RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17649
         (457 letters)



>gnl|CDD|216101 pfam00755, Carn_acyltransf, Choline/Carnitine o-acyltransferase. 
          Length = 590

 Score =  333 bits (856), Expect = e-109
 Identities = 158/432 (36%), Positives = 234/432 (54%), Gaps = 31/432 (7%)

Query: 45  LPSLPVPPLDVTLEKYIQSVKPFATQEELTNVQNLAKEF-KNGIGQELHKSLLKKASEEK 103
           LP LPVP L+ TL++Y+ SVKP  ++EE    + L K+F   G G++L + LL++A +  
Sbjct: 2   LPKLPVPALEDTLDRYLDSVKPLLSEEEFERTEALVKDFSAGGEGEKLQEYLLERAKKTD 61

Query: 104 NWLSGWWEKYAYLMSRDSLIPFYNMFGPNPTEELGLEY-GPGKGVEHASLFCHELIKFWF 162
           NWLS WW  YAY ++    +P  +  G +  +    +       +  A+   H ++ F  
Sbjct: 62  NWLSEWWLDYAY-LAGRVPLPVNSSPGVDFPKHYFPDTNDQ---LRRAARLIHGILLFKR 117

Query: 163 LLRKEKLKPQLGTGDKPFCMHTFKKFFNTARIPGEEIDSIVNYFKTEAEGSCPSHVIVQC 222
           LL +E+LKP+   G+ P CM+ + + FNT RIPG+  DS+ NYFK++       HV+V C
Sbjct: 118 LLDREELKPETALGNTPLCMNQYYRLFNTCRIPGKPRDSLQNYFKSKNS-----HVVVVC 172

Query: 223 NGHIYKMNALHKDSTPLTVGEWKHQFNSILQASSKS--KGSGIAALSCEPRSKWAENRSY 280
            G  YK++ L  +   LT  E + Q   IL  SSKS    + I AL+ EPR +WA+ R  
Sbjct: 173 RGQFYKVDVLDSNGKLLTPDEIERQLAEILSDSSKSQPVEAPIGALTSEPRDEWAKARQK 232

Query: 281 ILQKSAKNKQLIEDIDSAMFSVSLDNTSPTNDSEI----CQ------QLISNDYANRYAD 330
            L K  KNK+ +E I+SA+F V LD+ SP    E      Q           D  NR+ D
Sbjct: 233 -LFKDNKNKESLEKIESALFVVCLDDDSPPVGDEEKLTTSQLSGLHGGGSHGDGTNRWFD 291

Query: 331 KSVAVVFFKNGASGGICEHTPFDGMVNVTACFYVLLSLAENLATISEDKTVR---GGLEA 387
           KS+ ++ FKNG++G   EH+P DG+  V  C +V     + L +  E   V      L  
Sbjct: 292 KSLQLIVFKNGSTGLNAEHSPADGIPVVHLCEFVYKVDEQILKSTPEGLPVGSPSVSLPL 351

Query: 388 PVPLEFDTDDQITKELSRAKAEQK--ISRYEISAIRKAFTGFGKAEITELKLHPDSFVQM 445
           P  LEF+   +I  ++ +AK +    IS  ++  +   FT FGK  I + KL PD+F+Q+
Sbjct: 352 PEKLEFEITPEIQSDIEKAKEKFDKLISDLDLVVL--QFTNFGKGFIKKCKLSPDAFIQL 409

Query: 446 ALQLAYYTIHNK 457
           ALQLAYY ++ K
Sbjct: 410 ALQLAYYRLYGK 421


>gnl|CDD|183592 PRK12556, PRK12556, tryptophanyl-tRNA synthetase; Provisional.
          Length = 332

 Score = 38.2 bits (89), Expect = 0.007
 Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 7/78 (8%)

Query: 47  SLPVPPLDVTLEKYIQSVKPFATQEELTNVQNLAKEFKNGIG-QELHKSLLKKASEEKNW 105
           SLP  P D          K FAT+EE   VQ++ ++++ GIG  ++ K L +        
Sbjct: 232 SLPNEPKDPETSALFTIYKEFATEEE---VQSMREKYETGIGWGDVKKELFRVVD---RE 285

