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Conserved domains on  [gi|1583841971|ref|WP_130657849|]
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error-prone DNA polymerase [Rhizobium ruizarguesonis]

Protein Classification

error-prone DNA polymerase family protein( domain architecture ID 1005448)

error-prone DNA polymerase is involved in damage-induced mutagenesis and translesion synthesis (TLS); belongs to the DNA polymerase type-C family; may be partial

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
dnaE2 super family cl35361
error-prone DNA polymerase; Validated
1-1038 0e+00

error-prone DNA polymerase; Validated


The actual alignment was detected with superfamily member PRK05672:

Pssm-ID: 235553 [Multi-domain]  Cd Length: 1046  Bit Score: 1417.70  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQ-----DGMSI 75
Cdd:PRK05672     3 PPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGpdpdpGGPHL 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 LVYPTDRGAYSRLTRLLTLGKGRGGKANCVLSLDDVALYSEGLLGIL------------VPDLADENCAVQFRKMAEIFG 143
Cdd:PRK05672    83 LVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHWAILtgcrkgfvilalPYGGDAAALAALAALLDAFFA 162
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  144 DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPP 223
Cdd:PRK05672   163 DRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRSG 242
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  224 QEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVLRIVRHELDL 303
Cdd:PRK05672   243 AEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELAL 322
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  304 IRTMKYAPYFLTVFSIVRFARSQDILCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERRE 383
Cdd:PRK05672   323 IAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRRE 402
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  384 EVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMWAWSEELVSDRSLRDQGLNPEDRRLALTL 463
Cdd:PRK05672   403 EVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRVV 482
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  464 KLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEH 543
Cdd:PRK05672   483 ELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAEH 562
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  544 KDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRREGKE 623
Cdd:PRK05672   563 RGRRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNGQE 642
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  624 PVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATFKFTGGVSRFKDKLVSGMIRNCYTAEFAEK 703
Cdd:PRK05672   643 PVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFADR 722
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  704 TFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSRWDC 783
Cdd:PRK05672   723 IFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGWDA 802
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  784 TLERIGDTdRHAVRLGMRMVRGLAAADAARIVAARMDQPFESVDDMWRRSGVPAASLVELAEADAFLpSLGLQRRGALWA 863
Cdd:PRK05672   803 TLEPLPDG-GPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALR-SLGGDRRQALWA 880
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  864 IKALRDEPLALFAAaserearaiAEQQEPEVALRQMTEGHNVVQDYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNAR 943
Cdd:PRK05672   881 AGAAATERLDLLPG---------APASEAAPALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVE 951
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  944 DGRWLMTAGLVLVRQRPGSAKGVIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREGDVVHLVAQQVFDL 1023
Cdd:PRK05672   952 DGRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDL 1031
                         1050
                   ....*....|....*
gi 1583841971 1024 SGDLSGLADRDAEFR 1038
Cdd:PRK05672  1032 SPLLGGLRTRSRDFH 1046
 
Name Accession Description Interval E-value
dnaE2 PRK05672
error-prone DNA polymerase; Validated
1-1038 0e+00

error-prone DNA polymerase; Validated


Pssm-ID: 235553 [Multi-domain]  Cd Length: 1046  Bit Score: 1417.70  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQ-----DGMSI 75
Cdd:PRK05672     3 PPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGpdpdpGGPHL 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 LVYPTDRGAYSRLTRLLTLGKGRGGKANCVLSLDDVALYSEGLLGIL------------VPDLADENCAVQFRKMAEIFG 143
Cdd:PRK05672    83 LVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHWAILtgcrkgfvilalPYGGDAAALAALAALLDAFFA 162
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  144 DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPP 223
Cdd:PRK05672   163 DRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRSG 242
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  224 QEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVLRIVRHELDL 303
Cdd:PRK05672   243 AEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELAL 322
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  304 IRTMKYAPYFLTVFSIVRFARSQDILCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERRE 383
Cdd:PRK05672   323 IAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRRE 402
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  384 EVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMWAWSEELVSDRSLRDQGLNPEDRRLALTL 463
Cdd:PRK05672   403 EVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRVV 482
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  464 KLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEH 543
Cdd:PRK05672   483 ELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAEH 562
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  544 KDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRREGKE 623
Cdd:PRK05672   563 RGRRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNGQE 642
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  624 PVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATFKFTGGVSRFKDKLVSGMIRNCYTAEFAEK 703
Cdd:PRK05672   643 PVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFADR 722
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  704 TFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSRWDC 783
Cdd:PRK05672   723 IFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGWDA 802
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  784 TLERIGDTdRHAVRLGMRMVRGLAAADAARIVAARMDQPFESVDDMWRRSGVPAASLVELAEADAFLpSLGLQRRGALWA 863
Cdd:PRK05672   803 TLEPLPDG-GPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALR-SLGGDRRQALWA 880
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  864 IKALRDEPLALFAAaserearaiAEQQEPEVALRQMTEGHNVVQDYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNAR 943
Cdd:PRK05672   881 AGAAATERLDLLPG---------APASEAAPALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVE 951
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  944 DGRWLMTAGLVLVRQRPGSAKGVIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREGDVVHLVAQQVFDL 1023
Cdd:PRK05672   952 DGRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDL 1031
                         1050
                   ....*....|....*
gi 1583841971 1024 SGDLSGLADRDAEFR 1038
Cdd:PRK05672  1032 SPLLGGLRTRSRDFH 1046
DnaE COG0587
DNA polymerase III, alpha subunit [Replication, recombination and repair];
2-1020 0e+00

DNA polymerase III, alpha subunit [Replication, recombination and repair];


Pssm-ID: 440352 [Multi-domain]  Cd Length: 1050  Bit Score: 1312.75  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    2 RYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQD------GMSI 75
Cdd:COG0587      4 SFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPgsrddaGYHL 83
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 LVYPTDRGAYSRLTRLLTLGKGRG-GKANCVLSLDDVALYSEGLLGIL------VPDLADENCAVQFRKMA----EIFGD 144
Cdd:COG0587     84 VLLAKNREGYRNLCRLLSRAYLEGfYKGKPRIDLEDLAEHSEGLIALSgclageVGQALLAGQYDEAEAALarlkDIFGD 163
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  145 RAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPPQ 224
Cdd:COG0587    164 RFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLKSPE 243
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  225 EMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVLRIVRHELDLI 304
Cdd:COG0587    244 EMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYELDVI 323
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  305 RTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERRE 383
Cdd:COG0587    324 EKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERRE 403
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  384 EVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMW---AWSEELVSDRSLRDQGLNPEDRRLA 460
Cdd:COG0587    404 EVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPndpGITLEKALEEEPELRELYDSDPEVR 483
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  461 LTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALI 540
Cdd:COG0587    484 RLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDLI 563
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  541 EEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRRE 620
Cdd:COG0587    564 KENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVPPYIRRKH 643
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  621 GKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVSGMIRNCYTAEF 700
Cdd:COG0587    644 GREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVANGYDEEF 722
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  701 AEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSR 780
Cdd:COG0587    723 AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESD 802
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  781 WDCTLErigdtDRHAVRLGMRMVRGLAAADAARIVAARMDQ-PFESVDDMWRRSG---VPAASLVELAEADAFlPSLGLQ 856
Cdd:COG0587    803 WDFTVE-----PGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVDlrkLNKRVLEALIKAGAF-DSLGPN 876
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  857 RRGALWAIKALRD-----------EPLALFaaaSEREARAIAEQQEPEvaLRQMTEGHNVVQDYSHIGLTLREHPVAFLR 925
Cdd:COG0587    877 RRQLLWALEAALDaaqqaqkdkasGQLSLF---GGAGDEEVAEPALPE--LPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  926 KALTERRIVTCAEAMNARDGRWLMTAGLVLVRQRPGSAKG--VIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAIN 1003
Cdd:COG0587    952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
                         1050
                   ....*....|....*..
gi 1583841971 1004 GRIQREGDVVHLVAQQV 1020
Cdd:COG0587   1032 GKVQRRDGVVHLIAERI 1048
polc TIGR00594
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ...
6-983 5.40e-174

DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are known are DNA polymerases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273161 [Multi-domain]  Cd Length: 1022  Bit Score: 537.35  E-value: 5.40e-174
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    6 LQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGmSILVYPTDRGAY 85
Cdd:TIGR00594    4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPG-SRFDKKRISKGK 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   86 SRlTRLLTLGKGRGGKAN-CVLS---------------LDDVALYSEGL------LGILVPDLADEN-------CAVQFR 136
Cdd:TIGR00594   83 EA-YHLILLAKNNTGYRNlMKLSslaylegfyykpridKELLEEHSEGLialsacLSGEVPYLLLLGeerlaeeAALKYQ 161
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  137 kmaEIFGDRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHA 216
Cdd:TIGR00594  162 ---EIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSD 238
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  217 DRYLKPPQEMERLFPRYPEALARTMEIVERCR-FSLEELTYQYPEEAILPDKSPQES-LEHYVWECVPSRYPEGLP---- 290
Cdd:TIGR00594  239 EFYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDFTSQEDyLRHLADEGLRERLAAGPPgykr 318
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  291 -PEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERD 368
Cdd:TIGR00594  319 rAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERI 398
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  369 EPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLP----EDVIKALSSGMwAWSEELVSD 444
Cdd:TIGR00594  399 SMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPyaeaDRIAKLIPPRP-GKTLKEALE 477
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  445 RSLRDQGLNPEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDV 524
Cdd:TIGR00594  478 ASPQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKMDF 557
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  525 LALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRP 604
Cdd:TIGR00594  558 LGLKTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRP 637
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  605 GPIQGDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFK 684
Cdd:TIGR00594  638 GPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMAKER 716
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  685 DKLVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCA 764
Cdd:TIGR00594  717 EKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEA 796
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  765 RNHGVEIRPVCVNRSRWDCTLERIGdtdrhaVRLGMRMVRGLAAADAARIVAARMDQ-PFESVDDMWRRsgVPAASL--- 840
Cdd:TIGR00594  797 KKMGIEVLPPDINESGQDFAVEDKG------IRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINR--VDFKKLnkk 868
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  841 -VE-LAEADAFlPSLGLQRRGALWAI-----------KALRDEPLALFaaasEREARAIAEQQEPEVALRQMTEGHNVVQ 907
Cdd:TIGR00594  869 vLEaLIKAGAF-DSLGPNRKTLLASLddaldavsrkkKAEALGQNSLF----GALSEGTKPEYVFFPPDEEWPDKKLLAL 943
                          970       980       990      1000      1010      1020      1030
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1583841971  908 DYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNARDGRWLMTAGL---VLVRQRPGSAKGVIFMTIEDETGPANVVVW 983
Cdd:TIGR00594  944 EKETLGLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGlnsVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
DNA_pol3_alpha pfam07733
Bacterial DNA polymerase III alpha NTPase domain;
271-526 1.82e-113

Bacterial DNA polymerase III alpha NTPase domain;


Pssm-ID: 400196 [Multi-domain]  Cd Length: 259  Bit Score: 351.81  E-value: 1.82e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  271 ESLEHYVWECVPSRYPEGLPPEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITS 349
Cdd:pfam07733    1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  350 IDPSTNDLLFERFVSQERDEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKA 429
Cdd:pfam07733   81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  430 LSSGMWAWSEELVS--DRSLRDQGLNPEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVI 507
Cdd:pfam07733  161 LAKLIPFELGILEKalEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
                          250
                   ....*....|....*....
gi 1583841971  508 EWDKDDVEALKFMKVDVLA 526
Cdd:pfam07733  241 QFDKDDLEDLGLLKMDFLG 259
PHP_PolIIIA_DnaE2 cd07434
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ...
3-259 8.81e-112

Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; PolIIIA DnaE2 plays a role in SOS mutagenesis/translesion synthesis and has dominant effects in determining GC variability in the bacterial genome. PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. PolIIIA core enzyme catalyzes the reaction for polymerizing both DNA strands. PolC PHP is located in a different location compared to dnaE1, 2, and 3. dnaE1 is the longest compared to dnaE2 and dnaE3. A unique motif was also identified in dnaE1 and dnaE3 genes. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PHP domains found in DnaEs of thermophilic origin exhibit 3'-5' exonuclease activity.


Pssm-ID: 213989 [Multi-domain]  Cd Length: 260  Bit Score: 347.52  E-value: 8.81e-112
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    3 YAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGMSILVYPTDR 82
Cdd:cd07434      1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   83 GAYSRLTRLLTLGKGRGGKANCVLSLDDVALYSEGLLGILVPDLAD---ENCAVQFRKMAEIFGDRAYVSLCLRRRPNDQ 159
Cdd:cd07434     81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaAALLAQLRWLARAFPGRLWLALELHLGGDDA 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  160 LRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPPQEMERLFPRYPEALAR 239
Cdd:cd07434    161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARLFLYPPEALAE 240
                          250       260
                   ....*....|....*....|
gi 1583841971  240 TMEIVERCRFSLEELTYQYP 259
Cdd:cd07434    241 TLEIAARCTFSLDELRYEYP 260
POLIIIAc smart00481
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ...
5-71 9.89e-07

DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family of hypothetical proteins


Pssm-ID: 197753 [Multi-domain]  Cd Length: 67  Bit Score: 46.88  E-value: 9.89e-07
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1583841971     5 ELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQD 71
Cdd:smart00481    1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
 
