RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17732
         (186 letters)



>gnl|CDD|212504 cd11645, Precorrin_2_C20_MT, Precorrin-2 C20-methyltransferase,
          also named CobI or CbiL.  Precorrin-2
          C20-methyltransferase participates in the pathway
          toward the biosynthesis of cobalamin (vitamin B12).
          There are two distinct cobalamin biosynthetic pathways
          in bacteria. The aerobic pathway requires oxygen, and
          cobalt is inserted late in the pathway; the anaerobic
          pathway does not require oxygen, and cobalt insertion
          is the first committed step towards cobalamin
          synthesis. Precorrin-2 C20-methyltransferase catalyzes
          methylation at the C-20 position of a cyclic
          tetrapyrrole ring of precorrin-2 using
          S-adenosylmethionine as a methyl group source to
          produce precorrin-3A. In the anaerobic pathway, cobalt
          is inserted into precorrin-2 by CbiK to generate
          cobalt-precorrin-2, which is the substrate for CbiL, a
          C20 methyltransferase. In Clostridium difficile, CbiK
          and CbiL are fused into a bifunctional enzyme. In the
          aerobic pathway, the precorrin-2 C20-methyltransferase
          is named CobI. This family includes CbiL and CobI
          precorrin-2 C20-methyltransferases, both as stand-alone
          enzymes and when CbiL forms part of a bifunctional
          enzyme.
          Length = 226

 Score = 29.8 bits (68), Expect = 0.57
 Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 6/60 (10%)

Query: 23 KAQRSLPPKQLRVLAGAPAEKKPEETQARDIGAQ---KDSEIQALHFPKKRDIKKTREFH 79
          KA R L  ++  V+A  P  K  E + A  I       + EI  L FP  +D +   E  
Sbjct: 18 KAVRIL--READVIA-VPGSKAGEGSAALIIVVAYLIPEKEILPLEFPMTKDKEVLEEAW 74


>gnl|CDD|235512 PRK05576, PRK05576, cobalt-precorrin-2 C(20)-methyltransferase;
          Validated.
          Length = 229

 Score = 29.1 bits (66), Expect = 1.0
 Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 6/58 (10%)

Query: 23 KAQRSLPPKQLRVLAGAPAEKKPEETQARDIGAQ---KDSEIQALHFPKKRDIKKTRE 77
          KA R L  ++  V+  APA +K   + A +I      +++EI  LHFP  +D ++   
Sbjct: 20 KAARIL--EEADVVY-APASRKGGGSLALNIVRPYLKEETEIVELHFPMSKDEEEKEA 74


>gnl|CDD|240258 PTZ00075, PTZ00075, Adenosylhomocysteinase; Provisional.
          Length = 476

 Score = 29.2 bits (66), Expect = 1.4
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 1/49 (2%)

Query: 33  LRVLAGAPAEKKPEETQA-RDIGAQKDSEIQALHFPKKRDIKKTREFHH 80
           L V  G  AEK  EE     D     + + + L    K+ + K  +   
Sbjct: 137 LLVHEGVKAEKLYEEKGILPDPLDPSNEDEKCLLTVLKKLLTKNPDKWT 185


>gnl|CDD|236152 PRK08115, PRK08115, ribonucleotide-diphosphate reductase subunit
           alpha; Validated.
          Length = 858

 Score = 28.7 bits (64), Expect = 2.4
 Identities = 28/95 (29%), Positives = 44/95 (46%), Gaps = 21/95 (22%)

Query: 100 YDDVIHYLNSKSQGGHVTELPRPQTWAERALR---TYTKDWPDTAT------------YE 144
           Y  +++Y N + QGG  T++ +    AE  LR   TYT + P+  T             E
Sbjct: 325 YQAIVNYKNIEGQGGFDTKVIKE---AENKLRTGGTYTVNNPEFLTGANISVCLTKEFME 381

Query: 145 KTKADEELLQKLRFSG-KFYAQHSKEFYNRKYRDV 178
             + DEE   +LRF   + Y +   E YN ++ +V
Sbjct: 382 AVENDEEY--ELRFPDVENYTEEEMEIYNEEWHEV 414


