RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780750|ref|YP_003065163.1| DNA mismatch repair protein [Candidatus Liberibacter asiaticus str. psy62] (920 letters) >gnl|CDD|180056 PRK05399, PRK05399, DNA mismatch repair protein MutS; Provisional. Length = 854 Score = 1095 bits (2836), Expect = 0.0 Identities = 366/880 (41%), Positives = 535/880 (60%), Gaps = 32/880 (3%) Query: 20 ENLKSSTPMMRQYIEIKSINPDSLVFYRMGDFYELFFDDALLASRCLGITLTKRGKHLGK 79 ++ TPMM+QY+EIK+ PD+L+F+RMGDFYELFF+DA ASR L ITLTKRGK G+ Sbjct: 3 MDMSKLTPMMQQYLEIKAQYPDALLFFRMGDFYELFFEDAKKASRLLDITLTKRGKSAGE 62 Query: 80 DIPMCGVPVHTANHYIQKLIKIGHRIAICEQIESPLEAKKRGNKSLVRRNVVRLVTPGTL 139 IPM GVP H A Y+ KL+K G+++AICEQ+E P AK V+R VVR+VTPGT+ Sbjct: 63 PIPMAGVPYHAAEGYLAKLVKKGYKVAICEQVEDPATAK-----GPVKREVVRIVTPGTV 117 Query: 140 TEDQLLSPTDSNYLMAVARIRTEWAIAWIDISTGIFKISTSNHDRLISDIMRIDPREIIF 199 T++ LL +NYL A+A+ + +A++D+STG F+++ + + L++++ R++P EI+ Sbjct: 118 TDEALLDEKQNNYLAAIAQDGGGYGLAYLDLSTGEFRVTELDEEELLAELARLNPAEILV 177 Query: 200 SEKELSHAEYKSLFETLGNVAVAQPNVFFDHSISESRIADYYNITTVDTFGSFSQVEKTA 259 E + L +P FD +E R+ + + + ++D FG + A Sbjct: 178 PEDF-----SEDELLLLRRGLRRRPPWEFDLDTAEKRLLEQFGVASLDGFGVDLPLAIRA 232 Query: 260 AAAAISYIKKTQMVNKPTIGYPEREDIQSTLFIDSAARSNLEILRTLSGSREQSLLKTID 319 A A + Y+K+TQ + P + P+R + L +D+A R NLE+ L G R+ SLL +D Sbjct: 233 AGALLQYLKETQKRSLPHLRSPKRYEESDYLILDAATRRNLELTENLRGGRKNSLLSVLD 292 Query: 320 YSITGAGGRLFAERIASPLTDSTKINTRLDSINFFIQNPILINPIQKILKSSPDVPRSLS 379 ++T GGRL + PL D I RLD++ +++P+L ++++LK D+ R LS Sbjct: 293 RTVTAMGGRLLRRWLHRPLRDREAIEARLDAVEELLEDPLLREDLRELLKGVYDLERLLS 352 Query: 380 RLKIGRGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAVEKLKKLPQSLEKTLSSML 439 R+ +GR P+D+A +RD + + + L + D L E+L L + L L + Sbjct: 353 RIALGRANPRDLAALRDSLEALPELKELLAELD-SPLLAELAEQLDPLEE-LADLLERAI 410 Query: 440 SDDLPTFKRDGGFLRDGADASLDETRSLRDQSKRIIASLQLKYAEETKIKNLKIKHNNNL 499 ++ P RDGG + DG DA LDE R+L D K +A L+ + E T I +LK+ +N Sbjct: 411 VEEPPLLIRDGGVIADGYDAELDELRALSDNGKDWLAELEARERERTGISSLKVGYNKVF 470 Query: 500 GYFIEVTSSSASVLKKDLESKDRFIHRQTMSNLTRFTTLELIDLENRITNATNSALLIEL 559 GY+IEVT ++ + +D +I RQT+ N R+ T EL +LE++I +A AL +E Sbjct: 471 GYYIEVTKANLDKVPED------YIRRQTLKNAERYITPELKELEDKILSAEEKALALEY 524 Query: 560 ESFEILSNAIIEQSESLDNASQVIAIIDISIALAILAKEQNYCRPIIDNSTNFIVKDGRH 619 E FE L + E E L ++ +A +D+ +LA +A+E NY RP + +++GRH Sbjct: 525 ELFEELREEVAEHIERLQKLAKALAELDVLASLAEVAEENNYVRPEFTDDPGIDIEEGRH 