Name Accession Description Interval E-value
dnaE2 PRK05672
error-prone DNA polymerase; Validated
1-1038 0e+00

error-prone DNA polymerase; Validated


Pssm-ID: 235553 [Multi-domain]  Cd Length: 1046  Bit Score: 1417.70  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQ-----DGMSI 75
Cdd:PRK05672     3 PPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGpdpdpGGPHL 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 LVYPTDRGAYSRLTRLLTLGKGRGGKANCVLSLDDVALYSEGLLGIL------------VPDLADENCAVQFRKMAEIFG 143
Cdd:PRK05672    83 LVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHWAILtgcrkgfvilalPYGGDAAALAALAALLDAFFA 162
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  144 DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPP 223
Cdd:PRK05672   163 DRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRSG 242
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  224 QEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVLRIVRHELDL 303
Cdd:PRK05672   243 AEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELAL 322
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  304 IRTMKYAPYFLTVFSIVRFARSQDILCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERRE 383
Cdd:PRK05672   323 IAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRRE 402
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  384 EVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMWAWSEELVSDRSLRDQGLNPEDRRLALTL 463
Cdd:PRK05672   403 EVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRVV 482
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  464 KLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEH 543
Cdd:PRK05672   483 ELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAEH 562
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  544 KDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRREGKE 623
Cdd:PRK05672   563 RGRRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNGQE 642
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  624 PVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATFKFTGGVSRFKDKLVSGMIRNCYTAEFAEK 703
Cdd:PRK05672   643 PVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFADR 722
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  704 TFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSRWDC 783
Cdd:PRK05672   723 IFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGWDA 802
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  784 TLERIGDTdRHAVRLGMRMVRGLAAADAARIVAARMDQPFESVDDMWRRSGVPAASLVELAEADAFLpSLGLQRRGALWA 863
Cdd:PRK05672   803 TLEPLPDG-GPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALR-SLGGDRRQALWA 880
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  864 IKALRDEPLALFAAaserearaiAEQQEPEVALRQMTEGHNVVQDYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNAR 943
Cdd:PRK05672   881 AGAAATERLDLLPG---------APASEAAPALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVE 951
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  944 DGRWLMTAGLVLVRQRPGSAKGVIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREGDVVHLVAQQVFDL 1023
Cdd:PRK05672   952 DGRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDL 1031
                         1050
                   ....*....|....*
gi 1583841971 1024 SGDLSGLADRDAEFR 1038
Cdd:PRK05672  1032 SPLLGGLRTRSRDFH 1046
DnaE COG0587
DNA polymerase III, alpha subunit [Replication, recombination and repair];
2-1020 0e+00

DNA polymerase III, alpha subunit [Replication, recombination and repair];


Pssm-ID: 440352 [Multi-domain]  Cd Length: 1050  Bit Score: 1312.75  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    2 RYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQD------GMSI 75
Cdd:COG0587      4 SFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPgsrddaGYHL 83
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 LVYPTDRGAYSRLTRLLTLGKGRG-GKANCVLSLDDVALYSEGLLGIL------VPDLADENCAVQFRKMA----EIFGD 144
Cdd:COG0587     84 VLLAKNREGYRNLCRLLSRAYLEGfYKGKPRIDLEDLAEHSEGLIALSgclageVGQALLAGQYDEAEAALarlkDIFGD 163
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  145 RAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPPQ 224
Cdd:COG0587    164 RFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLKSPE 243
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  225 EMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVLRIVRHELDLI 304
Cdd:COG0587    244 EMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYELDVI 323
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  305 RTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERRE 383
Cdd:COG0587    324 EKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERRE 403
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  384 EVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMW---AWSEELVSDRSLRDQGLNPEDRRLA 460
Cdd:COG0587    404 EVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPndpGITLEKALEEEPELRELYDSDPEVR 483
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  461 LTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALI 540
Cdd:COG0587    484 RLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDLI 563
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  541 EEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRRE 620
Cdd:COG0587    564 KENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVPPYIRRKH 643
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  621 GKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVSGMIRNCYTAEF 700
Cdd:COG0587    644 GREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVANGYDEEF 722
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  701 AEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSR 780
Cdd:COG0587    723 AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESD 802
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  781 WDCTLErigdtDRHAVRLGMRMVRGLAAADAARIVAARMDQ-PFESVDDMWRRSG---VPAASLVELAEADAFlPSLGLQ 856
Cdd:COG0587    803 WDFTVE-----PGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVDlrkLNKRVLEALIKAGAF-DSLGPN 876
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  857 RRGALWAIKALRD-----------EPLALFaaaSEREARAIAEQQEPEvaLRQMTEGHNVVQDYSHIGLTLREHPVAFLR 925
Cdd:COG0587    877 RRQLLWALEAALDaaqqaqkdkasGQLSLF---GGAGDEEVAEPALPE--LPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  926 KALTERRIVTCAEAMNARDGRWLMTAGLVLVRQRPGSAKG--VIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAIN 1003
Cdd:COG0587    952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
                         1050
                   ....*....|....*..
gi 1583841971 1004 GRIQREGDVVHLVAQQV 1020
Cdd:COG0587   1032 GKVQRRDGVVHLIAERI 1048
polc TIGR00594
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ...
6-983 5.40e-174

DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are known are DNA polymerases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273161 [Multi-domain]  Cd Length: 1022  Bit Score: 537.35  E-value: 5.40e-174
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    6 LQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGmSILVYPTDRGAY 85
Cdd:TIGR00594    4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPG-SRFDKKRISKGK 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   86 SRlTRLLTLGKGRGGKAN-CVLS---------------LDDVALYSEGL------LGILVPDLADEN-------CAVQFR 136
Cdd:TIGR00594   83 EA-YHLILLAKNNTGYRNlMKLSslaylegfyykpridKELLEEHSEGLialsacLSGEVPYLLLLGeerlaeeAALKYQ 161
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  137 kmaEIFGDRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHA 216
Cdd:TIGR00594  162 ---EIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSD 238
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  217 DRYLKPPQEMERLFPRYPEALARTMEIVERCR-FSLEELTYQYPEEAILPDKSPQES-LEHYVWECVPSRYPEGLP---- 290
Cdd:TIGR00594  239 EFYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDFTSQEDyLRHLADEGLRERLAAGPPgykr 318
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  291 -PEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERD 368
Cdd:TIGR00594  319 rAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERI 398
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  369 EPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLP----EDVIKALSSGMwAWSEELVSD 444
Cdd:TIGR00594  399 SMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPyaeaDRIAKLIPPRP-GKTLKEALE 477
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  445 RSLRDQGLNPEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVIEWDKDDVEALKFMKVDV 524
Cdd:TIGR00594  478 ASPQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKMDF 557
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  525 LALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRP 604
Cdd:TIGR00594  558 LGLKTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRP 637
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  605 GPIQGDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFK 684
Cdd:TIGR00594  638 GPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMAKER 716
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  685 DKLVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCA 764
Cdd:TIGR00594  717 EKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEA 796
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  765 RNHGVEIRPVCVNRSRWDCTLERIGdtdrhaVRLGMRMVRGLAAADAARIVAARMDQ-PFESVDDMWRRsgVPAASL--- 840
Cdd:TIGR00594  797 KKMGIEVLPPDINESGQDFAVEDKG------IRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINR--VDFKKLnkk 868
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  841 -VE-LAEADAFlPSLGLQRRGALWAI-----------KALRDEPLALFaaasEREARAIAEQQEPEVALRQMTEGHNVVQ 907
Cdd:TIGR00594  869 vLEaLIKAGAF-DSLGPNRKTLLASLddaldavsrkkKAEALGQNSLF----GALSEGTKPEYVFFPPDEEWPDKKLLAL 943
                          970       980       990      1000      1010      1020      1030
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1583841971  908 DYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNARDGRWLMTAGL---VLVRQRPGSAKGVIFMTIEDETGPANVVVW 983
Cdd:TIGR00594  944 EKETLGLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGlnsVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
dnaE PRK05673
DNA polymerase III subunit alpha; Validated
6-1024 1.90e-163

