RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12371
         (72 letters)



>gnl|CDD|238001 cd00041, CUB, CUB domain; extracellular domain; present in
          proteins mostly known to be involved in development;
          not found in prokaryotes, plants and yeast.
          Length = 113

 Score = 49.3 bits (118), Expect = 2e-09
 Identities = 20/48 (41%), Positives = 25/48 (52%)

Query: 20 STNHTRPQGRFFSPRYPSNYPADIKCAYTFRARAQERIRVVLEDFKLE 67
           T      G   SP YP+NYP ++ C +T  A    RIR+  EDF LE
Sbjct: 3  GTLTASTSGTISSPNYPNNYPNNLNCVWTIEAPPGYRIRLTFEDFDLE 50


>gnl|CDD|214483 smart00042, CUB, Domain first found in C1r, C1s, uEGF, and bone
          morphogenetic protein.  This domain is found mostly
          among developmentally-regulated proteins. Spermadhesins
          contain only this domain.
          Length = 102

 Score = 45.1 bits (107), Expect = 7e-08
 Identities = 18/43 (41%), Positives = 23/43 (53%)

Query: 28 GRFFSPRYPSNYPADIKCAYTFRARAQERIRVVLEDFKLEKGD 70
          G   SP YP +YP ++ C +T RA    RI +   DF LE  D
Sbjct: 1  GTITSPNYPQSYPNNLDCVWTIRAPPGYRIELQFTDFDLESSD 43


>gnl|CDD|215916 pfam00431, CUB, CUB domain. 
          Length = 110

 Score = 43.1 bits (102), Expect = 4e-07
 Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 14 CDYQFVSTNHTRPQGRFFSPRYPSNYPADIKCAYTFRARAQERIRVVLEDFKLEKGD 70
          C         T   G   SP YP++YP +  C +T RA    RI +  +DF LE  D
Sbjct: 1  CGGVL-----TESSGSITSPNYPNSYPPNKDCVWTIRAPPGYRISLTFQDFDLEDHD 52


>gnl|CDD|238948 cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine
           nucleotide alpha hydrolases superfamily. Adenine
           nucleotide alpha hydrolases superfamily  includes N type
           ATP PPases and ATP sulphurylases. It forms a
           apha/beta/apha fold which  binds to Adenosine group.
           This subfamily   of proteins probably binds ATP. This
           domain is about 200 amino acids long with a strongly
           conserved motif SGGKD at the N terminus.
          Length = 202

 Score = 28.0 bits (63), Expect = 0.27
 Identities = 6/23 (26%), Positives = 12/23 (52%)

Query: 50  RARAQERIRVVLEDFKLEKGDVR 72
           +A  +  +R  L +  L K ++R
Sbjct: 116 KALRELGVRSPLAEAGLGKAEIR 138


>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
          Length = 871

 Score = 26.4 bits (59), Expect = 1.2
 Identities = 11/17 (64%), Positives = 12/17 (70%), Gaps = 2/17 (11%)

Query: 56  RIRVVL--EDFKLEKGD 70
           R RV+L  ED  LEKGD
Sbjct: 781 RARVILNPEDADLEKGD 797


>gnl|CDD|129606 TIGR00515, accD, acetyl-CoA carboxylase, carboxyl transferase,
          beta subunit.  The enzyme acetyl-CoA carboxylase
          contains a biotin carboxyl carrier protein or domain, a
          biotin carboxylase, and a carboxyl transferase. This
          model represents the beta chain of the carboxyl
          transferase for cases in which the architecture of the
          protein is as in E. coli, in which the
          carboxyltransferase portion consists of two
          non-identical subnits, alpha and beta [Fatty acid and
          phospholipid metabolism, Biosynthesis].
          Length = 285

 Score = 25.9 bits (57), Expect = 1.6
 Identities = 10/31 (32%), Positives = 15/31 (48%)

Query: 37 SNYPADIKCAYTFRARAQERIRVVLEDFKLE 67
           N     KC +  R  A+ERI  +L++   E
Sbjct: 43 RNLEVCPKCDHHMRMDARERIESLLDEGSFE 73


>gnl|CDD|188997 cd06459, M3B_PepF, Peptidase family M3B Oligopeptidase F (PepF).
           Peptidase family M3B Oligopeptidase F (PepF;
           Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
           includes oligoendopeptidase F from Lactococcus lactis.
           This enzyme hydrolyzes peptides containing between 7 and
           17 amino acids with fairly broad specificity. The PepF
           gene is duplicated in L. lactis on the plasmid that
           bears it, while a shortened second copy is found in
           Bacillus subtilis. Most bacterial PepFs are cytoplasmic
           endopeptidases; however, the PepF Bacillus
           amyloliquefaciens oligopeptidase is a secreted protein
           and may facilitate the process of sporulation.
           Specifically, the yjbG gene encoding the homolog of the
           PepF1 and PepF2 oligoendopeptidases of Lactococcus
           lactis has been identified in Bacillus subtilis as an
           inhibitor of sporulation initiation when over expressed
           from a multicopy plasmid.
          Length = 450

 Score = 25.1 bits (55), Expect = 3.4
 Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 1/40 (2%)

