RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1834
         (101 letters)



>gnl|CDD|202478 pfam02939, UcrQ, UcrQ family.  The ubiquinol-cytochrome C reductase
           complex (cytochrome bc1 complex) is a respiratory
           multienzyme complex. This family represents the 9.5 kDa
           subunit of the complex.
          Length = 80

 Score = 61.3 bits (149), Expect = 5e-14
 Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

Query: 22  GFGNLGPHIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRITESAPRTVPYFLITYVIITQ 81
           GFG   P  + I+ + +S FEQR  AG  +  + NT RR+        P F+  Y+I   
Sbjct: 3   GFGG-LPKQKGIITYALSPFEQRPLAGFFHKAVFNTFRRVRSQILYVAPPFIAAYLIYDW 61

Query: 82  TNDYYAQLNRKNPKDYEHE 100
             +    LNRKN +D  ++
Sbjct: 62  GKERNEALNRKNGRDEAND 80


>gnl|CDD|239507 cd03414, CbiX_SirB_C, Sirohydrochlorin cobalt chelatase (CbiX)
          and sirohydrochlorin iron chelatase (SirB), C-terminal
          domain. SirB catalyzes the ferro-chelation of
          sirohydrochlorin to siroheme, the prosthetic group of
          sulfite and nitrite reductases. CbiX is a
          cobaltochelatase, responsible for the chelation of Co2+
          into sirohydrochlorin, an important step in the vitamin
          B12 biosynthetic pathway. CbiX often contains a
          C-terminal histidine-rich region that may be important
          for metal delivery and/or storage, and may also contain
          an iron-sulfur center. Both CbiX and SirB are found in
          a wide range of bacteria.
          Length = 117

 Score = 28.7 bits (65), Expect = 0.29
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 45 AFAGLLNPGLQNTLRRITESAPRTV---PYFLITYVIITQTNDYYAQLNRKNPKDYEH 99
          AFA    P L   L R+     R V   PY L T V++ +  +  A+L  +   ++  
Sbjct: 38 AFAAATRPSLPEALERLRALGARRVVVLPYLLFTGVLMDRIEEQVAELAAEPGIEFVL 95


>gnl|CDD|147852 pfam05925, IpgD, Enterobacterial virulence protein IpgD.  This
          family consists of several enterobacterial IpgD like
          virulence factor proteins. In the Gram-negative
          pathogen Shigella flexneri, the virulence factor IpgD
          is translocated directly into eukaryotic cells and acts
          as a potent inositol 4-phosphatase that specifically
          dephosphorylates phosphatidylinositol 4,5-bisphosphate
          [PtdIns(4,5)P(2)] into phosphatidylinositol
          5-monophosphate [PtdIns(5)P] that then accumulates.
          Transformation of PtdIns(4,5)P(2) into PtdIns(5)P by
          IpgD is responsible for dramatic morphological changes
          of the host cell, leading to a decrease in membrane
          tether force associated with membrane blebbing and
          actin filament remodelling.
          Length = 569

 Score = 28.9 bits (64), Expect = 0.44
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 29 HIRNIVYHRISMFEQRAFAGLLNPGLQNTLRRIT 62
          HI+N   H+ S     AF G    GLQ  ++ I+
Sbjct: 2  HIQNFGLHQASFKSGDAFKGAEETGLQKGMQIIS 35


>gnl|CDD|181288 PRK08204, PRK08204, hypothetical protein; Provisional.
          Length = 449

 Score = 26.1 bits (58), Expect = 4.1
 Identities = 15/40 (37%), Positives = 16/40 (40%), Gaps = 9/40 (22%)

Query: 16  STMGHHGFGNLGPHIRNIVYHRISMFEQRAFAGLLNPGLQ 55
            +M H GFG  G   R          EQ   AGLL P L 
Sbjct: 217 ISM-HQGFGPWGATPR--------GVEQLHDAGLLGPDLN 247


>gnl|CDD|225454 COG2901, Fis, Factor for inversion stimulation Fis, transcriptional
           activator [Transcription / DNA replication,
           recombination, and repair].
          Length = 98

 Score = 24.4 bits (53), Expect = 8.0
 Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 14/67 (20%)

Query: 40  MFEQRAFAGLLNPGLQNTLRRITESAPR-TVPYFLITYVIITQTNDYYAQLNRKNPKD-Y 97
           MFEQR  + +L     N+  +IT+   R +V   L          +Y+A LN ++  D Y
Sbjct: 1   MFEQRVNSDVLTVSTPNSQDQITQKPLRDSVKQAL---------KNYFADLNGQDVNDLY 51

Query: 98  E---HEV 101
           E    EV
Sbjct: 52  EMVLAEV 58


  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
   0.323    0.138    0.411 

Gapped
Lambda     K      H
   0.267   0.0809    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,186,233
Number of extensions: 435186
Number of successful extensions: 323
Number of sequences better than 10.0: 1
Number of HSP's gapped: 322
Number of HSP's successfully gapped: 12
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.0 bits)