Citrus Sinensis ID: 013236

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------
Protein Sequence
MREDEETRSKKEHESQQEQETEGPKKKNKKRKKDKANTTIDEQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHcccccHHHHHHcccccccccccccccccccccccEEEEEEcccccccccEEEEccccccccccccccccccHHHHHccccccccccccccEEEEcccccEEEEEccccccccccccccEEEEEEEcccccEEEEEcccccEEEEccEEEccccccccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHccEEcccccEEEEEEccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHcccccccccccHccccccccHHHHHccccccccccccccccccccccccEEEEEEEcccccccccEEEEcccccccccccccccccccEEEEEcccccccccccEEEEEEcccccEEEEEEcccccccccccccEEEEEEcccccEEEEEEccHccEEEEcccccccccccHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccccccHHHcccHHHHccHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHcccEEEccccEEEEEEEcccccccccccccc
Coil and Loop (DISEMBL)
mredeetrskkehesqqeqetegpkkknkkrkkdkanttideqpepelepeRVKAKVQfipeqpnkapplvgyfpsiykpdvdhpdeemrpkVRVYRNMNekknrtgrmelvvsprdssvdyvgtsysgeamapqfcHYAVGvldrstqtlkivpiaankifrleprvrgsdvadkdagkgeISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEAlesttsdtvlnvppydanattpqqaypldkiilKGEWDFVQDIFNHvsagsevisdaypsfvcNRIHKLREIQDDVEKQTLASIFSYITHLVkfkdqhsmdggasakqhripkilhqkfltsfsdaeskrlsddkIHLLISYVLVLTLhaddfrtnptdiakdlrmseFKLRDHFEKLGCKLLREKNmlyatlpvplqfpkaiqrrrr
Flexible Loop (DISEMBL)
mredeetrskkehesqqeqetegpkkknkkrkkdkanttideqpepeleperVKAKVQFipeqpnkapplvgyFPSIYkpdvdhpdeemrpkvrvyrnmnekknrtgrmelvvsprdssVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPiaankifrleprvrgsdvadkdagkgeisaeVQANMKAMLDTRYGTKKSLRQSKKmhalnkendpesqKDLALKMKSVKINKEalesttsdtvlnvPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLtlhaddfrtNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNmlyatlpvplqfpkaiqrrrr
Low Complexity Region (SEG)
MREDEETRSKKehesqqeqeteGPkkknkkrkkdkANTTIDEQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR
Disordered region (IsUnstruct)
*********************************************************************LVGYFPSIY*****************************************VDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEP********************************************************************************************TTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKD**************IPKILHQKFLTSF*******LSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQF*********
Disordered Region (DISOPRED)
****************************************************************NKAPPLVGYFPSIYKPDVD*******************************PRDSSVDYVGTSYSG*AMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRL****************************AMLDTRYG*****************************************************YDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRI***************ASIFSYITHLVK********************ILHQKFLT****************LLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQ**********
Disordered Region (DISEMBL)
****************************************************VKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKK*************KDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQ***********HRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR
Disordered Region (DISPRO)
**************************************************ERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVR************EISAEVQANMKAMLDTRYGTKKSLRQSKKMHALN*****ESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSM*******QHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFP********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MREDEETRSKKEHESQQEQETEGPKKKNKKRKKDKANTTIDEQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	447	2.2.26 [Sep-21-2011]
Q6GLI9	419	DNA-directed RNA polymera	N/A	no	0.706	0.754	0.227	3e-15
O14086	425	DNA-directed RNA polymera	yes	no	0.823	0.865	0.235	3e-12
Q9GZS1	481	DNA-directed RNA polymera	no	no	0.662	0.615	0.222	8e-10
Q54FE8	375	DNA-directed RNA polymera	yes	no	0.648	0.773	0.247	3e-09
Q8K202	482	DNA-directed RNA polymera	no	no	0.431	0.400	0.264	5e-08

>sp|Q6GLI9|RPA49_XENLA DNA-directed RNA polymerase I subunit RPA49 OS=Xenopus laevis GN=polr1e PE=2 SV=1

 Score = 83.2 bits (204), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 84/369 (22%), Positives = 176/369 (47%), Gaps = 53/369 (14%)

Query: 95  VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAM-APQFCHYAVGVLDRSTQTLKI 153
           +Y N ++K  +T R +++ +  D  ++YVG ++S + +     C Y VGVL++ T  +++
Sbjct: 39  LYGNKDDKNPKTKRQKILAAETDR-LNYVGNNFSSDTLKCSSLCRYFVGVLNKETGKMEV 97

Query: 154 VPIAANKIFRLEPRVRGS--------DVADKDAGKGEISAEVQANMKAMLDTRYGTKKSL 205
                   F+++P ++          D+ D+       +   +  + A++++ +GT K  
Sbjct: 98  YDAEQ---FKMQPILKSGMENELHTEDIVDQP------TKSYREKVDALIES-FGTNKQK 147

Query: 206 R--QSKKMH-----ALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANA 258
           R   S+K++      LNK    ++ +++     + ++ K+A E    DT L +PP D NA
Sbjct: 148 RALSSRKLNQVGSDILNKAM-AKAAEEIIESRGTTELIKDAAEKREQDTSLFLPPCDFNA 206

Query: 259 TTPQQAYPLDKIILKGEWDFVQD----IFNHVSAGSEVISDAYPS--FVCNRIHKLREIQ 312
             P+ AY  D +I   E+  ++     + N  S G + + +   S  FV   +H LREI+
Sbjct: 207 DKPENAYKFDNLISPVEYAALETASAALRNITSEGLQQMVEEKKSGLFVLQELHGLREIK 266

Query: 313 DDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRI-----PKILHQKFLTSFSDAES 367
           D+      A    Y+  L+K     ++      K+  I     P ++  K + +F+    
Sbjct: 267 DEKALDHQARCLWYLDALIKLSQLRTV------KRKDILTPECPSVVCWKLMKNFTVETY 320

Query: 368 KR------LSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKL 421
           K       +S      +++Y++ + LH  DF+ + T + +D+++ E ++ +  + +G K+
Sbjct: 321 KNGRIQNAISGTTKTKIVAYIIAIALHICDFQVDLTLLQRDMKLKESRILEIAKVMGLKI 380

Query: 422 LREKNMLYA 430
             +K M+Y+
Sbjct: 381 --KKRMMYS 387

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors. Appears to be involved in the formation of the initiation complex at the promoter.
Xenopus laevis (taxid: 8355)

>sp|O14086|RPA49_SCHPO DNA-directed RNA polymerase I subunit rpa49 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpa49 PE=2 SV=1

 Score = 73.6 bits (179), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 100/424 (23%), Positives = 178/424 (41%), Gaps = 56/424 (13%)

Query: 57  VQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPR 116
           V+ +P   +  PPLV      Y P      E  R +      + +K N++ R   ++  R
Sbjct: 24  VKILPLSESSLPPLVTTISGFYPP------ENTRFQ------LLKKSNQSNRDASLIG-R 70

Query: 117 DSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADK 176
              V +   + S   +   +C   + V D++ +  KIVP  A  +   E  +      DK
Sbjct: 71  TERVQFEAKNQSTATVEANYC---LAVADKTGRVKKIVP--AKYLNTFERNILALQEKDK 125

Query: 177 DAGK--GEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKS-V 233
              K  G +S  V    +A L   +GT+KS  Q   M         E+  D+  ++ S V
Sbjct: 126 FLKKKHGTVSGTVM-EQRANLGLAFGTRKS--QKAIMEESANRVKAETLGDVKDQLVSNV 182

Query: 234 KINKEALESTTSDTVLN-----VPPYDANATTPQQAYPLDKIILKGEWD--FVQDIFNHV 286
           +   EAL +             +PP +  A + + AY L+ II K E+   +++ +  + 
Sbjct: 183 QKATEALPTQEDIAAAQAQDRPIPPVNVGAESIEDAYKLEDIIPKEEFSAIYIKPLLENP 242

Query: 287 SA--GSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGAS 344
                ++++   +  F+  R  +L  I++  +K+  A I  YI+ L  F       G   
Sbjct: 243 DERNWAKLLPYRHSLFINERFQRLLSIEEVDQKR--ARILYYISLLQAFLFSRRSVGNRE 300

Query: 345 AKQHRI---PKILHQKFLTSFSDAE---SKRLSDDKIHLLISYVLVLTLHADDFRTNPTD 398
             + ++   P+IL    +  F+      S ++S  ++  +I Y+LVL L  D++ T+   
Sbjct: 301 TLRKKLADPPEILIDGLIKRFTQTTGIGSVQVSSREVDKIICYILVLCLIVDNYSTDVLT 360

Query: 399 IAKDLRMSEFKLRDHFEKLGCKLLR---------------EKNMLYATLPVPLQFPKAIQ 443
           +A DL +   K  + F  +GC+++                 KN   A L +PL+FPK  +
Sbjct: 361 LANDLNVKTMKANELFRTVGCRIMAYTETQRMALGLNKTDAKNHKRAVLKIPLEFPKPRR 420

Query: 444 RRRR 447
            R R
Sbjct: 421 GRAR 424

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9GZS1|RPA49_HUMAN DNA-directed RNA polymerase I subunit RPA49 OS=Homo sapiens GN=POLR1E PE=1 SV=2

 Score = 65.5 bits (158), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 77/346 (22%), Positives = 162/346 (46%), Gaps = 50/346 (14%)

Query: 92  KVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAM-APQFCHYAVGVLDRSTQT 150
           +  +Y N  +  N   R + +++     + YVG ++   A+     C + VG+L++++  
Sbjct: 102 RFTLYEN-KDSTNPRKRNQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQ 160

Query: 151 LKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQAN-----MKAMLDTRYGTKKSL 205
           +++      ++F ++P    SDV+     + E++ E Q       M + ++  +GT K  
Sbjct: 161 MEVYD---AELFNMQPLF--SDVS----VESELALESQTKTYREKMDSCIEA-FGTTKQK 210

Query: 206 R--QSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTV--------LNVPPYD 255
           R   +++M+ +  E    S      K     I+ + + +  SD +        L +PP  
Sbjct: 211 RALNTRRMNRVGNE----SLNRAVAKAAETIIDTKGVTALVSDAIHNDLQDDSLYLPPCY 266

Query: 256 ANATTPQQAYPLDKIILKGEWDFVQ---DIFNHVSAGSEVI----SDAYPSFVCNRIHKL 308
            +A  P+  Y  + ++   E++ +Q   + F +V++  E++     +++ +FV   I  L
Sbjct: 267 DDAAKPEDVYKFEDLLSPAEYEALQSPSEAFRNVTS-EEILKMIEENSHCTFV---IEAL 322

Query: 309 REIQDDVE-KQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS---- 363
           + +  DVE +   A    ++  L+KF+  H +    SA    +P I++ K L  F+    
Sbjct: 323 KSLPSDVESRDRQARCIWFLDTLIKFR-AHRVVKRKSALGPGVPHIINTKLLKHFTCLTY 381

Query: 364 -DAESKRLSDDKIHLLIS-YVLVLTLHADDFRTNPTDIAKDLRMSE 407
            +   + L  D +   I+ YV++L LH  DF+ + T + +DL++SE
Sbjct: 382 NNGRLRNLISDSMKAKITAYVIILALHIHDFQIDLTVLQRDLKLSE 427

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors. Appears to be involved in the formation of the initiation complex at the promoter by mediating the interaction between Pol I and UBTF/UBF.

Homo sapiens (taxid: 9606)

>sp|Q54FE8|RPA49_DICDI DNA-directed RNA polymerase I subunit rpa49 OS=Dictyostelium discoideum GN=polr1e PE=3 SV=1

 Score = 63.5 bits (153), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 83/335 (24%), Positives = 150/335 (44%), Gaps = 45/335 (13%)

Query: 127 YSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAE 186
           Y  E    ++  YA+G+ D++T+ LKIVP    KI  +   V G  +    +    IS E
Sbjct: 62  YESEDKDSKYAKYAIGIFDKNTKQLKIVP---TKIQTMNQSVIGYTLTLDSSSV--ISRE 116

Query: 187 VQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSV-KINKEALESTTS 245
            + +    L   +G+K + ++ +KM   N EN      D     KS+  +  E  +  ++
Sbjct: 117 ERYDKIKKLADSFGSKITKKKMQKMEMENVEN-----LDYEKTTKSIDAVKNELADIESN 171

Query: 246 DTVLNVPPYDANATTPQQAYPLDKI----ILKGEWDFVQDIFNHVSAGSEVISDAYPSFV 301
           +   ++P +DA     ++ Y ++ I    I  G     Q   + +S  SE  S   P + 
Sbjct: 172 EKPFDLPDFDAETNDVRKIYNIEAILPPRIFFGLNH--QPFLDIISKTSEAPS-YLPEYF 228

Query: 302 CNRIHKLREIQDD---VEKQTLASIFSYITHLVKFKDQHS--MDGGASAKQHRI------ 350
            +++ +  +I+D+   V    L +   Y   L+K K  H   +  G +++          
Sbjct: 229 KDQLKRFEDIKDEEKVVYNCKLLTFMWYSMILMKSKGGHEPLIKEGCTSEVINFLVSIFG 288

Query: 351 PKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFR-TNPTDIAKDLRMSEFK 409
            KI H+K+  S          DDK+ +  +Y+ +  L  +DF+ T+   +A+ L ++   
Sbjct: 289 SKINHKKYNIS---------QDDKLKIY-NYLAIFALKLEDFQITDIKSLAQSLSLTSSS 338

Query: 410 LRDHFEKLGCKLLR---EKNMLYATLPVPLQFPKA 441
              HF ++GCK++R   EK  +   L  PL+ PKA
Sbjct: 339 FEKHFTRVGCKVVRIGSEKRSV--RLEAPLKLPKA 371

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.

