Protein Alignment Polr2A and rpc-1

DIOPT Version :10

• Sequence 1: NP_511124.1
• Gene: Polr2A / 32100
• FlyBaseID: FBgn0003277
• Length: 1887
• Species: Drosophila melanogaster
• Sequence 2: NP_501127.2
• Gene: rpc-1 / 177491
• WormBaseID: WBGene00004411
• Length: 1400
• Species: Caenorhabditis elegans
• Alignment Length: 1525
• Identity: 509/1525 - (33%)
• Similarity: 772/1525 - (50%)
• Gaps: 248/1525 - (16%)

  Fly    36 GVQFA---------------------ETMEGG-RPKLGGLMDPRQGVIDRTSRCQTCAGNMTECP 78
            ||:||                     |.:||. :|...|.:||:.||..:|..|.||...:|:|.
 Worm    17 GVKFAPGDCEFMRQTAHVPIFNNKLYEDVEGKLQPANYGPLDPKMGVSTKTGTCSTCGLGLTDCV 81

  Fly    79 GHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPH----------NPKIKEIVMKSRGQP 133
            ||||:.||..|||||||...||::|:|:|..||.:|::|.          ||.:..:..|:.
 Worm    82 GHFGYFDLDVPVFHIGFFKLTIQLLQCICKNCSSILLTPEQHRVFSRQVMNPNLDYLHRKAL--- 143

  Fly   134 RKRLAYVYDLCKGKTICEGGEDMDLTKENQQPDPNKKPGHGGCGHYQPSIRR------------- 185
            .||:...   ||..:.|                     .|  ||....::::
 Worm   144 HKRIVAA---CKKGSTC---------------------SH--CGLKNGTVKKAVGAVLKIAFASP 182

  Fly   186 TGLDLTAEWKHQNEDSQE--------KKIVVSAERVWEILKHITDEECFILGM---DPKYARPDW 239
            ..:|...::......:||        |..:::...|.::..:|.:.:..:|.:   :.|:  |:.
 Worm   183 VSVDELGKFATMFSSNQEVGDHVRKMKFTLLNPLFVQKLFSNIKEGDIPVLMVRSGEEKH--PND 245

  Fly   240 MIVTVLPVPPLAVRPAVVM-FGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQ 303
            :::|.:||||:.:||:||. ..|...:||:|.||.:|:..|:.|:|::..||.:..:.|..:.||
 Worm   246 LLLTRMPVPPVCIRPSVVSEVKAGTTEDDVTMKLMEIMLTNDVLKKHKRDGAPSKTLFETWEHLQ 310

  Fly   304 FHVATLVDNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRID 368
            ...|..::::|.|:|..||.. :.::|...|||||:||.||||.|||||||.||||:||||||||
 Worm   311 IQCALYINSEMSGLPPDMQPK-RAMRAFTQRLKGKQGRFRGNLCGKRVDFSGRTVISPDPNLRID 374

  Fly   369 QVGVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL--H 431
            |||||..:|..|||||:|...||::|::||..|:..:|||.|:|........|..:.|..:|  :
 Worm   375 QVGVPIHVAMTLTFPEIVNASNIEKMRQLVINGSDVHPGANYLVEKKTGNKKLLKYGKRDELAKN 439

  Fly   432 LQCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFDGDEMNLH 496
            |:.|..:||||.|:|:|:|||||:|||:|:|.||.||:|..|||.|....:||||||||||||||
 Worm   440 LRMGDTIERHLDDNDVVLFNRQPSLHKISIMSHRAKVMPGRTFRFNECACTPYNADFDGDEMNLH 504

  Fly   497 VPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITREQVMNLLMFLPT 561
            :||:.|.:||...:......:|||::.:|::..:||.:|....:|.:|.|:.|.:|......|..
 Worm   505 LPQTYEAKAEASELMNVKNNLITPRSGEPLVAAIQDFITGGYLLTHKDTFLPRAEVYRFAAALID 569

  Fly   562 WDAK------MPQPCILKPRPLWTGKQIFSLII-PGNVNMIRTHSTHPDEEDEGPYKWISPGDTK 619
            ..||      :|.|.|.:|..||||||:..||| |...:.:..:.|..::...|..:..|. |:.
 Worm   570 ASAKKQTKIRIPPPAIRRPVELWTGKQLIELIIRPDKGSDVSLNLTAKNKSYTGNLELCSK-DSY 633

  Fly   620 VMVEHGELIMGILCKKSLGTSAG-SLLHICFLELGHDIAGRFYGNIQTVINNWLLFEGHSIGIGD 683
            |::.:..|:.|.|.|..||:|:. ::.::...:.|.|.|......:..:...:|...|.||||||
 Worm   634 VIIRNSVLLAGCLDKSLLGSSSKVNIFYMLMRDYGEDAAVDAMWRLARMAPVFLSNRGFSIGIGD 698

  Fly   684 TIADPQTYNEIQQAIKKAKDDVINVIQKAHNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSA 748
            .....|...|..|.:..........|::....:|:..||.|..:|.|:.:.|.|:..||..|...
 Worm   699 VRPSEQLLREKGQLVDNGYSKCSQYIKELEEGKLKAQPGCTEEETLESIILRELSTIRDHAGQVC 763

