HHsearch alignment for GI: 254780502 and conserved domain: TIGR02504

>TIGR02504 NrdJ_Z ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; InterPro: IPR013344 This entry represents a group of adenosylcobalamin (AdoCbl or coenzymeB12)-dependent ribonucleotide reductases (Class II RNRs) related to the characterised species from Pyrococcus , Thermoplasma , Corynebacterium and Deinococcus . RNR's are responsible for the conversion of the ribose sugar of RNA into the deoxyribose sugar of DNA. This is the rate-limiting step of DNA biosynthesis. This model identifies genes in a wide range of deeply branching bacteria. All are structurally related to the class I (non-haem iron-dependent) RNRs. In most species this gene is known as NrdJ, while in mycobacteria it is called NrdZ.; GO: 0000166 nucleotide binding, 0004748 ribonucleoside-diphosphate reductase activity, 0016960 class II ribonucleotide reductase activity, 0031419 cobalamin binding.
Probab=100.00  E-value=0  Score=1326.21  Aligned_cols=608  Identities=32%  Similarity=0.561  Sum_probs=531.4

Q ss_pred             HHHHHHHHHHCCC-CC----EEECHHHHHH--------HHHHHHHCCCCC--C---------------------------
Q ss_conf             9999997621148-92----7538899999--------999654164545--3---------------------------
Q gi|254780502|r  298 LQILYDRYFLHIN-GS----RIEMPQAFFM--------RVAMGLALKETE--K---------------------------  335 (954)
Q Consensus       298 l~tL~~rYllk~~-~~----~~E~pQ~~~m--------rVA~~la~~e~~--~---------------------------  335 (954)
T Consensus         2 ~~~L~~Ry~~~d~~g~~~~~~~~~~~~~~~~~~lRFy~RvA~~~a~~e~~~~~~~~~~~~~~e~~~~~~l~~g~~~~~~~   81 (792)
T TIGR02504         2 VKVLAARYLLKDEDGRKEYGIIESPEDLFRGYALRFYDRVARALAAAEAKYESPVYESKYHFESLVRYELAEGKMKVSFE   81 (792)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHEECCCCCEEEEEE
T ss_conf             12477775320247653567433868883223322347899998766531476666677751243200010272689998


Q ss_pred             ------------HHHHHHHHHHHHHCCCCCCCCHHHH--HHCCCCCCCCCCCCCCCCCHHH--------HHHHHHHHHHH
Q ss_conf             ------------6899999999974330358611222--1002222321102547664135--------89999899999
Q gi|254780502|r  336 ------------EKRAVEFYNLLSSFHFMCSTPTLFN--SGTRHPQLSSCFLTTVPDDLYG--------IFGALQENAML  393 (954)
Q Consensus       336 ------------~~~~~~~Y~~ls~~~~~~atPtl~N--agt~~~qlsSCfl~~v~Dsl~~--------I~~~~~~~a~i  393 (954)
T Consensus        82 ~l~i~~~~~~~~~~~~~~~~~~~~~~~f~p~~p~l~n~~~~~~~~qlsaCFV~pv~D~~~~~~~d~~~~I~~~~~~~a~i  161 (792)
T TIGR02504        82 FLLIEEWFNTGLNPLAERFYDLMVNLDFVPNSPTLMNSAAGTRLGQLSACFVLPVEDSMESETADSRGGIFDALKEAALI  161 (792)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             76304433565145789999998736503578633475677655527877863353575788898678999999999998


Q ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CCCCCEEEEEECCCCCHHHHHHHCCCCCCH
Q ss_conf             8510544410124431112000127876428899999989999974046-667724789835678899997302578730
Q gi|254780502|r  394 AKYSGGLGNDWTPVRGLGAHIHGTNGKSQGVIPFLKVANDTAVAVNQGG-KRKGAVCAYLETWHIDVEEFLDLRKNTGDD  472 (954)
Q Consensus       394 sk~ggGiG~~~s~iR~~Gs~I~g~~G~ssG~v~flk~~n~~~~~v~QgG-~RrGA~~~~l~~wH~Di~eFl~~k~n~G~~  472 (954)
T Consensus       162 ~k~GGG~G~~FS~LRP~G~~v~gt~G~aSGPvSFm~~fD~~~~~vkqGG~~RRGA~Mg~L~v~HPDI~~FI~aK~~~~~~  241 (792)
T TIGR02504       162 FKRGGGVGYNFSRLRPKGDIVRGTGGVASGPVSFMRVFDSATEVVKQGGTKRRGAQMGILDVWHPDIEEFIEAKKKEGKK  241 (792)
T ss_pred             HHCCCCCCCHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHCEEEEEECCCCHHHHHHHCCCCHHH
T ss_conf             73178321004411558866126775005521398998756313331787233041014630752158899831112789


