Conserved Protein Domain Family
RNAP_III_Rpc1_C

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cd02736: RNAP_III_Rpc1_C 
Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain
Eukaryotic RNA polymerase III (RNAP III) is a large multi-subunit complex responsible for the synthesis of tRNAs, 5SrRNA, Alu-RNA, U6 snRNA, among others. Rpc1 is also known as C160 in yeast. Structure studies suggest that different RNA polymerase complexes share a similar crab-claw-shape structure. The C-terminal domain of Rpb1, the largest subunit of RNAP II, makes up part of the foot and jaw structures of RNAP II. The similarity between this domain and the C-terminal domain of Rpb1, its counterpart in RNAP II, suggests a similar functional and structural role.
Statistics
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PSSM-Id: 132723
View PSSM: cd02736
Aligned: 26 rows
Threshold Bit Score: 403.522
Threshold Setting Gi: 162606212
Created: 5-Oct-2007
Updated: 2-Oct-2020
Structure
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Aligned Rows:
  next features
Feature 1:Rpb1 (Rpc1) - Rpb2 (Rpc2) interaction site [polypeptide binding site]
Evidence:
  • Comment:based on similarity to yeast RNAP II
  • Comment:The two largest subunits of eukaryotic RNAP III, Rpc1 and Rpc2, correspond to subunits Rpb1 and Rpb2, respectively, of yeast RNAP II.
  • Comment:The two largest subunits of yeast RNAP II, Rpb1 and Rpb2, form distinct masses with a deep cleft between them. Each of the small subunits occurs in a single copy, arrayed around the periphery.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                    #  #                                                                 
NP_001096178 1020 KYMRAQMEPGSAVGALCAQSIGEPGTQMTLKTFHFAGVASMNITLGVPRIKEIINASKNISTPIITAHLdi--------- 1090 western clawe...
EAK89955     1452 KYMKAITEPGEAVGAIAAQSIGEPGTQMTLKTFHFAGVASMNVTLGVPRIKEIINAATKILTPIIEAKLen--------- 1522 Cryptosporidi...
P25202       1282 KYIRLNLEPGSPCGAVAAQSVGEPSTQMTLKSFHHAGLASMNITQGVPRLKEIVDGVVKISTPITTVELhvdvdkee--- 1358 Giardia intes...
XP_977135    1035 RYPQMLVEPGEAVGAVGATSISEPATQMTLKSFHFAGVASMNITQGVPRMKEIIDAAKKISTPIIDVKLlpq-------- 1106 Tetrahymena t...
XP_001713621  947 TFKLVIIDPGTGVGCISAQSLGEPGTQMTLQTFHSAGTGSQNITSGIPRINEILSNSKNTKFPLISYDInf--------- 1017 Guillardia theta
XP_819691    1139 KYILKACEPGTPCGAIAAQSVGEPSTQMTLRTFHFAGVASMSITQGVPRLVEIINANRNIATPVVTAPVrrhrrgkslsi 1218 Trypanosoma c...
CAI39062      971 RFLTMVMAPGTSVGPITSQSIGEPATQMTLKTFHSAGVAGMSITQGVPRLNEIINASKEIKTPQINVKLinrqvmdhakq 1050 Paramecium te...
XP_764283    1270 DYQKSLCEPGEAIGALGSQSIGEPATQMTLKTFHFAGVASMNVTLGVPRIQEIINATSLIATPIIEVPLed--------- 1340 Theileria par...
XP_001581953  994 RCEKSMAEPGMTVGAVAGQSIGEPATQMTLRSFHFAGVASMNVTLGVPRIEEVMNAVSEIKTPIITANLls--------- 1064 Trichomonas v...
XP_653748    1024 KGLRSVCEAGTPVGALAGQSMGEPSTQMVLKTFHFAGVASMNIALGVPRIKEIINASKKIQTPIVTAKLvn--------- 1094 Entamoeba his...
Feature 1                                                                                         
NP_001096178 1091 ----------------ddDADFARLVKGRIEKTLLGEISEYIEEVFLPDDCFLLVKLSLERIRLLRLevnaetvrysicm 1154 western clawe...
EAK89955     1523 ----------------dsDFNYAQIVKGSIVKTLLNEVVSDIEELYSPNGVFININLNEETIKGHYLdinaytvrdsivs 1586 Cryptosporidi...
P25202       1359 ----------laatvtekYLEKARMMKNIIECTYLGQISASIIECYSQSVCHIEVNLDMKIIADMGLagiitvetvvasi 1428 Giardia intes...
