RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8011
         (102 letters)



>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
           conserved domain. 
          Length = 373

 Score = 85.9 bits (213), Expect = 2e-21
 Identities = 25/77 (32%), Positives = 36/77 (46%)

Query: 26  LADSVTWNPHKLLTAPQQCSVFLTRHQSVLTECHSASASYLFQKDKFYDTKYDSGDKHIQ 85
            ADS ++NPHK +     CS    R +  L +    +  YL   DK  D   D GD  I 
Sbjct: 252 RADSFSFNPHKWMLVLLDCSALWVRDKGALQQALQFNPEYLGHNDKQSDVAVDYGDWQIP 311

Query: 86  CGRKPDVLKFWFMWKAK 102
             R+  +LK WF+ ++ 
Sbjct: 312 LSRRFRILKLWFVLRSY 328


>gnl|CDD|99743 cd06450, DOPA_deC_like, DOPA decarboxylase family. This family
           belongs to pyridoxal phosphate (PLP)-dependent aspartate
           aminotransferase superfamily (fold I). The major groups
           in this CD correspond to DOPA/tyrosine decarboxylase
           (DDC), histidine decarboxylase (HDC), and glutamate
           decarboxylase (GDC). DDC is active as a dimer and
           catalyzes the decarboxylation of tyrosine. GDC catalyzes
           the decarboxylation of glutamate and HDC catalyzes the
           decarboxylation of histidine.
          Length = 345

 Score = 41.8 bits (99), Expect = 1e-05
 Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 5/43 (11%)

Query: 13  AGGLDHFHQPRQVL-----ADSVTWNPHKLLTAPQQCSVFLTR 50
            G L  F +PR +       DS++ +PHK    P  CS  L R
Sbjct: 188 GGFLLPFPEPRHLDFGIERVDSISVDPHKYGLVPLGCSAVLVR 230


>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
           proteins [Amino acid transport and metabolism].
          Length = 460

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 14/41 (34%), Positives = 18/41 (43%)

Query: 26  LADSVTWNPHKLLTAPQQCSVFLTRHQSVLTECHSASASYL 66
             DS+T + HK   AP  C V L R +  L      +  YL
Sbjct: 266 GVDSITVDGHKYGLAPIGCGVVLFRDEEALRRILIFADYYL 306


>gnl|CDD|215475 PLN02880, PLN02880, tyrosine decarboxylase.
          Length = 490

 Score = 35.7 bits (82), Expect = 0.002
 Identities = 20/70 (28%), Positives = 30/70 (42%)

Query: 27  ADSVTWNPHKLLTAPQQCSVFLTRHQSVLTECHSASASYLFQKDKFYDTKYDSGDKHIQC 86
           ADS   N HK       CS+   + ++ L +  S +  +L  K    ++  D  D  I  
Sbjct: 298 ADSFNMNAHKWFLTNFDCSLLWVKDRNALIQSLSTNPEFLKNKASQANSVVDYKDWQIPL 357

Query: 87  GRKPDVLKFW 96
           GR+   LK W
Sbjct: 358 GRRFRSLKLW 367


>gnl|CDD|178200 PLN02590, PLN02590, probable tyrosine decarboxylase.
          Length = 539

 Score = 33.5 bits (76), Expect = 0.010
 Identities = 23/74 (31%), Positives = 31/74 (41%)

Query: 27  ADSVTWNPHKLLTAPQQCSVFLTRHQSVLTECHSASASYLFQKDKFYDTKYDSGDKHIQC 86
           ADS   N HK L A Q CS    + +  L +    +  YL  K    DT  +  D  I  
Sbjct: 346 ADSFNMNAHKWLFANQTCSPLWVKDRYSLIDALKTNPEYLEFKVSKKDTVVNYKDWQISL 405

Query: 87  GRKPDVLKFWFMWK 100
            R+   LK W + +
Sbjct: 406 SRRFRSLKLWMVLR 419


>gnl|CDD|117766 pfam09213, M3, M3.  Members of this family of viral chemokine
           binding proteins adopt a structure consisting of two
           different beta-sandwich domains of partial topological
           similarity to immunoglobulin-like folds. They bind with
           the CC-chemokine MCP-1, acting as cytokine decoy
           receptors.
          Length = 367

 Score = 28.8 bits (64), Expect = 0.47
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 2   ELDPA-ALPVSQAGGLDHFHQPRQVLA---DSVTWNPHKLLTAPQQCSVFLTRHQSVLT 56
            L     L ++   GLD    P  V+A   DS   NP +  +    C++ +T H  V T
Sbjct: 259 PLPAMDHLILATLAGLDSLTSPVYVMAAYFDSTHENPVRPSSKLYHCALQMTSHDGVWT 317


