RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780834|ref|YP_003065247.1| DNA primase [Candidatus Liberibacter asiaticus str. psy62] (648 letters) >gnl|CDD|180189 PRK05667, dnaG, DNA primase; Validated. Length = 580 Score = 565 bits (1458), Expect = e-161 Identities = 212/618 (34%), Positives = 315/618 (50%), Gaps = 61/618 (9%) Query: 1 MNYPRDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKG 60 P +FI++L + I ++IG+YV + +Y CPFHDEKTPSF + K Sbjct: 2 GRIPPEFIEELRARVDIVDVIGEYVKLKKAG-----RNYKGLCPFHDEKTPSFTVSPDKQ 56 Query: 61 FYYCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLPVVDPKIEKKEKIQTDLIRL 120 FY+CF C GD + FL G SF+E+V+ LA AG+ LP D +++ + L + Sbjct: 57 FYHCFGCGAGGDVIKFLMEYEGLSFVEAVEELADRAGIELPYED---QQERSRRQRLYEI 113 Query: 121 IEVATDFFHHSL-----KNARDKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQ 175 +E+A F+ L AR YL +RG+ IE F +GYAPD +L +HL Sbjct: 114 MELAAKFYQQQLRTPEGAEARQ-----YLYKRGLSEETIERFGIGYAPDGWDALLKHLGG 168 Query: 176 KGFSEEKIIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLN 235 KGFSE+++ EAGLLI ++ YDRFRNR++FPIR RG+VI FGGR L + KYLN Sbjct: 169 KGFSEKELEEAGLLIKNEDGGGPYDRFRNRIMFPIRDLRGRVIGFGGRVLGDDKP-KYLN 227 Query: 236 SPETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAGVQNVV 295 SPET LFHKG+ LY A +K+I K + +I+VEGYMDV++L QAG+ N V Sbjct: 228 SPETPLFHKGRVLYGLDEA----RKAIAKKKQ------VIVVEGYMDVIALHQAGITNAV 277 Query: 296 SSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSR 355 +SLGTALTE L+LL +L+ ++LCFDGD G +AA +A++L L L G +V L Sbjct: 278 ASLGTALTEEHLKLLRRLTDEVILCFDGDKAGRKAALRALELALPLLKDGRQVRVAFLPD 337 Query: 356 GEDPDSFIRCYGKTAFEKLIVESLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHI 415 G+DPD +R G AF L+ +++PL + L +R + +TP+ RA L I I Sbjct: 338 GKDPDDLVRKEGPEAFRALLEQAIPLSEFLIRRLIPGKDLDTPEGRAALLERAAPLIAKI 397 Query: 416 KDQKLRYYYSQAIRDRLQQLFQKYITEHSGYGRYWKKNARHRDQKGPSQRLMQSSLVKGK 475 D LR Y + + +RL L +Q P + Q Sbjct: 398 PDPTLRDSYRRKLAERLGILDD-----------------AQLEQLVPKAQEPQLK----- 435 Query: 476 LSKKPSLREAALLLTLINHPAILQEQYQELADIRYDNNEL-QKLWSFLFSDFVEQKYFLP 534 +++P E LL L+ HP + +E L + ++ L + L + + Sbjct: 436 -AERPRTAERELLALLLQHPELAEEVRDALDEEDFEGLPLFRALLEAILAQ---PGLTTG 491 Query: 535 EEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFRLLSRQ 594 ++ + L + G EL L+ + E +I + + + AL + +LL + Sbjct: 492 SQLLEHLRDAGLEELAALLESLAVWEEIS----EEDIAALEKELKDALEKLRD-QLLEER 546 Query: 595 KEEIEKQIAQVTAKGEAE 612 EE+ + + G + Sbjct: 547 LEELIAKERLLEGHGLSS 564 >gnl|CDD|162334 TIGR01391, dnaG, DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751). Length = 415 Score = 430 bits (1108), Expect = e-121 Identities = 184/435 (42%), Positives = 254/435 (58%), Gaps = 24/435 (5%) Query: 2 NYPRDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKGF 61 P +FI +L + I ++I +YV ++ N Y CPFH EKTPSF + K F Sbjct: 1 MIPEEFIDELKERVDIVDVISEYVKLKKKGRN-----YVGLCPFHHEKTPSFSVSPEKQF 