Dictyostelium discoideum (taxid: 44689)

>sp|Q8K202|RPA49_MOUSE DNA-directed RNA polymerase I subunit RPA49 OS=Mus musculus GN=Polr1e PE=1 SV=2

 Score = 59.7 bits (143), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 59/223 (26%), Positives = 107/223 (47%), Gaps = 30/223 (13%)

Query: 238 EALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQ---DIFNHVSAGSEVI- 293
           +A++    D VL +PP  A+A  P+  Y  + I+   E+D ++   + F  V+  SE I 
Sbjct: 250 DAMQDDLQDGVLYLPPCYADAAKPEDVYRFEDILSPAEYDALESPSEAFRKVT--SEDIL 307

Query: 294 ----SDAYPSFVCNRIHKLREIQ-DDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQH 348
                +++ S+V   I  L+ +  D+V +   A    ++  L++F+ Q  + G   A   
Sbjct: 308 KMIEENSHCSYV---IEMLKSLPIDEVHRNRQARSIWFLDALIRFRAQKVIKG-KRALGP 363

Query: 349 RIPKILHQKFLTSFS-----DAESKRLSDDKIHLLI-SYVLVLTLHADDFRTNPTDIAKD 402
            IP I++ K L  F+     +   + L    +   I SY ++L LH ++F+ + T + KD
Sbjct: 364 GIPHIINTKLLKQFTCLTYNNGRLQNLISSSMRAKITSYAIILALHINNFQVDLTALQKD 423

Query: 403 LRMSE---------FKLRDHFEKLGCKLLREKNMLYATLPVPL 436
           L++SE          +L+   +K+     RE++    TL VPL
Sbjct: 424 LKLSEKRMIEIAKAMRLKISKQKVSLADGREESHRLGTLSVPL 466

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors. Appears to be involved in the formation of the initiation complex at the promoter by mediating the interaction between Pol I and UBTF/UBF.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	447
224128536	472	predicted protein [Populus trichocarpa]	0.881	0.834	0.546	1e-126
225442233	421	PREDICTED: DNA-directed RNA polymerase I	0.870	0.923	0.591	1e-124
449447870	435	PREDICTED: uncharacterized protein LOC10	0.868	0.891	0.565	1e-124
297743053	391	unnamed protein product [Vitis vinifera]	0.861	0.984	0.591	1e-123
255560707	481	DNA-directed RNA polymerase I 49 kDa pol	0.881	0.819	0.528	1e-119
356556228	424	PREDICTED: DNA-directed RNA polymerase I	0.845	0.891	0.535	1e-107
297834232	443	DNA binding protein [Arabidopsis lyrata	0.968	0.977	0.449	1e-103
388506278	347	unknown [Lotus japonicus]	0.756	0.974	0.515	6e-98
15231416	442	DNA binding / DNA-directed RNA polymeras	0.876	0.886	0.457	1e-96
357511101	412	DNA-directed RNA polymerase I subunit rp	0.890	0.966	0.464	5e-95

>gi|224128536|ref|XP_002339506.1| predicted protein [Populus trichocarpa] gi|222839699|gb|EEE78022.1| predicted protein [Populus trichocarpa]

 Score =  459 bits (1182), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 233/426 (54%), Positives = 299/426 (70%), Gaps = 32/426 (7%)

Query: 39  TIDEQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKP----DVDHPDEEMRP--- 91
           TI+EQP       R+  K++ +  Q +K PP+VGYFPS Y P    D++   E + P   
Sbjct: 47  TINEQP-------RLDVKLELVNNQVDKTPPVVGYFPSGYNPHKTNDINDAQEPILPLAA 99

Query: 92  --KVRVYRNM------------NEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFC 137
              V++YRN             NEK   + R+ELVVSP  S+V++VG SY GEAMA Q C
Sbjct: 100 PPSVKLYRNAQRAKVEKSSGEKNEKGRTSERLELVVSPNGSNVEFVGNSYKGEAMAAQLC 159

Query: 138 HYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGK---GEISAEVQANMKAM 194
            YA+GVLD++TQTLKI+PIA NKI RLEP++RGS  ADK+      GEI+AE +A     
Sbjct: 160 TYALGVLDKATQTLKIMPIAGNKILRLEPKLRGSLAADKEHANFENGEITAEQRAARIRQ 219

Query: 195 LDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPY 254
           L+ +YG KKS+ Q KKM AL K +DP SQKDL  K+++  INK+ALEST+  +  N+PPY
Sbjct: 220 LNVQYGPKKSIIQDKKMQALRKGDDPLSQKDLGRKIENAPINKDALESTSGHSARNIPPY 279

Query: 255 DANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDD 314
           +++A TPQ+AYPLD IIL GEWDF++DI+  +  G EV S+AYP+FVCNRI KLREIQD+
Sbjct: 280 NSSAITPQEAYPLDGIILTGEWDFLEDIYKILQVGGEVASNAYPTFVCNRIQKLREIQDE 339

Query: 315 VEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDK 374
           VEK+ L+ IFSYITHL+KFKDQHSMDG ASA+ H+ P I+ QKF   F   E++RLS DK
Sbjct: 340 VEKKRLSCIFSYITHLLKFKDQHSMDGAASARNHQFPSIIRQKFFEMFK-PETRRLSVDK 398

Query: 375 IHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPV 434
           I LLISYVLVLTL+ADDFRT P D++ DLRM+   ++ H+  LGCK+ REKN    TL V
Sbjct: 399 IDLLISYVLVLTLYADDFRTFPADVSNDLRMNPATVKSHYRNLGCKMEREKNKYLVTLSV 458

Query: 435 PLQFPK 440
           PL+FP+
Sbjct: 459 PLEFPQ 464

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442233|ref|XP_002278228.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA49 [Vitis vinifera]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 237/401 (59%), Positives = 302/401 (75%), Gaps = 12/401 (2%)

Query: 53  VKAKVQFIPEQPNKAPPLVGYFPSIYKPD--VDHPDEEMRPKVRVYRNMNEKKNRTGRME 110
           V  K++ + E P K PPLVGYFPS + P    DH + +  P V+V+RN    K R  R++
Sbjct: 27  VNVKMEVVHEHPEKIPPLVGYFPSGFDPHKPQDH-ESDPPPAVKVFRN----KARANRLQ 81

Query: 111 LVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRG 170
           LVVSP DS V++VGTSYSGEA + Q C YA+GVLD+ TQTLKIVPIA+NKIFRLEPRV G
Sbjct: 82  LVVSPNDSKVNFVGTSYSGEAASAQVCTYALGVLDKETQTLKIVPIASNKIFRLEPRVGG 141

Query: 171 SDVADKDAG---KGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLA 227
           SD +  +     KGE +AE +A     L   YGTKKS+ Q+KK+ ALN+++DP SQKDL 
Sbjct: 142 SDASVDEPSSLLKGEQTAEEKAGRMRDLTNLYGTKKSITQAKKLQALNQKDDPRSQKDLD 201

Query: 228 LKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVS 287
            K+K V INKEALEST++ +  N+PPYD  ATTPQ+AY LDKII KGEWD++ DI + + 
Sbjct: 202 RKLKEVVINKEALESTSAHSARNIPPYDDTATTPQEAYRLDKIIFKGEWDYLLDILDLLQ 261

Query: 288 AGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQ 347
           AG EV S AY SFVCNRI KL+E++D+ EK TLA IFSYI HL+K+KD++SMD  +SAK 
Sbjct: 262 AGVEVESSAYSSFVCNRIQKLKELEDEGEKTTLACIFSYINHLLKYKDRNSMD-ASSAKH 320

Query: 348 HRIPKILHQKFLTSFS-DAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMS 406
           H+IP IL+QKF + F+ D++S+RL+++K  LLISYVLVLTL+AD+FRT+P+DIA+DLRMS
Sbjct: 321 HKIPGILNQKFSSMFALDSDSRRLTEEKKDLLISYVLVLTLYADEFRTDPSDIARDLRMS 380

Query: 407 EFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR 447
             KLR HFE LGCKL+ +  +  ATLPVPL FP+  Q+RRR
Sbjct: 381 AVKLRAHFEHLGCKLVSQNKVTMATLPVPLTFPRLRQKRRR 421

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447870|ref|XP_004141689.1| PREDICTED: uncharacterized protein LOC101221697 [Cucumis sativus] gi|449480549|ref|XP_004155927.1| PREDICTED: uncharacterized protein LOC101224839 [Cucumis sativus]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 225/398 (56%), Positives = 299/398 (75%), Gaps = 10/398 (2%)

Query: 55  AKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRP-KVRVYRNMNEKKNRTGRMELVV 113
           AK+Q +  QP K PP+VGYFPS + P  D   E+ R  + RVY++    KNR  RM+LVV
Sbjct: 43  AKIQVLSNQPQKTPPVVGYFPSGFDPHKDADKEQSRSVRARVYKH----KNRPNRMQLVV 98

Query: 114 SPRDSSVDYVGTSYSGEAMAP-QFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSD 172
           SP  S+VD+VGT+Y GEA A  Q C YA+GVLD++TQ+LKIVPIA+N IFRL+P+VRGSD
Sbjct: 99  SPTGSNVDFVGTNYLGEATAGKQHCTYALGVLDKATQSLKIVPIASNMIFRLDPKVRGSD 158

Query: 173 VADKDA---GKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALK 229
           V + ++      E+S + +AN    L   YGTKKS +Q++K+HAL +E+DPE++ DL  +
Sbjct: 159 VTENESPSVANEELSGQDKANRMRELTALYGTKKSKKQAQKLHALKQEDDPETKSDLDGR 218

Query: 230 MKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAG 289
           MK+V +NKEALE T ++   N+P Y+A+ATTPQ+AYPLDKIILKGEW F++D++  +   
Sbjct: 219 MKNVVVNKEALEGTQAEVARNIPAYNASATTPQEAYPLDKIILKGEWSFLEDLYFRLQET 278

Query: 290 SEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHR 349
           +E IS  YPSFV NRI+KL++IQD+ EK+ L  IFSYITHL+K+KDQHSM   +SAK H+
Sbjct: 279 AE-ISATYPSFVRNRIYKLQDIQDEEEKKKLCCIFSYITHLIKYKDQHSMGDVSSAKGHK 337

Query: 350 IPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFK 409
           IP +L QKF + F  AES+RLS DKI+LLIS+VLVL+L AD+F ++P DIAKDLR S + 
Sbjct: 338 IPSMLRQKFSSMFPTAESRRLSADKINLLISHVLVLSLFADEFSSDPADIAKDLRTSPYD 397

Query: 410 LRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR 447
           LR HF+ LGCK +R+ N+  ATLP+PLQFP+  Q+RRR
Sbjct: 398 LRLHFDNLGCKFIRKNNLSLATLPIPLQFPELRQKRRR 435

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297743053|emb|CBI35920.3| unnamed protein product [Vitis vinifera]

 Score =  447 bits (1149), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 235/397 (59%), Positives = 300/397 (75%), Gaps = 12/397 (3%)

Query: 57  VQFIPEQPNKAPPLVGYFPSIYKPD--VDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVS 114
           ++ + E P K PPLVGYFPS + P    DH + +  P V+V+RN    K R  R++LVVS
Sbjct: 1   MEVVHEHPEKIPPLVGYFPSGFDPHKPQDH-ESDPPPAVKVFRN----KARANRLQLVVS 55

Query: 115 PRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVA 174
           P DS V++VGTSYSGEA + Q C YA+GVLD+ TQTLKIVPIA+NKIFRLEPRV GSD +
Sbjct: 56  PNDSKVNFVGTSYSGEAASAQVCTYALGVLDKETQTLKIVPIASNKIFRLEPRVGGSDAS 115

Query: 175 DKDAG---KGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMK 231
             +     KGE +AE +A     L   YGTKKS+ Q+KK+ ALN+++DP SQKDL  K+K
Sbjct: 116 VDEPSSLLKGEQTAEEKAGRMRDLTNLYGTKKSITQAKKLQALNQKDDPRSQKDLDRKLK 175