>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
          Length = 380

 Score = 27.7 bits (62), Expect = 0.99
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 27  ADSVTWNPHKLLTAPQQCSVFLTRHQSV 54
            DS+  + HK + +P  C + L + + V
Sbjct: 222 IDSIAISGHKFIGSPMPCGIVLAKKKYV 249


>gnl|CDD|166673 PLN03032, PLN03032, serine decarboxylase; Provisional.
          Length = 374

 Score = 27.5 bits (61), Expect = 1.1
 Identities = 12/27 (44%), Positives = 15/27 (55%)

Query: 28  DSVTWNPHKLLTAPQQCSVFLTRHQSV 54
            SV+ + HK L  P  C V LTR + V
Sbjct: 226 GSVSVSGHKFLGCPMPCGVALTRKKHV 252


>gnl|CDD|168208 PRK05723, PRK05723, flavodoxin; Provisional.
          Length = 151

 Score = 26.7 bits (59), Expect = 1.7
 Identities = 10/28 (35%), Positives = 14/28 (50%)

Query: 12 QAGGLDHFHQPRQVLADSVTWNPHKLLT 39
          +A G + +H PR  L D   + P  LL 
Sbjct: 26 KAAGFEAWHNPRASLQDLQAFAPEALLA 53


>gnl|CDD|177904 PLN02263, PLN02263, serine decarboxylase.
          Length = 470

 Score = 26.7 bits (59), Expect = 2.2
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 6/44 (13%)

Query: 29  SVTWNPHKLLTAPQQCSVFLTR--HQSVLTECHSASASYLFQKD 70
           SV+ + HK +  P  C V +TR  H +VL    S++  YL  +D
Sbjct: 294 SVSVSGHKFVGCPMPCGVQITRMEHINVL----SSNVEYLASRD 333


>gnl|CDD|99739 cd00615, Orn_deC_like, Ornithine decarboxylase family. This family
           belongs to pyridoxal phosphate (PLP)-dependent aspartate
           aminotransferase superfamily (fold I). The major groups
           in this CD corresponds to ornithine decarboxylase (ODC),
           arginine decarboxylase (ADC) and lysine decarboxylase
           (LDC). ODC is a dodecamer composed of six homodimers and
           catalyzes the decarboxylation of tryptophan. ADC
           catalyzes the decarboxylation of arginine and LDC
           catalyzes the decarboxylation of lysine. Members of this
           family are widely found in all three forms of life.
          Length = 294

 Score = 26.4 bits (59), Expect = 2.3
 Identities = 18/67 (26%), Positives = 22/67 (32%), Gaps = 13/67 (19%)

Query: 14  GGLDHFHQPRQV-----LADSVTWNPHKLLTAPQQCSVFLTRHQSVLTE--------CHS 60
           G    FH           AD V  + HK L A  Q S+   +   V  +          S
Sbjct: 193 GAHFRFHPILPSSAAMAGADIVVQSTHKTLPALTQGSMIHVKGDLVNPDRVNEALNLHQS 252

Query: 61  ASASYLF 67
            S SYL 
Sbjct: 253 TSPSYLI 259


>gnl|CDD|234565 PRK00002, aroB, 3-dehydroquinate synthase; Reviewed.
          Length = 358

 Score = 26.6 bits (60), Expect = 2.5
 Identities = 6/10 (60%), Positives = 8/10 (80%)

Query: 19  FHQPRQVLAD 28
           F+QP+ VL D
Sbjct: 154 FYQPKAVLID 163


>gnl|CDD|177976 PLN02342, PLN02342, ornithine carbamoyltransferase.
          Length = 348

 Score = 25.9 bits (57), Expect = 4.3
 Identities = 10/31 (32%), Positives = 19/31 (61%), Gaps = 2/31 (6%)

Query: 6   AALPVSQAGGLDHFHQPRQVLADSVTWNPHK 36
           +++PV    GL  ++ P Q++AD++T   H 
Sbjct: 161 SSVPV--INGLTDYNHPCQIMADALTIIEHI 189


>gnl|CDD|184086 PRK13493, PRK13493, chemoreceptor glutamine deamidase CheD;
          Provisional.
          Length = 213

 Score = 25.7 bits (56), Expect = 5.1
 Identities = 10/31 (32%), Positives = 16/31 (51%)

Query: 9  PVSQAGGLDHFHQPRQVLADSVTWNPHKLLT 39
             + GG++HF  P     +S  W+P  LL+
Sbjct: 62 IEMKVGGMNHFLLPFNNQFESQHWHPQALLS 92


>gnl|CDD|223414 COG0337, AroB, 3-dehydroquinate synthetase [Amino acid transport
           and metabolism].
          Length = 360

 Score = 25.6 bits (57), Expect = 5.5
 Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 5/25 (20%)