584 Query: 620 PIVEKTLKQQSSKPFIANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLRQNALIVIMAQM 679 P+VE+ L +PF+ NDCDL +L L+TGPNM GKST++RQ ALIV++AQ+ Sbjct: 585 PVVEQVL---GGEPFVPNDCDLD-----EERRLLLITGPNMAGKSTYMRQVALIVLLAQI 636 Query: 680 GSYVPASYAHIGIVDKLFSRVGSADNLASGRSTFMVEMIETASILNQATNQSFVILDEIG 739 GS+VPA A IGIVD++F+R+G++D+LASGRSTFMVEM ETA+ILN AT +S V+LDEIG Sbjct: 637 GSFVPAESARIGIVDRIFTRIGASDDLASGRSTFMVEMTETANILNNATERSLVLLDEIG 696 Query: 740 RGTATLDGLSIAWATIEYLHETNRCRGLLATHFHELTDLSKSLKRFHNATLQVSDSNEGI 799 RGT+T DGLSIAWA EYLH+ + L ATH+HELT+L + L N + V + I Sbjct: 697 RGTSTYDGLSIAWAVAEYLHDKIGAKTLFATHYHELTELEEKLPGVKNVHVAVKEHGGDI 756 Query: 800 IFLHKVIPGIADHSYGIQVGKLAGLPNTVISRAYDILKTFEKLYHHNQKDMRLYYPEIQT 859 +FLHKV+PG AD SYGI V KLAGLP +VI RA +IL E + + Sbjct: 757 VFLHKVVPGAADKSYGIHVAKLAGLPASVIKRAREILAQLESASEKAKAA-----SAEED 811 Query: 860 KESKNNLSKNDKLFVEKIKCLNLDEMSPLTALKTLYAVKA 899 + S + L +E +K L+ D ++P AL LY +K Sbjct: 812 QLSLFAEPEESPL-LEALKALDPDNLTPREALNLLYELKK 850 >gnl|CDD|162188 TIGR01070, mutS1, DNA mismatch repair protein MutS. Length = 840 Score = 678 bits (1752), Expect = 0.0 Identities = 312/874 (35%), Positives = 498/874 (56%), Gaps = 37/874 (4%) Query: 26 TPMMRQYIEIKSINPDSLVFYRMGDFYELFFDDALLASRCLGITLTKRGKHLGKDIPMCG 85 TPMM+QY+++K+ +PD+L+F+RMGDFYELF++DA A++ L I+LT RG+ + IPM G Sbjct: 2 TPMMQQYLKLKAEHPDALLFFRMGDFYELFYEDAKKAAQLLDISLTSRGQSADEPIPMAG 61 Query: 86 VPVHTANHYIQKLIKIGHRIAICEQIESPLEAKKRGNKSLVRRNVVRLVTPGTLTEDQLL 145 +P H Y++KL+K G +AICEQIE P A K V R VV+L+TPGT++++ LL Sbjct: 62 IPYHAVEAYLEKLVKQGESVAICEQIEDPKTA-----KGPVEREVVQLITPGTVSDEALL 116 Query: 146 SPTDSNYLMAVARIRTEWAIAWIDISTGIFKIST-SNHDRLISDIMRIDPREIIFSEKEL 204 N L A+A+ + +A +D++TG FK++ ++ + L +++ R++P E++ +E +L Sbjct: 117 PERQDNLLAAIAQESNGFGLATLDLTTGEFKVTELADKETLYAELQRLNPAEVLLAE-DL 175 Query: 205 SHAEYKSLFETLGNVAVAQPNVFFDHSISESRIADYYNITTVDTFGSFSQVEKTAAAAAI 264 S E L E + AV F + N + + TAA + Sbjct: 176 SEMEAIELREFRKDTAVMSLEAQF--GTEDLGGLGLRN----------APLGLTAAGCLL 223 Query: 265 SYIKKTQMVNKPTIGYPEREDIQSTLFIDSAARSNLEILRTLSGSREQSLLKTIDYSITG 324 Y K+TQ P + ++Q + +D+A R NLE+ L G ++ +L +D + T Sbjct: 224 QYAKRTQRTALPHLQPVRLYELQDFMQLDAATRRNLELTENLRGGKQNTLFSVLDETKTA 283 Query: 325 AGGRLFAERIASPLTDSTKINTRLDSINFFIQNPILINPIQKILKSSPDVPRSLSRLKIG 384 G RL + PL D + R D++ +++ L ++ +LK D+ R +R+ +G Sbjct: 284 MGSRLLKRWLHRPLRDREVLEARQDTVEVLLRHFFLREGLRPLLKEVGDLERLAARVALG 343 Query: 