Query: 232 SVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSE 291
            V INKEALEST++ +  N+PPYD  ATTPQ+AY LDKII KGEWD++ DI + + AG E
Sbjct: 176 EVVINKEALESTSAHSARNIPPYDDTATTPQEAYRLDKIIFKGEWDYLLDILDLLQAGVE 235

Query: 292 VISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIP 351
           V S AY SFVCNRI KL+E++D+ EK TLA IFSYI HL+K+KD++SMD  +SAK H+IP
Sbjct: 236 VESSAYSSFVCNRIQKLKELEDEGEKTTLACIFSYINHLLKYKDRNSMD-ASSAKHHKIP 294

Query: 352 KILHQKFLTSFS-DAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKL 410
            IL+QKF + F+ D++S+RL+++K  LLISYVLVLTL+AD+FRT+P+DIA+DLRMS  KL
Sbjct: 295 GILNQKFSSMFALDSDSRRLTEEKKDLLISYVLVLTLYADEFRTDPSDIARDLRMSAVKL 354

Query: 411 RDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR 447
           R HFE LGCKL+ +  +  ATLPVPL FP+  Q+RRR
Sbjct: 355 RAHFEHLGCKLVSQNKVTMATLPVPLTFPRLRQKRRR 391

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560707|ref|XP_002521367.1| DNA-directed RNA polymerase I 49 kDa polypeptide, putative [Ricinus communis] gi|223539445|gb|EEF41035.1| DNA-directed RNA polymerase I 49 kDa polypeptide, putative [Ricinus communis]

 Score =  435 bits (1118), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 224/424 (52%), Positives = 292/424 (68%), Gaps = 30/424 (7%)

Query: 53  VKAKVQFIPEQPNKAPPLVGYFPSIYKPDV--------DHPDEE------MRPKVRVYRN 98
           +  K++ I +Q +K PP+VGYFPS YKP          D  +EE       +P V+ YRN
Sbjct: 58  LNVKIEVIYDQTDKTPPIVGYFPSGYKPSKHNESNNLHDTSNEENATSSLSQPSVKFYRN 117

Query: 99  M------------NEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDR 146
                        NEK   + RMELVVSP  S+VD+VG SY GEA A Q C YA+GVLD+
Sbjct: 118 AQRTKIEKSSNERNEKWRSSERMELVVSPNGSNVDFVGKSYKGEATAAQLCTYALGVLDK 177

Query: 147 STQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGE---ISAEVQANMKAMLDTRYGTKK 203
            T+TLKI+PIA NKIFRLEP+++G D +DK+    E   +S E  A  K  L   YGTKK
Sbjct: 178 KTKTLKIMPIAGNKIFRLEPKIQGVDASDKEPSVLENEDLSKENMAVRKKTLTDTYGTKK 237

Query: 204 SLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQ 263
           S+ Q K+M  + + ++PES+KDL  K+ +V +NK ALE T++    N+PP++ +ATTPQ+
Sbjct: 238 SITQGKRMEIMMQGDNPESRKDLDQKIDNVVVNKAALEDTSAHVARNIPPHNTSATTPQE 297

Query: 264 AYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASI 323
           AYPL +IIL GEWD+++D++  + AG     +AYP FV NRIHKLREIQD+VE++T + I
Sbjct: 298 AYPLGRIILTGEWDYLEDLYEILQAGEGAAINAYPVFVRNRIHKLREIQDEVERKTYSRI 357

Query: 324 FSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVL 383
           FSYITHL+KFKD HSMDG +SAK H+ P IL QKF+  F+  ES++L  +KI LLISYVL
Sbjct: 358 FSYITHLLKFKDLHSMDGVSSAKNHKFPSILRQKFMGMFT-PESRKLPVEKIDLLISYVL 416

Query: 384 VLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQ 443
           VL+L+ADDFRT+PTDIAKDLR+S   +R HFE LGCK++ E  +  ATLPVPL+FP   Q
Sbjct: 417 VLSLYADDFRTDPTDIAKDLRVSRVMVRTHFENLGCKIVCENKLSLATLPVPLKFPVQRQ 476

Query: 444 RRRR 447
           RR R
Sbjct: 477 RRAR 480

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556228|ref|XP_003546428.1| PREDICTED: DNA-directed RNA polymerase I subunit rpa49-like [Glycine max]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/385 (53%), Positives = 272/385 (70%), Gaps = 7/385 (1%)

Query: 63  QPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDY 122
            PNK PP+VGYFPS + P  +H       +V  +R+M +      R+ELVV P  SSV++
Sbjct: 46  HPNKTPPVVGYFPSGFDPVKNHGGGPSNFQVYRHRSMPK------RLELVVRPPRSSVEF 99

Query: 123 VGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGE 182
           VGTSY+GEA A     YA+GVLD+   TLK+VPIA NKIFRLEP+V+G    + +     
Sbjct: 100 VGTSYAGEAAARHRAKYALGVLDKEAGTLKVVPIAGNKIFRLEPKVKGVGAFENEPANST 159

Query: 183 ISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALES 242
           +    Q    A   + +GTKK + ++KK  AL ++ DP+SQ++L +KMKSV +NK+ALES
Sbjct: 160 LEEMTQQQKFAETTSIWGTKKDIEKAKKKLALRQDEDPDSQRNLDVKMKSVTVNKKALES 219

Query: 243 TTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPSFVC 302
           T S    N+PPYDA+ATTPQ+AY LDKIILKGEWD+++DI+N++  G E    AYP+FV 
Sbjct: 220 TESHVSRNIPPYDASATTPQEAYILDKIILKGEWDYLEDIYNNLQRGEEADFSAYPTFVR 279

Query: 303 NRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSF 362
           NRI +LR+I+D+ EK+ L+ IFSYI HL+KFKDQHS D   SAK H+IP IL  KF   F
Sbjct: 280 NRIERLRKIKDESEKKQLSCIFSYINHLIKFKDQHSFD-VLSAKGHKIPNILRHKFSNMF 338

Query: 363 SDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLL 422
           + +ESKRL  +KI LLI YVLVLTL +D+FRT+ TDIAKDL M+   +R  +E LGCK+ 
Sbjct: 339 AVSESKRLPPEKISLLICYVLVLTLFSDEFRTDYTDIAKDLSMNILPVRQLYEHLGCKIS 398

Query: 423 REKNMLYATLPVPLQFPKAIQRRRR 447
           R+KN+ YATLPVPL+FP+  QR+R+
Sbjct: 399 RQKNIFYATLPVPLKFPELRQRKRK 423

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834232|ref|XP_002884998.1| DNA binding protein [Arabidopsis lyrata subsp. lyrata] gi|297330838|gb|EFH61257.1| DNA binding protein [Arabidopsis lyrata subsp. lyrata]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/447 (44%), Positives = 299/447 (66%), Gaps = 14/447 (3%)

Query: 6   ETRSKKEHESQQEQETEGPKKKNKKRKKDK--ANTTIDEQPEPELEPERVKAKVQFIPEQ 63
           E   K EH +++E+E   P++  KK++K K  A+ T D+  E +    R+  KV  + E+
Sbjct: 2   EGEDKNEHRNEEEEEFNTPQQLEKKQRKGKEIASETEDQNEEDK----RITLKVTQVSER 57

Query: 64  PNKAPPLVGYFPSIYKPDVDHPDEEMR----PKVRVYRNMNEKKNRTGRMELVVSPRDSS 119
           P++  P+V YF + Y P    P+   R    PKV VY++ ++ K R   +++VVSP  + 
Sbjct: 58  PDRISPIVAYFSTGYDPCKVDPETGKRVHETPKVTVYKHKDDSKKR---IQVVVSPPGAR 114

Query: 120 VDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAG 179
           V++VGT+Y+GE  A Q   Y VGV +R  +TL+I+P+A NKI RLEP+V+  +  +++A 
Sbjct: 115 VEFVGTNYTGEQAAMQTNTYRVGVFNREAKTLRILPVAHNKIIRLEPKVKAQETVEEEAS 174

Query: 180 KGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEA 239
              +  E+        D RY TKK++ + KK  ALN  +D E+QK L  K+  + +N  A
Sbjct: 175 GSAVVEELGKLTTGERD-RYNTKKAVTRDKKKRALNMGDDAETQKFLDGKLGELDVNTAA 233

Query: 240 LESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGSEVISDAYPS 299
           LEST+S    N+PPYDA ATT ++AYPL+KII KGEW F++DI+  +  G+E  +DAYP 
Sbjct: 234 LESTSSTVARNIPPYDAAATTAKEAYPLEKIIEKGEWSFLEDIYWLLEQGTEAATDAYPV 293

Query: 300 FVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFL 359
           FV NR+ KLR+I+DD++KQT++   + +THLVKFKD++SM+G  SAK H++P I  +KF 
Sbjct: 294 FVRNRLFKLRDIKDDMKKQTVSGALTLLTHLVKFKDRNSMNGFDSAKNHKMPDIFRRKFQ 353

Query: 360 TSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGC 419
           + F D+ES+R+  DK +LLISYVLVL+LH D+F+T+P DIAKDLR+S  +LR HF++LGC
Sbjct: 354 SMFKDSESERIPVDKANLLISYVLVLSLHVDNFKTDPEDIAKDLRISTVELRKHFQQLGC 413

Query: 420 KLLREKNMLYATLPVPLQFPKAIQRRR 446
           K +++ +   ATLP PL FP+  +RR+
Sbjct: 414 KFVKQNSTWVATLPTPLNFPEVNRRRK 440

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388506278|gb|AFK41205.1| unknown [Lotus japonicus]

 Score =  364 bits (934), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 180/349 (51%), Positives = 247/349 (70%), Gaps = 11/349 (3%)

Query: 106 TGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLE 165
           T R++LVVSP  + V++VGTSY+GEA A     YA+GV D+  QTLK+VPIAANKIFRLE
Sbjct: 2   TKRLQLVVSPAGAPVEFVGTSYTGEAAAGHRAMYALGVFDKKAQTLKVVPIAANKIFRLE 61

Query: 166 PRVRGSDVADKDAGKGEI-------SAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKEN 218
           P+V+  +  DK+     +       SA  Q    AML    GTK+ + ++++  AL + +
Sbjct: 62  PKVKALEALDKEPAISTVEELTPADSALKQRQTTAML----GTKRDIERNRRKDALRQGD 117

Query: 219 DPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDF 278
           DPESQK+L  K+K V +NKEALEST      N+PPYDA+ATTPQ+AY LDKII K EW++
Sbjct: 118 DPESQKNLGEKVKDVAVNKEALESTEVHVSRNLPPYDASATTPQEAYILDKIIPKKEWEY 177

Query: 279 VQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHS 338
           ++DI++ +  G E    AYP+F+ NRI +L+ I+D+ EK+ ++ IFSY+ HL+KFKDQ +
Sbjct: 178 LEDIYDMLQLGEEADFSAYPTFISNRIARLKGIKDEAEKKKMSCIFSYLNHLIKFKDQRT 237

Query: 339 MDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTD 398
           M G +SAK H+IP IL  KF + F   ES+RL +D+++LLI YVLVLTL +D+FRT+ TD
Sbjct: 238 MQGVSSAKSHKIPPILRYKFSSMFGATESRRLPNDELNLLICYVLVLTLFSDEFRTDYTD 297

Query: 399 IAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR 447
           I+KDLRMS   +R H+  LGCK L +  + YATLPVPL+FP + QR+R+
Sbjct: 298 ISKDLRMSVLLVRQHYSDLGCKFLSQNKISYATLPVPLKFPDSKQRKRK 346

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231416|ref|NP_188010.1| DNA binding / DNA-directed RNA polymerase [Arabidopsis thaliana] gi|13430584|gb|AAK25914.1|AF360204_1 unknown protein [Arabidopsis thaliana] gi|11994365|dbj|BAB02324.1| unnamed protein product [Arabidopsis thaliana] gi|14532856|gb|AAK64110.1| unknown protein [Arabidopsis thaliana] gi|332641922|gb|AEE75443.1| DNA binding / DNA-directed RNA polymerase [Arabidopsis thaliana]

 Score =  360 bits (923), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 183/400 (45%), Positives = 267/400 (66%), Gaps = 8/400 (2%)

Query: 51  ERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMR----PKVRVYRNMNEKKNRT 106
           +RV  KV  + E+P++  P+V YF + Y P    P    R    PKV VY++ ++ K R 
Sbjct: 44  KRVTLKVTQVAERPDRISPIVAYFSTGYDPCKVDPKTGKRVHETPKVTVYKHKDDSKKR- 102

Query: 107 GRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEP 166
             +++VVSP  + V++VGT+Y+GE  A Q   Y VGV +R  +TL+I+P+A NKI RLEP
Sbjct: 103 --IQVVVSPPGARVEFVGTNYTGEQAAMQTNTYRVGVFNREAKTLRILPVAHNKIIRLEP 160