Query: 106 LSGWWEKYAYLMSRDSLI 123
           L+G  EKYA  M+  SL+
Sbjct: 286 LAGPREKYAMYMNEPSLL 303


>gnl|CDD|173940 cd08181, PPD-like, 1,3-propanediol dehydrogenase-like (PPD).
           1,3-propanediol dehydrogenase-like (PPD). This family is
           a member of the iron-containing alcohol dehydrogenase
           superfamily, and exhibits a dehydroquinate synthase-like
           fold.  Protein sequence similarity search and other
           biochemical evidences suggest that they are close to the
           iron-containing 1,3-propanediol dehydrogenase (EC
           1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the
           oxidation of propane-1,3-diol to 3-hydroxypropanal with
           the simultaneous reduction of NADP+ to NADPH. The
           protein structure of Thermotoga maritima TM0920 gene
           contains one NADP+ and one iron ion.
          Length = 357

 Score = 34.2 bits (79), Expect = 0.14
 Identities = 18/57 (31%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 5   KLLIQSSIREFQKRGYKGLLGKYLVLSDDDKAKTFENDEKLPSLPVPPLDVTLEKYI 61
           KLL   S+ EF K     LL   + LSD++  K  E           P +VT E   
Sbjct: 298 KLLGFGSLDEFLKS-LGLLLKVVIKLSDEEIEKWAERALSAKHKANTPGEVTEEDIR 353


>gnl|CDD|221438 pfam12141, DUF3589, Protein of unknown function (DUF3589).  This
           family of proteins is found in eukaryotes. Proteins in
           this family are typically between 541 and 717 amino
           acids in length. The function of this family is not
           known,.
          Length = 488

 Score = 30.0 bits (68), Expect = 2.9
 Identities = 16/44 (36%), Positives = 18/44 (40%), Gaps = 3/44 (6%)

Query: 65  KPFATQEELTNVQNLAKEFKNGIG---QELHKSLLKKASEEKNW 105
            PF  Q    NV  L  EF N +     EL     K+   EKNW
Sbjct: 213 WPFQDQLGKQNVDGLPDEFDNHVYNKVVELKIRNEKRRKTEKNW 256


>gnl|CDD|226799 COG4353, COG4353, Uncharacterized conserved protein [Function
           unknown].
          Length = 192

 Score = 29.0 bits (65), Expect = 3.3
 Identities = 9/50 (18%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 61  IQSVKPFATQEELTNVQNLAKEFKNGIGQELHK--SLLKKASEEKNWLSG 108
           +Q+ KP  ++E +  ++ + +E +N I ++  +   L +K+ +   +   
Sbjct: 142 LQAEKPINSEEGIRQLETIREEIENFIIRKEDEGIDLYRKSRDRTVYWEI 191


>gnl|CDD|233038 TIGR00593, pola, DNA polymerase I.  All proteins in this family for
           which functions are known are DNA polymerases Many also
           have an exonuclease motif. This family is based on the
           phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
           Stanford University) [DNA metabolism, DNA replication,
           recombination, and repair].
          Length = 887

 Score = 30.0 bits (68), Expect = 3.7
 Identities = 17/82 (20%), Positives = 26/82 (31%), Gaps = 10/82 (12%)

Query: 368 LAENLATISEDKTVRGGLEAPVPLEFDTDDQITKELSRAKAEQKISRYEISAIRKAFTGF 427
           L++ LATI  D          VPLE D +D    E  R +    +   E  ++       
Sbjct: 236 LSKELATIVTD----------VPLEVDLEDLRLSEPDRERLYALLQELEFKSLLDRLENL 285

Query: 428 GKAEITELKLHPDSFVQMALQL 449
               I +           A + 
Sbjct: 286 ESPVIDDHAPVLTEKTSCAKES 307


>gnl|CDD|129130 TIGR00019, prfA, peptide chain release factor 1.  This model
           describes peptide chain release factor 1 (PrfA, RF-1),
           and excludes the related peptide chain release factor 2
           (PrfB, RF-2). RF-1 helps recognize and terminate
           translation at UAA and UAG stop codons. The
           mitochondrial release factors are prfA-like, although
           not included above the trusted cutoff for this model.
           RF-1 does not have a translational frameshift [Protein
           synthesis, Translation factors].
          Length = 360

 Score = 28.9 bits (65), Expect = 5.6
 Identities = 26/138 (18%), Positives = 50/138 (36%), Gaps = 23/138 (16%)

Query: 22  GLLGKYLVLSDDDKAKTFENDEKLPSLPVPPLDVTLEKYIQSVKPFATQEELTNVQNLAK 81
            LL    V+SD DK +    +          +     +Y Q+ +     +E+  ++    
Sbjct: 21  ALLSDPEVISDQDKLRKLSKEYSQLE----EIVDCYREYQQAQEDIKEAKEI--LEESDP 74

