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)