DNA polymerase III subunit alpha; Validated


Pssm-ID: 235554 [Multi-domain]  Cd Length: 1135  Bit Score: 513.11  E-value: 1.90e-163
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    6 LQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGMSILVypTDRGAY 85
Cdd:PRK05673     5 LHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDDV--SGGGAY 82
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   86 SRLT-------------RLLTLG--KGRGGKANcVLSLDDVALYSEGLL-------GIL-------VPDLADENCAvqfr 136
Cdd:PRK05673    83 THLTllaknetgyrnlfKLSSRAylEGQYGYKP-RIDREWLAEHSEGLIalsgcpsGEVgtallagQYDEAEEAAA---- 157
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  137 KMAEIFGDRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVgfERERH- 215
Cdd:PRK05673   158 EYQEIFGDRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDP--DRFRFy 235
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  216 -ADRYLKPPQEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEGLPPEVL 294
Cdd:PRK05673   236 sPEQYLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLFPDEER 315
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  295 RIVR----HELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDE 369
Cdd:PRK05673   316 PEYVerleYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVgPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVS 395
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  370 PPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLP----EDVIKA--------LSSgmwAW 437
Cdd:PRK05673   396 MPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPygfvDRITKLippdpgitLAK---AY 472
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  438 SEE--LvsdRSLRDQglNPEDRRLaltLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIepaaMADRQ----VIEWDK 511
Cdd:PRK05673   473 EEEpeL---RELYES--DPEVKRL---IDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPL----YRDPDsgmpVTQFDM 540
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  512 DDVEALKFMKVDVLALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRT 591
Cdd:PRK05673   541 KDVEAAGLVKFDFLGLRTLTIIDDALKLIKKRRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDC 620
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  592 FYDLVIQVAIVRPGPIQGDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSM 671
Cdd:PRK05673   621 FEDIIALVALYRPGPMESGMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAM 700
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  672 ------------ATFkftggvsrfkdklVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHP 739
Cdd:PRK05673   701 gkkkpeemakqrEIF-------------VEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYP 767
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  740 DIFCAALLNSQpM-------GFYAPaqivgcARNHGVEIRPVCVNRSRWDCTlerigdTDRHAVRLGMRMVRGLAAADAA 812
Cdd:PRK05673   768 AEFMAALLTSD-MdntdkvaVYLDE------CRRMGIKVLPPDVNESLYDFT------VVDGDIRYGLGAIKGVGEGAVE 834
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  813 RIVAARMDQ-PFESVDDMWRRsgVPAASL----VE-LAEADAFlPSLGLQRRGAL--------WAIKALRDEPLA---LF 875
Cdd:PRK05673   835 AIVEAREEGgPFKDLFDFCAR--VDLKKVnkrvLEsLIKAGAF-DSLGPNRAALLasledavdAADQHKKAEASGqfdLF 911
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  876 AAASEREARAIAEQQE-PEVALRQMTEGhnvvqDYSHIGLTLREHPVAFLRKALTERRIVTCAEAMNARDGRWLMTAGLV 954
Cdd:PRK05673   912 GGLGEEPEDVEVSVPDvEEWDKKEKLAG-----ERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTEGGSVVTVAGLV 986
                         1050      1060      1070      1080      1090      1100      1110
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1583841971  955 LVRQRPGSAKG--VIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREGDVVHLVAQQVFDLS 1024
Cdd:PRK05673   987 VSVRRRVTKRGnkMAIVTLEDLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDDGGLRLTAREVMDLE 1058
dnaE PRK06826
DNA polymerase III DnaE; Reviewed
1-1029 1.42e-151

DNA polymerase III DnaE; Reviewed


Pssm-ID: 235868 [Multi-domain]  Cd Length: 1151  Bit Score: 482.08  E-value: 1.42e-151
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRldlqdgmsILVYPT 80
Cdd:PRK06826     3 MSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCE--------VYVAPR 74
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   81 DR-----GAYSRLTRLLTLGKGRGGKANCV-----LSLD--------DVAL---YSEGL------LGILVPDLADENCAV 133
Cdd:PRK06826    75 SRfdkepDIDNETYHLVLLAKNETGYKNLMkivskAFTEgfyykprvDHELlkeHSEGLialsacLAGEVPRYILKGNYE 154
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  134 QFRKMA----EIFG-DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDV 208
Cdd:PRK06826   155 KAKEAAlfykDIFGkENFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDE 234
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  209 GFERERHADRYLKPPQEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYPEg 288
Cdd:PRK06826   235 NRMRFPSDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPN- 313
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  289 LPPEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQER 367
Cdd:PRK06826   314 PSEELIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVgPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPER 393
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  368 DEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPE---DVI-------------KALS 431
Cdd:PRK06826   394 VSMPDIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYaevDRIakmiptelgitidKALE 473
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  432 SgmwawSEELvsdRSLRDQglNPEDRRLaltLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIepaAMADRQVI-EWD 510
Cdd:PRK06826   474 L-----NPEL---KEAYEN--DERVREL---IDTARALEGLPRHASTHAAGVVISSEPLVEYVPL---QKNDGSIVtQFT 537
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  511 KDDVEALKFMKVDVLALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPR 590
Cdd:PRK06826   538 MTTLEELGLLKMDFLGLRTLTVIRDAVDLIKKNRGIEIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPD 617
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  591 TFYDLVIQVAIVRPGPIqgDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKS 670
Cdd:PRK06826   618 SLEDIIAGISLYRPGPM--DSIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRA 695
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  671 MATFK----------FTGGVsrfKDKLVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPD 740
Cdd:PRK06826   696 MSKKKhdvmeeerknFIYGI---VDEGGPGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPV 772
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  741 IFCAALLNS-----QPMGFYapaqiVGCARNHGVEIRPVCVNRSRWDCTLEriGDTdrhaVRLGMRMVRGLAAADAARIV 815
Cdd:PRK06826   773 EFMAALLNSvmgnsDKVAFY-----IEECRRLGIEVLPPDINESYSKFTVE--GDK----IRFGLAAVKNVGENAIDSIV 841
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  816 AARMDQ-PFESVDDMWRR---SGVPAASLVELAEADAFlPSLGLQRRGAL--------WAIKALRDE---PLALFAAASE 880
Cdd:PRK06826   842 EEREKKgKFKSLVDFCERvdtSQINKRAVESLIKAGAF-DSLGVYRSQLLavyekildSISKQRKKNiegQISLFDLIGE 920
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  881 rearaiAEQQEPEVALRQmteghnvVQDYSH----------IGLTLREHPVAFLRKALtERRIVTCAEAMNA-------- 942
Cdd:PRK06826   921 ------EEESSLEIKYPD-------IKEFDKkellamekemLGLYISGHPLEEYEETL-KKQTSATISDIISdeeedges 986
                         1050      1060      1070      1080      1090      1100      1110      1120
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  943 --RDGRWLMTAGLVLVRQRPGSAKGVI--FMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQ-REGDVVHLVA 1017
Cdd:PRK06826   987 klKDGDKVIIGGIITEVKRKTTRNNEMmaFLTLEDLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSlREDEEPKLIC 1066
                         1130
                   ....*....|..
gi 1583841971 1018 QQVFDLSGDLSG 1029
Cdd:PRK06826  1067 EEIEPLVINSEK 1078
dnaE PRK06920
DNA polymerase III subunit alpha;
1-1023 1.16e-130

DNA polymerase III subunit alpha;