XP_977135    1107 ----------------fqSEHSYRSIRLQIEKTYLGEISNFYQEVYSPKDCHLYIEYNKKKLEQFRLygleiplssikkg 1170 Tetrahymena t...
XP_001713621 1018 ----------------feFNKKKSRLKFFLKKIKIGFLINSIEIFLHRGFVSVKIHFIKKIYEYLDQskiyyfiikkfhd 1081 Guillardia theta
XP_819691    1219 kqe--vvgesceedsqeeFEKRVRRVKSQVERVLLKEVASEIVEVCTSTEFYLRVHLNMSLIAKLWLpinaitvrqrila 1296 Trypanosoma c...
CAI39062     1051 faksgdpqyeyahravihSAQQAQDVNIQIEQTKLMQILKKMDEIYTADNCYIELELDCHCLARLKLefvtpkyvcalil 1130 Paramecium te...
XP_764283    1341 ----------------ntDYDFALKVKSKIEKTTLGQICLNIKQLYTPQMSKLLFTLNRDLIEQLHIqvnadkvrdiiid 1404 Theileria par...
XP_001581953 1065 ----------------qrDEIAARIVKGIIDRVTLGQVCKHIEYNQNEKSCYIDIELDAEIIREAKLnitsetvrrsivn 1128 Trichomonas v...
XP_653748    1095 ----------------sqDVTSARIVKGRIEATRLKEIAKSVKIVFKPAEAYISVKLDFETIKQLELectiekvqdvlln 1158 Entamoeba his...
Feature 1                                                                                         
NP_001096178 1155 sklrvk-----------------------------pgdiavhgeavlcvtprenSKSSMYYVLQSLKeDLPKVVVQGIPE 1205 western clawe...
EAK89955     1587 hgpiskiklklediqvldlwklsiligggisqigsssnningtgnvntlntgigNTMNVYFQTQLLKkGLQNVVVSGIPG 1666 Cryptosporidi...
P25202       1429 lhndkakklvg--------------------qdqssgsvsihsatrfsvrpltqSRDDLLFDIQSLKlLLPMIPVSGIST 1488 Giardia intes...
XP_977135    1171 ileiakdike---------------------dqiiavkdqdlkpvgikinpgndVKKNVFFKIQNWKkILPGAVVSGMKD 1229 Tetrahymena t...
XP_001713621 1082 ntkiikkstv----------------------fickkkknvvlqfhkndfkiddFNLNFINLYNFFRiHFGDIVLTGFYE 1139 Guillardia theta
XP_819691    1297 aaarpmsplr----------------------llreecvevvsldtlavrpyflEAHRVHFNLRHVLaLLPDVVVGGIAG 1354 Trypanosoma c...
CAI39062     1131 kelklspd--------------------------dvkydlkiiritvkksskkkQSENLLFLIKELQrKLLRLHIYGCAN 1184 Paramecium te...
XP_764283    1405 sgclgkv---------------------------kihkscvysigkwqicielpSNQQHFFQQNSLIsGLTQLVVAGSKS 1457 Theileria par...
XP_001581953 1129 tpkigvk----------------------------dentanngdynvrvfmqgaNPKAFSFIMQQLMlKLPDVVVSGVPG 1180 Trichomonas v...
XP_653748    1159 yrglkl-----------------------------kdnqviirnkqklrvyvdkSSTSLLFALNSLRnQLLEVIVCGIEN 1209 Entamoeba his...
Feature 1                                                                                         
NP_001096178 1206 VARAVIHIdeqs--------gkekYKLLVEGDNLRSVMATHGVKGSRTTSNNTYEVEKTLGIEAARSTIINEIQYTMVnh 1277 western clawe...
EAK89955     1667 IKRSVIRQddkedpi--tgekrkcYSLAVEGYGLLKLMGINGIIGTTTVSNHVMEVREVLGIEAARKVIIQEVQKCMDay 1744 Cryptosporidi...
P25202       1489 CSRAVINEykefcqgatssapltkYNLLVEGIGLQNILNVSGIDFTRTLSNNIVEVANTLGIEAAVATISNEIKACMDsh 1568 Giardia intes...
XP_977135    1230 VKRVSISKdkkkgd-----kneykFDLFVEGNSFKQVLQLDEVDFANTLSVDIFEVLQILGVEAARKTIINEITKTIKsh 1304 Tetrahymena t...
