RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12266
         (107 letters)



>gnl|CDD|203016 pfam04446, Thg1, tRNAHis guanylyltransferase.  The Thg1 protein
           from Saccharomyces cerevisiae is responsible for adding
           a GMP residue to the 5' end of tRNA His. The catalytic
           domain Thg1 contains a RRM (ferredoxin) fold palm
           domain, just like the viral RNA-dependent RNA
           polymerases, reverse transcriptases, family A and B DNA
           polymerases, adenylyl cyclases, diguanylate cyclases
           (GGDEF domain) and the predicted polymerase of the
           CRISPR system. Thg1 possesses an active site with three
           acidic residues that chelate Mg++ cations. Thg1
           catalyzes polymerization similar to the 5'-3'
           polymerases.
          Length = 131

 Score =  100 bits (251), Expect = 8e-29
 Identities = 39/68 (57%), Positives = 51/68 (75%)

Query: 39  KFEYVREFESHDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEE 98
           KFEYV++FE  DR LPN  IVVR+DG+GFHKFT+ HGF+KPND   L LM+ AA  ++EE
Sbjct: 1   KFEYVKQFEQDDRLLPNTPIVVRIDGRGFHKFTKKHGFEKPNDERALDLMNAAAKALMEE 60

Query: 99  FNEYKMVH 106
           F +  + +
Sbjct: 61  FPDIVLAY 68


>gnl|CDD|226508 COG4021, COG4021, Uncharacterized conserved protein [Function
          unknown].
          Length = 249

 Score = 92.6 bits (230), Expect = 1e-24
 Identities = 33/64 (51%), Positives = 45/64 (70%)

Query: 36 AKSKFEYVREFESHDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACV 95
          AKSKF YVRE  +HDR LP  +IV+R+DG+GFHKFT+   F+KP D   L LM+  A  +
Sbjct: 1  AKSKFMYVREVYAHDRILPQTYIVLRIDGRGFHKFTKFLDFEKPYDERFLKLMNATAKNL 60

Query: 96 IEEF 99
          + ++
Sbjct: 61 VLKY 64


>gnl|CDD|217705 pfam03739, YjgP_YjgQ, Predicted permease YjgP/YjgQ family.  Members
           of this family are predicted integral membrane proteins
           of unknown function. They are about 350 amino acids long
           and contain about 6 transmembrane regions. They are
           predicted to be permeases although there is no
           verification of this.
          Length = 354

 Score = 26.9 bits (60), Expect = 2.2
 Identities = 11/61 (18%), Positives = 19/61 (31%), Gaps = 4/61 (6%)

Query: 42  YVREFESHDRCLPNCFIVVRVDGKGFHKFTEA-HGFDKPNDRSGLWLMSKAAACVIEEFN 100
           YV + +     L   FI       G      A       +   G+W++       I  F+
Sbjct: 155 YVDKVDPDGNRLEGVFIYDFDSDGGLTSIITAKSATLDSDTGGGVWILENG---TIYRFD 211

Query: 101 E 101
           +
Sbjct: 212 K 212


>gnl|CDD|184300 PRK13750, PRK13750, replication protein; Provisional.
          Length = 285

 Score = 26.8 bits (59), Expect = 2.6
 Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 9  GVLQFC-KLVARGELFTPKSHFSLACSMAKSK 39
          G L FC KL+ +   FT +  F++  + A+S 
Sbjct: 26 GTLPFCEKLMEKAVGFTSRFDFAIHVAHARSL 57


>gnl|CDD|132514 TIGR03474, incFII_RepA, incFII family plasmid replication
          initiator RepA.  Members of this protein are the
          plasmid replication initiator RepA of incFII (plasmid
          incompatibility group F-II) plasmids. R1 and R100 are
          plasmids in this group. Immediately upstream of repA is
          found tap, a leader peptide of about 24 amino acids,
          often not assigned as a gene in annotated plasmid
          sequences. Note that other, non-homologous plasmid
          replication proteins share the gene symbol (repA) and
          similar names (plasmid replication protein RepA).
          Length = 275

 Score = 26.1 bits (57), Expect = 3.7
 Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 1/31 (3%)

Query: 9  GVLQFC-KLVARGELFTPKSHFSLACSMAKS 38
            L FC KL+A+ E FT +  FS+  + A+S
Sbjct: 18 KTLPFCRKLMAKAEGFTSRFDFSIHVAFARS 48