Pssm-ID: 180749 [Multi-domain]  Cd Length: 1107  Bit Score: 424.98  E-value: 1.16e-130
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGMSILVYP- 79
Cdd:PRK06920     1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPl 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   80 -----TDRGaYSRLTR----LLTLGKGrGGKANCVLSlddvalYSEGLLGI----------LVPDLADENCAVQFRKMAE 140
Cdd:PRK06920    81 vllaeNEIG-YQNLLKisssIMTKSKE-GIPKKWLAH------YAKGLIAIspgkdgeieqLLLEDKESQAEEVARAYQN 152
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  141 IFGDrAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHepgRRQLQDVVTC---IRNKNTIDDVGFERERHAD 217
Cdd:PRK06920   153 MFGN-FYMSLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYI---NQSDALVHECllsVESGTKMTDPDRPRLKTDQ 228
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  218 RYLKPPQEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPEEAILPDKSPQESLEHYVWECVPSRYpeGLPPEV-LRI 296
Cdd:PRK06920   229 YYLKSSDEMEALFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRY--GTPKEVhINR 306
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  297 VRHELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDV 375
Cdd:PRK06920   307 LNHELNVISRMGFSDYFLIVWDFMKYAHENHILTgPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDI 386
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  376 DFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSS------GMwAWSEELVSDRSLRD 449
Cdd:PRK06920   387 DFPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKlipsklGI-TLKDAYEESQSLRE 465
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  450 QgLNpEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEpAAMADRQVIEWDKDDVEALKFMKVDVLALGM 529
Cdd:PRK06920   466 F-IQ-GNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQ-EGHNDVYVTQYPADALEELGLLKMDFLGLRN 542
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  530 LTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQG 609
Cdd:PRK06920   543 LTLLENIIKFIEQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ 622
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  610 dmVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVS 689
Cdd:PRK06920   623 --IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSK-KNRDILDQERKHFVQ 699
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  690 GMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGV 769
Cdd:PRK06920   700 GCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGF 779
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  770 EIRPVCVNRSRWDCTLErigdtdRHAVRLGMRMVRGLAAADAARIVAARMDQPFESVDDMWRRsgVPAASLVElAEADAF 849
Cdd:PRK06920   780 HVLPPSLQRSGYNFQIE------GNAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLR--MPSKFVTE-RNLEAF 850
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  850 LPSLGL----QRRGALWA-IK-ALRDEPLALFAAASEREARAIAEQQEPEVALRQmteghnvvQDYSHIGLTLREHPVAF 923
Cdd:PRK06920   851 VWSGCFddfgVSRTNLWKsLKgALEYANLARDLGDAVPKSKYVQGEELSFIEQLN--------KEKEVLGFYLSSYPTAQ 922
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  924 LRKALTERRIVTCAEAMNARDGRWLMTAGLVLVRQ-RPGSAKGVIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAI 1002
Cdd:PRK06920   923 YVKLAKELEIPSLAQAMRHKKKVQRAIVYITSVKViRTKKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLV 1002
                         1050      1060
                   ....*....|....*....|.
gi 1583841971 1003 NGRIQREGDVVHLVAQQVFDL 1023
Cdd:PRK06920  1003 DGTIELRNHKLQWIVNGLYPL 1023
dnaE PRK07374
DNA polymerase III subunit alpha; Validated
1-1016 1.88e-114

DNA polymerase III subunit alpha; Validated


Pssm-ID: 168927 [Multi-domain]  Cd Length: 1170  Bit Score: 382.53  E-value: 1.88e-114
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRL-----DLQDGMS- 74
Cdd:PRK07374     1 MAFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMyvingSIDDPQPk 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   75 ------ILVYPTDRGAYSRLTRLLTLG-----KGRGGKANCVLSLDDVALYSEGL------LG------ILV--PDLAdE 129
Cdd:PRK07374    81 kekryhLVVLAKNATGYKNLVKLTTIShlngmRGRGIFSRPCIDKELLKQYSEGLivstacLGgeipqaILRgrPDVA-R 159
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  130 NCAVQFRkmaEIFGDRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVg 209
Cdd:PRK07374   160 DVAAWYK---EVFGDDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDE- 235
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  210 fERERHA-DRYLKPPQEMERLFPRY------PEALARTMEIVERcrfsLEEL----TYQYPEEAILPDKSPQESLEHYVW 278
Cdd:PRK07374   236 -KRLRYTgTEYIKSEEEMLRLFRDHldpeviQEAIANTVEVAEK----VEEYdilgTYRMPRFPIPEGHTAVSYLTEVTE 310
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  279 ECVPSR----YPEGLPPEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPS 353
Cdd:PRK07374   311 QGLLKRlklnSLDEIDENYKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIpVGPGRGSAAGSLVAYALGITNIDPV 390
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  354 TNDLLFERFVSQERDEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLP---EDVIKAL 430
Cdd:PRK07374   391 KNGLLFERFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPygeADRLAKL 470
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  431 ---SSGMWAWSEELVSDRSLrdqglNPE-------DRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEpaA 500
Cdd:PRK07374   471 ipvVRGKPAKLKAMIGKESP-----SPEfrekyekDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQ--R 543
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  501 MADRQVI-EWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRA 579
Cdd:PRK07374   544 NNDGQVItQYFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTGERIDPDNLPLDDEKTFELLARGDLEGIFQLESSG 623
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  580 QMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGF 659
Cdd:PRK07374   624 MRQVVRDLKPSSLEDISSILALYRPGPLDAGLIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGY 703
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  660 TGGEADQLRKSMATFKftggVS---RFKDKLVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKC 736
Cdd:PRK07374   704 SLGQADLLRRAMGKKK----VSemqKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKA 779
                          810       820       830       840       850       860       870       880
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  737 HHPDIFCAALLNSQpmgfyAPAQ------IVGCaRNHGVEIRPVCVNRSRWDCTLEriGDTdrhaVRLGMRMVRGLAAAD 810
Cdd:PRK07374   780 HYPVAYMAALLTVN-----AGSSdkvqryISNC-NSMGIEVMPPDINRSGIDFTPK--GNR----ILFGLSAVKNLGDGA 847
                          890       900       910       920       930       940       950       960
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  811 AARIVAAR-MDQPFESVDDMWRRsgVPAA--------SLVELAEADAFLPSLGlqrRGAL---------WAIKALRDEPL 872
Cdd:PRK07374   848 IRNIIAARdSDGPFKSLADLCDR--LPSNvlnrrsleSLIHCGALDAFSPNAN---RAQLiadldlvldWASSRARDRAS 922
                          970       980       990      1000      1010      1020      1030      1040
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  873 A---LFAAASEREARAIAEQQE-PEVAlrqmteghnVVQDYS----------HIGLTLREHPVaflrKALTE-RRI---V 934
Cdd:PRK07374   923 GqgnLFDLLAGSEEEASNDLSSaPKAA---------PVPDYPpteklklekeLLGFYLSDHPL----KQLTEpAKLlapI 989
                         1050      1060      1070      1080      1090      1100      1110      1120
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  935 TCAEAMNARD----GRWLMTAGLVLVRQRPGSAKGVIfmTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREG 1010
Cdd:PRK07374   990 SLSSLEEQPDkakvSAIAMIPEMKQVTTRKGDRMAIL--QLEDLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD 1067