Query: 167 RVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDL 226
           RV+  +  +++A    +  E++  +K     RY TKK++ + KK  AL   +D  +QK L
Sbjct: 161 RVKAQETNEEEASGSAVVKELE-ELKTGERDRYNTKKAVTRDKKKRALYMGDDAATQKVL 219

Query: 227 ALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHV 286
             K+  + +N  ALE T+S    N+PPY+  ATT  +AYPL+KII KG+W F++DI+  +
Sbjct: 220 DGKLSELGVNTAALEGTSSTVARNIPPYNTAATTANEAYPLEKIIEKGDWSFLEDIYWLL 279

Query: 287 SAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAK 346
              +E  ++AYP FV NR+++LR+I+DD++KQT+    + +THLVKFKD++SM+G  SAK
Sbjct: 280 QQETEAATEAYPVFVRNRLYRLRDIKDDMKKQTVCGAATLLTHLVKFKDRNSMNGYDSAK 339

Query: 347 QHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMS 406
            H++P I  QKF + F D+ES R+  DKI+LLISYVLVL+LH D+F T+P DIAKDLR+S
Sbjct: 340 DHKMPDIFRQKFNSMFKDSESDRIPVDKINLLISYVLVLSLHVDNFMTDPEDIAKDLRIS 399

Query: 407 EFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRR 446
             +LR HF +LGCK L++ +   ATLP PL FP+  +RRR
Sbjct: 400 TVELRKHFLQLGCKFLKQNSTTVATLPTPLNFPEVNRRRR 439

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357511101|ref|XP_003625839.1| DNA-directed RNA polymerase I subunit rpa49 [Medicago truncatula] gi|355500854|gb|AES82057.1| DNA-directed RNA polymerase I subunit rpa49 [Medicago truncatula]

 Score =  354 bits (908), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 191/411 (46%), Positives = 263/411 (63%), Gaps = 13/411 (3%)

Query: 40  IDEQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNM 99
           +D +P PE   E V+AK++ +   P K PP VGYF S + P            V+VYRN 
Sbjct: 1   MDTEPPPEPVHETVQAKIEVVSSNPTKMPPFVGYFTSGFDPVKSSSGST---DVQVYRN- 56

Query: 100 NEKKNRTGRMELVVSPRDSSVDYVGTSYSGEA--MAPQFCHYAVGVLDRSTQTLKIVPIA 157
              K    R ELVVSP  S V++VGTSY GEA  +A     Y +GV D+ +QTLKIVPI 
Sbjct: 57  ---KVMHKRTELVVSPAGSLVEFVGTSYEGEAAAVARNPATYMLGVFDKESQTLKIVPIG 113

Query: 158 ANKIFRLEPRVRGSDVADKDAGKG----EISAEVQANMKAMLDTRYGTKKSLRQSKKMHA 213
            NKIFRLEPRV+G +  +          E++AE     K   D   GTKKS +    +  
Sbjct: 114 GNKIFRLEPRVKGVEYKEPTPTPTKMVEELTAEQWTEKKRKADAALGTKKSKQMLIWLDE 173

Query: 214 LNKENDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILK 273
           +  + +PE++K+L  KMK+V++ + AL +T +    ++PPY+++ATTPQ+AY LDKIIL 
Sbjct: 174 MTADEEPEAKKNLDEKMKNVEVKETALANTEAHVTRHIPPYNSSATTPQEAYVLDKIILA 233

Query: 274 GEWDFVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKF 333
            EW+++QDI+  +          YPSF+ NRI++L++I+DD EK+ L+ I  +I +LVKF
Sbjct: 234 DEWNYLQDIYYSLQKEEAANFSLYPSFIRNRINRLKKIEDDSEKKKLSCILLFINYLVKF 293

Query: 334 KDQHSMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFR 393
           KDQHSMDG +S+K  ++P  LH +F   F  +ES+RL  +K++LLISYVLVLTL +DDFR
Sbjct: 294 KDQHSMDGISSSKFEKLPYTLHHRFTAMFDVSESRRLPPEKLNLLISYVLVLTLFSDDFR 353

Query: 394 TNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQR 444
           T+  DIAKDLRM+   LR  FE LGCKL+  + + YATLP+PL FP+  QR
Sbjct: 354 TDYRDIAKDLRMTTLTLRPIFEHLGCKLISSQKVSYATLPIPLTFPQIRQR 404

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	447
TAIR|locus:2088257	442	AT3G13940 [Arabidopsis thalian	0.897	0.907	0.453	7.3e-91
UNIPROTKB|I3LJI4	386	POLR1E "Uncharacterized protei	0.713	0.826	0.230	8.6e-18
UNIPROTKB|Q3SZ29	419	POLR1E "Polymerase (RNA) I pol	0.767	0.818	0.217	6.6e-17
UNIPROTKB|F1ST74	382	POLR1E "Uncharacterized protei	0.713	0.835	0.232	5e-16
ZFIN|ZDB-GENE-050522-251	413	polr1e "polymerase (RNA) I pol	0.720	0.779	0.234	5.3e-16
UNIPROTKB|F1PJ44	419	POLR1E "Uncharacterized protei	0.727	0.775	0.212	7.3e-16
UNIPROTKB|J9NVK4	477	POLR1E "Uncharacterized protei	0.727	0.681	0.212	1.1e-15
UNIPROTKB|Q9GZS1	481	POLR1E "DNA-directed RNA polym	0.718	0.667	0.216	2e-14
DICTYBASE|DDB_G0290909	375	rpa49 "putative RNA polymerase	0.664	0.792	0.243	1.3e-13
POMBASE|SPAC2F3.03c	425	rpa49 "DNA-directed RNA polyme	0.823	0.865	0.233	1.5e-13

TAIR|locus:2088257 AT3G13940 [Arabidopsis thaliana (taxid:3702)]

 Score = 906 (324.0 bits), Expect = 7.3e-91, P = 7.3e-91
 Identities = 186/410 (45%), Positives = 271/410 (66%)

Query:    42 EQPEPELEPERVKAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMR----PKVRVYR 97
             E  +   E +RV  KV  + E+P++  P+V YF + Y P    P    R    PKV VY+
Sbjct:    35 ETEDENEEDKRVTLKVTQVAERPDRISPIVAYFSTGYDPCKVDPKTGKRVHETPKVTVYK 94

Query:    98 NMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIA 157
             + ++ K R   +++VVSP  + V++VGT+Y+GE  A Q   Y VGV +R  +TL+I+P+A
Sbjct:    95 HKDDSKKR---IQVVVSPPGARVEFVGTNYTGEQAAMQTNTYRVGVFNREAKTLRILPVA 151

Query:   158 ANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKE 217
              NKI RLEPRV+  +  +++A    +  E++  +K     RY TKK++ + KK  AL   
Sbjct:   152 HNKIIRLEPRVKAQETNEEEASGSAVVKELE-ELKTGERDRYNTKKAVTRDKKKRALYMG 210

Query:   218 NDPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWD 277
             +D  +QK L  K+  + +N  ALE T+S    N+PPY+  ATT  +AYPL+KII KG+W 
Sbjct:   211 DDAATQKVLDGKLSELGVNTAALEGTSSTVARNIPPYNTAATTANEAYPLEKIIEKGDWS 270

Query:   278 FVQDIFNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQH 337
             F++DI+  +   +E  ++AYP FV NR+++LR+I+DD++KQT+    + +THLVKFKD++
Sbjct:   271 FLEDIYWLLQQETEAATEAYPVFVRNRLYRLRDIKDDMKKQTVCGAATLLTHLVKFKDRN 330

Query:   338 SMDGGASAKQHRIPKILHQKFLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFRTNPT 397
             SM+G  SAK H++P I  QKF + F D+ES R+  DKI+LLISYVLVL+LH D+F T+P 
Sbjct:   331 SMNGYDSAKDHKMPDIFRQKFNSMFKDSESDRIPVDKINLLISYVLVLSLHVDNFMTDPE 390

Query:   398 DIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYATLPVPLQFPKAIQRRRR 447
             DIAKDLR+S  +LR HF +LGCK L++ +   ATLP PL FP+ + RRRR
Sbjct:   391 DIAKDLRISTVELRKHFLQLGCKFLKQNSTTVATLPTPLNFPE-VNRRRR 439

GO:0003677 "DNA binding" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

UNIPROTKB|I3LJI4 POLR1E "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 238 (88.8 bits), Expect = 8.6e-18, P = 8.6e-18
 Identities = 80/347 (23%), Positives = 170/347 (48%)

Query:   104 NRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIF 162
             N   R + +++     + YVG ++ +G       C + VG+L++++  +++      ++F
Sbjct:    17 NPKKRSQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMEVYDA---EMF 73

Query:   163 RLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKKMHALNKEN-- 218
              ++P   G D       +  ++    A M + ++  +GT K  R   S++M+ +  E+  
Sbjct:    74 NMQPLFTGRDTVASFLRRSAVTELSLAQMDSCIEA-FGTTKQKRALNSRRMNKVGSESLN 132

Query:   219 --DPESQKDLALKMKSVK-INKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGE 275
                 ++ +D+ +  K V  +  +A+ S   D  L +PP  A+A  P+  Y  + ++   E
Sbjct:   133 RAVAKAAEDI-IDSKGVTALVSDAIHSDLQDDSLYLPPCHADAAKPEDVYKFEDVLSPAE 191

Query:   276 WDFVQ---DIFNHVSAGS--EVISD-AYPSFVCNRIHKLREIQDDVEKQTLASIFSYITH 329
             +D +Q   + F +V++    ++I + ++ SFV   +  L   Q+  ++Q  A    ++  
Sbjct:   192 YDALQSPSEAFRNVTSEQILKMIEENSHCSFVIEALKSLPSNQESRDRQ--ARCIWFLDT 249

Query:   330 LVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS----DAESKR--LSDDKIHLLISYVL 383
             L+KF+ Q  +    SA    IP ++  K L  F+    +  S R  +SD     + +YV+
Sbjct:   250 LIKFRAQKVIKR-KSALGPGIPHVISTKLLKHFTCLTYNNGSLRNVISDSMKAKITAYVI 308

Query:   384 VLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYA 430
             +L LH +DF+ + T + +DL++SE ++ +  + +  K+ + K  L A
Sbjct:   309 ILALHINDFQIDLTMLQRDLKLSEKRMMEIAKAMRLKISKRKVSLAA 355

GO:0030054 "cell junction" evidence=IEA

GO:0009303 "rRNA transcription" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q3SZ29 POLR1E "Polymerase (RNA) I polypeptide E, 53kDa" [Bos taurus (taxid:9913)]

 Score = 232 (86.7 bits), Expect = 6.6e-17, P = 6.6e-17
 Identities = 83/382 (21%), Positives = 182/382 (47%)

Query:    95 VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKI 153
             +Y+N N+  N   R + +++     + YVG ++ +G       C + VG+L++++  +++
Sbjct:    43 LYKN-NDSTNPRKRSQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMEV 101

Query:   154 VPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKKM 211
                   ++F ++P      V  +   + +  +  +  M + ++  +GT K  R   S++M
Sbjct:   102 YDA---ELFNMQPLFSDESVESESTPESQAKS-FREKMDSCIEA-FGTTKQKRALNSRRM 156

Query:   212 HALNKENDPESQKDLA---LKMKSVK-INKEALESTTSDTVLNVPPYDANATTPQQAYPL 267
             + +  E+   +    A   +  K V  +  +A+     D  + +PP  A+A  P+  Y  
Sbjct:   157 NKVGSESLNRAVAKAAENIIDTKGVTALVSDAIHDDLQDDSVCLPPCHADAAKPEDVYKF 216

Query:   268 DKIILKGEWDFVQ---DIFNHVSAGSEVIS----DAYPSFVCNRIHKLREIQDDVEKQTL 320
             + ++   E+D +Q   + F +V++  E++     +++ SFV   +  L   ++  ++Q  
Sbjct:   217 EDLLSPVEYDALQSPSEAFRNVTS-EEILKMIEENSHCSFVIEALKSLPSNEESRDRQ-- 273

Query:   321 ASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS-----DAESKRLSDDKI 375
             A    Y+  L+KF+ Q  +    SA    +P I++ K L  F+     +   + L  D +
Sbjct:   274 ARCIWYLDALIKFRAQKVIKR-KSALGPGVPHIINTKLLKQFTCLTYNNGSLRNLISDSM 332

Query:   376 HLLIS-YVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYA---- 430
                I+ YV+VL LH + F+ + T + +DL++SE ++ +  + +  K+ + K  L A    
Sbjct:   333 KAKITAYVIVLALHINGFQIDLTMLQRDLKLSEKRMMEIAKAMRLKISKRKVSLAAGGEE 392