55 Query: 62 YYCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLPVVDPKIEKKEKIQTD--LIR 119 Y+CF C GD + FL + G SF+E+V+ LA AG+ LP + EKKE+ L Sbjct: 56 YHCFGCGAGGDAIKFLMEIEGISFVEAVEELAKRAGIDLPFEKDQQEKKEQKSKRKKLYE 115 Query: 120 LIEVATDFFHHSLKNARDKRLHY-YLDERGIDSHAIEMFKLGYAPDSRYSLREHL-RQKG 177 L+E+A FF + LK+ + R YL RG+ I+ F+LGYAP++ L + L +KG Sbjct: 116 LLELAAKFFKNQLKHTPENRAALDYLQSRGLSDETIDRFELGYAPNNWDFLFDFLQNKKG 175 Query: 178 FSEEKIIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNSP 237 F E + EAGLL+ +N YDRFRNR++FPI +G+V+ FGGR L E KYLNSP Sbjct: 176 FDLELLAEAGLLVKKENGKY-YDRFRNRIMFPIHDPKGRVVGFGGRAL-GDEKPKYLNSP 233 Query: 238 ETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAGVQNVVSS 297 ET LF K + LY A +K IRK+ +ILVEGYMDV++L QAG++N V+S Sbjct: 234 ETPLFKKSELLYGLHKA----RKEIRKEKE------LILVEGYMDVIALHQAGIKNAVAS 283 Query: 298 LGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSRGE 357 LGTALTE ++LL + + I+LCFDGD G +AA +AI+L+L I V + L G+ Sbjct: 284 LGTALTEEHIKLLKRYADEIILCFDGDKAGRKAALRAIELLLPLGI---NVKVIKLPGGK 340 Query: 358 DPDSFIRCYGKTAFEKLIVESLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKD 417 DPD ++R G A +KL+ S L++ L R N + +TP+E+A+L L I I D Sbjct: 341 DPDEYLRKEGVEALKKLLENSKSLIEFLIARLLSNYNLDTPEEKAKLVEELLPLIKKIPD 400 Query: 418 QKLRYYYSQAIRDRL 432 LR YY Q + L Sbjct: 401 PILRDYYLQKLAQLL 415 >gnl|CDD|149368 pfam08275, Toprim_N, DNA primase catalytic core, N-terminal domain. Length = 128 Score = 164 bits (418), Expect = 6e-41 Identities = 63/129 (48%), Positives = 77/129 (59%), Gaps = 1/129 (0%) Query: 127 FFHHSLKNARDKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQKGFSEEKIIEA 186 F+H LK YL RG+ I+ F LGYAPD +L HL +KGF E ++EA Sbjct: 1 FYHELLKTKEGAAARDYLKSRGLSPETIKRFGLGYAPDGWDNLLNHLEKKGFDLELLLEA 60 Query: 187 GLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNSPETILFHKGK 246 GLL+ ++ YDRFRNR++FPIR G+V+ FGGR L E KYLNSPET LF KGK Sbjct: 61 GLLVKREDGG-YYDRFRNRIMFPIRDESGRVVGFGGRALDDEEPPKYLNSPETPLFKKGK 119 Query: 247 NLYNFFGAL 255 LY A Sbjct: 120 VLYGLDEAK 128 >gnl|CDD|128681 smart00400, ZnF_CHCC, zinc finger. Length = 55 Score = 85.4 bits (212), Expect = 4e-17 Identities = 26/55 (47%), Positives = 35/55 (63%) Query: 39 YWACCPFHDEKTPSFHCNDSKGFYYCFSCHVKGDHLSFLSALLGCSFIESVQRLA 93 Y CPFH EKTPSF + K F++CF C G+ +SFL SF+E+V++LA Sbjct: 1 YKGLCPFHGEKTPSFSVSPDKQFFHCFGCGAGGNVISFLMKYDKLSFVEAVKKLA 55 >gnl|CDD|128769 smart00493, TOPRIM, topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins. Length = 76 Score = 66.5 bits (163), Expect = 2e-11 Identities = 23/74 (31%), Positives = 40/74 (54%), Gaps = 4/74 (5%) Query: 272 SFIILVEGYMDVLSLCQAGV--QNVVSSLGTALTEYQLRLLWKLSPR--IVLCFDGDDPG 327 +I+VEG D ++L +AG NVV+ G L + ++LL +L+ + ++L D D G Sbjct: 1 KVLIIVEGPADAIALEKAGGFGGNVVALGGHLLKKEIIKLLKRLAKKKEVILATDPDREG 60 Query: 328 LRAAYKAIDLVLCH 341 A+K +L+ Sbjct: 61 EAIAWKLAELLKPA 