XP_001713621 1140 SSKINCNFlf------------nnLEIKISDNRFDILLNIPGIIFRKLYCNNINSIYNFLGIEASRELIVLEITNTFKsh 1207 Guillardia theta
XP_819691    1355 INRAMISSn--------------gAEVLAEGAELRAVMNLPEVESTRVVCNHVAVVERVLGIEAARQVIVNEIQGILKay 1420 Trypanosoma c...
CAI39062     1185 IKQTVIQVtdkddk----envkgeARLFASGIGFKEILRLDNIDWKRTVSNHIMEIQSALGIEAARQSIVNEVYTTMQsh 1260 Paramecium te...
XP_764283    1458 VKRAVIKRestp--------qgpnYQIAVEGYGLQEVMGCYGVMSSAVKSNHVAEVAKVLGIEAARSVIISEIQRCMDay 1529 Theileria par...
XP_001581953 1181 VERVHVGKen------------gcFKLFVEGNPFLKVLNTPGIDPKRTVSNHVLDVEKVLGVEAARSVIISEITNVMKny 1248 Trichomonas v...
XP_653748    1210 TGRAVINKnk------------gsFELLVEGSELLKVMGTPGVIGEETTSNHIAVVEKVLGIEAARSTIISEIKNVMDay 1277 Entamoeba his...
Feature 1                                                            #         ###     ## # #    #
NP_001096178 1278 GMSIDRRHVMLLADLMTYKGEVLGITRFGLAKMk-eSVLMLASFEKTADHLFDAAYFGQKDSVCGVSECIIMGIPMNIGT 1356 western clawe...
EAK89955     1745 SMDIDLRHIQLLADIMTFRGDVLGISRFGIQKMr-tSTLMLASFEETNEHLFEAAFQNRVDPVFGVSECVIMGKPIKIGT 1823 Cryptosporidi...
P25202       1569 GMAVDMRHIRLLADIMCFRGRVLGFTRFGLTKMkadSVIMLASFEKTGEHLFNAALGNKVDEANGVTESIILGKPMSMGT 1648 Giardia intes...
XP_977135    1305 SLNVDRRHLILVADVLTSKGRLHGSTRQGINSMk-dSTLMLASFEKTTEILYNAALQGRKDTLEGVSERIIIGQNIPMGT 1383 Tetrahymena t...
XP_001713621 1208 GIFSDNRHVYLLADYMTFNGFIIGINREGLTCNk-eSVFLLASFEKTMENLFNASLNHTKSKYIGVSDAIIFGNSIPIGT 1286 Guillardia theta
XP_819691    1421 SLSIDIRHIYLLADLMTQRGVVLGITRYGIQKMn-fNVLTMASFERTTDHLYNAAATQRVDENLSVSESIIIGKPVPLGT 1499 Trypanosoma c...
CAI39062     1261 SISIDIRHILLLAELMTFKGRILGFTRQGIDQLk-nSALMLASFEKTMDVFFNAAIQGKQDSMNGASQRVIIGQNVPQGT 1339 Paramecium te...
XP_764283    1530 SIDIDCRYMKLLGDVMTFRGEVVGINRFGIQKMr-sSALMLASFEETNDHLLEAALHHRRDPIKGVSECIIMGKPISLGT 1608 Theileria par...
XP_001581953 1249 SLNIDRRHLMLLSDLMTIRGKVLGVTRHGLAKTs-vSSLKLASFETTQEHLFNAAFHNVDEVANGVSASVILGNFAPIGS 1327 Trichomonas v...
XP_653748    1278 GLSIDVRHLLLLSDLMTFKGVILGITRYGISKMk-dSVFTFASFERTNDHLFDAAVHSRKDEIKGVSESIIVGNQVGLGT 1356 Entamoeba his...
Feature 1            
NP_001096178 1357 GLF 1359 western clawed frog
EAK89955     1824 GSF 1826 Cryptosporidium parvum Iowa II
P25202       1649 GSF 1651 Giardia intestinalis
XP_977135    1384 GTF 1386 Tetrahymena thermophila SB210
XP_001713621 1287 GLI 1289 Guillardia theta
XP_819691    1500 TSF 1502 Trypanosoma cruzi strain CL Brener
CAI39062     1340 GMF 1342 Paramecium tetraurelia
XP_764283    1609 GSF 1611 Theileria parva strain Muguga
XP_001581953 1328 GMI 1330 Trichomonas vaginalis G3
XP_653748    1357 GLM 1359 Entamoeba histolytica HM-1:IMSS

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