                   ....*.
gi 1583841971 1011 DVVHLV 1016
Cdd:PRK07374  1068 DRVQLI 1073
DNA_pol3_alpha pfam07733
Bacterial DNA polymerase III alpha NTPase domain;
271-526 1.82e-113

Bacterial DNA polymerase III alpha NTPase domain;


Pssm-ID: 400196 [Multi-domain]  Cd Length: 259  Bit Score: 351.81  E-value: 1.82e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  271 ESLEHYVWECVPSRYPEGLPPEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITS 349
Cdd:pfam07733    1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  350 IDPSTNDLLFERFVSQERDEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKA 429
Cdd:pfam07733   81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  430 LSSGMWAWSEELVS--DRSLRDQGLNPEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQVI 507
Cdd:pfam07733  161 LAKLIPFELGILEKalEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
                          250
                   ....*....|....*....
gi 1583841971  508 EWDKDDVEALKFMKVDVLA 526
Cdd:pfam07733  241 QFDKDDLEDLGLLKMDFLG 259
PHP_PolIIIA_DnaE2 cd07434
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ...
3-259 8.81e-112

Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; PolIIIA DnaE2 plays a role in SOS mutagenesis/translesion synthesis and has dominant effects in determining GC variability in the bacterial genome. PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. PolIIIA core enzyme catalyzes the reaction for polymerizing both DNA strands. PolC PHP is located in a different location compared to dnaE1, 2, and 3. dnaE1 is the longest compared to dnaE2 and dnaE3. A unique motif was also identified in dnaE1 and dnaE3 genes. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PHP domains found in DnaEs of thermophilic origin exhibit 3'-5' exonuclease activity.


Pssm-ID: 213989 [Multi-domain]  Cd Length: 260  Bit Score: 347.52  E-value: 8.81e-112
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    3 YAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGMSILVYPTDR 82
Cdd:cd07434      1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   83 GAYSRLTRLLTLGKGRGGKANCVLSLDDVALYSEGLLGILVPDLAD---ENCAVQFRKMAEIFGDRAYVSLCLRRRPNDQ 159
Cdd:cd07434     81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaAALLAQLRWLARAFPGRLWLALELHLGGDDA 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  160 LRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPPQEMERLFPRYPEALAR 239
Cdd:cd07434    161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARLFLYPPEALAE 240
                          250       260
                   ....*....|....*....|
gi 1583841971  240 TMEIVERCRFSLEELTYQYP 259
Cdd:cd07434    241 TLEIAARCTFSLDELRYEYP 260
dnaE PRK07279
DNA polymerase III DnaE; Reviewed
3-806 1.07e-99

DNA polymerase III DnaE; Reviewed


Pssm-ID: 180917 [Multi-domain]  Cd Length: 1034  Bit Score: 338.93  E-value: 1.07e-99
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    3 YAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQ-DGMSILVY--- 78
Cdd:PRK07279     2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIFvEEQEVTLRlia 81
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   79 PTDRGaYSRLTRLLTLgkgrggKANCVLSLDDVALYSEGLlGILVPdladencavQFRKMAEI-FGDRAYVSLclrrrpn 157
Cdd:PRK07279    82 KNTQG-YKNLLKISTA------KMSGKKQFSDLSQYLEGI-AVIVP---------YFDWSETLeLPFDYYIGV------- 137
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  158 DQLRLHELSNMAM--RHRVRTVVTNDvlfhepgRRQLQdVVTCIRNKNTIDDVGFereRHADRYLKPPQEMERLFP-RYP 234
Cdd:PRK07279   138 DQETPGSDFKRPIlpLRTVRYFESAD-------RETLQ-MLHAIRDNLSLREVPL---VSSDQELISCQSLETLFQeRFP 206
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  235 EALARtmeivercrfsLEELT----YQYPEEAILP----DKSPQESL---------EHYVWEcvpSRYPEGLppevlriv 297
Cdd:PRK07279   207 QALDN-----------LEKLVsgisYDFDTDLKLPrfnrDRPAVEELrelaelglkEKGLWS---SPYQERL-------- 264
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  298 RHELDLIRTMKYAPYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVD 376
Cdd:PRK07279   265 DKELSVIHDMGFDDYFLIVWDLLRFGRSQGYYMgMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDID 344
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  377 FEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSgMWAWSEELVS--DRSLRDQGLNP 454
Cdd:PRK07279   345 LPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTK-KISFRDSLASvyEKNISFRQIIN 423
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  455 EDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAmaDRQVIEWDKDDVEALKFMKVDVLALGMLTCMA 534
Cdd:PRK07279   424 SKLEYQKAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGD--DMMITQYDAHAVEANGLLKMDFLGLRNLTFVQ 501
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  535 KAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPiqGDMVHP 614
Cdd:PRK07279   502 KMQEKVAKDYGIHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGA--SDYTDN 579
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  615 YLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVSGMIRN 694
Cdd:PRK07279   580 FVKRRHGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSK-KNASEMQKMEEDFLQGALEL 658
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  695 CYTAEFAEKTFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNsqpmgfYAPAQIVGCARNHGVEIRPV 774
Cdd:PRK07279   659 GHSEEKARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLN------YSSSDYITDALEFGFEVAKL 732
                          810       820       830
                   ....*....|....*....|....*....|...
gi 1583841971  775 CVNRSrwdctleRIGD-TDRHAVRLGMRMVRGL 806
Cdd:PRK07279   733 SINTI-------PYHDkIENKKIYLGLKNIKGL 758
dnaE PRK05898
DNA polymerase III subunit alpha;
180-824 2.40e-89

DNA polymerase III subunit alpha;


Pssm-ID: 135648 [Multi-domain]  Cd Length: 971  Bit Score: 308.69  E-value: 2.40e-89
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  180 NDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPpQEMERLFPryPEALARTMEIVERCRFSLEELTY--- 256
Cdd:PRK05898   141 NSVFYANKNDKIVFNAMLAIKNDLKIDELKNCQDFDNNHFLND-NEAQSLFS--PIQLDNLNKVLNELKVEIHDLPInii 217
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  257 QYPEEAILPDKSpqeslehYVWECVPSRYPEGLPpEVLRIVR--------HELDLIRTMKYAPYFLTVFSIVRFARSQDI 328
Cdd:PRK05898   218 KYDKQNSIISSE-------ILKQLCISGLNKRLN-ANDGQVKkiyvkrlkYELDIINEKQFDDYFLIVYDFINFAKSNGI 289
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  329 LC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRY 407
Cdd:PRK05898   290 IIgPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRI 369
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  408 RAKGAIRDVGKALGLPEDVIKALSSGMWAWSEELVSDRSLRDQGLNPEDRRLALTLKLAQQLMGAPRHLGQHPGGFVLTH 487
Cdd:PRK05898   370 KAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIKKNTILKEMYVLHKELFDLAKKIINAPRQIGTHAAGVVLSN 449
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  488 DRLDDLVPIEpAAMADRQVIEWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKA 567
Cdd:PRK05898   450 SLLTNIIPIQ-LGINDRPLSQYSMEYLERFGLIKMDLLGLKNLTIIDNVLKLIKENQNKKIDLFNINLNDKNVFEDLAKG 528
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  568 DTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGdmVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQE 647
Cdd:PRK05898   529 RTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALFRPGPQQN--IKTFVERRFKREEFSYWNEATKKILEPTHGIIVYQE 606
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  648 SAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVSGMIRNCYTAEFAEKTFSQLEGFGSYGFPESHAASFALI 727
Cdd:PRK05898   607 QVINLVKTIANFDIATADNFRRAISK-KDEKILIQLKKDFIEGALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYI 685
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  728 AYASNYVKCHHPDIFCAALLNSQPMGFYAPAQIVGCARNHGVEIRPVCVNRSRWDCTLerigDTDRHAVRLGMRMVRGLA 807
Cdd:PRK05898   686 SYWMAYLKHYYPLEFLSILLSHTSASKDKLLSYLNEAKEFNISIKKPDINYSSNSFVL----DTQKQIIRFGFNTIKGFG 761
                          650
                   ....*....|....*..
gi 1583841971  808 AADAARIVAARMDQPFE 824
Cdd:PRK05898   762 DELLKKIKSALQNKTFS 778
dnaE PRK07135
DNA polymerase III DnaE; Validated
1-749 7.70e-87

