RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5204
         (209 letters)



>gnl|CDD|218847 pfam05995, CDO_I, Cysteine dioxygenase type I.  Cysteine
           dioxygenase type I (EC:1.13.11.20) converts cysteine to
           cysteinesulphinic acid and is the rate-limiting step in
           sulphate production.
          Length = 170

 Score =  152 bits (386), Expect = 3e-47
 Identities = 52/152 (34%), Positives = 81/152 (53%), Gaps = 7/152 (4%)

Query: 38  RSSVDVAHVKFLMESYVSNADDWKRYAQFDENRYTRNLVDEGDGKFNLILLCWSQGQASS 97
           ++  DV  V  L+E Y+S+  +W +Y +FD+  YTRN +  G+G++ L LL W  GQ + 
Sbjct: 26  QAEADVPEVAKLLERYISDPTEWGKYVRFDQTGYTRNRI-AGNGEYELWLLSWPPGQGTG 84

Query: 98  IHDHAQAHCFMKMLQGCLTEVRYQEPNHTSDEIGQDRPLSEISRTELAENDVCYINDSMG 157
           +HDH  +H  +K+L+G L E  +  P            +   S +   +    YI D  G
Sbjct: 85  VHDHGGSHGALKVLEGELKETIFAWPRKR------SVEMVIKSNSRRLDEGTQYIFDKGG 138

Query: 158 LHKVGNSGPHPAAVSLHLYSPPFNICSSFDAQ 189
           +H+V N+     AVSLHLYSPP    ++F+  
Sbjct: 139 IHRVENNSTSEPAVSLHLYSPPLTTMTAFEES 170


>gnl|CDD|227840 COG5553, COG5553, Predicted metal-dependent enzyme of the
           double-stranded beta helix superfamily [General function
           prediction only].
          Length = 191

 Score = 37.6 bits (87), Expect = 0.002
 Identities = 34/166 (20%), Positives = 57/166 (34%), Gaps = 18/166 (10%)

Query: 15  LLRLTRIDTLSELIHRVYAAFEGRSSVDVAHVKFLMESYVSNADDWKR--YAQFDENRYT 72
           LL L+R+      I  +  A    S+  +  VK L+    +    W      + D +  T
Sbjct: 4   LLPLSRLSLFYREIMDILNAAADESTP-LEEVKALLGDLTNR-FHWLGGLVHEPDPDTGT 61

Query: 73  RNL--VDEGDGKFNLILLCWSQGQASSIHDHAQAHCFMKMLQGCLTEVRYQEPNHTSDEI 130
             L   D   G   +  +  S G     H+H      + +L G  T   Y       DE 
Sbjct: 62  ELLLHADP-QGFLTVYHITLSPGVQYPPHNH-LMWGLVGILWGGETNFIYPLAGEEVDEP 119

Query: 131 GQDRPLSEISRTELAENDVCYINDSMGLHKVGNSGPHPAAVSLHLY 176
            +    +      L+  D+         H V N+G    + ++H+Y
Sbjct: 120 ERQDKFAAPGEVHLSPGDI---------HSVANTGS-DRSGAIHVY 155


>gnl|CDD|132378 TIGR03335, F390_ftsA, coenzyme F390 synthetase.  This enzyme,
           characterized in Methanobacterium thermoautotrophicum
           and found in several other methanogens, modifies
           coenzyme F420 by ligation of AMP (or GMP) from ATP (or
           GTP). On F420, it activates an aromatic hydroxyl group,
           which is unusual chemistry for an adenylyltransferase.
           This enzyme name has been attached to numbers of
           uncharacterized genes likely to instead act as
           phenylacetate CoA ligase, based on proximity to
           predicted indolepyruvate ferredoxin oxidoreductase
           (1.2.7.8) genes. The enzyme acts during transient
           exposure of the organism to oxygen [Biosynthesis of
           cofactors, prosthetic groups, and carriers, Other,
           Energy metabolism, Methanogenesis].
          Length = 445

 Score = 31.0 bits (70), Expect = 0.46
 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 51  ESYVSNADDWKRYAQFDENRYTRNLVDEGDGKFNLILLCWSQG 93
           +S+    DDWKRYA+    +Y R+ V +G    + +++C S G
Sbjct: 102 KSFFLTWDDWKRYAE----KYARSFVSQGFTAGDRMVICASYG 140