Query: 82  EFKNGIGQELHKSLLKKASEEKNWLSGWWEKYAYLMSRDSLIPFYNMFGPNPTEELGLEY 141
           E +    +EL +   K    E+               +  L+P      PN  + + LE 
Sbjct: 75  EMREMAKEELEELEEKIEELEEQL-------------KVLLLPK----DPNDEKNVILEI 117

Query: 142 GPGKGVEHASLFCHELIK 159
             G G + A++F  +L +
Sbjct: 118 RAGTGGDEAAIFAGDLFR 135


>gnl|CDD|219991 pfam08728, CRT10, CRT10.  CRT10 is a transcriptional regulator of
           ribonucleotide reductase (RNR) genes. RNR catalyzes the
           rate limiting step in dNTP synthesis. Mutations in CRT10
           have been shown to enhance hydroxyurea resistance.
          Length = 562

 Score = 29.0 bits (65), Expect = 5.7
 Identities = 14/106 (13%), Positives = 29/106 (27%), Gaps = 10/106 (9%)

Query: 49  PVPPLDVTLEKYIQSVKPFATQEELTNVQNLAKEFKNGIGQELHKSLLKKASEEKNWLSG 108
           PV  L V            +   + +++    +  ++ I + +HK + K     +  L  
Sbjct: 353 PVSNLKVRQTSQSWQETSDSESTKPSDIDEDYQARESDIPRRIHKHVKKV---HRLLLEV 409

Query: 109 WWEKYAYLMSRDSLIPFYNMFGPNPTEELGLEYGPGKGVEHASLFC 154
             E     +                 ++L L            L C
Sbjct: 410 EPESRFSPLGPKFTEGSDEFLLVTTAKKLYL-------FRADPLIC 448


>gnl|CDD|184110 PRK13523, PRK13523, NADPH dehydrogenase NamA; Provisional.
          Length = 337

 Score = 28.9 bits (65), Expect = 6.0
 Identities = 11/46 (23%), Positives = 24/46 (52%)

Query: 387 APVPLEFDTDDQITKELSRAKAEQKISRYEISAIRKAFTGFGKAEI 432
           AP  + FD   +   E+++ + ++ +  ++ +A+R    GF   EI
Sbjct: 116 APSAIPFDEKSKTPVEMTKEQIKETVLAFKQAAVRAKEAGFDVIEI 161


>gnl|CDD|224972 COG2061, COG2061, ACT-domain-containing protein, predicted
           allosteric regulator of homoserine dehydrogenase [Amino
           acid transport and metabolism].
          Length = 170

 Score = 28.2 bits (63), Expect = 6.1
 Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 1/53 (1%)

Query: 371 NLATISEDKTVRGGLEAPVPLEFDTDDQ-ITKELSRAKAEQKISRYEISAIRK 422
           N+ TI   +  + G   PV + F+ D +    ++ R   E+ I        R 
Sbjct: 32  NIITIIHSRDKKYGPRVPVQIVFEGDREDKDAKIIRLLEEEGIIIIRFDGARL 84


>gnl|CDD|218713 pfam05712, MRG, MRG.  This family consists of three different
          eukaryotic proteins (mortality factor 4 (MORF4/MRG15),
          male-specific lethal 3(MSL-3) and ESA1-associated
          factor 3(EAF3)). It is thought that the MRG family is
          involved in transcriptional regulation via histone
          acetylation. It contains 2 chromo domains and a leucine
          zipper motif.
          Length = 191

 Score = 28.1 bits (63), Expect = 8.7
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 11/68 (16%)

Query: 24 LGKYLVLSDDDKAKTFEN---DEKLPSLP-VPPLDVTLEKYIQSVKPFATQEELTNVQNL 79
          L K LV   DD    +E    D+KL +LP   P+   LE Y++           +    L
Sbjct: 36 LKKLLV---DD----WEYITKDKKLVALPARVPVVTILEDYVKERAIKQDSSTSSARMEL 88

Query: 80 AKEFKNGI 87
           +E  +G+
Sbjct: 89 LEEVVDGL 96


  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
   0.316    0.133    0.392 

Gapped
Lambda     K      H
   0.267   0.0756    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,887,447
Number of extensions: 2186128
Number of successful extensions: 1776
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1767
Number of HSP's successfully gapped: 24
Length of query: 457
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 357
Effective length of database: 6,502,202
Effective search space: 2321286114
Effective search space used: 2321286114
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.2 bits)