RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4704
         (123 letters)



>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein. 
          Length = 529

 Score = 69.4 bits (170), Expect = 5e-15
 Identities = 28/61 (45%), Positives = 42/61 (68%)

Query: 63  LSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEVATGDDVKAGDIPVAEGEAEDASRMEEV 122
           L+SGF+LE+P+  A+RI+RMIKLGL I++++EV   D+    +      E  + S+MEEV
Sbjct: 469 LTSGFSLEDPKAFASRIYRMIKLGLSIDEDEEVEEEDEEAEVETTEPAEEDAEDSKMEEV 528

Query: 123 D 123
           D
Sbjct: 529 D 529


>gnl|CDD|240341 PTZ00272, PTZ00272, heat shock protein 83 kDa (Hsp83); Provisional.
          Length = 701

 Score = 52.0 bits (124), Expect = 7e-09
 Identities = 28/65 (43%), Positives = 38/65 (58%), Gaps = 9/65 (13%)

Query: 62  VLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEVATGDDVKAGDIPVAEGEAE---DASR 118
           +L+SGF LE+P  +A RI+RMIKLGL +++E+E A      A         AE     S 
Sbjct: 643 LLTSGFQLEDPTGYAERINRMIKLGLSLDEEEEEA------AEAPVAETAPAEVTAGTSS 696

Query: 119 MEEVD 123
           ME+VD
Sbjct: 697 MEQVD 701


>gnl|CDD|162083 TIGR00878, purM, phosphoribosylaminoimidazole synthetase.
           Alternate name: phosphoribosylformylglycinamidine
           cyclo-ligase; AIRS; AIR synthase This enzyme is found as
           a homodimeric monofunctional protein in prokaryotes and
           as part of a larger, multifunctional protein, sometimes
           with two copies of this enzyme in tandem, in eukaryotes
           [Purines, pyrimidines, nucleosides, and nucleotides,
           Purine ribonucleotide biosynthesis].
          Length = 332

 Score = 30.4 bits (69), Expect = 0.21
 Identities = 14/49 (28%), Positives = 26/49 (53%)

Query: 61  IVLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEVATGDDVKAGDIPVA 109
             L  G T E P ++    + +    +G+ ++DE+ TG+ VK GD+ + 
Sbjct: 129 CALVGGETAEMPGMYRGGHYDLAGTAVGVVEKDEIITGEKVKPGDVLIG 177


>gnl|CDD|235439 PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase;
           Provisional.
          Length = 327

 Score = 27.4 bits (62), Expect = 1.8
 Identities = 7/20 (35%), Positives = 14/20 (70%)

Query: 87  LGIEDEDEVATGDDVKAGDI 106
           +G+ ++D++  G  VK GD+
Sbjct: 155 VGVVEKDKIIDGSKVKEGDV 174


>gnl|CDD|144261 pfam00603, Flu_PA, Influenza RNA-dependent RNA polymerase subunit
           PA. 
          Length = 669

 Score = 27.5 bits (61), Expect = 2.1
 Identities = 11/40 (27%), Positives = 17/40 (42%)

Query: 30  RSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTL 69
            SH + +T++  L         P +  WP+Y V   G T 
Sbjct: 468 PSHLRRDTDVVTLVTFEFSGTDPRLEKWPKYTVFEIGHTT 507


>gnl|CDD|237756 PRK14559, PRK14559, putative protein serine/threonine phosphatase;
           Provisional.
          Length = 645

 Score = 27.3 bits (61), Expect = 2.3
 Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 3/38 (7%)

Query: 1   MSTSLQRSVLSLLEDTGVSLSTEGEDRLYRSHGQTNTE 38
           M T+L   V++L++DT V+++  G+ RLYR   +   E
Sbjct: 484 MGTTL---VMALVQDTQVAVAHVGDSRLYRVTRKGGLE 518


>gnl|CDD|173753 cd07864, STKc_CDK12, Catalytic domain of the Serine/Threonine
           Kinase, Cyclin-Dependent protein Kinase 12.
           Serine/Threonine Kinases (STKs), Cyclin-Dependent
           protein Kinase 12 (CDK12) subfamily, catalytic (c)
           domain. STKs catalyze the transfer of the
           gamma-phosphoryl group from ATP to serine/threonine
           residues on protein substrates. The CDK12 subfamily is
           part of a larger superfamily that includes the catalytic
           domains of other protein STKs, protein tyrosine kinases,
           RIO kinases, aminoglycoside phosphotransferase, choline
           kinase, and phosphoinositide 3-kinase. CDKs belong to a
           large family of STKs that are regulated by their cognate
           cyclins. Together, they are involved in the control of
           cell-cycle progression, transcription, and neuronal
           function. CDK12 is also called Cdc2-related protein
           kinase 7 (CRK7) or Cdc2-related kinase
           arginine/serine-rich (CrkRS). It is a unique CDK that
           contains an arginine/serine-rich (RS) domain, which is
           predominantly found in splicing factors. CDK12 is widely
           expressed in tissues. It interacts with cyclins L1 and
           L2, and plays roles in regulating transcription and
           alternative splicing.
          Length = 302

 Score = 26.7 bits (59), Expect = 3.3
 Identities = 13/46 (28%), Positives = 23/46 (50%)