Query: 19  FHQPRQVLADSVTWNPHKLLTAPQQ 43
           F+QP+ VL D+       L T P +
Sbjct: 156 FYQPKAVLIDTDF-----LKTLPPR 175


>gnl|CDD|177808 PLN00415, PLN00415, 3-ketoacyl-CoA synthase.
          Length = 466

 Score = 25.4 bits (55), Expect = 6.0
 Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 23  RQVLADSVTWNPHKLLTAPQQCSVFLTRHQSVL 55
           R  L D  T++P  +LT+P   S++  RH+S L
Sbjct: 105 RSGLGDD-TYSPRCMLTSPPTPSMYEARHESEL 136


>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
          Length = 371

 Score = 25.6 bits (57), Expect = 6.1
 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 1/39 (2%)

Query: 28  DSVTWNPHKLLTAPQQCSVFLTRHQSVLTECHSASASYL 66
           DS+T +PHK+  AP      L R +S L +  +    YL
Sbjct: 212 DSITIDPHKMGLAPIPAGGILFRDESYL-DALAVDTPYL 249


>gnl|CDD|173954 cd08195, DHQS, Dehydroquinate synthase (DHQS) catalyzes the
           conversion of DAHP to DHQ in shikimate pathway for
           aromatic compounds synthesis.  Dehydroquinate synthase
           (DHQS) catalyzes the conversion of
           3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to
           dehydroquinate (DHQ) in the second step of the shikimate
           pathway. This pathway, which involves seven sequential
           enzymatic steps in the conversion of erythrose
           4-phosphate and phosphoenolpyruvate into chorismate for
           subsequent synthesis of aromatic compounds,  is found in
           bacteria, microbial eukaryotes, and plants, but not in
           mammals. Therefore, enzymes of this pathway are
           attractive targets for the development of non-toxic
           antimicrobial compounds, herbicides and anti-parasitic
           agents. The activity of DHQS requires nicotinamide
           adenine dinucleotide (NAD) as cofactor. A single active
           site in DHQS catalyzes five sequential reactions
           involving alcohol oxidation, phosphate elimination,
           carbonyl reduction, ring opening, and intramolecular
           aldol condensation. The binding of substrates and
           ligands induces domain conformational changes. In some
           fungi and protozoa, this domain is fused with the other
           four domains in shikimate pathway and forms a
           penta-domain AROM protein, which catalyzes steps 2-6 in
           the shikimate pathway.
          Length = 345

 Score = 25.1 bits (56), Expect = 8.0
 Identities = 6/10 (60%), Positives = 8/10 (80%)

Query: 19  FHQPRQVLAD 28
           F+QP+ VL D
Sbjct: 147 FYQPKLVLID 156


>gnl|CDD|217651 pfam03635, Vps35, Vacuolar protein sorting-associated protein 35.
           Vacuolar protein sorting-associated protein (Vps) 35 is
           one of around 50 proteins involved in protein
           trafficking. In particular, Vps35 assembles into a
           retromer complex with at least four other proteins Vps5,
           Vps17, Vps26 and Vps29. Vps35 contains a central region
           of weaker sequence similarity, thought to indicate the
           presence of at least three domains.
          Length = 741

 Score = 25.3 bits (56), Expect = 8.4
 Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 13/54 (24%)

Query: 36  KLLTAPQQCSVFLTRHQSVLTECHSASASYLFQKDKFYDTKYDSGDKHIQCGRK 89
           KLL  P QC                   S+LF   +     Y  G + ++C +K
Sbjct: 649 KLLKKPDQCRAVYL-------------CSHLFWATELSGEFYRDGKRVLECLQK 689


>gnl|CDD|181601 PRK08978, PRK08978, acetolactate synthase 2 catalytic subunit;
          Reviewed.
          Length = 548

 Score = 24.8 bits (55), Expect = 9.1
 Identities = 7/15 (46%), Positives = 9/15 (60%)

Query: 72 FYDTKYDSGDKHIQC 86
           YD  YD G +H+ C
Sbjct: 30 VYDALYDGGVEHLLC 44


>gnl|CDD|215171 PLN02302, PLN02302, ent-kaurenoic acid oxidase.
          Length = 490

 Score = 25.1 bits (55), Expect = 10.0
 Identities = 7/21 (33%), Positives = 9/21 (42%)

Query: 32  WNPHKLLTAPQQCSVFLTRHQ 52
             P  L+T P+ C   LT   
Sbjct: 91  GQPTVLVTTPEACKRVLTDDD 111


  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
   0.322    0.133    0.438 

Gapped
Lambda     K      H
   0.267   0.0549    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,934,769
Number of extensions: 363689
Number of successful extensions: 285
Number of sequences better than 10.0: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 24
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
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 (24.6 bits)