74 >gnl|CDD|129732 TIGR00646, MG010, DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown. Length = 218 Score = 38.4 bits (89), Expect = 0.005 Identities = 41/162 (25%), Positives = 72/162 (44%), Gaps = 23/162 (14%) Query: 171 EHLRQKGFSEEKIIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGES 230 +L+++GF+ + ++ G +Y + L P+ + G +I F R + + Sbjct: 32 NYLKKRGFNLQDFLKVG-------GGLAYLGEKEWLNLPLYNFDGNLIGFLNRKVGFEK- 83 Query: 231 VKYLNSPETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAG 290 ++L P F+K + F L L + NS I LVEG D L+ +AG Sbjct: 84 -EFLYLP----FNKPPSKSEAFLGLKELP------IEDNS---IYLVEGDFDWLAFRKAG 129 Query: 291 VQNVVSSLGTALTEYQLRLL-WKLSPRIVLCFDGDDPGLRAA 331 + N + G +++ Q++ K +I +CFD D G AA Sbjct: 130 ILNCLPLCGLTISDKQMKFFKQKKIEKIFICFDNDFAGKNAA 171 >gnl|CDD|150991 pfam10410, DnaB_bind, DnaB-helicase binding domain of primase. This domain is the C-terminal region three-helical domain of primase. Primases synthesize short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Primases are recruited to single-stranded DNA by helicases, and this domain is the region of the primase which binds DnaB-helicase. It is associated with the Toprim domain (pfam01751) which is the central catalytic core. Length = 59 Score = 34.7 bits (81), Expect = 0.064 Identities = 17/57 (29%), Positives = 25/57 (43%) Query: 381 LVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKDQKLRYYYSQAIRDRLQQLFQ 437 L + L++R E +TP+ RA L I I D LR Y Q + + L + Sbjct: 1 LSEFLFRRLLEGYDLDTPEGRAALLREALPLIAKIPDPVLRELYLQELAELLGISEE 57 >gnl|CDD|177375 PHA02540, 61, DNA primase; Provisional. Length = 337 Score = 34.2 bits (79), Expect = 0.11 Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 205 RLIFPIRSSRGQVIAFGGRTLSKGESVKYL 234 RL+ PI + G++ +F GR L K KY+ Sbjct: 173 RLVIPIFNKDGKIESFQGRALRKDAPQKYI 202 >gnl|CDD|103511 PRK08624, PRK08624, hypothetical protein; Provisional. Length = 373 Score = 33.4 bits (76), Expect = 0.18 Identities = 69/305 (22%), Positives = 104/305 (34%), Gaps = 83/305 (27%) Query: 33 NAVKGDYWACCPFHDEKTPSFHCNDSKGFYY------CFSCHVKGDHLSFLSAL------ 80 N G + + +FHC G + C ++G LSF A+ Sbjct: 43 NDGGGSTKLYY-YIEND--NFHCYTRCGDIFDVFELLCKRLKMEGKALSFSKAIRKITKI 99 Query: 81 LGCSFIESVQRLAAIAGVPLPVVD----PKIEKKEKIQTDLIRLIEVATDFFHHSLKNAR 136 LG S+ + I L ++D K EKKEKIQ L E + F Sbjct: 100 LGLSYFYE-PKQQGIKPSFLKILDWVWTGKKEKKEKIQPQLKSFNENILNQF-------- 150 Query: 137 DKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQKGFSEEKIIEAGLLIDGDNSA 196 K + + GI + +++ + D Sbjct: 151 VKIPNRKWLDEGISEKTQKYWEIKFYLDV------------------------------- 179 Query: 197 TSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGE--SVKY--LNSPETILFH-KGKNLYNF 251 R+I P R G++I GR L K KY + +T H KGK LY Sbjct: 180 -----ISQRIIIPHRDESGELIGIRGRLLDKELVDKNKYFPIYVNDTGYNHPKGKILYGL 234 Query: 252 FGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQA--GVQN-VVSSLGTALTEYQLR 