Q ss_pred             H------------------------------------HHHHCCCHHHCCCHHHHHHHHC-------------CCCEEEEE
Q ss_conf             2------------------------------------3320232020348799998521-------------28747871
Q gi|254780502|r  473 R------------------------------------RRTHDMNTANWIPDLFMKRVTQ-------------NAGWTLFS  503 (954)
Q Consensus       473 ~------------------------------------~r~~~~~~av~i~D~Fm~~v~~-------------~~~w~Lf~  503 (954)
T Consensus       242 ~~~L~~~~~~~yi~~Al~~~~~~~E~d~~~~~~~~~~~~l~nFN~SV~v~D~FM~Av~~~~~wl~~p~~~~~~~~y~l~~  321 (792)
T TIGR02504       242 ARALLKLGAVYYIEVALEEKLLDEEYDVEFEGEAYEDAVLQNFNISVGVTDAFMEAVEADDLWLVEPIEVLKDKEYKLRN  321 (792)
T ss_pred             HHHHHHCCCCEEEHHHHHHHHHHHCCCCCCCCEEECCCCCCCCCCEEECCHHHHHHHHCCCCCCCCCCCCCCCCCEEEEC
T ss_conf             99998708831422334555531012447663020255213662145026899999970588878873116885055415


Q ss_pred             CCCCCCCCCCCCCCHHHHHH-----------HHH-HHHCCCCCEEEEEEEHHHHHHHHHHHHHHHCCCEEEEECHHHCCC
Q ss_conf             01144410013443789987-----------787-521048860577866889999999999882881278331120222
Q gi|254780502|r  504 PDEVSDLHDLYGKEFEIAYE-----------NYE-RQADRGEIKVFRKISAVALWRKMLTMLFETGHPWITFKDPCNIRS  571 (954)
Q Consensus       504 P~~~~~L~d~~g~~fe~~Y~-----------~~e-~~~~~~~~~~~k~i~A~~l~~~i~~~~~etG~P~i~f~D~~N~~~  571 (954)
T Consensus       322 P~~~~~~~~~~~~~~~~~~~~~wh~LE~~~~d~~~~~~~~~~~~~~~~v~Ar~Lw~~I~~~AW~~aePGl~F~D~iNr~~  401 (792)
T TIGR02504       322 PRTGEETEEIDEEDGMDVEKREWHVLEKIVGDLEERDDGGVKPKVYKEVPARELWDKIVEAAWKSAEPGLLFIDTINRWN  401 (792)
T ss_pred             CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCEECHHHHHHHHHHHHHHCCCCCCEEHHHHCCCC
T ss_conf             76402333331001210004788153456787799855877423323453799999999873420898604031111317


Q ss_pred             CCC---------CCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCC-------CCCHHHHHHHHHHHHHHHHHH
Q ss_conf             124---------6670340467520013665443321112554068625434-------479888558999999997653
Q gi|254780502|r  572 PQQ---------HVGVVHSSNLCTEITLNSSSEETAVCNLGSINLLAHFANN-------QFDYDKLASTIRTAVRVLDNV  635 (954)
Q Consensus       572 p~~---------~~g~I~~sNlC~Ei~l~~~~~e~~vCnL~SiNL~~~v~~~-------~~D~~~l~~~v~~avr~LDnV  635 (954)
T Consensus       402 ~~~~~~~~~~~~~~~~i~aTNPCGE~pL~pyes----CNLGSINL~~fv~~~~~g~~~~~fD~~~l~~~v~~~~R~LDnv  477 (792)
T TIGR02504       402 PCPVEEALNNLAYLGRINATNPCGEQPLLPYES----CNLGSINLAKFVKNDFDGGDEAEFDWERLREVVRLATRFLDNV  477 (792)
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCC----CCCHHHHHHHHHHCCCCCCCCCEECHHHHHHHHHHHHHHHHHH
T ss_conf             889888765432446456425764557888875----3247789999983789988652150889999999999998768


Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCH
Q ss_conf             11210001888886443310002111188999972963233788999999999985779997898753117788766781
Q gi|254780502|r  636 IDINCHTIEKAKKSNHTHRAIGLGLMGFQSALHLLHIPYASPEAVEIADESMEFISFHAISASVELAQERGAYSSFKGSL  715 (954)
Q Consensus       636 Id~n~yp~~~~~~~~~~~R~iGlGv~Glad~L~~~gi~Y~S~ea~~~~~~i~e~i~~~a~~aS~~LAkErG~~~~f~gS~  715 (954)
T Consensus       478 ID~n~~P~p~i~~~~~~~Rr~GLG~MGLAd~L~~lG~PYdS~Ea~~~~~~~~~~i~~~A~~~S~~LA~ErG~FP~~~~~~  557 (792)
T TIGR02504       478 IDLNKFPLPEIEEATKKTRRIGLGIMGLADLLIKLGIPYDSEEARELAEEIMEFIRDAAYRASAELAKERGPFPLYEASR  557 (792)
T ss_pred             HHHHCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCH
T ss_conf             85303787479999852487043400478999981898687899999999999999989999999986508812343031


Q ss_pred             HHCCCCCHHHHHCCH---------HHCCCCCCCCHHH---CCHHHHHH--------HHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             213876244663005---------5225334540210---27289999--------999841204430110774368778
Q gi|254780502|r  716 WDQGVFPIDSIGLLA---------EVRDELAMNRTSR---LPWDELKK--------RVKTIGMRNSNCMAIAPTATIANI  775 (954)
Q Consensus       716 ~~~G~~~~d~~~~~~---------~~~~~~~~~~~~~---~dW~~Lr~--------~i~~~G~RNs~l~aiAPT~t~S~i  775 (954)
T Consensus       558 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~LeE~~R~E~~~~~k~G~RN~~~ttiAPTGTiS~~  637 (792)
T TIGR02504       558 YPMAKVLRNRFEAADVRMGERIKPSDLPKELQEAIARLLGEAWDEALEEALRLEREKGEKYGIRNATLTTIAPTGTISLI  637 (792)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHC
T ss_conf             14458888768864421443124120047899998620102589999999999899731789872267654685313211


Q ss_pred             HC--CCCCCCCCCHHEEEEECCCC-------CEEEECHHHHHHHHHCCCCC--HHHHHHHHHCCCCCCCCCCCCHHHHHH
Q ss_conf             38--89884756012034532676-------13664658999899858986--899999985199627764488678865
Q gi|254780502|r  776 CG--VSQSIDPSYQNLYVKSNMSG-------DFTVVNSFLVNELKQRDLWD--EAMISDLKYHDGSIGNIERIPDDLKKI  844 (954)
Q Consensus       776 ~g--~s~gIEP~~a~~y~r~~~~G-------~~~~vn~~l~~~l~~~g~~~--~~~~~~i~~~~Gsv~~i~~ip~~~k~~  844 (954)
T Consensus       638 a~NCtSsGiEP~Fa~~y~R~v~~g~~~~~G~~~~~~~~~~~~~lr~~~~~~~~~e~~~~~~~~~~-~~g~~~~p~~~~~~  716 (792)
T TIGR02504       638 AGNCTSSGIEPVFALVYTRNVAVGGRLKKGDELLEVNPLVEEALRELGYYSKQDELIKEVAETGG-VEGLPEVPEELPKV  716 (792)
T ss_pred             CCCCCCCCCCCCCCCEEEEEEECCCEECCCCCEEEHHHHHHHHHHCCCCCCHHHHHHHHHHHHCC-CCCCCHHHHHHHHH
T ss_conf             37688877665531014655302733047651021025589885305782000799999997078-88861216878865


Q ss_pred             CCCHHCCC------HHHHHHHHHHHCCHHCCCEEEEEEC-CCCCHHHHHHHHHHHHHCCCCEEEEECCCCCHH
Q ss_conf             05222068------8999999985206300523204754-899989999999999972986797965884111
Q gi|254780502|r  845 HATAFEID------PMWLIESASRRQKWIDQAQSLNLYL-DEPSGKKLDFIYRQAWLMGLKTTYYLRSRSATS  910 (954)
Q Consensus       845 f~ta~ei~------~~~~i~~~a~~Q~~IDqsiS~tl~~-~~~t~~~i~~~y~~Aw~~GlKt~yy~R~~s~~~  910 (954)
T Consensus       717 F~tA~d~~G~R~I~p~~H~~mQaa~Q~~vD~~ISKTiN~P~~At~EDv~~~Y~~Aw~~G~KGiTVYRDgSr~~  789 (792)
T TIGR02504       717 FVTAHDISGKRSISPEDHVRMQAAIQRWVDSAISKTINLPSDATVEDVEAAYLEAWKLGLKGITVYRDGSRSS  789 (792)
T ss_pred             CCCCCCCCCEEECCHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCC
T ss_conf             5410015860123989999999997222156640225477788888999999999966995799977687677