Query:   431 -----TLPVPLQFPKAIQRRRR 447
                  TL +PL   +++ R+ +
Sbjct:   393 EHRLGTLSIPLPPAQSLDRQSK 414

GO:0030054 "cell junction" evidence=IEA

GO:0009303 "rRNA transcription" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F1ST74 POLR1E "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 223 (83.6 bits), Expect = 5.0e-16, P = 5.0e-16
 Identities = 81/348 (23%), Positives = 173/348 (49%)

Query:   104 NRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKIVPIAA---N 159
             N   R + +++     + YVG ++ +G       C + VG+L++++  +++         
Sbjct:    12 NPKKRSQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMEVYDAEMFNMQ 71

Query:   160 KIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKEN- 218
              +F +E  +R  D  ++ A K    A++ + ++A   T+   K++L  S++M+ +  E+ 
Sbjct:    72 PLFTVEKVLRTGD-PEESASKFLEKAQMDSCIEAFGTTKQ--KRALN-SRRMNKVGSESL 127

Query:   219 ---DPESQKDLALKMKSVK-INKEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKG 274
                  ++ +D+ +  K V  +  +A+ S   D  L +PP  A+A  P+  Y  + ++   
Sbjct:   128 NRAVAKAAEDI-IDSKGVTALVSDAIHSDLQDDSLYLPPCHADAAKPEDVYKFEDVLSPA 186

Query:   275 EWDFVQ---DIFNHVSAGS--EVISD-AYPSFVCNRIHKLREIQDDVEKQTLASIFSYIT 328
             E+D +Q   + F +V++    ++I + ++ SFV   +  L   Q+  ++Q  A    ++ 
Sbjct:   187 EYDALQSPSEAFRNVTSEQILKMIEENSHCSFVIEALKSLPSNQESRDRQ--ARCIWFLD 244

Query:   329 HLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS----DAESKR--LSDDKIHLLISYV 382
              L+KF+ Q  +    SA    IP ++  K L  F+    +  S R  +SD     + +YV
Sbjct:   245 TLIKFRAQKVIKR-KSALGPGIPHVISTKLLKHFTCLTYNNGSLRNVISDSMKAKITAYV 303

Query:   383 LVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYA 430
             ++L LH +DF+ + T + +DL++SE ++ +  + +  K+ + K  L A
Sbjct:   304 IILALHINDFQIDLTMLQRDLKLSEKRMMEIAKAMRLKISKRKVSLAA 351

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

ZFIN|ZDB-GENE-050522-251 polr1e "polymerase (RNA) I polypeptide E" [Danio rerio (taxid:7955)]

 Score = 224 (83.9 bits), Expect = 5.3e-16, P = 5.3e-16
 Identities = 81/346 (23%), Positives = 162/346 (46%)

Query:    95 VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKI 153
             V+++ N    R     +VV+  D  + YVG+++ SG   +   C Y VGVLD+ T  +K+
Sbjct:    37 VFKHSNASNPRKKNRRIVVADSDR-LPYVGSNFGSGSLQSNNMCKYFVGVLDKQTMQMKV 95

Query:   154 VPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKKM 211
                 + ++F + P + G   A +   + + S   +  + A+++  +GT K  R   S+++
Sbjct:    96 ---HSAQLFNMLPVIPGE--ATEAESENQPST-FRDKVDALIEA-FGTNKQKRALSSRRL 148

Query:   212 HALNKENDPESQKDLA---LKMKSVK-INKEALESTT-SDTVLNVPPYDANATTPQQAYP 266
             +A+  E   ++    A   +  K V+ +  E +E+   SD  L +PP +ANA   +  YP
Sbjct:   149 NAVGNETLHQAVAQAASNIIDQKGVEALRNEVIETEAQSDAALFLPPCNANADKLEDVYP 208

Query:   267 LDKIILKGEWDFVQDI-FNHVSAGSEVIS---DAY-PSFVCNRIHKLREIQDDVEKQTLA 321
              D+++   E++ ++++   + +  SE +    D + P  V   +  L + + D ++Q   
Sbjct:   209 FDQLLTPNEFESLKEVGAKYATLSSEDLQKMRDNHCPQTVLKHLETLSKDEADRDRQCRC 268

Query:   322 SIFSYITHLVKFKDQHSMDGGASAKQHRI--PKILHQKFLTSFSDAESKRLSDDKIHL-L 378
             + +         + + S   G+     RI   K+L    + SF +   +      + + +
Sbjct:   269 AWYLSFVIRASLQKRISFKFGSDDGCPRIIINKVLKNFTVESFHNGSLRNTVSMSMRMKM 328

Query:   379 ISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLRE 424
              SY L L LH      N T + +D+ +SE K+ +  + +G  L R+
Sbjct:   329 ASYCLALLLHMGGQTANLTLLHRDMSISENKMLEVAKAMGLTLSRQ 374

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

UNIPROTKB|F1PJ44 POLR1E "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 223 (83.6 bits), Expect = 7.3e-16, P = 7.3e-16
 Identities = 76/357 (21%), Positives = 171/357 (47%)

Query:    95 VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKI 153
             +Y++ N+  N   R + +++     + YVG ++ +G       C + VG+L++++  +++
Sbjct:    43 LYKS-NDSTNPRKRSQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMQV 101

Query:   154 VPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKKM 211
                   ++F ++P +   +  + D  +   +   +  M + ++  +GT K  R   S++M
Sbjct:   102 YDA---ELFNMQP-LFADESLESDLTQESQAKTFREKMDSCIEA-FGTTKQKRALNSRRM 156

Query:   212 HALNKEN-----DPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYP 266
             + +  E+        ++  +  K  +  +N +A+     D  L +PP  A+A  P+  Y 
Sbjct:   157 NTVGSESLNCAVAKAAENIIDAKGVTALVN-DAIHDDLQDDSLYLPPCHADAAKPEDVYK 215

Query:   267 LDKIILKGEWDFVQ---DIFNHVSAGSEVIS----DAYPSFVCNRIHKLREIQDDVEKQT 319
              + ++   E++ +Q   + F +VS+  E++     +++ SFV   +  L    D+  +  
Sbjct:   216 FEDLLSTAEYEALQSPSEAFRNVSS-EEILKMIEENSHCSFVIEALKSLPS--DEKSRDR 272

Query:   320 LASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS-----DAESKRLSDDK 374
              A    ++  L+KF+ Q  +    SA    IP +++ K L  F+     +   + L  D 
Sbjct:   273 QARCIWFLDTLIKFRAQKVVKR-KSALGPGIPHVINTKLLKHFTCLTYNNGSLRNLISDS 331

Query:   375 IHLLIS-YVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYA 430
             +   I+ YV++L LH  DF+ + T + +DL++SE ++ +  + +  K+ + K  L A
Sbjct:   332 MKAKITAYVIILALHISDFQIDLTMLQRDLKLSERRMIEIAKAMRLKISKRKVSLAA 388

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|J9NVK4 POLR1E "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 223 (83.6 bits), Expect = 1.1e-15, P = 1.1e-15
 Identities = 76/357 (21%), Positives = 171/357 (47%)

Query:    95 VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKI 153
             +Y++ N+  N   R + +++     + YVG ++ +G       C + VG+L++++  +++
Sbjct:   101 LYKS-NDSTNPRKRSQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMQV 159

Query:   154 VPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKKM 211
                   ++F ++P +   +  + D  +   +   +  M + ++  +GT K  R   S++M
Sbjct:   160 YDA---ELFNMQP-LFADESLESDLTQESQAKTFREKMDSCIEA-FGTTKQKRALNSRRM 214

Query:   212 HALNKEN-----DPESQKDLALKMKSVKINKEALESTTSDTVLNVPPYDANATTPQQAYP 266
             + +  E+        ++  +  K  +  +N +A+     D  L +PP  A+A  P+  Y 
Sbjct:   215 NTVGSESLNCAVAKAAENIIDAKGVTALVN-DAIHDDLQDDSLYLPPCHADAAKPEDVYK 273

Query:   267 LDKIILKGEWDFVQ---DIFNHVSAGSEVIS----DAYPSFVCNRIHKLREIQDDVEKQT 319
              + ++   E++ +Q   + F +VS+  E++     +++ SFV   +  L    D+  +  
Sbjct:   274 FEDLLSTAEYEALQSPSEAFRNVSS-EEILKMIEENSHCSFVIEALKSLPS--DEKSRDR 330

Query:   320 LASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS-----DAESKRLSDDK 374
              A    ++  L+KF+ Q  +    SA    IP +++ K L  F+     +   + L  D 
Sbjct:   331 QARCIWFLDTLIKFRAQKVVKR-KSALGPGIPHVINTKLLKHFTCLTYNNGSLRNLISDS 389

Query:   375 IHLLIS-YVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREKNMLYA 430
             +   I+ YV++L LH  DF+ + T + +DL++SE ++ +  + +  K+ + K  L A
Sbjct:   390 MKAKITAYVIILALHISDFQIDLTMLQRDLKLSERRMIEIAKAMRLKISKRKVSLAA 446

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q9GZS1 POLR1E "DNA-directed RNA polymerase I subunit RPA49" [Homo sapiens (taxid:9606)]

 Score = 212 (79.7 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 76/351 (21%), Positives = 168/351 (47%)

Query:    95 VYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSY-SGEAMAPQFCHYAVGVLDRSTQTLKI 153
             +Y N  +  N   R + +++     + YVG ++ +G       C + VG+L++++  +++
Sbjct:   105 LYEN-KDSTNPRKRNQRILAAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMEV 163

Query:   154 VPIAANKIFRLEPRVRGSDVA-DKDAGKGEISAEVQANMKAMLDTRYGTKKSLR--QSKK 210
                   ++F ++P    SDV+ + +      +   +  M + ++  +GT K  R   +++
Sbjct:   164 YDA---ELFNMQPLF--SDVSVESELALESQTKTYREKMDSCIEA-FGTTKQKRALNTRR 217

Query:   211 MHALNKENDPESQKDLA---LKMKSVK-INKEALESTTSDTVLNVPP-YDANATTPQQAY 265
             M+ +  E+   +    A   +  K V  +  +A+ +   D  L +PP YD +A  P+  Y
Sbjct:   218 MNRVGNESLNRAVAKAAETIIDTKGVTALVSDAIHNDLQDDSLYLPPCYD-DAAKPEDVY 276

Query:   266 PLDKIILKGEWDFVQ---DIFNHVSAGSEVISDAYPSFVCNR-IHKLREIQDDVE-KQTL 320
               + ++   E++ +Q   + F +V++  E++     +  C   I  L+ +  DVE +   
Sbjct:   277 KFEDLLSPAEYEALQSPSEAFRNVTS-EEILKMIEENSHCTFVIEALKSLPSDVESRDRQ 335

Query:   321 ASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSFS-----DAESKRLSDDKI 375
             A    ++  L+KF+  H +    SA    +P I++ K L  F+     +   + L  D +
Sbjct:   336 ARCIWFLDTLIKFR-AHRVVKRKSALGPGVPHIINTKLLKHFTCLTYNNGRLRNLISDSM 394

Query:   376 HLLIS-YVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREK 425
                I+ YV++L LH  DF+ + T + +DL++SE ++ +  + +  K+ + +
Sbjct:   395 KAKITAYVIILALHIHDFQIDLTVLQRDLKLSEKRMMEIAKAMRLKISKRR 445

GO:0003677 "DNA binding" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA

GO:0005730 "nucleolus" evidence=ISS;IDA

GO:0009303 "rRNA transcription" evidence=ISS

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0030054 "cell junction" evidence=IDA

DICTYBASE|DDB_G0290909 rpa49 "putative RNA polymerase I subunit" [Dictyostelium discoideum (taxid:44689)]

 Score = 202 (76.2 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 80/328 (24%), Positives = 155/328 (47%)

Query:   127 YSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAE 186
             Y  E    ++  YA+G+ D++T+ LKIVP    KI  +   V G  +   D+    IS E
Sbjct:    62 YESEDKDSKYAKYAIGIFDKNTKQLKIVP---TKIQTMNQSVIGYTLT-LDSSS-VISRE 116

Query:   187 VQAN-MKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVK-INKEALESTT 244
              + + +K + D+ +G+K + ++ +KM   N EN      D     KS+  +  E  +  +
Sbjct:   117 ERYDKIKKLADS-FGSKITKKKMQKMEMENVEN-----LDYEKTTKSIDAVKNELADIES 170

Query:   245 SDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFV--QDIFNHVSAGSEVISDAYPSFVC 302
             ++   ++P +DA     ++ Y ++ I+    +  +  Q   + +S  SE  S   P +  
Sbjct:   171 NEKPFDLPDFDAETNDVRKIYNIEAILPPRIFFGLNHQPFLDIISKTSEAPS-YLPEYFK 229