  Fly   749 KKSLTEYNNLKAMVVSGSKGSNINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRG 813
            .::|::||....|.|.|||||.|||||:|||||||.:.|.|.|.||.:|:||||.:....||::|
 Worm   764 LRNLSKYNAPLTMAVCGSKGSFINISQMIACVGQQAISGHRPPDGFEERSLPHFERKKKTPEAKG 828

  Fly   814 FVENSYLAGLTPSEFYFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQL 878
            ||.||:.:||||:||:||.|||||||:|||||||||||:||||:|.:|.:..:||||||:|||.:
 Worm   829 FVANSFYSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKCLEDLCASYDGTVRSSVGDV 893

  Fly   879 IQLRYGEDGL--------CGELVEF-------QNMPTVKLSNKSFEKRFKFDWSNERL---MKKV 925
            |:..:|||||        .|.:|:|       :|:.|.|      |:....|..:|.|   ::|.
 Worm   894 IEFVFGEDGLDPAMMEAKDGSVVDFTHVLEHAKNIQTTK------EQPIPVDKLDEVLKAEIQKK 952

  Fly   926 FTDDVIKEMTDSSEAIQELE----AEWDRLVSDRDSLRQIFPNGESKVVLPCNLQRMIWNVQKIF 986
            |....:......||.|.:.|    .:|.              ||::
 Worm   953 FKGKYVHFADKLSEYITQTEIKKSKKWQ--------------NGKA------------------- 984

  Fly   987 HINKRLPTDLSPIRVIKGVKTLLERCVIVTGNDRISKQANENATLLFQCLIRSTLCTKYVSEEFR 1051
            |.......||......|..|.|               :|.:.:.|...||.::.||:
 Worm   985 HCGNHETADLKTKESCKICKNL---------------EAYKTSLLANSCLTKTQLCS-------- 1026

  Fly  1052 LSTEAFEWLVGEIETRFQQAQANPGEMVGALAAQSLGEPATQMTLNTFHFAGVSSKNVTLGVPRL 1116
                    .:.....:..:|...||..|||:||.|:|||:|||||.|||||||:|.|:|.||||:
 Worm  1027 --------FIELCYYKVARAITEPGTAVGAIAATSIGEPSTQMTLKTFHFAGVASMNITQGVPRI 1083

  Fly  1117 KEIINISKKPKAPSLTVFLTGGAARDAEKAKNVLCRLEHTTLRKVTANTAIYYDPDPQRTVISED 1181
            |||||..|....|.:|..|..  ..|...|:.|..|:|.|||.::.
 Worm  1084 KEIINAVKTISTPIITAALLD--PYDESLARRVKARIEKTTLGEIC------------------- 1127

  Fly  1182 QEFVNVYYEMPDFDPTRISPWLLRIELDRKRMTDKKLTMEQIAEKINVGFGEDLNCIFNDDNADK 1246
             :::...| :||       .:.|.::|:.||:  :.|.:|...|.|:........|        .
 Worm  1128 -DYIEEVY-LPD-------DYFLLVKLNSKRI--RLLQLEVCMESISYAIATSKVC--------P 1173

  Fly  1247 LVLRIRIMNNEENKFQDEDEAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKKR 1311
            .:...:|:.:.:........:..|:...|.::.::.: |:::.::||.::.:..:|   .|.||
 Worm  1174 QMRGCKIVAHGKTMMAIRPPSTSKLSKTMTMQILKYS-LANVVVKGIPSVNRCVIH---ADEKK- 1233

  Fly  1312 IVITETGEFKAIGEWLLETDGTSMMKVLSERDVDPIRTSSNDICEIFQVLGIEAVRKSVEKEMNA 1376
                  |:|     :.|..:||....|||...|||.:|:.|:...:..||||||.|..:..|:.|
 Worm  1234 ------GDF-----YSLLVEGTDFRSVLSSVGVDPRKTNFNNALVVADVLGIEAARSCIINEIIA 1287

  Fly  1377 VLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDVLMDAAAHAETD 1441
            .:..:|:.::.||:.||.||||.:|.::.|||:|:.:.....|:..|||:|:|.|.:||..::.|
 Worm  1288 TMDAHGIGLDRRHVMLLADVMTYRGEVLGITRNGLVKMKDSVLLLASFEKTMDHLFEAAFFSQRD 1352

  Fly  1442 PMRGVSENIIMGQLPKMGTGCFDLLLDAEK 1471
            .:.||||.||||....:|||.|.|:...:|
 Worm  1353 VIHGVSECIIMGTPMTVGTGTFKLMQKYDK 1382

Known Domains

Gene	Sequence	Domain	Region	External ID	Identity
Polr2A	NP_511124.1	RNAP_II_RPB1_N	15..868	CDD:259848	333/898 (37%)
		RNA_pol_Rpb1_6	890..1071	CDD:461511	31/194 (16%)
		RNAP_II_Rpb1_C	1050..1468	CDD:132720	129/417 (31%)
		Herpes_BLLF1	<1498..1862	CDD:282904
		PTZ00449	<1707..1880	CDD:185628
rpc-1	NP_501127.2	RNAP_III_RPC1_N	26..887	CDD:259847	333/893 (37%)
		rpoC2	837..>1080	CDD:214368	105/312 (34%)
		RNAP_III_Rpc1_C	1034..1374	CDD:132723	127/395 (32%)