DNA polymerase III DnaE; Validated


Pssm-ID: 235944 [Multi-domain]  Cd Length: 973  Bit Score: 301.61  E-value: 7.70e-87
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGMSILVYPT 80
Cdd:PRK07135     1 MKLINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEVENFRFILLAKN 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   81 DRGaYsRLTRLLTLGKGRGGKancvLSLDDvaLYSEGLLGILVPDLAdenCAVQFRKMAEIfgDRAYVSlclrrrpndql 160
Cdd:PRK07135    81 YSG-Y-KLLNELSSKKSKNKE----IELND--LDSDNIIIIDHPKNG---FYAKNKEQLEL--KNYYIN----------- 136
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  161 rlhelSNMAMRHRVRTVVTNDVLFHE--PGRRQLQDVVTCIRNKNTIDDVGFERErhadrYLKPPQEMerlfprypeaLA 238
Cdd:PRK07135   137 -----SNDPKIENAVYVQERKLLFAEdnEYLKILNKIGNNKEENSNFKFFDFEKW-----FEDIDEKI----------LK 196
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  239 RTMEIVERCRFsleeltyQYPEEAI-LPD------KSPQESLEHYVWECVPSRYPEgLP--PEVLRIVRHELDLIRTMKY 309
Cdd:PRK07135   197 RTNYLVENINI-------EFPKKEFnLPDfdnnlgLESDLFLKKILKESVINKKAE-LKyyPNVKERINYEYSVIKKLKF 268
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  310 APYFLTVFSIVRFARSQDILC-QGRGSAANSAVCYILGITSIDPSTNDLLFERFVSQERDEPPDIDVDFEHERREEVIQW 388
Cdd:PRK07135   269 SNYFLIIWDFIKWARKNKISIgPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDRRDEVIDY 348
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  389 IYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLPEDVIKALSSGMWAW---SEELVSDRSLRDQGLNPEDRRLALTLKL 465
Cdd:PRK07135   349 IFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIPNNqslEEAYDKNKSFFRELISKGDPIYKKLYKI 428
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  466 AQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAAMADRQViEWDKDDVEALKFMKVDVLALGMLTCMAKAFALI--EEH 543
Cdd:PRK07135   429 AKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKDNYNQV-QYSMEFLEDFGLLKIDLLGLKNLTIIKNIEEKInkELL 507
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  544 KDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQgdMVHPYLRRREGKE 623
Cdd:PRK07135   508 FDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRPGPIQ--YIPIYAKNKKNPK 585
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  624 PVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLVSGMIRNCYTAEFAEK 703
Cdd:PRK07135   586 NIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISK-KDETKLDKIKDKFIEGGIKNGYSKKVLEK 664
                          730       740       750       760
                   ....*....|....*....|....*....|....*....|....*.
gi 1583841971  704 TFSQLEGFGSYGFPESHAASFALIAYASNYVKCHHPDIFCAALLNS 749
Cdd:PRK07135   665 IYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISN 710
PRK09532 PRK09532
DNA polymerase III subunit alpha; Reviewed
1-714 5.27e-81

DNA polymerase III subunit alpha; Reviewed


Pssm-ID: 181933 [Multi-domain]  Cd Length: 874  Bit Score: 283.17  E-value: 5.27e-81
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    1 MRYAELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRL-----DLQDGMSI 75
Cdd:PRK09532     1 MSFVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMyvingDIEKQKRR 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   76 -----LVYPTDRGAYSRLTRLLTLG-----KGRGGKANCVLSLDDVALYSEGL------LGILVPDLADENCAVQFRKMA 139
Cdd:PRK09532    81 rkyhqVVLAKNTQGYKNLVKLTTIShlqgvQGKGIFARPCINKELLEQYHEGLivtsacLGGEIPQAILSGRPDAARKVA 160
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  140 ----EIFGDRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVgfERERH 215
Cdd:PRK09532   161 kwykKLFGDDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITED--KRLRY 238
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  216 A-DRYLKPPQEMERLFPRY------PEALARTMEIVERCRfsleelTY------QYPEEAILPDKSPQESLEHYVWECVP 282
Cdd:PRK09532   239 SgTEYLKSAEEMRLLFRDHlpddviAEAIANTLEVADKIE------PYnilgepRIPNYPVPSGHTPDTYVEEVAWQGLL 312
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  283 SRYP----EGLPPEVLRIVRHELDLIRTMKYAPYFLTVFSIVRFARSQDI-LCQGRGSAANSAVCYILGITSIDPSTNDL 357
Cdd:PRK09532   313 ERLNcksrSEVEPVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIpVGPGRGSAAGSLVAYCLKITNIDPVHHGL 392
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  358 LFERFVSQERDEPPDIDVDFEHERREEVIQWIYKTYGKDKAALCSTVTRYRAKGAIRDVGKALGLP---EDVIKAL---S 431
Cdd:PRK09532   393 LFERFLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPygeADKMAKLipvS 472
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  432 SGMWAWSEELVSdrslrDQGLNPE-------DRRLALTLKLAQQLMGAPRHLGQHPGGFVLTHDRLDDLVPIEPAamADR 504
Cdd:PRK09532   473 RGKPTKLKVMIS-----DETPEPEfkekydnDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKN--NDG 545
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  505 QVI-EWDKDDVEALKFMKVDVLALGMLTCMAKAFALIEEHKDEHLDLAKIPQED-------------------QATYAMI 564
Cdd:PRK09532   546 AVItQYFMEDLESLGLLKMDFLGLRNLTTIQKTADLIKENRGVEIDLDQLPLDErkalkilakgeakklpkdvQKTHKLL 625
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  565 RKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQGDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPL 644
Cdd:PRK09532   626 ERGDLEGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAGLIPKFINRKHGREPIDYEHQLLEPILNETYGVLV 705
                          730       740       750       760       770       780       790
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  645 FQESAMKVAMVCAGFTGGEADQLRKSMATFKFTgGVSRFKDKLVSGMIRNCYTAEFAEKTFSQLEGFGSY 714
Cdd:PRK09532   706 YQEQIMKMAQDLAGYSLGEADLLRRAMGKKKIS-EMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
DNA_pol3_finger pfam17657
Bacterial DNA polymerase III alpha subunit finger domain;
529-695 3.53e-73

Bacterial DNA polymerase III alpha subunit finger domain;


Pssm-ID: 407553 [Multi-domain]  Cd Length: 166  Bit Score: 239.36  E-value: 3.53e-73
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  529 MLTCMAKAFALIEEHKDEHLDLAKIPQEDQATYAMIRKADTLGTFQIESRAQMAMLPRLKPRTFYDLVIQVAIVRPGPIQ 608
Cdd:pfam17657    1 TLTIIRDALDLIKENRGIGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGPMQ 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  609 GDMVHPYLRRREGKEPVVYPTPELEAVLGKTLGVPLFQESAMKVAMVCAGFTGGEADQLRKSMATfKFTGGVSRFKDKLV 688
Cdd:pfam17657   81 GGNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGK-KKPEEMEKLREKFI 159

                   ....*..
gi 1583841971  689 SGMIRNC 695
Cdd:pfam17657  160 EGAKENG 166
PHP_PolIIIA_DnaE1 cd07433
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ...
6-260 3.92e-33

Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. PolIIIA core enzyme catalyzes the reaction for polymerizing both DNA strands. dnaE1 is the longest compared to dnaE2 and dnaE3. A unique motif was also identified in dnaE1 and dnaE3 genes.