Query:   303 NRIHKLREIQDD---VEKQTLASIFSYITHLVKFKDQHS--MDGGASAKQHRIPKILHQK 357
             +++ +  +I+D+   V    L +   Y   L+K K  H   +  G +++   +   L   
Sbjct:   230 DQLKRFEDIKDEEKVVYNCKLLTFMWYSMILMKSKGGHEPLIKEGCTSE---VINFLVSI 286

Query:   358 FLTSFSDAESKRLSDDKIHLLISYVLVLTLHADDFR-TNPTDIAKDLRMSEFKLRDHFEK 416
             F +  +  +     DDK+ +  +Y+ +  L  +DF+ T+   +A+ L ++      HF +
Sbjct:   287 FGSKINHKKYNISQDDKLKIY-NYLAIFALKLEDFQITDIKSLAQSLSLTSSSFEKHFTR 345

Query:   417 LGCKLLR---EKNMLYATLPVPLQFPKA 441
             +GCK++R   EK  +   L  PL+ PKA
Sbjct:   346 VGCKVVRIGSEKRSV--RLEAPLKLPKA 371

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=IEA;ISS

GO:0003677 "DNA binding" evidence=IEA

GO:0006360 "transcription from RNA polymerase I promoter" evidence=ISS

GO:0005736 "DNA-directed RNA polymerase I complex" evidence=ISS

GO:0005730 "nucleolus" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

POMBASE|SPAC2F3.03c rpa49 "DNA-directed RNA polymerase I complex subunit Rpa49 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 203 (76.5 bits), Expect = 1.5e-13, P = 1.5e-13
 Identities = 99/424 (23%), Positives = 180/424 (42%)

Query:    57 VQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPR 116
             V+ +P   +  PPLV      Y P+            R    + +K N++ R   ++  R
Sbjct:    24 VKILPLSESSLPPLVTTISGFYPPE----------NTRF--QLLKKSNQSNRDASLIG-R 70

Query:   117 DSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADK 176
                V +   + S   +   +C   + V D++ +  KIVP  A  +   E  +      DK
Sbjct:    71 TERVQFEAKNQSTATVEANYC---LAVADKTGRVKKIVP--AKYLNTFERNILALQEKDK 125

Query:   177 DAGK--GEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKS-V 233
                K  G +S  V    +A L   +GT+KS +   +  A N+    E+  D+  ++ S V
Sbjct:   126 FLKKKHGTVSGTVM-EQRANLGLAFGTRKSQKAIMEESA-NRVK-AETLGDVKDQLVSNV 182

Query:   234 KINKEALESTTSDTVLN-----VPPYDANATTPQQAYPLDKIILKGEWD--FVQDIFNHV 286
             +   EAL +             +PP +  A + + AY L+ II K E+   +++ +  + 
Sbjct:   183 QKATEALPTQEDIAAAQAQDRPIPPVNVGAESIEDAYKLEDIIPKEEFSAIYIKPLLENP 242

Query:   287 SAGS--EVISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGAS 344
                +  +++   +  F+  R  +L  I++  +K+  A I  YI+ L  F       G   
Sbjct:   243 DERNWAKLLPYRHSLFINERFQRLLSIEEVDQKR--ARILYYISLLQAFLFSRRSVGNRE 300

Query:   345 AKQHRI---PKILHQKFLTSFSDAE---SKRLSDDKIHLLISYVLVLTLHADDFRTNPTD 398
               + ++   P+IL    +  F+      S ++S  ++  +I Y+LVL L  D++ T+   
Sbjct:   301 TLRKKLADPPEILIDGLIKRFTQTTGIGSVQVSSREVDKIICYILVLCLIVDNYSTDVLT 360

Query:   399 IAKDLRMSEFKLRDHFEKLGCKLLR---------------EKNMLYATLPVPLQFPKAIQ 443
             +A DL +   K  + F  +GC+++                 KN   A L +PL+FPK  +
Sbjct:   361 LANDLNVKTMKANELFRTVGCRIMAYTETQRMALGLNKTDAKNHKRAVLKIPLEFPKPRR 420

Query:   444 RRRR 447
              R R
Sbjct:   421 GRAR 424

GO:0003677 "DNA binding" evidence=IEA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=ISO

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005736 "DNA-directed RNA polymerase I complex" evidence=ISO

GO:0006360 "transcription from RNA polymerase I promoter" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	447
pfam06870	385	pfam06870, RNA_pol_I_A49, A49-like RNA polymerase	2e-50

>gnl|CDD|219209 pfam06870, RNA_pol_I_A49, A49-like RNA polymerase I associated factor

 Score =  175 bits (445), Expect = 2e-50
 Identities = 95/388 (24%), Positives = 164/388 (42%), Gaps = 40/388 (10%)

Query: 91  PKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAPQFCHYAVGVLDRSTQT 150
            K  +Y+  + KK      + ++      +DYVG ++   ++      Y VGV D ST++
Sbjct: 6   TKFTLYKKKDPKKKD----QFLLHGETERLDYVGNNFGTGSLKENQLDYYVGVYDPSTKS 61

Query: 151 LKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKK 210
           +++ P     + ++  +   S+ A K       +       +  L   +GTKK+ +    
Sbjct: 62  VELYPAPLFNLQKVTKK---SEKALKGPVIKSTAQTKTMEQRNALGEAFGTKKAKKALAS 118

Query: 211 MHALNKENDPESQKDLALKMKSVKINKEALES-----TTSDTVLNVPPYDANATTPQQAY 265
               N+ +  + +      ++SVK     L +        D+   +PP + +AT  +  Y
Sbjct: 119 R-EKNRVDSEKLRDSEDDIVESVKTATGDLPTKEEVAEAVDSDRPIPPANVDATKVEDVY 177

Query: 266 PLDKIILKGEWDFVQDI----FNHVSAGSEVISDAYPSFVCNRIHKLREIQDDVEKQTLA 321
           P++ II   EW  ++              E +  A   FV  R+ KL E   D  KQ   
Sbjct: 178 PIESIIPSEEWSAIEVASWLDEEDTKERLEKLPYAKSQFVAKRLPKLAEN-KDETKQEKL 236

Query: 322 SIFSYITHLVKFKDQHSMDGGASAKQH--RIPKILHQKFLTSFSDAESK------RLSDD 373
            +  Y++ L+ F D  S+       +     P+IL  K L  F+D  S       R+S  
Sbjct: 237 RLLYYLSLLIGFYDNRSVKRKDKLLEKLNNPPEILIDKILKRFTDPTSNNGGRSNRISPT 296

Query: 374 KIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLR---------- 423
               L+ Y+L L LH D+F  + T +A+DL++   KL + F+ LG K+ +          
Sbjct: 297 HEDKLLCYILALALHLDNFSVDLTPLARDLKLKPSKLVELFKALGAKIKKATVAQEAFGI 356

Query: 424 ----EKNMLYATLPVPLQFPKAIQRRRR 447
                     ATL +PL+FP+  +RRRR
Sbjct: 357 PKSAANTHKIATLKLPLKFPELRRRRRR 384

Saccharomyces cerevisiae A49 is a specific subunit associated with RNA polymerase I (Pol I) in eukaryotes. Pol I maintains transcription activities in A49 deletion mutants. However, such mutants are deficient in transcription activity at low temperatures. Deletion analysis of the fusion yeast homolog indicate that only the C-terminal two thirds are required for function. Transcript analysis has demonstrated that A49 is maximising transcription of ribosomal DNA. Length = 385

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	447
KOG4183	413	consensus RNA polymerase I 49 kDa subunit [Transcr	100.0
PF06870	385	RNA_pol_I_A49: A49-like RNA polymerase I associate	100.0

>KOG4183 consensus RNA polymerase I 49 kDa subunit [Transcription]

Probab=100.00  E-value=1.1e-75  Score=570.60  Aligned_cols=373  Identities=27%  Similarity=0.447  Sum_probs=299.0

Q ss_pred             eeEEEEEEecCCCCCCCCEEEEc--CCCCCCCCCCCCCCCCCcEEEEeccccccCCCCcccEEEecCCCCeeEEeccCC-
Q 013236           52 RVKAKVQFIPEQPNKAPPLVGYF--PSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYS-  128 (447)
Q Consensus        52 ~~~v~v~~~~~~~~~~~P~v~~F--~~G~~p~~~~~~~~~~~~F~ly~~~~~~~~~~~r~~~vv~~e~~~l~YvG~~~~-  128 (447)
                      ++.-.|..+...++...|+|++|  .+|+.++       +++.|+||++++.++   .|.++||+|++++|+|+|.|++ 
T Consensus         7 rv~r~v~~~ae~svqi~plva~s~~~~gfr~p-------entrftlyKkkdssk---~r~q~vl~geteRleyvg~n~s~   76 (413)
T KOG4183|consen    7 RVARWVYCGAEDSVQIAPLVAFSDPNGGFRSP-------ENTRFTLYKKKDSSK---PRNQRVLAGETERLEYVGNNFST   76 (413)
T ss_pred             chhheeeccCcccccccceeeeecCcCCccCC-------CCceEEEeecccccC---cccceeeeCCCceeEEEecccch
Confidence            34445667777888999999997  8888764       889999999975433   3568999999999999999998 


Q ss_pred             CCCCCccCCceEEEEEeCCCCcEEEEeccccceeeecccccCccccccccCCccccHHHHHHHHHHHHHhhchhHHHHHH
Q 013236          129 GEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRLEPRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQS  208 (447)
Q Consensus       129 ~~~~~~~~~~Y~VgV~dk~T~~l~l~Pv~~~ki~~l~p~vk~~~~~~~~~~~~~~~~~~~~~~r~~L~eaFGTKKaKkai  208 (447)
                      ++..   .++|+|||+||.+++|+|+|+....++.+.+.++......    -+..++...+++|+.||+||||+|+||||
T Consensus        77 ~A~~---~nty~Vgvfnke~k~~~iypa~~ln~~~l~~~vk~e~~~~----lesk~~tv~~elr~~lgeafgT~K~KKAi  149 (413)
T KOG4183|consen   77 GALK---CNTYCVGVFNKESKQMEIYPAELLNMQPLFSDVKVESELA----LESKTKTVREELRDSLGEAFGTTKQKKAI  149 (413)
T ss_pred             hhhh---hcceEEEEeccCCceeEEeehhhhceeecchhhhhhcchh----hhhccccchHHHHhhHHHhhCchHHHHHH
Confidence            3333   4678899999999999999997666666555554332221    01122233479999999999999999999


Q ss_pred             HHHHHhccCCChhhHHHHHHHhhhhhhhhhhhccccc-----ccCCCCCCCCCCCCCCCCCccCCCCCChhHHHHHHHHH
Q 013236          209 KKMHALNKENDPESQKDLALKMKSVKINKEALESTTS-----DTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIF  283 (447)
Q Consensus       209 ~~~e~~~~~~d~~~~~~L~~~v~~v~~~~~~l~~~e~-----~~~r~iPp~N~dAt~pedVY~le~IIp~~e~~~L~e~~  283 (447)
                      ...++|+++.+.+.+.+.+ .|.++..++.++++++.     ..+|||||||.+||+|+|+||||+|||++||.+|+...
T Consensus       150 ~~~~~nRv~~e~l~daa~q-~v~~v~~a~~~lpt~ad~~~~~~qdrpiPp~n~dAt~~edaYplEdIIpk~E~sfl~~~s  228 (413)
T KOG4183|consen  150 NTRRMNRVGNESLNDAAAQ-AVETVIDAKGVLPTVADAIHNDLQDRPIPPCNDDATKPEDAYPLEDIIPKAEYSFLQSPS  228 (413)
T ss_pred             HHHHHhhhcccccchHHHH-HHHHHHhhccccccHHhhhhhccccCCCCCcccccCCHHhcccHHhcCChhhhhhhcChH
Confidence            9998888766655555544 67777766677776442     35899999999999999999999999999999999555


Q ss_pred             HHhhcCc-c-c----ccCCCChhHHHHHhHhhccCchHHHHHHHHHHHHHHHHHHhhhccCcCcc-c-ccccCCCCHHHH
Q 013236          284 NHVSAGS-E-V----ISDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGG-A-SAKQHRIPKILH  355 (447)
Q Consensus       284 ~~l~~~~-e-~----~~~~~s~fV~~rL~~l~~~~~~~~k~~~~~iL~Yls~Ll~f~~~~~~~k~-~-~~~l~~~p~~v~  355 (447)
                       .|.+.+ + +    .-...|.||..||.+|...+   ...+.++|||||++|++|+..|.++.+ . ..+++++|++++
T Consensus       229 -~l~n~d~e~~lel~py~~~~~fvnerl~sL~d~e---sdmkkar~lyylslL~~f~~~Rrv~nk~~l~~kl~~pPeIl~  304 (413)
T KOG4183|consen  229 -ALRNVDSEEILELIPYNSHCTFVNERLKSLPDVE---SDMKKARCLYYLSLLIKFRAHRRVKNKSALGPKLHGPPEILN  304 (413)
T ss_pred             -HHhCccHHHHHhhccccccchHHHHHHhhcccch---hhhHHHHHHHHHHHHHHHHHHHhcccccccchhhcCCcHHHH
Confidence             666654 2 1    12345789999999997322   344457899999999999854333332 3 678999999999


