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)