RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6754
         (79 letters)



>gnl|CDD|220379 pfam09750, DRY_EERY, Alternative splicing regulator.  This entry
          represents the conserved N-terminal region of SWAP
          (suppressor-of-white-apricot protein) proteins. This
          region contains two highly conserved motifs, viz: DRY
          and EERY, which appear to be the sites for alternative
          splicing of exons 2 and 3 of the SWAP mRNA. These
          proteins are thus thought to be involved in
          auto-regulation of pre-mRNA splicing. Most family
          members are associated with two Surp domains pfam01805
          and an Arginine- serine-rich binding region towards the
          C-terminus.
          Length = 121

 Score = 59.4 bits (144), Expect = 3e-13
 Identities = 22/41 (53%), Positives = 29/41 (70%)

Query: 39 QFIQIHGRPCKIHLDPSVALAADSPSTMMSWQGDRDIMIDR 79
          QF+Q+ GR CKI  D  VA AA+S   ++ WQGD+D +IDR
Sbjct: 1  QFLQVFGRACKIFRDDGVAAAAESGQILVPWQGDQDNLIDR 41


>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau;
           Provisional.
          Length = 700

 Score = 28.3 bits (63), Expect = 0.36
 Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 2/26 (7%)

Query: 17  VDYKRRAERRRDYYEKIRADPTQFIQ 42
           VD + RAER+R   + I ADP  F+Q
Sbjct: 657 VDAEERAERQRAAEDAIAADP--FVQ 680


>gnl|CDD|224183 COG1263, PtsG, Phosphotransferase system IIC components,
           glucose/maltose/N-acetylglucosamine-specific
           [Carbohydrate transport and metabolism].
          Length = 393

 Score = 27.6 bits (62), Expect = 0.52
 Identities = 4/17 (23%), Positives = 14/17 (82%)

Query: 1   MWHEARKQEKKIRGLMV 17
           ++ +A+ +++K++GL +
Sbjct: 262 VYFKAKPEKRKVKGLAI 278


>gnl|CDD|112871 pfam04075, DUF385, Domain of unknown function (DUF385).  Family
          of Mycobacterium tuberculosis proteins.
          Length = 132

 Score = 26.7 bits (59), Expect = 1.0
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 13 RGLMVDYKRRAERRRDYYEKIRADPTQFIQIHGR 46
          R  +V  K  A R  D+Y  ++A+P   +QI GR
Sbjct: 53 RYWVVASKGGAPRHPDWYRNLKANPRVRVQIGGR 86


>gnl|CDD|218778 pfam05852, DUF848, Gammaherpesvirus protein of unknown function
          (DUF848).  This family consists of several
          uncharacterized proteins from the Gammaherpesvirinae.
          Length = 146

 Score = 25.7 bits (57), Expect = 2.2
 Identities = 3/25 (12%), Positives = 14/25 (56%)

Query: 3  HEARKQEKKIRGLMVDYKRRAERRR 27
          H++ +QE++++  +   +     ++
Sbjct: 50 HQSLRQERELKNKVSSLETEIREKK 74


>gnl|CDD|184495 PRK14084, PRK14084, two-component response regulator; Provisional.
          Length = 246

 Score = 25.5 bits (56), Expect = 3.4
 Identities = 10/17 (58%), Positives = 13/17 (76%), Gaps = 1/17 (5%)

Query: 28  DYYEKIRADPTQFIQIH 44
           + YEK R +PT FI+IH
Sbjct: 183 NRYEK-RLNPTYFIRIH 198


>gnl|CDD|216470 pfam01385, OrfB_IS605, Probable transposase.  This family includes
           IS891, IS1136 and IS1341. DUF1225, pfam06774, has now
           been merged into this family.
          Length = 226

 Score = 24.2 bits (53), Expect = 7.8
 Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 3/31 (9%)

Query: 3   HEARKQEKKIRGLMVDYKRRAERRRDYYEKI 33
              RK  +K+  L   +++R+ RR+D+  K+
Sbjct: 174 SNRRKTSRKLARL---HRKRSNRRKDFLHKL 201


>gnl|CDD|202916 pfam04174, CP_ATPgrasp_1, A circularly permuted ATPgrasp.  An
           ATP-grasp family that is present both as catalytically
           active and inactive versions. Contextual analysis
           suggests that it functions in a distinct peptide
           synthesis/modification system that additionally contains
           a transglutaminase, an NTN-hydrolase, the Alpha-E
           domain, and a transglutaminase fused N-terminal to a
           circularly permuted COOH-NH2 ligase. The inactive forms
           are often fused N-terminal to the Alpha-E domain.
          Length = 331

 Score = 24.1 bits (53), Expect = 9.1
 Identities = 5/20 (25%), Positives = 9/20 (45%)

Query: 22  RAERRRDYYEKIRADPTQFI 41
                 + + +I ADP  +I
Sbjct: 310 SKAELEEVWARILADPRNYI 329


  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
   0.324    0.136    0.426 

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: 4,231,983
Number of extensions: 331676
Number of successful extensions: 579
Number of sequences better than 10.0: 1
Number of HSP's gapped: 579
Number of HSP's successfully gapped: 24
Length of query: 79
Length of database: 10,937,602
Length adjustment: 48
Effective length of query: 31
Effective length of database: 8,808,610
Effective search space: 273066910
Effective search space used: 273066910
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 (24.2 bits)