>gnl|CDD|237740 PRK14511, PRK14511, maltooligosyl trehalose synthase; Provisional.
          Length = 879

 Score = 28.4 bits (64), Expect = 3.4
 Identities = 16/58 (27%), Positives = 23/58 (39%), Gaps = 18/58 (31%)

Query: 8   INRVEHYLLRLTRIDT-------------LSELI-----HRVYAAFEGRSSVDVAHVK 47
           + R+   LLR+ R D              L ELI     +R Y    GRS+ D   ++
Sbjct: 402 VERLAQLLLRVARDDLRTRDFTLGALRRALVELIAAFPVYRTYLPACGRSARDRQVIE 459


>gnl|CDD|131844 TIGR02797, exbB, tonB-system energizer ExbB.  This model describes
           ExbB proteins, part of the MotA/TolQ/ExbB protein
           family. The paired proteins MotA and MotB, TolQ and
           TolR, and ExbB and ExbD harness the proton-motive force
           to drive the flagellar motor, energize the Tol-Pal
           system, or energize TonB, respectively. Tol-Pal and TonB
           are both active at the outer membrane. Genomes may have
           many different TonB-dependent receptors, of which many
           of those characterized are involved in siderophore
           transport across the outer membrane [Transport and
           binding proteins, Cations and iron carrying compounds].
          Length = 211

 Score = 27.7 bits (62), Expect = 3.7
 Identities = 7/37 (18%), Positives = 15/37 (40%)

Query: 110 MLQGCLTEVRYQEPNHTSDEIGQDRPLSEISRTELAE 146
           +++    E+       +  E  ++R  S + R E A 
Sbjct: 75  LVRAAEEEMELSAAGLSDGEGIKERVASRLERIEAAA 111


>gnl|CDD|183567 PRK12515, PRK12515, RNA polymerase sigma factor; Provisional.
          Length = 189

 Score = 27.4 bits (61), Expect = 4.4
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 8/40 (20%)

Query: 10 RVEHYLLRLTRIDTLSE-LIHRVY-------AAFEGRSSV 41
          RV  + LRL R +  +E L+  V+         FEGRS V
Sbjct: 34 RVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGRSQV 73


>gnl|CDD|219064 pfam06501, Herpes_U55, Human herpesvirus U55 protein.  This family
           consists of several human herpesvirus U55 proteins. The
           function of this family is unknown.
          Length = 432

 Score = 27.6 bits (61), Expect = 6.1
 Identities = 12/27 (44%), Positives = 17/27 (62%)

Query: 160 KVGNSGPHPAAVSLHLYSPPFNICSSF 186
           ++G S P P  VSL+++ P F ICS  
Sbjct: 242 RLGFSEPIPNEVSLNVHMPYFKICSDK 268


>gnl|CDD|131121 TIGR02066, dsrB, sulfite reductase, dissimilatory-type beta
           subunit.  Dissimilatory sulfite reductase catalyzes the
           six-electron reduction of sulfite to sulfide, as the
           terminal reaction in dissimilatory sulfate reduction. It
           remains unclear however, whether trithionate and
           thiosulfate serve as intermediate compounds to sulfide,
           or as end products of sulfite reduction. Sulfite
           reductase is a multisubunit enzyme composed of dimers of
           either alpha/beta or alpha/beta/gamma subunits, each
           containing a siroheme and iron sulfur cluster prosthetic
           center. Found in sulfate-reducing bacteria, these genes
           are commonly located in an unidirectional gene cluster.
           This model describes the beta subunit of sulfite
           reductase [Central intermediary metabolism, Sulfur
           metabolism].
          Length = 341

 Score = 27.5 bits (61), Expect = 6.2
 Identities = 9/26 (34%), Positives = 18/26 (69%)

Query: 43  VAHVKFLMESYVSNADDWKRYAQFDE 68
           VA+VK ++E++ +NA   +R  ++ E
Sbjct: 275 VAYVKKILEAWKANAKKHERLIEWVE 300


  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
   0.320    0.134    0.408 

Gapped
Lambda     K      H
   0.267   0.0793    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,238,141
Number of extensions: 900203
Number of successful extensions: 603
Number of sequences better than 10.0: 1
Number of HSP's gapped: 601
Number of HSP's successfully gapped: 11
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
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 (21.8 bits)
S2: 57 (25.6 bits)