Q ss_pred             HHHHhhcccCC------CCccCHHHHHHHHHHHHHHHHhcCCCccCcHhHHHHhCCCHHHHHHHHHHhCCEEeecC----
Q 013236          356 QKFLTSFSDAE------SKRLSDDKIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREK----  425 (447)
Q Consensus       356 ~~il~~Ft~~~------~~~~s~~~~dkLl~yilvLaL~ldnf~vd~~~La~dLkl~~~kl~~~fr~LGc~v~k~~----  425 (447)
                      ++|+++||+..      +..||+.++|||+|||||||||+|||.+|+++||+||++++++|+++||+|||+|.+.+    
T Consensus       305 dkllsrFt~~t~~~~~~s~~Is~~~~dkIicYvLvL~LhvdNf~tD~t~La~DLnlst~k~~elfr~lgcki~k~tvtqa  384 (413)
T KOG4183|consen  305 DKLLSRFTCLTYNNGRLSNLISDSMKDKIICYVLVLALHVDNFQTDLTVLARDLNLSTKKMMELFRALGCKISKRTVTQA  384 (413)
T ss_pred             HHHHhheeecccCCcccceecChHHhhHHHHHHHHHHHhhcccccchHHHHhhcccCHHHHHHHHHHhcceeeccchHHh
Confidence            99999999852      25799999999999999999999999999999999999999999999999999998853    


Q ss_pred             -----CeEEEEEcCCCCCCccccccC
Q 013236          426 -----NMLYATLPVPLQFPKAIQRRR  446 (447)
Q Consensus       426 -----~~kia~LkvPl~fP~~~rr~~  446 (447)
                           +|++|||++||+||++.||+|
T Consensus       385 ~a~g~~hK~atLk~Pl~fpe~~rRgr  410 (413)
T KOG4183|consen  385 AASGEDHKLATLKLPLPFPETSRRGR  410 (413)
T ss_pred             hhcccccceeeeccCCCCcccchhcc
Confidence                 699999999999999977665

>PF06870 RNA_pol_I_A49: A49-like RNA polymerase I associated factor ; InterPro: IPR009668 Saccharomyces cerevisiae A49 is a specific subunit associated with RNA polymerase I (Pol I) in eukaryotes

Probab=100.00  E-value=6.5e-73  Score=584.00  Aligned_cols=351  Identities=32%  Similarity=0.560  Sum_probs=181.9

Q ss_pred             CCCCcEEEEeccccccCCCCcccEEEecCCCCeeEEeccCC-CCCCCccCCceEEEEEeCCCCcEEEEeccccceeee-c
Q 013236           88 EMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYS-GEAMAPQFCHYAVGVLDRSTQTLKIVPIAANKIFRL-E  165 (447)
Q Consensus        88 ~~~~~F~ly~~~~~~~~~~~r~~~vv~~e~~~l~YvG~~~~-~~~~~~~~~~Y~VgV~dk~T~~l~l~Pv~~~ki~~l-~  165 (447)
                      ++++.|++|+|+   ..++++.+++|+|++++|+|+|++++ ++..++++|+||||||||+||+|+|+|+.   .+.+ .
T Consensus         3 p~~~~F~~y~~~---~~~~~~~~~~l~~~~~~v~y~g~~~~~~~~~~~~~~~y~vgv~dk~T~~l~l~~a~---~~~~~~   76 (385)
T PF06870_consen    3 PSSTKFTLYKHK---NKSRKKSELVLHGETDRVEYVGRNFGTGESAANQLCKYYVGVYDKETGTLELVPAP---LFTLRR   76 (385)
T ss_dssp             -TT-EEEEEEE------------EEEEEE-SSEEEEEE--HHHHHHE----EEEEEEEETTTTEEEEEEE----EEEE-E
T ss_pred             CCCCeeEEeccC---CCccccccEEEEcCCCceEEEEeecCcccccccccccEEEEEEeCCCCcEEEEEec---ceeecc
Confidence            388999999995   12334668999999999999999997 34445678999999999999999999985   4666 4


Q ss_pred             ccccCccccccccCCccccHHHHHHHHHHHHHhhchhHHHHHHHHHHHhccCCChhhHHHHHHHhhhhhhhhhhhccc--
Q 013236          166 PRVRGSDVADKDAGKGEISAEVQANMKAMLDTRYGTKKSLRQSKKMHALNKENDPESQKDLALKMKSVKINKEALEST--  243 (447)
Q Consensus       166 p~vk~~~~~~~~~~~~~~~~~~~~~~r~~L~eaFGTKKaKkai~~~e~~~~~~d~~~~~~L~~~v~~v~~~~~~l~~~--  243 (447)
                      +.++...... .....+...+.+.++|++|+++|||||+||++.++++|+++.+.+ ...++..+++|..+..++++.  
T Consensus        77 ~~~~~~~~~~-~~~~~~~~~~~~~~~r~~L~~aFGTkK~Kral~~~e~n~v~~~~l-~~~~~~~~~~i~~~~~~~~~~~e  154 (385)
T PF06870_consen   77 VIVKSKKELE-GPDDESLSDESYREQRNALGEAFGTKKAKRALQSRERNKVDSEAL-EDAASAIVSSIAEATADLPTKEE  154 (385)
T ss_dssp             EEE-----------------------------------------------------------------------------
T ss_pred             hhhhcccccc-ccccccccchhHHHHHHHHHHHhccHHHHHHHHHHHHhcccchhh-HHHHHHHHHhhhhhcccccchhH
Confidence            4444333221 111122356788999999999999999999999999998665533 233344456666555555542  


Q ss_pred             ---ccccCCCCCCCCCCCCCCCCCccCCCCCChhHHHHHHHHHHHhhcCc---cc--ccCCCChhHHHHHhHhhccCchH
Q 013236          244 ---TSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGS---EV--ISDAYPSFVCNRIHKLREIQDDV  315 (447)
Q Consensus       244 ---e~~~~r~iPp~N~dAt~pedVY~le~IIp~~e~~~L~e~~~~l~~~~---e~--~~~~~s~fV~~rL~~l~~~~~~~  315 (447)
                         +.+.+++|||||++|++|+|||||++|||.++|++|+ +...+....   ++  ....+|.||.+||..|...++..
T Consensus       155 ~~~~~~~~r~iPp~n~~At~p~dVY~l~~iI~~~e~~~l~-~~~~~~~~~~~~~~~~~~~~~s~~V~~rl~~l~~~~~~~  233 (385)
T PF06870_consen  155 LAEASDANRPIPPYNLDATSPEDVYPLEDIIPPEELEALP-VEAWLEAVDPEEELQLLPYSYSEFVANRLKRLSESKDEK  233 (385)
T ss_dssp             TTTTSSTTSSS----TT-SSGGGSS-HHHHS-HHHHTT----HHHHH--SHHHHHHTSS-S--HHHHHHHTT--SGGGH-
T ss_pred             HHhhhhccCCCCCCCCCCCCHHHccCHHHcCCHHHHHhcc-chhhhhhccchhhhhcccccCCHHHHHHHHHhhccccch
Confidence               2345799999999999999999999999999999998 444444433   22  23378999999999998665544


Q ss_pred             HHHHHHHHHHHHHHHHHhhhccCcCccc--ccccCCCCHHHHHHHHhhcccC------CCCccCHHHHHHHHHHHHHHHH
Q 013236          316 EKQTLASIFSYITHLVKFKDQHSMDGGA--SAKQHRIPKILHQKFLTSFSDA------ESKRLSDDKIHLLISYVLVLTL  387 (447)
Q Consensus       316 ~k~~~~~iL~Yls~Ll~f~~~~~~~k~~--~~~l~~~p~~v~~~il~~Ft~~------~~~~~s~~~~dkLl~yilvLaL  387 (447)
                      .+.+.+|||+||++|+.|+..+.+.++.  ...+..+|++|+++|+++|++.      +++.||++++||||||||||||
T Consensus       234 ~~~~~~~~L~Yl~~Li~~~~~r~~~~k~~~~~~l~~~p~~v~~~ll~~Ft~~~~~~~~~~~~~s~~~~dkLl~~il~LaL  313 (385)
T PF06870_consen  234 DRKRKLRILRYLSHLIKFYRSRSVKKKDKLEEKLSPIPEIVIDKLLDRFTESSSSSGSRSYQISKTMKDKLLTYILALAL  313 (385)
T ss_dssp             ---HHHHHHHHHHHHHHHHHTTT--CHHHHHHHS----HHHHHHHHHHHSEE-------BEE--HHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHcCccccchhhhccccCCCHHHHHHHHHHccCcccCCCCcCcccCHHHHHHHHHHHHHHHH
Confidence            5677789999999999999887665443  4556779999999999999986      2367999999999999999999


Q ss_pred             hcCCCccCcHhHHHHhCCCHHHHHHHHHHhCCEEee-----------cCCeEEEEEcCCCCCCccccccCC
Q 013236          388 HADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLR-----------EKNMLYATLPVPLQFPKAIQRRRR  447 (447)
Q Consensus       388 ~ldnf~vd~~~La~dLkl~~~kl~~~fr~LGc~v~k-----------~~~~kia~LkvPl~fP~~~rr~~r  447 (447)
                      |||||++|+++||+||+|++++|.+|||+|||+|++           .+++++|+|++||+||++++|++|
T Consensus       314 ~id~f~~d~~~L~~dLkl~~~~l~~~~r~LGC~v~~~~~~~~~~~~~~~~~~~a~L~~PL~fP~~~~~~~r  384 (385)
T PF06870_consen  314 HIDNFSVDITDLARDLKLSPKKLTQYFRELGCKVKKATEALGLSKSEAKTHKIATLKLPLKFPKPRRRRRR  384 (385)
T ss_dssp             HHTTTEEEHHHHHHHHT--HHHHHHHHHHTT-EEEE--HHHT--GGGGGGSEEEE----------------
T ss_pred             HhcCcccChHHHHHHhCCCHHHHHHHHHHhCCEecccccccccccccccceeEEEEeCCCCCCCcccccCC
Confidence            999999999999999999999999999999999988           236999999999999999999874

Pol I maintains transcription activities in A49 deletion mutants. However, such mutants are deficient in transcription activity at low temperatures. Deletion analysis of the fusion yeast homologue indicates that only the C-terminal two thirds are required for function. Transcript analysis has demonstrated that A49 is maximising transcription of ribosomal DNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 3NFG_A 3NFH_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	447
3nfi_A	237	DNA-directed RNA polymerase I subunit RPA49; winge	3e-33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08

>3nfi_A DNA-directed RNA polymerase I subunit RPA49; winged helix, transcription, DNA binding, DN protein; HET: MSE PE4; 1.90A {Saccharomyces cerevisiae} PDB: 3nfh_A Length = 237

 Score =  124 bits (313), Expect = 3e-33
 Identities = 39/234 (16%), Positives = 83/234 (35%), Gaps = 37/234 (15%)

Query: 237 KEALESTTSDTVLNVPPYDANATTPQQAYPLDKIILKGEWDF--VQDIFNHVSAGSEVI- 293
           +  ++   +      P  + +AT  +Q YP++ II K E  F  V  I        ++  
Sbjct: 9   RAQMDEI-TSNDRPTPLANIDATDVEQIYPIESIIPKKELQFIRVSSILKEADKEKKLEL 67

Query: 294 --SDAYPSFVCNRIHKLREIQDDVEKQTLASIFSYITHLVKFKDQHSMDGGASAKQ--HR 349
                   +V  ++  L +        T   +  Y++ L+   +   ++      +  + 
Sbjct: 68  FPYQNNSKYVAKKLDSLTQPSQM----TKLQMLYYLSLLLGVYENRRVNNKTKLLERLNS 123

Query: 350 IPKILHQKFLTSFSDAESKR----------LSDDKIHLLISYVLVLTLHADDFRTNPTDI 399
            P+IL    L+ F+  +  +          +       ++ Y+L + +H D+F    T +
Sbjct: 124 PPEILVDGILSRFTVIKPGQFGRSKDRSYFIDPQNEDKILCYILAIIMHLDNFIVEITPL 183

Query: 400 AKDLRMSEFKLRDHFEKLGCKLL---------------REKNMLYATLPVPLQF 438
           A +L +   K+   F  LG  +                   +   AT+ VP + 
Sbjct: 184 AHELNLKPSKVVSLFRVLGAIVKGATVAQAEAFGIPKSTAASYKIATMKVPFKL 237

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 55.2 bits (132), Expect = 3e-08
 Identities = 64/518 (12%), Positives = 144/518 (27%), Gaps = 157/518 (30%)

