RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5127
         (128 letters)



>gnl|CDD|221257 pfam11838, DUF3358, Domain of unknown function (DUF3358).  This
           domain is functionally uncharacterized. This domain is
           found in eukaryotes and bacteria. This domain is found
           to the C-terminus of an aminopeptidase domain.
          Length = 323

 Score = 54.2 bits (131), Expect = 1e-09
 Identities = 30/100 (30%), Positives = 51/100 (51%), Gaps = 3/100 (3%)

Query: 10  KSTLDRDVIKPQDVKDVLS-VVASNPEGNFLAWRHLKAHWKGLQNLFGNGTFSMGALIGV 68
              LD D +  QD++ V++ +  SN  G  L W  ++ ++  L      G+ ++G ++G+
Sbjct: 224 NFLLDDDSVSNQDIRAVMAGLRRSNQAGRELLWPWVERNFDALAKKLPRGSSALGRVVGL 283

Query: 69  VTSHFSAPYDLHEVKAFFKDMDVGSGA--RSLEQSLETIE 106
             S FS+   L EV+AF       +    RSL Q+L+TI 
Sbjct: 284 YPSGFSSAELLDEVEAFLARKPKDTPGLRRSLAQALDTIR 323


>gnl|CDD|223385 COG0308, PepN, Aminopeptidase N [Amino acid transport and
           metabolism].
          Length = 859

 Score = 33.2 bits (76), Expect = 0.027
 Identities = 21/112 (18%), Positives = 42/112 (37%), Gaps = 8/112 (7%)

Query: 11  STLDRDVIKPQDVKDVLSVVASNPEGNFLAWRHLKAHW---KGLQNLFGNGTFSMGALIG 67
           +    D +  QD+  ++      P  N   W +    +     L  L G+G      L  
Sbjct: 750 AISPGDTVLEQDIGLMIHAAFEAPNPNEARWLYGTFAFENPALLHALDGSG---YRFLGV 806

Query: 68  VV--TSHFSAPYDLHEVKAFFKDMDVGSGARSLEQSLETIELNIHWVRRNEE 117
           +V   + F+    L +++ F +   + +  R + ++LETI       +   E
Sbjct: 807 IVLELNIFNPQLALRKIEEFLELKKLKALERLIREALETIAARERLSKDLAE 858


>gnl|CDD|107291 cd06296, PBP1_CatR_like, Ligand-binding domain of a LacI-like
           transcriptional regulator, CatR which is involved in
           catechol degradation.  This group includes the
           ligand-binding domain of a LacI-like transcriptional
           regulator, CatR which is involved in catechol
           degradation. This group belongs to the the LacI-GalR
           family repressors that are composed of two functional
           domains: an N-terminal HTH (helix-turn-helix) domain,
           which is responsible for the DNA-binding specificity,
           and a C-terminal ligand-binding domain, which is
           homologous to the sugar-binding domain of ABC-type
           transport systems that contain the type I periplasmic
           binding protein-like fold. As also observed in the
           periplasmic binding proteins, the C-terminal domain of
           the bacterial transcription repressor undergoes a
           conformational change upon ligand binding which in turn
           changes the DNA binding affinity of the repressor.
          Length = 270

 Score = 27.6 bits (62), Expect = 1.8
 Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 2/30 (6%)

Query: 17  VIKPQ--DVKDVLSVVASNPEGNFLAWRHL 44
           V+ P      DV SV A+N  G   A  HL
Sbjct: 83  VVDPAGDPDADVPSVGATNWAGGLAATEHL 112


>gnl|CDD|235974 PRK07229, PRK07229, aconitate hydratase; Validated.
          Length = 646

 Score = 27.4 bits (62), Expect = 2.2
 Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 3/29 (10%)

Query: 62  MGALIGVVTSHFSAPYDLHEVKAFFKDMD 90
           MGA +G  TS F  P D    + F K   
Sbjct: 213 MGAELGATTSIF--PSD-ERTREFLKAQG 238


>gnl|CDD|107285 cd06290, PBP1_LacI_like_9, Ligand-binding domain of uncharacterized
           DNA-binding regulatory proteins that are members of the
           LacI-GalR family of bacterial transcription repressors. 
           This group includes the ligand-binding domain of
           uncharacterized DNA-binding regulatory proteins that are
           members of the LacI-GalR family of bacterial
           transcription repressors. The LacI-GalR family
           repressors are composed of two functional domains: an
           N-terminal HTH (helix-turn-helix) domain, which is
           responsible for the DNA-binding specificity, and a
           C-terminal ligand-binding domain, which is homologous to
           the sugar-binding domain of ABC-type transport systems
           that contain the type I periplasmic binding protein-like
           fold.  As also observed in the periplasmic binding
           proteins, the C-terminal domain of the bacterial
           transcription repressor undergoes a conformational
           change upon ligand binding which in turn changes the DNA
           binding affinity of the repressor.
          Length = 265

 Score = 27.3 bits (61), Expect = 2.2
 Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 13/63 (20%)

Query: 66  IGVVTSHFSAPYDLHEVKAFFKDMD---VGSGARSL------EQSLETIELNIHWVRRNE 116
           IGV+T  F++P+         K M+    GSG   +       QS E   L +   RR +
Sbjct: 2   IGVLTQDFASPF----YGRILKGMERGLNGSGYSPIIATGHWNQSRELEALELLKSRRVD 57