385 RGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAVEKLKKLPQSLEKTLSSMLSDDLP 444 P+D+A +R + + L L+ L+ ++ + L + L + L ++ P Sbjct: 344 NARPRDLARLRTSLEQ-LPELRALLEELEGPTLQALAAQIDDFSE-LLELLEAALIENPP 401 Query: 445 TFKRDGGFLRDGADASLDETRSLRDQSKRIIASLQLKYAEETKIKNLKIKHNNNLGYFIE 504 RDGG +R+G D LDE R+ + +A L+ + E T I LK+ +N GY+IE Sbjct: 402 LVVRDGGLIREGYDEELDELRAASREGTDYLARLEARERERTGIPTLKVGYNAVFGYYIE 461 Query: 505 VTSSSASVLKKDLESKDRFIHRQTMSNLTRFTTLELIDLENRITNATNSALLIELESFEI 564 VT ++ + RQT+ N R+ T EL + E+++ A L +E E FE Sbjct: 462 VTRGQLHLVPA------HYRRRQTLKNAERYITPELKEKEDKVLEAEGKILALEKELFEE 515 Query: 565 LSNAIIEQSESLDNASQVIAIIDISIALAILAKEQNYCRPIIDNSTNFIVKDGRHPIVEK 624 L + + E+L A++ +A +D+ LA +A+ +Y RP + +++GRHP+VE+ Sbjct: 516 LRELLKKYLEALQEAARALAELDVLANLAEVAETLHYTRPRFGDDPQLRIREGRHPVVEQ 575 Query: 625 TLKQQSSKPFIANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLRQNALIVIMAQMGSYVP 684 L+ PF+ ND +++ ++ ++ L+TGPNMGGKST++RQ ALI ++AQ+GS+VP Sbjct: 576 VLRT----PFVPNDLEMA-----HNRRMLLITGPNMGGKSTYMRQTALIALLAQIGSFVP 626 Query: 685 ASYAHIGIVDKLFSRVGSADNLASGRSTFMVEMIETASILNQATNQSFVILDEIGRGTAT 744 A A + + D++F+R+G++D+LASGRSTFMVEM E A+IL+ AT S V+ DEIGRGT+T Sbjct: 627 AESAELPLFDRIFTRIGASDDLASGRSTFMVEMTEAANILHNATENSLVLFDEIGRGTST 686 Query: 745 LDGLSIAWATIEYLHETNRCRGLLATHFHELTDLSKSLKRFHNATLQVSDSNEGIIFLHK 804 DGL++AWA EYLHE R + L ATH+ ELT L +SL N + + N I+FLH+ Sbjct: 687 YDGLALAWAIAEYLHEHIRAKTLFATHYFELTALEESLPGLKNVHVAALEHNGTIVFLHQ 746 Query: 805 VIPGIADHSYGIQVGKLAGLPNTVISRAYDILKTFEKLYHHNQKDMRLYYPEIQTKESKN 864 V+PG A SYG+ V LAGLP VI+RA IL E ++ R + S Sbjct: 747 VLPGPASKSYGLAVAALAGLPKEVIARARQILTQLEARSTESEAPQRKAQTSAPEQISLF 806 Query: 865 NLSKNDKLFVEKIKCLNLDEMSPLTALKTLYAVK 898 + ++ L +E++ L+ D+++PL AL LY +K Sbjct: 807 DEAETHPL-LEELAKLDPDDLTPLQALNLLYELK 839 >gnl|CDD|128807 smart00534, MUTSac, ATPase domain of DNA mismatch repair MUTS family. Length = 185 Score = 285 bits (733), Expect = 3e-77 Identities = 101/185 (54%), Positives = 133/185 (71%) Query: 652 LWLLTGPNMGGKSTFLRQNALIVIMAQMGSYVPASYAHIGIVDKLFSRVGSADNLASGRS 711 + ++TGPNMGGKST+LRQ LIVIMAQ+GS+VPA A + + D++F+R+G++D+LA G S Sbjct: 1 VVIITGPNMGGKSTYLRQVGLIVIMAQIGSFVPAESAELPVFDRIFTRIGASDSLAQGLS 60 Query: 712 TFMVEMIETASILNQATNQSFVILDEIGRGTATLDGLSIAWATIEYLHETNRCRGLLATH 771 TFMVEM ETA+IL AT S V+LDE+GRGT+T DG++IA A +EYL E L ATH Sbjct: 61 TFMVEMKETANILKNATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLEKIGALTLFATH 120 Query: 772 FHELTDLSKSLKRFHNATLQVSDSNEGIIFLHKVIPGIADHSYGIQVGKLAGLPNTVISR 831 +HELT L+ N + + E + FL+K+ PG+A SYGI+V KLAGLP VI R Sbjct: 121 YHELTKLADEHPGVRNLHMSADEETENLTFLYKLTPGVAGKSYGIEVAKLAGLPKEVIER 180 Query: 832 AYDIL 836 A +IL Sbjct: 181 AKEIL 185 >gnl|CDD|128806 smart00533, MUTSd, DNA-binding domain of DNA mismatch repair MUTS family. Length = 308 Score = 223 bits (570), Expect = 2e-58 Identities = 108/315 (34%), Positives = 168/315 (53%), Gaps = 9/315 (2%) Query: 311 EQSLLKTIDYSITGAGGRLFAERIASPLTDSTKINTRLDSINFFIQNPILINPIQKILKS 370 + SL + ++++ T G RL + PL D +IN RLD++ ++NP L ++++LK Sbjct: 1 KGSLFELLNHTKTPMGKRLLRRWLLQPLLDLKEINERLDAVEELVENPELRQKLRQLLKR 60 Query: 371 SPDVPRSLSRLKIGRGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAV-EKLKKLPQ 429 PD+ R LSR++ GR P+D+ + D + I L D P L G + + + + Sbjct: 61 IPDLERLLSRIERGRASPRDLLRLYDSLEGLKEIRQLLESLDGP--LLGLLLKVILEPLL 118 Query: 430 SLEKTLSSMLSDDLPTFKRDGGFLRDGADASLDETRSLRDQSKRIIASLQLKYAEETKIK 489 L + L +L+DD P DGG ++DG D LDE R ++ + + L K EE I Sbjct: 119 ELLELLLELLNDDDPLEVNDGGLIKDGFDPELDELREKLEELEEELEELLKKEREELGID 178 Query: 490 NLKIKHNNNLGYFIEVTSSSASVLKKDLESKDRFIHRQTMSNLTRFTTLELIDLENRITN 549 +LK+ +N GY+IEVT S A + KD FI R ++ N RFTT EL +LEN + Sbjct: 179 SLKLGYNKVHGYYIEVTKSEAKKVPKD------FIRRSSLKNTERFTTPELKELENELLE 232 Query: 550 ATNSALLIELESFEILSNAIIEQSESLDNASQVIAIIDISIALAILAKEQNYCRPIIDNS 609 A +E E L ++E E L ++ +A +D+ ++LA LA E NY RP +S Sbjct: 233 AKEEIERLEKEILRELLEKVLEYLEELRALAEALAELDVLLSLATLAAEGNYVRPEFVDS 292 Query: 610 TNFIVKDGRHPIVEK 624 +K+GRHP++E Sbjct: 293 GELEIKNGRHPVLEL 307 >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 = 129 bits (327), Expect = 3e-30 Identities = 111/467 (23%), Positives = 202/467 (43%), Gaps = 43/467 (9%) Query: 415 EELRGAVEKLKKLPQSLEKTLSSMLSDDLPTFKRDGGFLRDGADASLDETR----SLRDQ 470 E L L LP LE + + + DD G ++DGA LD R +L ++ Sbjct: 111 EILFHLRLNLITLPP-LENDIIACIDDD--------GKVKDGASEELDAIRESLKALEEE 161 Query: 471 SKRIIASLQLKYAEETKIKNLKIKHNNNLGYFIEVTSSSASVLKKDLESKDRFIHRQTMS 530 + + + ++ E K + I N Y + + S +K +H + S Sbjct: 162 VVKRLHKI-IRSKELAKYLSDTIVTIRNGRYVLPLKSGFKGKIKG-------IVHDTSSS 213 Query: 531 NLTRFTTLE-LIDLENRITNATNSALLIELESFEILSNAIIEQSESLDNASQVIAIIDIS 589 T + + ++ L N++ N + LS + E L + +D Sbjct: 214 GETFYIEPQAIVKLNNKLAQLKNEEECEIEKILRTLSEKVQEYLLELKFLFKEFDFLDSL 273 Query: 590 IALAILAKEQNYCRPIIDNSTNFIVKDGRHPIVEKTLKQQSSKPFIANDCDLSCPNDKNS 649 A A AK P+ + I+++ RHP+ LK+ PF N K Sbjct: 274 QARARYAKAVKGEFPMPSFTGKIILENARHPL----LKEPKVVPF--------TLNLKFE 321 Query: 650 GKLWLLTGPNMGGKSTFLRQNALIVIMAQMGSYVPAS-YAHIGIVDKLFSRVGSADNLAS 708 ++ +TGPN GGK+ L+ L+ +M Q G +PA+ ++ I +++F+ +G ++ Sbjct: 322 KRVLAITGPNTGGKTVTLKTLGLLALMFQSGIPIPANEHSEIPYFEEIFADIGDEQSIEQ 381 Query: 709 GRSTFMVEMIETASILNQATNQSFVILDEIGRGTATLDGLSIAWATIEYLHETNRCRGLL 768 STF M ++IL++ T S V+ DE+G GT +G ++A + +EYL + N + L+ Sbjct: 382 NLSTFSGHMKNISAILSKTTENSLVLFDELGAGTDPDEGSALAISILEYLLKQN-AQVLI 440 Query: 769 ATHFHELTDLSKSLKRFHNATLQVSDSNEGIIFLHKVIPGIADHSYGIQVGKLAGLPNTV 828 TH+ EL L + + NA++ + E + +K++ GI SY ++ + G+P+ + Sbjct: 441 TTHYKELKALMYNNEGVENASVLFDE--ETLSPTYKLLKGIPGESYAFEIAQRYGIPHFI 498 Query: 829 ISRAYDILKTFEKLYHHNQKDMRLYYPEIQTKESKNNLSKNDKLFVE 875 I +A F + ++ + KE + +KL E Sbjct: 499 IEQAKTFYGEF-----KEEINVLIEKLSALEKELEQKNEHLEKLLKE 540 >gnl|CDD|179009 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed. Length = 782 Score = 99.5 bits (249), Expect = 3e-21 Identities = 86/361 (23%), Positives = 153/361 (42%), Gaps = 57/361 (15%) Query: 449 DGGFLRDGADASLDETR-SLRDQSKRIIASLQ--------LKYAEETKI--KN------L 491 + G ++D A L R LR + RI L+ KY ++T I +N + Sbjct: 141 EEGEVKDSASEKLRGIRRQLRRKKSRIREKLESIIRSKSLQKYLQDTIITIRNDRYVLPV 200 Query: 492 KIKHNNNLGYFIEVTSSSASVLKKDLESKDRFIHRQTMSNLTRFTTLELIDLENRITNAT 551 K ++ + + + SSS + L +I Q+ +++L N I Sbjct: 201 KAEYKHAIKGIVHDQSSSGATL---------YIEPQS-----------VVELNNEIRELR 240 Query: 552 NSALLIELESFEI---LSNAIIEQSESLDNASQVIAIIDISIALAILAKEQNYCRPIIDN 608 N E E I LS + + + L +++ +D A A AK P+ ++ Sbjct: 241 NK---EEQEIERILKELSAKVAKNLDFLKFLNKIFDELDFIFARARYAKALKATFPLFND 297 Query: 609 STNFIVKDGRHPIVEKTLKQQSSKPFIANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLR 668 ++ RHP+++ + D L + ++TGPN GGK+ L+ Sbjct: 298 EGKIDLRQARHPLLDGEKV-------VPKDISLG-----FDKTVLVITGPNTGGKTVTLK 345 Query: 669 QNALIVIMAQMGSYVPASY-AHIGIVDKLFSRVGSADNLASGRSTFMVEMIETASILNQA 727 L +MA+ G +PA+ + I + ++F+ +G ++ STF M IL +A Sbjct: 346 TLGLAALMAKSGLPIPANEPSEIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVRILEKA 405 Query: 728 TNQSFVILDEIGRGTATLDGLSIAWATIEYLHETNRCRGLLATHFHELTDLSKSLKRFHN 787 S V+ DE+G GT +G ++A + +EYL + + + TH+ EL L + + N Sbjct: 406 DKNSLVLFDELGAGTDPDEGAALAISILEYLRKRG-AKIIATTHYKELKALMYNREGVEN 464 Query: 788 A 788 A Sbjct: 465 A 465 >gnl|CDD|184232 PRK13675, PRK13675, GTP cyclohydrolase; Provisional. Length = 308 Score = 32.6 bits (75), Expect = 0.54 Identities = 15/73 (20%), Positives = 34/73 (46%), Gaps = 3/73 (4%) Query: 370 SSPDVPRSLSRLKIGRGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAVEKLKKLPQ 429 S PD+ L+R+ + K + + R G R + I + DLP + +G + + + Sbjct: 10 SEPDIKIGLTRVGV-TNVKKLVKIKRKGKRPIVLIPTFEVFVDLPSDRKGI--HMSRNVE 66 Query: 430 SLEKTLSSMLSDD 442 +++ L + ++ Sbjct: 67 VIDEVLEEAVEEE 79 >gnl|CDD|130041 TIGR00968, 3a0106s01, sulfate ABC transporter, ATP-binding protein. Length = 237 Score = 32.1 bits (73), Expect = 0.77 Identities = 28/84 (33%), Positives = 36/84 (42%), Gaps = 15/84 (17%) Query: 637 NDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLRQNA--------LIVIMAQMGSYVPASYA 688 +D +L P G L L GP+ GKST LR A I + Q + V A Sbjct: 17 DDVNLEVPT----GSLVALLGPSGSGKSTLLRIIAGLEQPDSGRIRLNGQDATRVHARDR 72 Query: 689 HIGIVDK---LFSRVGSADNLASG 709 IG V + LF + DN+A G Sbjct: 73 KIGFVFQHYALFKHLTVRDNIAFG 96 >gnl|CDD|162690 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine methyltransferase. S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase. Length = 1178 Score = 30.9 bits (70), Expect = 1.5 Identities = 45/169 (26%), Positives = 62/169 (36%), Gaps = 48/169 (28%) Query: 338 LTDSTKIN-TRLDSINFFIQNPILINPIQKILKSSPDVPRS--LSRLKIG-RGEPKDIAV 393 LT +T I R +INF I I+ I + PD S +S + RG P Sbjct: 513 LTIATGIEEHRRYAINF-------IEAIRWIKEELPDAKISGGVSNVSFSFRGNPAAREA 565 Query: 394 ---------IRDGIRSGI-NILNLFLKNDLPEELRGAV------------EKLKKLPQSL 431 IR G+ GI N + +D+ ELR V E L +L Q Sbjct: 566 MHSVFLYHAIRAGMDMGIVNAGKILPYDDIDPELRQVVEDLILNRRREATEPLLELAQLY 625 Query: 432 EKTLSSMLSDD-------LPTFKR------DGGFLRDGADASLDETRSL 467 E T + + LP +R G R+G + L+E R L Sbjct: 626 EGTTTKSSKEAQQAEWRNLPVEERLEYALVKG--EREGIEEDLEEARKL 672 >gnl|CDD|163585 TIGR03873, F420-0_ABC_ATP, proposed F420-0 ABC transporter, ATP-binding protein. This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter. Length = 256 Score = 30.6 bits (69), Expect = 1.8 Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 4/34 (11%) Query: 635 IANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLR 668 I + D++ P G L L GPN GKST LR Sbjct: 16 IVDGVDVTAP----PGSLTGLLGPNGSGKSTLLR 45 >gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit; Provisional. Length = 255 Score = 30.8 bits (70), Expect = 1.8 Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 4/34 (11%) Query: 635 IANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLR 668 I ND