Query: 34  QTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARI 79
           Q N E+ QL+  S +   P   +WP+ I L    T++  + +  R+
Sbjct: 219 QANQELAQLELISRLCGSPCPAVWPDVIKLPYFNTMKPKKQYRRRL 264


>gnl|CDD|238807 cd01573, modD_like, ModD; Quinolinate phosphoribosyl transferase
           (QAPRTase or QPRTase) present in some modABC operons in
           bacteria, which are involved in molybdate transport. In
           general, QPRTases are part of the de novo synthesis
           pathway of NAD in both prokaryotes and eukaryotes. They
           catalyse the reaction of quinolinic acid (QA) with
           5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
           of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
           pyrophosphate and carbon dioxide.
          Length = 272

 Score = 26.5 bits (59), Expect = 4.2
 Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)

Query: 81  RMIKLGLGIEDEDEVATGDDVKAGD-IPVAEGEAED 115
           R+++L LG+E +   A+G  V AG  +  AEG A  
Sbjct: 49  RILEL-LGLEVDLAAASGSRVAAGAVLLEAEGPAAA 83


>gnl|CDD|172837 PRK14361, PRK14361, Maf-like protein; Provisional.
          Length = 187

 Score = 26.0 bits (57), Expect = 5.5
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 5/66 (7%)

Query: 12 LLEDTGVS----LSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPD-VVMWPEYIVLSSG 66
          LLE+ GV     +S E ED       +   E+  LK  ++ +  PD VV+  + +V   G
Sbjct: 13 LLENLGVPFQVVVSGEAEDSTETDPARLAAELALLKARAVARLHPDAVVIAADTVVALGG 72

Query: 67 FTLEEP 72
            L +P
Sbjct: 73 VLLAKP 78


>gnl|CDD|239188 cd02787, MopB_CT_ydeP, The MopB_CT_ydeP CD includes a group of
          related uncharacterized bacterial molybdopterin-binding
          oxidoreductase-like domains with a putative
          molybdopterin cofactor binding site. This CD is of the
          conserved molybdopterin_binding C-terminal (MopB_CT)
          region present in many, but not all, MopB homologs.
          Length = 112

 Score = 25.3 bits (56), Expect = 5.6
 Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 2/32 (6%)

Query: 30 RSHGQTNTEIYQLK--YTSIMKRMPDVVMWPE 59
          RSH Q NT IY L   Y  +  R   V M P+
Sbjct: 7  RSHDQFNTTIYGLDDRYRGVFGRRDVVFMNPD 38


>gnl|CDD|225428 COG2873, MET17, O-acetylhomoserine sulfhydrylase [Amino acid
           transport and metabolism].
          Length = 426

 Score = 26.1 bits (58), Expect = 5.8
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 70  EEPQVHAARIHRMIKLGLGIEDEDEV 95
           EE Q  A     +I+L +GIED D++
Sbjct: 390 EEEQAAAGVTPDLIRLSVGIEDIDDI 415


>gnl|CDD|223228 COG0150, PurM, Phosphoribosylaminoimidazole (AIR) synthetase
           [Nucleotide transport and metabolism].
          Length = 345

 Score = 26.0 bits (58), Expect = 6.1
 Identities = 8/23 (34%), Positives = 15/23 (65%)

Query: 87  LGIEDEDEVATGDDVKAGDIPVA 109
           +G+ ++DE+  G  VK GD+ + 
Sbjct: 158 VGVVEKDEIIDGSKVKEGDVIIG 180


>gnl|CDD|239989 cd04617, CBS_pair_4, The CBS domain, named after human CBS, is a
          small domain originally identified in cystathionine
          beta-synthase and is subsequently found in a wide range
          of different proteins. CBS domains usually occur in
          tandem repeats. They associate to form a so-called
          Bateman domain or a CBS pair based on crystallographic
          studies in bacteria.  The CBS pair was used as a basis
          for this cd hierarchy since the human CBS proteins can
          adopt the typical core structure and form an
          intramolecular CBS pair.  The interface between the two
          CBS domains forms a cleft that is a potential ligand
          binding site. The CBS pair coexists with a variety of
          other functional domains and this has been used to help
          in its classification here.  It has been proposed that
          the CBS domain may play a regulatory role, although its
          exact function is unknown. Mutations of conserved
          residues within this domain are associated with a
          variety of human hereditary diseases, including
          congenital myotonia, idiopathic generalized epilepsy,
          hypercalciuric nephrolithiasis, and classic Bartter
          syndrome (CLC chloride channel family members),
          Wolff-Parkinson-White syndrome (gamma 2 subunit of
          AMP-activated protein kinase), retinitis pigmentosa
          (IMP dehydrogenase-1), and homocystinuria
          (cystathionine beta-synthase).
          Length = 118

 Score = 25.3 bits (56), Expect = 7.5
 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 1/40 (2%)

Query: 36 NTEIYQLKYTSIMKRMPDVVM-WPEYIVLSSGFTLEEPQV 74
            ++ ++    IM RMP++    PE  VL +   L E QV
Sbjct: 52 GADLQKVPVGVIMTRMPNITTTTPEESVLEAAKKLIEHQV 91


  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
   0.312    0.130    0.357 

Gapped
Lambda     K      H
   0.267   0.0731    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,224,874
Number of extensions: 556543
Number of successful extensions: 362
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 24
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.2 bits)