308 + Y+++ +K V I+VE VL G N VV+ G+ ++E Q Sbjct: 235 WQNKKYIKE--KKKV--------IIVESEKSVL-FSDKFYGEGNFVVAICGSNISEVQAE 283 Query: 309 LLWKL 313 L +L Sbjct: 284 KLLRL 288 >gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function. Length = 771 Score = 32.5 bits (74), Expect = 0.37 Identities = 27/172 (15%), Positives = 63/172 (36%), Gaps = 20/172 (11%) Query: 469 SSLVKGKLSKKPSLREAALLLTLINHPAI----LQEQYQELADIRYDNNELQKLWSFLFS 524 S+L L L++ A +L ++ + + E A + +D L + L Sbjct: 421 SALAISILEY--LLKQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLSPTYKLLKG 478 Query: 525 D-------FVEQKYFLPEEIHQRLCER--GFGE----LLKQLDRQVRDAGLWSATTEANI 571 + Q+Y +P I ++ F E L+++L ++ + E + Sbjct: 479 IPGESYAFEIAQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLSALEKELEQKNEHLEKLL 538 Query: 572 VDVRQGYQQALALYKRFRLLSRQ-KEEIEKQIAQVTAKGEAEKTAILISILH 622 + + ++ + + R K E+EK+ + + E +I+ + Sbjct: 539 KEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESIIRELKE 590 >gnl|CDD|179719 PRK04031, PRK04031, DNA primase; Provisional. Length = 408 Score = 32.1 bits (74), Expect = 0.52 Identities = 13/27 (48%), Positives = 20/27 (74%) Query: 274 IILVEGYMDVLSLCQAGVQNVVSSLGT 300 II+VEG DVL+L + G++N ++ GT Sbjct: 172 IIVVEGRADVLNLLRYGIKNAIAVEGT 198 >gnl|CDD|132284 TIGR03240, arg_catab_astD, succinylglutamic semialdehyde dehydrogenase. Members of this protein family are succinylglutamic semialdehyde dehydrogenase (EC 1.2.1.71), the fourth enzyme in the arginine succinyltransferase (AST) pathway for arginine catabolism. Length = 484 Score = 30.8 bits (70), Expect = 1.2 Identities = 24/100 (24%), Positives = 37/100 (37%), Gaps = 18/100 (18%) Query: 545 GFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQA---------------LALYKRFR 589 G GE + LW A+ V A +A+ +RF Sbjct: 10 GQGESFSSTN-PATQEVLWQGAA-ASAAQVEAAVAAARAAFPAWARLSLEERIAVVQRFA 67 Query: 590 -LLSRQKEEIEKQIAQVTAKGEAEKTAILISILHEVHIQI 628 LL +KE + + IA+ T K E + S++ +V I I Sbjct: 68 ALLEERKEALARVIARETGKPLWETRTEVASMIGKVAISI 107 >gnl|CDD|148601 pfam07087, DUF1353, Protein of unknown function (DUF1353). This family consists of several hypothetical bacterial proteins of around 100 residues in length. The function of this family is unknown. Length = 92 Score = 29.5 bits (67), Expect = 2.9 Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 2/43 (4%) Query: 518 LWSFLFSDFVEQKYFLPEEIHQRLCERGFGELLKQLDRQVRDA 560 LWS F + KY IH L RG G K+ D +A Sbjct: 34 LWSI-IPPF-DGKYLKAAVIHDYLYSRGIGRTRKEADAIFYEA 74 >gnl|CDD|184625 PRK14328, PRK14328, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional. Length = 439 Score = 29.2 bits (66), Expect = 3.6 Identities = 11/30 (36%), Positives = 18/30 (60%) Query: 585 YKRFRLLSRQKEEIEKQIAQVTAKGEAEKT 614 Y R R SR+ E+I +I ++ ++G E T Sbjct: 168 YVRGRERSRKPEDIIAEIKELVSEGYKEVT 197 >gnl|CDD|178531 PLN02945, PLN02945, nicotinamide-nucleotide