Query: 27  QGRFF-SPRYPSNYPADIKCAYTFRARAQERIRVVLEDFK 65
           Q  F+  P Y  +Y     CA+ F  RA E     L D+ 
Sbjct: 375 QPHFYTDPFYVYDYTFGQVCAFQFYKRALEEGASALRDYV 414


>gnl|CDD|223848 COG0777, AccD, Acetyl-CoA carboxylase beta subunit [Lipid
          metabolism].
          Length = 294

 Score = 25.0 bits (55), Expect = 4.0
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 44 KCAYTFRARAQERIRVVLED 63
          KC +  R  A+ER+  +L++
Sbjct: 52 KCGHHMRISARERLEALLDE 71


>gnl|CDD|236658 PRK10153, PRK10153, DNA-binding transcriptional activator CadC;
           Provisional.
          Length = 517

 Score = 24.6 bits (54), Expect = 4.8
 Identities = 11/37 (29%), Positives = 15/37 (40%)

Query: 2   FHTDGHKLSGTTCDYQFVSTNHTRPQGRFFSPRYPSN 38
           ++ +    SG T    FV+  H R Q  F S     N
Sbjct: 248 YNINEPSSSGKTLGIAFVNQRHYRAQQCFLSVELVDN 284


>gnl|CDD|233870 TIGR02442, Cob-chelat-sub, cobaltochelatase subunit.
           Cobaltochelatase is responsible for the insertion of
           cobalt into the corrin ring of coenzyme B12 during its
           biosynthesis. Two versions have been well described.
           CbiK/CbiX is a monomeric, anaerobic version which acts
           early in the biosynthesis (pfam06180). CobNST is a
           trimeric, ATP-dependent, aerobic version which acts late
           in the biosynthesis (TIGR02257/TIGR01650/TIGR01651). A
           number of genomes (actinobacteria, cyanobacteria,
           betaproteobacteria and pseudomonads) which apparently
           biosynthesize B12, encode a cobN gene but are
           demonstrably lacking cobS and cobT. These genomes do,
           however contain a homolog (modelled here) of the
           magnesium chelatase subunits BchI/BchD family. Aside
           from the cyanobacteria (which have a separate magnesium
           chelatase trimer), these species do not make chlorins,
           so do not have any use for a magnesium chelatase.
           Furthermore, in nearly all cases the members of this
           family are proximal to either CobN itself or other genes
           involved in cobalt transport or B12 biosynthesis.
          Length = 633

 Score = 24.6 bits (54), Expect = 4.9
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 24  TRPQGRFFSPRYPSNYPADIKCAYTFRARAQERIRVVLEDFKLEKGDVR 72
           +  +GR+   R     P D+    T RA A  +         +E  D+R
Sbjct: 409 SDSRGRYVRARRNRGPPDDLAVDATLRAAAPHQRARPGA-VAVEPEDLR 456


>gnl|CDD|185068 PRK15113, PRK15113, glutathione S-transferase; Provisional.
          Length = 214

 Score = 24.5 bits (54), Expect = 5.8
 Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 4/27 (14%)

Query: 29  RFFSPRYPSNYPADIKCAYTFRARAQE 55
           RF  P +   YPAD++     RARA++
Sbjct: 82  RFAPPAWERIYPADLQA----RARARQ 104


>gnl|CDD|235404 PRK05319, rplD, 50S ribosomal protein L4; Provisional.
          Length = 205

 Score = 24.3 bits (54), Expect = 5.8
 Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 2/27 (7%)

Query: 43  IKCAYTFRARAQERIRVVLEDFKLEKG 69
           ++ A + +AR + R+ VV++D  LE  
Sbjct: 109 LRSALSEKAR-EGRL-VVVDDLSLEAP 133


>gnl|CDD|217406 pfam03175, DNA_pol_B_2, DNA polymerase type B, organellar and
          viral.  Like pfam00136, members of this family are also
          DNA polymerase type B proteins. Those included here are
          found in plant and fungal mitochondria, and in viruses.
          Length = 452

 Score = 24.2 bits (53), Expect = 6.3
 Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 3/34 (8%)

Query: 2  FHTDGHKLSGTTCDYQFVSTNHTRPQGRFFSPRY 35
          F+ +  K       Y FV+ N+   +G F   +Y
Sbjct: 68 FNLEVQKGC---FPYDFVNKNYMWDKGGFPIEKY 98


>gnl|CDD|235547 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta;
          Validated.
          Length = 292

 Score = 24.4 bits (54), Expect = 6.6
 Identities = 7/18 (38%), Positives = 12/18 (66%)

Query: 44 KCAYTFRARAQERIRVVL 61
          KC +  R  A+ER+ ++L
Sbjct: 51 KCGHHMRISARERLDLLL 68


>gnl|CDD|236784 PRK10876, recB, exonuclease V subunit beta; Provisional.
          Length = 1181

 Score = 24.2 bits (53), Expect = 7.2
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 25   RPQGRFFSPRYPSNYPADIKCAYTFRARAQ 54
            R QGR++   Y SN+  +   AYT  A AQ
Sbjct: 1071 RWQGRYYLLDYKSNWLGEDSSAYTQEAMAQ 1100


  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
   0.325    0.138    0.435 

Gapped
Lambda     K      H
   0.267   0.0690    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,685,844
Number of extensions: 268122
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 16
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
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 (24.3 bits)