>gnl|CDD|165325 PHA03027, PHA03027, hypothetical protein; Provisional.
          Length = 325

 Score = 25.8 bits (56), Expect = 5.1
 Identities = 12/49 (24%), Positives = 25/49 (51%)

Query: 22  LFTPKSHFSLACSMAKSKFEYVREFESHDRCLPNCFIVVRVDGKGFHKF 70
            F   +  ++   + +   ++ +EF+ +   LPNCF+  ++D K   KF
Sbjct: 219 EFKIDAICNIFKDLDEDIKKFFKEFKLNGCILPNCFLFPKIDAKFILKF 267


>gnl|CDD|179732 PRK04056, PRK04056, Maf-like protein; Reviewed.
          Length = 180

 Score = 25.7 bits (57), Expect = 5.1
 Identities = 10/19 (52%), Positives = 14/19 (73%), Gaps = 1/19 (5%)

Query: 83  SGLWLMSKAAACVIEEFNE 101
           SGLW   KA AC++E F++
Sbjct: 138 SGLW-QGKAGACMVEGFHK 155


>gnl|CDD|240343 PTZ00280, PTZ00280, Actin-related protein 3; Provisional.
          Length = 414

 Score = 25.5 bits (56), Expect = 7.0
 Identities = 26/95 (27%), Positives = 34/95 (35%), Gaps = 18/95 (18%)

Query: 10  VLQFCKLVARGELFTPKSHFSLACSMAKSKFEYV-----REFESHDRCLPNCFI----VV 60
           + Q   L  RGE    +    LA  + K K+ YV     +EFE +D    N F     V 
Sbjct: 201 IQQM--LRERGEPIPAEDILLLAQRI-KEKYCYVAPDIAKEFEKYDSDPKNHFKKYTAVN 257

Query: 61  RVDGK------GFHKFTEAHGFDKPNDRSGLWLMS 89
            V  K      G+ +F     F  P   S  W   
Sbjct: 258 SVTKKPYTVDVGYERFLGPEMFFHPEIFSSEWTTP 292


>gnl|CDD|224600 COG1686, DacC, D-alanyl-D-alanine carboxypeptidase [Cell envelope
           biogenesis, outer membrane].
          Length = 389

 Score = 25.4 bits (56), Expect = 8.1
 Identities = 7/34 (20%), Positives = 13/34 (38%)

Query: 69  KFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNEY 102
            F    G D P   +    ++  A  +I ++ E 
Sbjct: 162 HFVNPSGLDNPGQVTTARDLALLARALIRDYPEI 195


>gnl|CDD|216297 pfam01095, Pectinesterase, Pectinesterase. 
          Length = 298

 Score = 25.3 bits (56), Expect = 8.3
 Identities = 11/31 (35%), Positives = 13/31 (41%)

Query: 55  NCFIVVRVDGKGFHKFTEAHGFDKPNDRSGL 85
           NC IV R    G      A G   PN  +G+
Sbjct: 162 NCNIVARKPLPGQKNTVTAQGRTDPNQNTGI 192


>gnl|CDD|237117 PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.
          Length = 1310

 Score = 25.3 bits (56), Expect = 9.5
 Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 4/34 (11%)

Query: 16   LVARGELFTPKSHFSLACSMAKSKFEYVREFESH 49
            L AR +L  PK +      M K  +E VRE E  
Sbjct: 1193 LEARTKLLNPKWYEG----MLKHGYEGVREIEKR 1222


>gnl|CDD|216189 pfam00917, MATH, MATH domain.  This motif has been called the
          Meprin And TRAF-Homology (MATH) domain. This domain is
          hugely expanded in the nematode C. elegans.
          Length = 116

 Score = 24.6 bits (54), Expect = 9.8
 Identities = 9/33 (27%), Positives = 14/33 (42%)

Query: 57 FIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMS 89
            +V  +GK   K  ++H F KP        +S
Sbjct: 62 LKLVSDNGKSLTKRNKSHVFTKPTGYGWGKFIS 94


  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
   0.326    0.138    0.440 

Gapped
Lambda     K      H
   0.267   0.0672    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,297,072
Number of extensions: 423069
Number of successful extensions: 335
Number of sequences better than 10.0: 1
Number of HSP's gapped: 335
Number of HSP's successfully gapped: 15
Length of query: 107
Length of database: 10,937,602
Length adjustment: 72
Effective length of query: 35
Effective length of database: 7,744,114
Effective search space: 271043990
Effective search space used: 271043990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.3 bits)