LS P +GK+ L GPN GKST L+ Sbjct: 17 ILNDLSLSLP----TGKITALIGPNGCGKSTLLK 46 >gnl|CDD|177791 PLN00200, PLN00200, argininosuccinate synthase; Provisional. Length = 404 Score = 30.5 bits (69), Expect = 2.2 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 105 IAICEQIESPLEAKKRGNKSLVRRNVVRLVTPGTLTEDQLLSPTDSNYLMAVA 157 I ++ P+ K+ S RN+ + G + ED P + ++M+V+ Sbjct: 160 IEYAKKHNIPVPVTKKSIYSR-DRNLWHISYEGDILEDPANEPKEDMFMMSVS 211 >gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional. Length = 242 Score = 30.4 bits (68), Expect = 2.4 Identities = 17/57 (29%), Positives = 29/57 (50%) Query: 493 IKHNNNLGYFIEVTSSSASVLKKDLESKDRFIHRQTMSNLTRFTTLELIDLENRITN 549 I++ NN+ Y+I +T + + + K R R M+NL+R T ++ L I N Sbjct: 35 IQNINNITYYINITKINPHLANQFRAWKKRIAGRDYMTNLSRDTGIQQSKLTETIRN 91 >gnl|CDD|184126 PRK13539, PRK13539, cytochrome c biogenesis protein CcmA; Provisional. Length = 207 Score = 29.8 bits (68), Expect = 3.4 Identities = 11/21 (52%), Positives = 15/21 (71%) Query: 648 NSGKLWLLTGPNMGGKSTFLR 668 +G+ +LTGPN GK+T LR Sbjct: 26 AAGEALVLTGPNGSGKTTLLR 46 >gnl|CDD|131779 TIGR02732, zeta_caro_desat, carotene 7,8-desaturase. Carotene 7,8-desaturase, also called zeta-carotene desaturase, catalyzes multiple steps in the pathway from geranylgeranyl-PP to all-trans-lycopene in plants and cyanobacteria. A similar enzyme and pathway is found in the green sulfur bacterium Chlorobium tepidum. Length = 474 Score = 29.4 bits (66), Expect = 3.8 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 4/60 (6%) Query: 278 IGYPEREDIQS----TLFIDSAARSNLEILRTLSGSREQSLLKTIDYSITGAGGRLFAER 333 +G+ + E+I + T+F+ AA++ LR L GS ++ L K I I GG+ Sbjct: 181 LGFIDCENISARCMLTIFMLFAAKTEASKLRMLKGSPDKYLTKPILEYIEARGGKFHLRH 240 >gnl|CDD|184427 PRK13969, PRK13969, proline racemase; Provisional. Length = 334 Score = 29.1 bits (65), Expect = 5.2 Identities = 33/132 (25%), Positives = 51/132 (38%), Gaps = 25/132 (18%) Query: 166 AWIDISTGIFKISTSNHDRLISDIMRIDPREIIFSEKELSHAEYKSLFETLGNVAVAQPN 225 A +D KIS +N +L M+I R + + E+ H E + V + + Sbjct: 176 AIVDAEQLGIKISPANSQKLNDLGMKI--RHAVNEQIEIKHPV----LEHIKTVDLVE-- 227 Query: 226 VFFDHSISESRIADYYNITTVDTFGSFSQVEK------TAAAAAISYIKKTQMVNKPTIG 279 +D + ADY N+ FG QV++ T+A A Y K V + + Sbjct: 228 -IYDEAKHPD--ADYKNVV---IFGQ-GQVDRSPCGTGTSAKMATLYAKGKLKVGEEFV- 279 Query: 280 YPEREDIQSTLF 291 E I T F Sbjct: 280 ---YESIIGTKF 288 >gnl|CDD|184133 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional. Length = 258 Score = 29.0 bits (66), Expect = 5.4 Identities = 10/21 (47%), Positives = 13/21 (61%) Query: 648 NSGKLWLLTGPNMGGKSTFLR 668 G++ + GPN GKST LR Sbjct: 26 RPGEVVAILGPNGAGKSTLLR 46 >gnl|CDD|178105 PLN02487, PLN02487, zeta-carotene desaturase. Length = 569 Score = 28.6 bits (64), Expect = 7.2 Identities = 15/41 (36%), Positives = 20/41 (48%) Query: 289 TLFIDSAARSNLEILRTLSGSREQSLLKTIDYSITGAGGRL 329 T+F A ++ +LR L GS + L I IT GGR Sbjct: 272 TIFSLFATKTEASLLRMLKGSPDVRLSGPIAKYITDRGGRF 312 >gnl|CDD|162832 TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymerase, subunit A''. This family consists of the archaeal A'' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein. Length = 367 Score = 28.5 bits (64), Expect = 7.7 Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 15/108 (13%) Query: 325 AGGRLFAERIASPLTDSTKINTRLDSINF-FIQNPILINPIQKILKSS----PDVPRSLS 379 R AE +A + ++TK+ I+ ++I ++ LK DV +++ Sbjct: 108 EKDREKAEEVAKKI-EATKLEDVAKDISIDLADMTVIIELDEEQLKERGITVDDVEKAIK 166 Query: 380 RLKIGRGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAVEKLKKL 427 + K+G VI + N + + +ELR EK+K L Sbjct: 167 KAKLG-------KVIEIDMDG--NTITIKPPKPSLKELRKLKEKIKNL 205 >gnl|CDD|149697 pfam08719, DUF1768, Domain of unknown function (DUF1768). This is a domain of unknown function. It is alpha helical in structure. The GO annotation for this protein suggests it is involved in nematode larval development and has a positive regulation on growth rate. Length = 148 Score = 28.3 bits (64), Expect = 8.4 Identities = 20/48 (41%), Positives = 22/48 (45%), Gaps = 6/48 (12%) Query: 85 GVPVHTANHYIQ--KLIKIGHRIAICEQI---ESPLEAKKRGNKSLVR 127 GV T HY Q K G R I +I +SP EAKK G K V Sbjct: 25 GVTFPTVEHYFQAQKFRLFGDR-EIAAKILAAKSPAEAKKLGRKRKVP 71 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 0.317 0.133 0.371 Gapped Lambda K H 0.267 0.0636 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 14,559,883 Number of extensions: 957313 Number of successful extensions: 2062 Number of sequences better than 10.0: 1 Number of HSP's gapped: 2036 Number of HSP's successfully gapped: 33 Length of query: 920 Length of database: 5,994,473 Length adjustment: 102 Effective length of query: 818 Effective length of database: 3,790,457 Effective search space: 3100593826 Effective search space used: 3100593826 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 62 (27.9 bits)