RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= 537021.9.peg.1142_1
         (218 letters)



>gnl|CDD|177329 PHA01972, PHA01972, structural protein.
          Length = 828

 Score = 48.4 bits (115), Expect = 1e-06
 Identities = 43/207 (20%), Positives = 77/207 (37%), Gaps = 36/207 (17%)

Query: 29  LARLMGQFLVMPIS-----WSRMHLIEIPSSLVGVSSQVYRAKALVIGILGEELI---RK 80
           L R    F   PI+     W R    +      G      R     I +    L+     
Sbjct: 619 LHRSFFLFKSFPIATIMRHWRRAFTGK------GYPGAFDRMAYAAIMVASTTLLGAGSI 672

Query: 81  TLVPLISGKEPQLDFSDPTEYIKALINGITH-------YERFSPFNSS-GWDVLGPWSSQ 132
               L++GK+P    +DP  +I+AL+ G +            + + S     + GP  S 
Sbjct: 673 QAKDLLNGKDP-RSMTDPKFWIEALLKGGSFGYYGDFLRNAHTGYGSDMTSYIGGPVLSY 731

Query: 133 AGKL--AIAGKEAVWDEGTRKQRGKAQAQFGKELVNTFVPFQNLWYARGAFNHFVRNSID 190
             +L   +A       +G  +  G    +F  +      PF NLWY + A +  + + + 
Sbjct: 732 GDQLTKWVAMNPQDAAQGKAESAGADLLKFATQQT----PFANLWYTKAATDRLIMDQLQ 787

Query: 191 DVLNPGGRARAEVYRQRQKYKKQRKRN 217
           ++ +PG       Y ++Q  + +R+ N
Sbjct: 788 ELSSPG-------YDKKQLNRSRREFN 807


>gnl|CDD|162908 TIGR02538, type_IV_pilB, type IV-A pilus assembly ATPase PilB.
           This model describes a protein of type IV pilus
           biogenesis designated PilB in Pseudomonas aeruginosa but
           PilF in Neisseria gonorrhoeae; the more common usage,
           reflected here, is PilB. This protein is an ATPase
           involved in protein export for pilin assembly and is
           closely related to GspE (TIGR02533) of type II
           secretion, also called the main terminal branch of the
           general secretion pathway. Note that type IV pilus
           systems are often divided into type IV-A and IV-B, with
           the latter group including bundle-forming pilus,
           mannose-sensitive hemagglutinin, etc. Members of this
           family are found in type IV-A systems.
          Length = 564

 Score = 28.4 bits (64), Expect = 1.5
 Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 2/40 (5%)

Query: 62  VYRAKALVIGILGEELIRK-TLVPLI-SGKEPQLDFSDPT 99
            +   AL + ++ EELI+K   +PL   G    +  SDPT
Sbjct: 63  AFDPDALPVQLVSEELIQKHQALPLFKRGNTLFVAVSDPT 102


>gnl|CDD|177723 PLN00106, PLN00106, malate dehydrogenase.
          Length = 323

 Score = 28.0 bits (63), Expect = 1.9
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 14/70 (20%)

Query: 52  PSSLVGVSS-QVYRAKALVIGILGEELIR-----------KTLVPLISGKEPQLDFSDPT 99
           P  L GV++  V RA   V    G +               T++PL+S   P++ F+D  
Sbjct: 157 PKKLFGVTTLDVVRANTFVAEKKGLDPADVDVPVVGGHAGITILPLLSQATPKVSFTD-- 214

Query: 100 EYIKALINGI 109
           E I+AL   I
Sbjct: 215 EEIEALTKRI 224


>gnl|CDD|181738 PRK09265, PRK09265, aminotransferase AlaT; Validated.
          Length = 404

 Score = 27.1 bits (61), Expect = 3.9
 Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 4/20 (20%)

Query: 188 SIDDVLNPGGRARAEVYRQR 207
           SI++++ PGGR    +Y QR
Sbjct: 295 SINELILPGGR----LYEQR 310


>gnl|CDD|105491 PRK12269, PRK12269, bifunctional cytidylate kinase/ribosomal
           protein S1; Provisional.
          Length = 863

 Score = 27.0 bits (59), Expect = 4.1
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 34  GQFLVMPISWSRMHLIEIPSSLVGVSSQVY 63
           G    +PIS S    ++ P SL+G++S+ Y
Sbjct: 423 GMMAFLPISQSDCQKVDAPESLIGLTSKFY 452


>gnl|CDD|130833 TIGR01772, MDH_euk_gproteo, malate dehydrogenase, NAD-dependent.
           Although malate dehydrogenases have in some cases been
           mistaken for lactate dehydrogenases due to the
           similarity of these two substrates and the apparent ease
           with which evolution can toggle these activities,
           critical residues have been identified which can
           discriminate between the two activities. At the time of
           the creation of this model no hits above the trusted
           cutoff contained critical residues typical of lactate
           dehydrogenases.
          Length = 312

 Score = 26.6 bits (59), Expect = 5.8
 Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 14/70 (20%)

Query: 52  PSSLVGVSS-QVYRAKALVIGILGEELIR-----------KTLVPLISGKEPQLDFSDPT 99
           P+ L GV++  + RA   V  + G++ +            +T++PLIS    ++ F++  
Sbjct: 138 PNKLFGVTTLDIVRANTFVAELKGKDPMEVNVPVIGGHSGETIIPLISQCPGKVLFTEDQ 197

Query: 100 EYIKALINGI 109
             ++ALI+ I
Sbjct: 198 --LEALIHRI 205


>gnl|CDD|184110 PRK13523, PRK13523, NADPH dehydrogenase NamA; Provisional.
          Length = 337

 Score = 25.8 bits (57), Expect = 9.5
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 72  ILGEELIRKTLVPLISGKEPQLDFSDPTEYIKA 104
            +G EL+R    P I+ KE   +   P +Y +A
Sbjct: 303 FIGRELLRNPYFPRIAAKELGFEIEAPKQYERA 335


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.318    0.135    0.408 

Gapped
Lambda     K      H
   0.267   0.0723    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,713,884
Number of extensions: 233707
Number of successful extensions: 407
Number of sequences better than 10.0: 1
Number of HSP's gapped: 407
Number of HSP's successfully gapped: 10
Length of query: 218
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 128
Effective length of database: 4,049,753
Effective search space: 518368384
Effective search space used: 518368384
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 (21.7 bits)
S2: 55 (25.0 bits)