RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781215|ref|YP_003065628.1| putative phage terminase, large subunit [Candidatus Liberibacter asiaticus str. psy62] (511 letters) >gnl|CDD|162521 TIGR01763, MalateDH_bact, malate dehydrogenase, NAD-dependent. The annotation of Botryococcus braunii as lactate dehydrogenase appears top be in error. This was initially annotated as MDH by Swiss-Prot and then changed. The rationale for either of these annotations is not traceable. Length = 305 Score = 31.0 bits (70), Expect = 0.81 Identities = 29/109 (26%), Positives = 48/109 (44%), Gaps = 15/109 (13%) Query: 323 DIAEEGGDNTVVV---LRRGPVIEHLFDWSKTDLRTTNNKI----SGLVEKYRPDAIIID 375 + A+ + VV+ L R P + S+ DL + N I +G + ++ P+ II+ Sbjct: 63 NYADTANSDIVVITAGLPRKPGM------SREDLLSMNAGIVREVTGRIMEHSPNPIIVV 116 Query: 376 ANN-TGARTCDYLEMLGYHVYRVLGQKRAVDLEFCRNR-RTELHVKMAD 422 +N A T + G+ RV+GQ +D R EL V + D Sbjct: 117 VSNPLDAMTYVAWQKSGFPKERVIGQAGVLDSARFRTFIAMELGVSVQD 165 >gnl|CDD|178225 PLN02616, PLN02616, tetrahydrofolate dehydrogenase/cyclohydrolase, putative. Length = 364 Score = 30.4 bits (68), Expect = 1.2 Identities = 23/63 (36%), Positives = 31/63 (49%), Gaps = 5/63 (7%) Query: 262 DPSFHEGIIARYGLDSDVTRVEVCGQFP-QQDIDSFIPLNIIEEAL-NREPCPDPYAPLI 319 DPS H GI+ + L S + + ++D+D F PLNI A+ REP P P Sbjct: 159 DPSVH-GILVQLPLPSHMDEQNILNAVSIEKDVDGFHPLNIGRLAMRGREPLFVPCTP-- 215 Query: 320 MGC 322 GC Sbjct: 216 KGC 218 >gnl|CDD|184912 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional. Length = 620 Score = 29.9 bits (68), Expect = 1.7 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 8/44 (18%) Query: 113 LANSETQLKTT----LWAEVSKWLSLLPNKHWFEMQSLSLHPAP 152 L SE QLK + LW EV+ L LLP+ + ++ AP Sbjct: 335 LKGSEYQLKNSTQPRLWLEVT-LLGLLPSA---FISEIANASAP 374 >gnl|CDD|178131 PLN02516, PLN02516, methylenetetrahydrofolate dehydrogenase (NADP+). Length = 299 Score = 29.5 bits (66), Expect = 2.1 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 5/63 (7%) Query: 262 DPSFHEGIIARYGLDSDVTRVEVCGQFP-QQDIDSFIPLNIIEEALN-REPCPDPYAPLI 319 +P H GI+ + L + ++ + ++D+D F PLNI + A+ REP P P Sbjct: 95 NPDVH-GILVQLPLPKHINEEKILNEISLEKDVDGFHPLNIGKLAMKGREPLFLPCTP-- 151 Query: 320 MGC 322 GC Sbjct: 152 KGC 154 >gnl|CDD|164931 PHA02535, P, terminase ATPase subunit; Provisional. Length = 581 Score = 28.9 bits (65), Expect = 3.1 Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 13/77 (16%) Query: 348 WSKTDLRTTNNKISGLVEKYRPDAIIIDANNTGARTCDYLEMLGYHVYRVLGQKR--AVD 405 W D +I L EKY I IDA TG +G VY+++ + AV Sbjct: 440 WRGLDFAEQAAEIRKLTEKYNVTYIGIDA--TG---------IGAGVYQLVKKFFPAAVA 488 Query: 406 LEFCRNRRTELHVKMAD 422 + + +T L +K D Sbjct: 489 INYSPEVKTRLVLKAHD 505 >gnl|CDD|181485 PRK08578, PRK08578, preprotein translocase subunit SecF; Reviewed. Length = 292 Score = 28.7 bits (65), Expect = 3.3 Identities = 9/21 (42%), Positives = 14/21 (66%) Query: 91 TTLNAWLVLWLMSTRPGISVI 111 TT+ A VL+++ST P V+ Sbjct: 236 TTIAAMAVLYIVSTIPQAEVL 256 >gnl|CDD|107088 PHA01818, PHA01818, hypothetical protein. Length = 458 Score = 28.5 bits (63), Expect = 3.9 Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 7/73 (9%) Query: 190 TYGMAIINDEASGTPDVINLGILGFLTERNANRFWIMTSNPRRLSGKFYEIFNKPLDD-- 247 + G+ + G P ++ G L + N NR +T +GK Y KP Sbjct: 165 SPGVYFVMGMTGGMPSGVSSGFLDLSVDANDNRLARLTDAE---TGKEYTSIKKPTGTYT 221 Query: 248 -WKRFQIDTRTVE 259 WK+ + + + +E Sbjct: 222 AWKK-EFEPKDME 233 >gnl|CDD|178166 PLN02551, PLN02551, aspartokinase. Length = 521 Score = 28.5 bits (64), Expect = 4.1 Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 10/34 (29%) Query: 107 GISVICLANSETQLKTTLWAEVSKWLSLLPNKHW 140 GISV +A S EVS L+L P+K W Sbjct: 394 GISVDVVATS----------EVSISLTLDPSKLW 417 >gnl|CDD|184560 PRK14190, PRK14190, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional. Length = 284 Score = 28.4 bits (64), Expect = 4.5 Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 13/84 (15%) Query: 262 DPSFHEGIIARYGLDSDVTRVEVCGQF-PQQDIDSFIPLNIIEEALNREPCPDPYAP--- 317 DP + GI+ + L + V + P++D+D F P+N + + + P P Sbjct: 88 DPRIN-GILVQLPLPKHIDEKAVIERISPEKDVDGFHPIN-VGRMMLGQDTFLPCTPHGI 145 Query: 318 --LI--MGCDIAEEGGDNTVVVLR 337 L+ DI+ G + VVV R Sbjct: 146 LELLKEYNIDIS---GKHVVVVGR 166 >gnl|CDD|163456 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves. Length = 893 Score = 28.1 bits (63), Expect = 5.1 Identities = 14/43 (32%), Positives = 21/43 (48%) Query: 355 TTNNKISGLVEKYRPDAIIIDANNTGARTCDYLEMLGYHVYRV 397 T N + ++ +RP I++A N+ DY LG V RV Sbjct: 491 TLTNLLMQVMAVHRPRLFIVEAGNSFGLLADYAARLGLSVNRV 533 >gnl|CDD|184549 PRK14167, PRK14167, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional. Length = 297 Score = 28.2 bits (63), Expect = 5.7 Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 6/78 (7%) Query: 262 DPSFHEGIIARYGLDSDVTRVEVCGQF-PQQDIDSFIPLNI---IEEALNREPC-PDPYA 316 D H GI+ + + V EV + P +D+D F P N+ + +PC P Sbjct: 87 DEDVH-GILVQMPVPDHVDDREVLRRIDPAKDVDGFHPENVGRLVAGDARFKPCTPHGIQ 145 Query: 317 PLIMGCDIAEEGGDNTVV 334 L+ + EG D VV Sbjct: 146 KLLAAAGVDTEGADVVVV 163 >gnl|CDD|173376 PTZ00082, PTZ00082, L-lactate dehydrogenase; Provisional. Length = 321 Score = 28.1 bits (63), Expect = 5.7 Identities = 11/32 (34%), Positives = 19/32 (59%), Gaps = 4/32 (12%) Query: 347 DWSKTDLRTTNNKI----SGLVEKYRPDAIII 374 +W++ DL N KI + ++KY P+A +I Sbjct: 94 EWNRDDLLPLNAKIMDEVAEGIKKYCPNAFVI 125 >gnl|CDD|181759 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2; Validated. Length = 395 Score = 28.2 bits (64), Expect = 5.9 Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 4/34 (11%) Query: 363 LVEKYRPDAII--IDANNTGARTCDYLEMLGYHV 394 ++E+ +PD I+ I+A T A LE G++V Sbjct: 70 VIEREKPDYIVPEIEAIATDA--LVELEKEGFNV 101 >gnl|CDD|180206 PRK05692, PRK05692, hydroxymethylglutaryl-CoA lyase; Provisional. Length = 287 Score = 27.9 bits (63), Expect = 6.1 Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 1/22 (4%) Query: 181 PDTFVGH-HNTYGMAIINDEAS 201 + GH H+TYG A+ N AS Sbjct: 199 AERLAGHFHDTYGQALANIYAS 220 >gnl|CDD|183474 PRK12362, PRK12362, germination protease; Provisional. Length = 318 Score = 27.5 bits (62), Expect = 9.2 Identities = 11/18 (61%), Positives = 14/18 (77%), Gaps = 1/18 (5%) Query: 360 ISGLVEKYRPDAII-IDA 376 I G+VEK +PD +I IDA Sbjct: 164 IKGVVEKIKPDLVIAIDA 181 >gnl|CDD|163039 TIGR02834, spo_ytxC, putative sporulation protein YtxC. This uncharacterized protein is part of a panel of proteins conserved in all known endospore-forming Firmicutes (low-GC Gram-positive bacteria), including Carboxydothermus hydrogenoformans, and nowhere else. Length = 276 Score = 27.3 bits (61), Expect = 9.4 Identities = 8/29 (27%), Positives = 16/29 (55%) Query: 408 FCRNRRTELHVKMADWLEFASLINHSGLI 436 + NR+ E+ ++ ++LE IN G + Sbjct: 119 YKMNRKNEILDEINEFLEENDEINIEGFV 147 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 0.320 0.137 0.431 Gapped Lambda K H 0.267 0.0710 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 8,687,829 Number of extensions: 564981 Number of successful extensions: 1083 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1082 Number of HSP's successfully gapped: 21 Length of query: 511 Length of database: 5,994,473 Length adjustment: 98 Effective length of query: 413 Effective length of database: 3,876,889 Effective search space: 1601155157 Effective search space used: 1601155157 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 (21.8 bits) S2: 59 (26.5 bits)