adenylyltransferase/nicotinate-nucleotide adenylyltransferase. Length = 236 Score = 28.9 bits (65), Expect = 4.0 Identities = 24/94 (25%), Positives = 37/94 (39%), Gaps = 16/94 (17%) Query: 163 PDSRYSLREH----LRQKGFSEEKIIEAG--LLIDGDNSATSYDRFRNRLIFPIRSSRGQ 216 R R++ +R++G EK++ L + N D N I S+R + Sbjct: 153 DQVRTICRDYGVVCIRREGQDVEKLVSQDEILNENRGNILVVDDLVPNS----ISSTRVR 208 Query: 217 VIAFGGRTLSKGESVKYLNSPETILFHKGKNLYN 250 +S+G SVKYL I + K LY Sbjct: 209 ------ECISRGLSVKYLTPDGVIDYIKEHGLYM 236 >gnl|CDD|162972 TIGR02680, TIGR02680, conserved hypothetical protein TIGR02680. Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length. Length = 1353 Score = 29.0 bits (65), Expect = 4.2 Identities = 45/212 (21%), Positives = 75/212 (35%), Gaps = 21/212 (9%) Query: 418 QKLRYYYSQAIRDRLQQLFQKYITEHSGYGRYWKKNARHRDQKGPSQRLMQSSLVKGKLS 477 Q+ R Y +R R + + + Y + + R RD+ ++ + + + Sbjct: 254 QRYRRYARTMLRRRAT----RLRSAQTQYDQLSRDLGRARDELETAREEERELDARTEAL 309 Query: 478 KKPSLREAALLLTLINHPAILQEQYQELADIRYDNNELQKLWSFLFSDFVEQKYFLPEEI 537 ++ + L L PA + +EL R D LQ + + + EE Sbjct: 310 EREADALRTRLEALQGSPAY--QDAEELERARADAEALQAAAADARQA-IREAESRLEEE 366 Query: 538 HQRL---------CERGFGELLKQLDRQVRDAGLWSA-TTEANIVDVRQGYQQALALYKR 587 +RL ER +QL R AGL A T E + Q Q+ AL R Sbjct: 367 RRRLDEEAGRLDDAERELRAAREQLARAAERAGLSPAHTAEPDAALAAQELQELGALDAR 426 Query: 588 FRLLSRQKEEIEKQIA----QVTAKGEAEKTA 615 + R + +Q+A + AE T Sbjct: 427 RQDADRVIAQRSEQVALLRRRDDVADRAEATH 458 >gnl|CDD|165993 PLN02352, PLN02352, phospholipase D epsilon. Length = 758 Score = 28.7 bits (64), Expect = 4.6 Identities = 12/23 (52%), Positives = 15/23 (65%) Query: 619 SILHEVHIQIHQIESQEAMIEGF 641 SIL HIQ HQI ++ + I GF Sbjct: 85 SILGRFHIQAHQIVTEASFINGF 107 >gnl|CDD|152291 pfam11855, DUF3375, Protein of unknown function (DUF3375). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 479 to 499 amino acids in length. Length = 471 Score = 28.5 bits (64), Expect = 5.4 Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 9/79 (11%) Query: 544 RGFGELLKQLDRQVRDA-GLWSATTEANIVDVRQGY------QQALALYKRFRLL--SRQ 594 R + +QLDRQ+R+ W + + ++ GY Q + + L + Sbjct: 192 RRVEDNFRQLDRQLRERIIDWDGSRGEVLEEIFDGYDAIADSDQGRSFRAFWDFLLDPER 251 Query: 595 KEEIEKQIAQVTAKGEAEK 613 +EE+++ + V A+ A+ Sbjct: 252 QEELDELLRAVLARPPAQG 270 >gnl|CDD|184265 PRK13709, PRK13709, conjugal transfer nickase/helicase TraI; Provisional. Length = 1747 Score = 28.6 bits (64), Expect = 5.6 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 14/73 (19%) Query: 545 GFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFRLLSRQKEEIEKQIAQ 604 F EL +++ Q++ L VDV +GY L L+SR E EK I + Sbjct: 899 SFTELGGEINAQIKRGDLLY-------VDVAKGYGTGL-------LVSRASYEAEKSILR 944 Query: 605 VTAKGEAEKTAIL 617 +G+ T ++ Sbjct: 945 HILEGKEAVTPLM 957 >gnl|CDD|135648 PRK05898, dnaE, DNA polymerase III DnaE; Validated. Length = 971 Score = 28.3 bits (63), Expect = 6.0 Identities = 13/48 (27%), Positives = 23/48 (47%) Query: 529 QKYFLPEEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQ 576 Q + EI ++LC G + L D QV+ + E +I++ +Q Sbjct: 222 QNSIISSEILKQLCISGLNKRLNANDGQVKKIYVKRLKYELDIINEKQ 269 >gnl|CDD|116857 pfam08273, Prim_Zn_Ribbon, Zinc-binding domain of primase-helicase. Length = 39 Score = 28.2 bits (63), Expect = 6.2 Identities = 8/17 (47%), Positives = 11/17 (64%) Query: 56 NDSKGFYYCFSCHVKGD 72 D +G ++CFSC GD Sbjct: 21 KDGRGTWFCFSCGYAGD 37 >gnl|CDD|148586 pfam07061, Swi5, Swi5. Swi5 is involved in meiotic DNA repair synthesis and meiotic joint molecule formation. It is known to interact with Swi2, Rhp51 and Swi6. Length = 81 Score = 28.0 bits (63), Expect = 6.9 Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%) Query: 580 QALALYKRFRLLSRQKEEIEKQIAQVTAKGEAEKT-AILISILHE 623 + +L L Q +++E IA++ A+ + EKT I +LHE Sbjct: 1 KLSSLLASIAELKAQADQLESLIAELKAEQDPEKTVKRHIRLLHE 45 >gnl|CDD|184853 PRK14851, PRK14851, hypothetical protein; Provisional. Length = 679 Score = 28.3 bits (63), Expect = 7.0 Identities = 22/96 (22%), Positives = 38/96 (39%), Gaps = 9/96 (9%) Query: 376 VESLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKDQKLRYYYSQAIRDRLQQL 435 PL D +WKR T + ++ + LK I I L + RD+L++L Sbjct: 422 HTKDPLADHIWKRCTNRKPYSKRPLPEWVLNDLKTRIRSIPGAHLHFITG---RDQLRKL 478 Query: 436 FQ------KYITEHSGYGRYWKKNARHRDQKGPSQR 465 + + TEH G ++ R ++ +R Sbjct: 479 AKVIYLADRIRTEHQGLHEHFTSMIRFNMKEALQKR 514 >gnl|CDD|172030 PRK13397, PRK13397, 3-deoxy-7-phosphoheptulonate synthase; Provisional. Length = 250 Score = 28.1 bits (62), Expect = 7.7 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 3/53 (5%) Query: 217 VIAFGGRTLSKGESVKYLNSPET-ILFHKG--KNLYNFFGALNYLQKSIRKDV 266 VI G R + E +K L+ + ILF +G + + GAL+YLQ + + ++ Sbjct: 101 VIQVGARNMQNFEFLKTLSHIDKPILFKRGLMATIEEYLGALSYLQDTGKSNI 153 >gnl|CDD|183751 PRK12794, flaF, flagellar biosynthesis regulatory protein FlaF; Reviewed. Length = 122 Score = 28.0 bits (63), Expect = 8.6 Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 3/39 (7%) Query: 503 QELADIRYDNNELQKLWSFLFSDFVEQKYFLPEEIHQRL 541 LA+ + N +KLWS SD + LP E+ R+ Sbjct: 45 AALAEALHFN---RKLWSIFASDVADPDNPLPIELRARI 80 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 0.322 0.139 0.413 Gapped Lambda K H 0.267 0.0678 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 10,858,693 Number of extensions: 727589 Number of successful extensions: 1637 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1618 Number of HSP's successfully gapped: 40 Length of query: 648 Length of database: 5,994,473 Length adjustment: 100 Effective length of query: 548 Effective length of database: 3,833,673 Effective search space: 2100852804 Effective search space used: 2100852804 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 (21.9 bits) S2: 60 (27.0 bits)