Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 8/38 (21%)

Query: 64 RTLD-ELTGASYREI-------RAIAQERLKTHHFKNR 93
          R LD  L GASYR+I         +A +  K    ++R
Sbjct: 48 RALDARLAGASYRDIAEVLFGADRVAADEWKDSALRDR 85


>gnl|CDD|236323 PRK08651, PRK08651, succinyl-diaminopimelate desuccinylase;
           Reviewed.
          Length = 394

 Score = 29.2 bits (66), Expect = 1.0
 Identities = 11/35 (31%), Positives = 12/35 (34%)

Query: 25  EEVLQFCTHFDFPPSSPDLSSYDSFSWKYVKNKVY 59
              L F  H+D  P     S    F  K    KVY
Sbjct: 74  NPHLHFNGHYDVVPPGEGWSVNVPFEPKVKDGKVY 108


>gnl|CDD|240361 PTZ00326, PTZ00326, phenylalanyl-tRNA synthetase alpha chain;
           Provisional.
          Length = 494

 Score = 28.8 bits (65), Expect = 1.6
 Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 14/53 (26%)

Query: 46  YDSFSWKYV-------KNKVYIYKTRTLDELTGASYREIRAIAQERLKTHHFK 91
           Y S  W+Y        KN   I +T T    T  S R +  +AQE  KT  FK
Sbjct: 311 YGSIGWRYDWKLEEARKN---ILRTHT----TAVSARMLYKLAQEYKKTGPFK 356


>gnl|CDD|177548 PHA03166, PHA03166, hypothetical protein; Provisional.
          Length = 580

 Score = 27.9 bits (62), Expect = 3.2
 Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 3/40 (7%)

Query: 74  YREIRA-IAQERLKTHHFKNRQVTLEP--DFPYVEALAPF 110
           YR +     +E L  H F  R+V  +P  +    E L  +
Sbjct: 430 YRALSERQKREELLLHTFFLRRVYDDPSLETFRGERLVWY 469


>gnl|CDD|211382 cd11010, S1-P1_nuclease, S1/P1 nucleases and related enzymes.  This
           family summarizes both S1 and P1 nucleases (EC:3.1.30.1)
           which cleave RNA and single stranded DNA with no base
           specificity. S1 nuclease is more active on DNA than RNA.
           Its reaction products are oligonucleotides or single
           nucleotides with 5' phosphoryl groups. Although its
           primary substrate is single-stranded, it may also
           introduce single-stranded breaks in double-stranded DNA
           or RNA, or DNA-RNA hybrids. It is used as a reagent in
           nuclease protection assays and in removing single
           stranded tails from DNA molecules to create blunt ended
           molecules and opening hairpin loops generated during
           synthesis of double stranded cDNA. P1 nuclease cleaves
           its substrate at every position yielding nucleoside 5'
           monophosphates, and it does not recognize or act on
           double-stranded DNA. It is useful at removing single
           stranded strands hanging off the end of double stranded
           DNA and at completely cleaving melted DNA for simple DNA
           composition analysis.
          Length = 249

 Score = 27.0 bits (60), Expect = 4.6
 Identities = 8/36 (22%), Positives = 16/36 (44%)

Query: 50  SWKYVKNKVYIYKTRTLDELTGASYREIRAIAQERL 85
           S++      Y        EL+ A Y + + + +E+L
Sbjct: 199 SYELACEIYYPNLPGDTLELSYAYYYKAKPVVEEQL 234


>gnl|CDD|178487 PLN02899, PLN02899, alpha-galactosidase.
          Length = 633

 Score = 27.1 bits (60), Expect = 6.3
 Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 2/20 (10%)

Query: 32 THFDFPPSSPDLSSYDSFSW 51
              FPP     +SYDSFSW
Sbjct: 26 QLASFPPRG--WNSYDSFSW 43


>gnl|CDD|220451 pfam09873, DUF2100, Uncharacterized protein conserved in archaea
           (DUF2100).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 215

 Score = 26.3 bits (58), Expect = 7.9
 Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 10/59 (16%)

Query: 97  LEPDFPYVEALAPFQPLAMKSIHCPIDTSLNF----------NQANKLIRELKPSTLVV 145
           + PD   V    P +   M+ I+  I                NQ  ++IR++ PS +VV
Sbjct: 126 IVPDLNIVSTEGPLEIEDMRIINPKIPEKALEGIEKKCEIARNQIERVIRKINPSKIVV 184


  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
   0.319    0.133    0.400 

Gapped
Lambda     K      H
   0.267   0.0765    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,607,304
Number of extensions: 765200
Number of successful extensions: 710
Number of sequences better than 10.0: 1
Number of HSP's gapped: 710
Number of HSP's successfully gapped: 14
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
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 (21.7 bits)
S2: 55 (24.9 bits)