Query: 117 ELI 119
            LI
Sbjct: 58  ALI 60


>gnl|CDD|239423 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
           MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
           isozymes, are methylcobamide:Coenzyme M
           methyltransferases, which play a role in metabolic
           pathways of methane formation from various substrates,
           such as methylated amines and methanol. Coenzyme M,
           2-mercaptoethylsulfonate or CoM, is methylated during
           methanogenesis in a reaction catalyzed by three
           proteins. A methyltransferase methylates the corrinoid
           cofactor, which is bound to a second polypeptide, a
           corrinoid protein. The methylated corrinoid protein then
           serves as a substrate for MT2-A and related enzymes,
           which methylate CoM.
          Length = 326

 Score = 26.9 bits (60), Expect = 3.3
 Identities = 8/26 (30%), Positives = 12/26 (46%)

Query: 64  ALIGVVTSHFSAPYDLHEVKAFFKDM 89
            +IG +T   S    L  V+ F K +
Sbjct: 130 PVIGGMTGPASLASHLAGVENFLKWL 155


>gnl|CDD|224949 COG2038, CobT, NaMN:DMB phosphoribosyltransferase [Coenzyme
           metabolism].
          Length = 347

 Score = 26.5 bits (59), Expect = 3.8
 Identities = 13/59 (22%), Positives = 20/59 (33%), Gaps = 12/59 (20%)

Query: 63  GALIGVVTSHFSAPYDLHEVKAFFKDMD-VGSG------ARSLEQSLETIELNIHWVRR 114
           GA I V+ +   A       K     +D   +G      A S E++   IE      + 
Sbjct: 95  GAAINVLAAGAGAK-----PKVPDIGLDGRPTGDIAEGPAMSEEEAEAAIEAGKELGKE 148


>gnl|CDD|166261 PLN02620, PLN02620, indole-3-acetic acid-amido synthetase.
          Length = 612

 Score = 26.4 bits (58), Expect = 4.6
 Identities = 14/38 (36%), Positives = 16/38 (42%)

Query: 24  KDVLSVVASNPEGNFLAWRHLKAHWKGLQNLFGNGTFS 61
           K+VL V A    G   A R L+ HW  L      GT  
Sbjct: 223 KEVLRVGAVFASGFIRAIRFLEKHWTLLCRDIRTGTID 260


>gnl|CDD|185000 PRK15040, PRK15040, L-serine dehydratase TdcG; Provisional.
          Length = 454

 Score = 26.2 bits (57), Expect = 6.8
 Identities = 15/48 (31%), Positives = 18/48 (37%), Gaps = 8/48 (16%)

Query: 48  WKGLQNLFGNGTFSMGALIGVVTSHF--------SAPYDLHEVKAFFK 87
           WKG + L     +S+G    V   HF        S PYD H      K
Sbjct: 132 WKGQEELLSKTYYSVGGGFIVEEEHFGLSHDVETSVPYDFHSAGELLK 179


>gnl|CDD|188650 cd09818, PIOX_like, Animal heme oxidases similar to plant
           pathogen-inducible oxygenases.  This is a diverse family
           of oxygenases related to the animal heme peroxidases,
           with members from plants, animals, and bacteria. The
           plant pathogen-inducible oxygenases (PIOX) oxygenate
           fatty acids into 2R-hydroperoxides. They may be involved
           in the hypersensitive reaction, rapid and localized cell
           death induced by infection with pathogens, and the
           rapidly induced expression of PIOX may be caused by the
           oxidative burst that occurs in the process of cell
           death.
          Length = 484

 Score = 26.1 bits (58), Expect = 7.1
 Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 7/45 (15%)

Query: 44  LKAHWKGLQN-----LFGNGTFS--MGALIGVVTSHFSAPYDLHE 81
           ++A+W GL       + G    S  +  + G   +H   PY L E
Sbjct: 212 MRANWWGLLGERLKRVLGRDGTSELLSGIPGSPPNHHGVPYSLTE 256


>gnl|CDD|178590 PLN03016, PLN03016, sinapoylglucose-malate O-sinapoyltransferase.
          Length = 433

 Score = 25.8 bits (56), Expect = 8.3
 Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 4/78 (5%)

Query: 54  LFGNGTFSMGALI--GVVTSHFSAPYDLHEV-KAFFKDMDVGSGARSLEQSLETIELNIH 110
           +F NG   +   +  G   S FS  Y   ++    F D  VGSG    +  ++    +I 
Sbjct: 85  IFENGPVGLKFEVFNGSAPSLFSTTYSWTKMANIIFLDQPVGSGFSYSKTPIDKTG-DIS 143

Query: 111 WVRRNEELIFQWLSSYLQ 128
            V+R  E + +WLS + Q
Sbjct: 144 EVKRTHEFLQKWLSRHPQ 161


  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
   0.321    0.135    0.411 

Gapped
Lambda     K      H
   0.267   0.0732    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,628,847
Number of extensions: 579503
Number of successful extensions: 573
Number of sequences better than 10.0: 1
Number of HSP's gapped: 572
Number of HSP's successfully gapped: 24
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
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 (21.9 bits)
S2: 53 (24.2 bits)