Query: 3   EDEETR--SKKEHESQQEQETEGPKKKNKKRK-----KDKANTTIDEQPEPELEP--ERV 53
           +D      SK+E +             +   +       K    + +  E  L    + +
Sbjct: 39  QDMPKSILSKEEIDHIIMS----KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94

Query: 54  KAKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVV 113
            + ++    QP  +     Y   I + D  + D ++  K  V R     K R   +EL  
Sbjct: 95  MSPIKTEQRQP--SMMTRMY---IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP 149

Query: 114 SP--------------------RDSSVD-------Y---VGTSYSGEA---MAPQFCHYA 140
           +                         V        +   +    S E    M  +  +  
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 141 VGVLDRSTQTLKIVPIAAN-------KIFRLEPRVRG----SDVADKDAGKGEISA-EVQ 188
                  +     + +  +       ++ + +P         +V +  A     +A  + 
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA----WNAFNLS 265

Query: 189 ANMKAMLDTRY-----------GTKKSL---------RQSKKMHA--LNKEND--PESQK 224
              K +L TR+            T  SL          + K +    L+      P    
Sbjct: 266 C--KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323

Query: 225 D---LALKM--KSVK-----------INKEALESTTSDTVLNVPPYDANATTPQQAYPLD 268
                 L +  +S++           +N + L +    ++  + P +      ++ +   
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-----RKMF--- 375

Query: 269 KIILKGEWDFVQDIFN-HVSAGSEVIS-------DAYPSFVCNRIHKLREIQDDVEKQTL 320
                        +F       + ++S        +    V N++HK   ++   ++ T+
Sbjct: 376 -------DRLS--VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426

Query: 321 ASIFSYITHLVKFKDQHSMDGGASAKQHRIPKILHQKFLTSF-------SDAESKRLSDD 373
                 I   +  + +  ++   +         LH+  +  +       SD       D 
Sbjct: 427 -----SI-PSIYLELKVKLENEYA---------LHRSIVDHYNIPKTFDSDDLIPPYLDQ 471

Query: 374 KIHLLISYVLVLTLHADDFRTNPTDIAKDLRMSEFKLR 411
             +  I + L    H +        +  D R  E K+R
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFR-MVFLDFRFLEQKIR 508

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	447
3nfi_A	237	DNA-directed RNA polymerase I subunit RPA49; winge	100.0
3nff_A	122	RNA polymerase I subunit A49; tripple barrel, tran	99.78
3nfg_A	102	DNA-directed RNA polymerase I subunit RPA49; tripl	99.78

>3nfi_A DNA-directed RNA polymerase I subunit RPA49; winged helix, transcription, DNA binding, DN protein; HET: MSE PE4; 1.90A {Saccharomyces cerevisiae} PDB: 3nfh_A

Probab=100.00  E-value=1.5e-46  Score=361.76  Aligned_cols=188  Identities=21%  Similarity=0.375  Sum_probs=158.7

Q ss_pred             ccCCCCCCCCCCCCCCCCCccCCCCCChhHHHHHHHHHHHhhcCc-----ccccC-CCChhHHHHHhHhhccCchHHHHH
Q 013236          246 DTVLNVPPYDANATTPQQAYPLDKIILKGEWDFVQDIFNHVSAGS-----EVISD-AYPSFVCNRIHKLREIQDDVEKQT  319 (447)
Q Consensus       246 ~~~r~iPp~N~dAt~pedVY~le~IIp~~e~~~L~e~~~~l~~~~-----e~~~~-~~s~fV~~rL~~l~~~~~~~~k~~  319 (447)
                      +.+|||||||.||++|+||||+++|||+.||++|+ +...+.+.+     +.... .+|.||.+||..|.+ +   ++.+
T Consensus        17 ~~~r~iPp~n~dAt~pedVY~le~iIp~~e~~~L~-~~~~~~~~d~~~~~~~~~~~~~s~~V~~rL~~l~~-~---~~~~   91 (237)
T 3nfi_A           17 SNDRPTPLANIDATDVEQIYPIESIIPKKELQFIR-VSSILKEADKEKKLELFPYQNNSKYVAKKLDSLTQ-P---SQMT   91 (237)
T ss_dssp             --CCSSCCCCTTCSSGGGTSCHHHHSCHHHHTTCC-CHHHHHCCCHHHHHHTSSCCCSCCHHHHHHTTCCS-G---GGHH
T ss_pred             hccCCCCCCCCCCCCHHhCCchHhcCCHHHHHHhh-hhhhhccccHHHHHhhcccCccChHHHHHHHHhcc-h---hHHH
Confidence            57999999999999999999999999999999998 455555543     11122 579999999999965 2   2233


Q ss_pred             HHHHHHHHHHHHHhhhccCcCcc-c-ccccCCCCHHHHHHHHhhcccC--C--------CCccCHHHHHHHHHHHHHHHH
Q 013236          320 LASIFSYITHLVKFKDQHSMDGG-A-SAKQHRIPKILHQKFLTSFSDA--E--------SKRLSDDKIHLLISYVLVLTL  387 (447)
Q Consensus       320 ~~~iL~Yls~Ll~f~~~~~~~k~-~-~~~l~~~p~~v~~~il~~Ft~~--~--------~~~~s~~~~dkLl~yilvLaL  387 (447)
                      .+|+|+||++|++|++.+++..+ . ..+++++|++|+++|+++||+.  |        ++.||++++|||+||||||||
T Consensus        92 k~~~L~Yl~~Li~f~~~~~~~~k~~L~~~L~~~P~~v~~~ll~~Ft~~~~g~~~~s~~~~~~is~~~~dkLl~yilvLaL  171 (237)
T 3nfi_A           92 KLQMLYYLSLLLGVYENRRVNNKTKLLERLNSPPEILVDGILSRFTVIKPGQFGRSKDRSYFIDPQNEDKILCYILAIIM  171 (237)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCBHHHHHTTSSCCCHHHHHHHHHHHSEECCCHHHHHHCCBEECCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcHHHHHHhccCCCHHHHHHHHHHccCCcCCccccccccccccCHHHHHHHHHHHHHHHH
Confidence            47899999999999977654333 2 4567899999999999999974  2        248999999999999999999


Q ss_pred             hcCCCccCcHhHHHHhCCCHHHHHHHHHHhCCEEeecC---------------CeEEEEEcCCCCC
Q 013236          388 HADDFRTNPTDIAKDLRMSEFKLRDHFEKLGCKLLREK---------------NMLYATLPVPLQF  438 (447)
Q Consensus       388 ~ldnf~vd~~~La~dLkl~~~kl~~~fr~LGc~v~k~~---------------~~kia~LkvPl~f  438 (447)
                      |+|||+||+++||+||+|++++|++|||+|||+|++.+               .+++|+|++||+|
T Consensus       172 ~idnf~vd~~~La~DLkl~~~~l~~~fr~lGckv~~~~~~~~~~~g~~k~~a~~~k~a~L~vPl~~  237 (237)
T 3nfi_A          172 HLDNFIVEITPLAHELNLKPSKVVSLFRVLGAIVKGATVAQAEAFGIPKSTAASYKIATMKVPFKL  237 (237)
T ss_dssp             HHTTTEEEHHHHHHHHTCCHHHHHHHHHHTTCEEEECCHHHHHHHTCCGGGGGGSEEEECCSSCCC
T ss_pred             HHcCCccCHHHHHHHhCCCHHHHHHHHHHhCCEeCCCchhHHHHhCCchhhhhcceeEEEecCCCC
Confidence            99999999999999999999999999999999998843               4799999999986

>3nff_A RNA polymerase I subunit A49; tripple barrel, transcription, dimerization; 3.24A {Candida glabrata}

Probab=99.78  E-value=2.8e-19  Score=152.50  Aligned_cols=101  Identities=15%  Similarity=0.321  Sum_probs=78.3

Q ss_pred             EEEEEecCCCCCCCCEEEEcCCCCCCCCCCCCCCCCCcEEEEeccccccCCCCcccEEEecCCCCeeEEeccCCCCCCCc
Q 013236           55 AKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAP  134 (447)
Q Consensus        55 v~v~~~~~~~~~~~P~v~~F~~G~~p~~~~~~~~~~~~F~ly~~~~~~~~~~~r~~~vv~~e~~~l~YvG~~~~~~~~~~  134 (447)
                      |+|+++.++|+..   |++|++|+.++       +++.|++|+++    +.   .+++|+|||++|+|+|+|++.   ++
T Consensus        10 ~~v~~~~~~p~~~---v~~ffpGl~~P-------~~t~F~lY~kk----~~---~e~LLhgEt~rLdY~g~e~~~---~~   69 (122)
T 3nff_A           10 IAIDSYQEDPSVV---VSNFFKGVRVP-------KDTEFQLYKKR----KQ---DQFVLHGENERLEYDGETDEL---TT   69 (122)
T ss_dssp             CEEEECCCSSCCC---EEECCTTCCCC-------SSCEEEEEEEC----CC---CCCEEEEECSSCEEEEECCTT---HH
T ss_pred             EEEEeeccCCCEE---EEeccCCccCC-------CCCceeeeccC----Cc---cceEEEccCCceeEEeccccc---cc
Confidence            8999999999954   99999998764       88999999993    21   168999999999999999872   56


Q ss_pred             cCCceEEEEEeCCCCcEEEEec--cccceeee-cccccCccccc
Q 013236          135 QFCHYAVGVLDRSTQTLKIVPI--AANKIFRL-EPRVRGSDVAD  175 (447)
Q Consensus       135 ~~~~Y~VgV~dk~T~~l~l~Pv--~~~ki~~l-~p~vk~~~~~~  175 (447)
                      ..|+||||||||+||+|+|+|+  ...+++.. ...++|+.+++
T Consensus        70 ~~~~YyVgVyDP~T~~leL~~Apl~~~rv~sk~~~~~~gp~ik~  113 (122)
T 3nff_A           70 KTNQYMVGLYDKQSGKINLYRAPVVTSKIVSKFSKNLKGPEIKS  113 (122)
T ss_dssp             HHEEEEEEEEETTTTEEEEEECCEEEEEEECSSTTTC-C-----
T ss_pred             ccccEEEEEEcCCCCeEEEEEcceEEEEEEecccccccCCcccc
Confidence            6799999999999999999975  33445555 34678887763

>3nfg_A DNA-directed RNA polymerase I subunit RPA49; triple barrel, transcription, dimerization; 2.51A {Candida glabrata}

Probab=99.78  E-value=3.5e-19  Score=148.02  Aligned_cols=82  Identities=15%  Similarity=0.304  Sum_probs=72.0

Q ss_pred             EEEEEecCCCCCCCCEEEEcCCCCCCCCCCCCCCCCCcEEEEeccccccCCCCcccEEEecCCCCeeEEeccCCCCCCCc
Q 013236           55 AKVQFIPEQPNKAPPLVGYFPSIYKPDVDHPDEEMRPKVRVYRNMNEKKNRTGRMELVVSPRDSSVDYVGTSYSGEAMAP  134 (447)
Q Consensus        55 v~v~~~~~~~~~~~P~v~~F~~G~~p~~~~~~~~~~~~F~ly~~~~~~~~~~~r~~~vv~~e~~~l~YvG~~~~~~~~~~  134 (447)
                      |+|+++.++|+   .+|++|++|+.++       +++.|++|+++    +.   .+++|+|||++|+|+|+|++.   ++
T Consensus        10 ~~v~~~~~~p~---~~v~~f~pGl~~P-------~~t~F~lY~kk----~~---~e~lLhgEt~rLdY~g~e~~~---~~   69 (102)
T 3nfg_A           10 IAIDSYQEDPS---VVVSNFFKGVRVP-------KDTEFQLYKKR----KQ---DQFVLHGENERLEYDGETDEL---TT   69 (102)
T ss_dssp             EEEEEEECSCC---CEEEECCTTCCCC-------TTCEEEEEEEC----CC---CCEEEEEECSSEEEEEECCHH---HH
T ss_pred             EEEEEeccCCC---EEEEeccCCccCC-------CCceeEeeecC----CC---cceEEEeCCCceEEEeccccc---Cc
Confidence            99999999998   5699999998764       88999999993    21   169999999999999999863   66


Q ss_pred             cCCceEEEEEeCCCCcEEEEec
Q 013236          135 QFCHYAVGVLDRSTQTLKIVPI  156 (447)
Q Consensus       135 ~~~~Y~VgV~dk~T~~l~l~Pv  156 (447)
                      ..|+||||||||+||+|+|+|+
T Consensus        70 ~~~~y~VgVyDp~t~~lel~~A   91 (102)
T 3nfg_A           70 KTNQYMVGLYDKQSGKINLYRA   91 (102)
T ss_dssp             HHEEEEEEEEETTTTEEEEEEE
T ss_pred             ccccEEEEEEcCCCCeEEEEEe
Confidence            7899999999999999999976

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00