>gnl|CDD|187734 cd09765, Csx14_I-U, CRISPR/Cas system-associated protein Csx14.
          CRISPR (Clustered Regularly Interspaced Short
          Palindromic Repeats) and associated Cas proteins
          comprise a system for heritable host defense by
          prokaryotic cells against phage and other foreign DNA;
          Protein containing C-terminal alpha-helical domain
          resembling Cas8a2, also known as GSU0052.
          Length = 272

 Score = 28.0 bits (62), Expect = 2.5
 Identities = 19/73 (26%), Positives = 24/73 (32%), Gaps = 14/73 (19%)

Query: 5  WADDGGFSWDDVEAIEEPKAQRSLPPKQLRVLAGAPAEKKPEETQARDIGAQKDSEIQAL 64
          W D  GF W             S     +R     PA   P  T  R +   +D  ++  
Sbjct: 32 WFDKDGFFW-------------SDRETHVRFTLTTPATLDPVLTVLRFLTQAEDVALKRY 78

Query: 65 HFPKKRDIKKTRE 77
          H    RD KK R 
Sbjct: 79 H-SLIRDSKKIRT 90


>gnl|CDD|219931 pfam08609, Fes1, Nucleotide exchange factor Fes1.  Fes1 is a
          cytosolic homologue of Sls1, an ER protein which has
          nucleotide exchange factor activity. Fes1 in yeast has
          been shown to bind to the molecular chaperone Hsp70 and
          has adenyl-nucleotide exchange factor activity.
          Length = 87

 Score = 26.6 bits (59), Expect = 3.5
 Identities = 9/31 (29%), Positives = 13/31 (41%)

Query: 12 SWDDVEAIEEPKAQRSLPPKQLRVLAGAPAE 42
          S     +       RSL P+ L  L G P++
Sbjct: 16 STGAGSSPPSIPQPRSLDPEMLDQLFGGPSD 46


>gnl|CDD|234473 TIGR04107, rSAM_HutW, putative heme utilization radical SAM enzyme
           HutW.  HutW is a radical SAM enzyme closely related to
           HemN, the heme biosynthetic oxygen-independent
           coproporphyrinogen oxidase. It belongs to operons
           associated with heme uptake and utilization in Vibrio
           cholerae and related species, but neither it not HutX
           has been shown to be needed, as is HutZ, for heme
           utilization. HutW failed to complement a Salmonella
           enterica hemN mutant (PMID:15205415), suggesting a
           related but distinct activity. Some members of this
           family are fused to hutX.
          Length = 420

 Score = 27.2 bits (61), Expect = 5.4
 Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 8/66 (12%)

Query: 32  QLRVLAGAPAEKKPEETQARDIGAQKDSEIQALHFPKKRDIKKTREFH-----HWVRPTR 86
            L +  G P  K  E+ +   +     +  QA  +    +      +      HW R  R
Sbjct: 229 ALNLFPGTPLAKAVEKGK---LPPPATTPEQARMYAYGVEFLAAHGWRQLSNSHWARTNR 285

Query: 87  LQYRYN 92
            +  YN
Sbjct: 286 ERNLYN 291


>gnl|CDD|215586 PLN03116, PLN03116, ferredoxin--NADP+ reductase; Provisional.
          Length = 307

 Score = 27.0 bits (60), Expect = 7.2
 Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 3/40 (7%)

Query: 132 TYTKDWPDTATYEKTKADEELLQKLRFSGKFYAQHSKEFY 171
            Y KD+PD   Y+   + E   QK +  GK Y Q   E Y
Sbjct: 212 RYLKDYPDNFRYDYALSRE---QKNKKGGKMYVQDKIEEY 248


  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
   0.317    0.133    0.419 

Gapped
Lambda     K      H
   0.267   0.0765    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,986,273
Number of extensions: 918064
Number of successful extensions: 863
Number of sequences better than 10.0: 1
Number of HSP's gapped: 861
Number of HSP's successfully gapped: 23
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)