Pssm-ID: 213988 [Multi-domain]  Cd Length: 277  Bit Score: 129.52  E-value: 3.92e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    6 LQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGM------SILVYP 79
Cdd:cd07433      5 LRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVANPDdadepfRLTLLA 84
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   80 TDRGAYSRLTRLLTLG--KGRGGKANCVlSLDDVALYSEGLL-------GILV-------PDLAdENCAvqfRKMAEIFG 143
Cdd:cd07433     85 QNEQGYKNLTELISRAylEGQRNGGPHI-KLEWLAEYSEGLIalsggrdGDIGqlllegnPDLA-EALL---QFLKKIFP 159
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  144 DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVGFERERHADRYLKPP 223
Cdd:cd07433    160 DRFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYSPQQYFKSA 239
                          250       260       270
                   ....*....|....*....|....*....|....*..
gi 1583841971  224 QEMERLFPRYPEALARTMEIVERCRFSLEELTYQYPE 260
Cdd:cd07433    240 EEMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPD 276
PHP_PolIIIA_DnaE3 cd12113
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ...
6-259 9.84e-24

Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, the PolIIIA PHP exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such an activity has not been found. It has been shown that the PHP of PolIIIA has a trinuclear metal complex and is capable of proofreading activity. Bacterial genome replication and DNA repair mechanisms is related to the GC content of its genomes. There is a correlation between GC content variations and the dimeric combinations of PolIIIA subunits. Eubacteria can be grouped into different GC variable groups: the full-spectrum or dnaE1 group, the high-GC or dnaE2-dnaE1 group, and the low GC or polC-dnaE3 group.


Pssm-ID: 213997 [Multi-domain]  Cd Length: 283  Bit Score: 102.52  E-value: 9.84e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    6 LQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGC--------RLDLQDGMS--- 74
Cdd:cd12113      5 LHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCevyvapgsRFDKKDKKGdkr 84
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   75 ----ILVYPTDRGaYSRLTRLLTLG-------KGRggkancvLSLDDVALYSEGL------LGILVPDLA---DENCAVQ 134
Cdd:cd12113     85 yyhlVLLAKNEEG-YRNLMKLVSLAylegfyyKPR-------IDKELLAKYSEGLialsacLAGEIPQLLlngDEEEARE 156
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  135 -FRKMAEIFG-DRAYVSLCLRRRPNDQLRLHELSNMAMRHRVRTVVTNDVLFHEPGRRQLQDVVTCIRNKNTIDDVgfER 212
Cdd:cd12113    157 aALEYRDIFGkDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDP--NR 234
                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*....
gi 1583841971  213 ERHADR--YLKPPQEMERLFPRYPEALARTMEIVERCRFSLEELTYQYP 259
Cdd:cd12113    235 MRFDTDefYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
DnaE_OBF cd04485
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ...
951-1024 1.25e-18

DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.


Pssm-ID: 239931 [Multi-domain]  Cd Length: 84  Bit Score: 81.40  E-value: 1.25e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1583841971  951 AGLVLVRQRPGSAKG--VIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQREGDVVHLVAQQVFDLS 1024
Cdd:cd04485      3 AGLVTSVRRRRTKKGkrMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERIEDLE 78
PHP_PolIIIA cd07431
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ...
4-251 2.39e-18

Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such activity has not been found. It has been shown that the PHP domain of PolIIIA has a trinuclear metal complex and is capable of proofreading activity.


Pssm-ID: 213986 [Multi-domain]  Cd Length: 179  Bit Score: 83.79  E-value: 2.39e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971    4 AELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQDGM---SILVYPT 80
Cdd:cd07431      1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVEGDGepyPLLLLAK 80
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971   81 DRGAYSRLTRLLTLGKGRGGKANC-VLSLDDVALYSEGLLGILVPDladencavqfrkmaeifgdrayvslclrrrpndq 159
Cdd:cd07431     81 NNEGYQNLLRLSTAAMLGEEKDGVpYLDLEELAEAASGLLVVLLGP---------------------------------- 126
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  160 lRLHELSNmamRHRVRTVVTNDVLFHEPGRRQLQDVVTCirnkntiddvgfererhadrylkppqemerlfpryPEALAR 239
Cdd:cd07431    127 -LLLLLAA---EQGLPLVATNDVHYLNPEDAFAADVLTA-----------------------------------FLAVAN 167
                          250
                   ....*....|..
gi 1583841971  240 TMEIVERCRFSL 251
Cdd:cd07431    168 TVRIAKECAVEL 179
HHH_6 pfam14579
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
768-860 1.11e-16

Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.


Pssm-ID: 434050 [Multi-domain]  Cd Length: 88  Bit Score: 75.97  E-value: 1.11e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1583841971  768 GVEIRPVCVNRSRWDCTLERigdtdrHAVRLGMRMVRGLAAADAARIVAARMDQPFESVDDMWRR--SGVPAASLVELAE 845
Cdd:pfam14579    1 GIEVLPPDINRSDWDFTVEG------GGIRLGLGAIKGLGEAAAERIVEERENGPFKSLEDFARRvdLKLNKRVLEALIK 74
                           90
                   ....*....|....*
gi 1583841971  846 ADAFlPSLGLQRRGA 860
Cdd:pfam14579   75 AGAF-DSLGGNRRQL 88
tRNA_anti-codon pfam01336
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ...
956-1023 1.67e-08

OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyze the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a hetero-trimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain.


Pssm-ID: 460164 [Multi-domain]  Cd Length: 75  Bit Score: 52.24  E-value: 1.67e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1583841971  956 VRQRPGSAKGVIFMTIEDETGPANVVVWPKLFEQQRRVVLGASMIAINGRIQ-REGDVVHLVAQQVFDL 1023
Cdd:pfam01336    7 VTSIRRSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKkRKGGELELVVEEIELL 75
POLIIIAc smart00481
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ...
5-71 9.89e-07

DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family of hypothetical proteins


Pssm-ID: 197753 [Multi-domain]  Cd Length: 67  Bit Score: 46.88  E-value: 9.89e-07
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1583841971     5 ELQVTTHFSFLRGASSADELFVTARELAIDALGVVDRNSLAGIVRALEASRATGVSLVVGCRLDLQD 71
Cdd:smart00481    1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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