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Conserved domains on  [gi|224000239|ref|XP_002289792|]
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predicted protein, partial [Thalassiosira pseudonana CCMP1335]

Protein Classification

ribonucleoside-diphosphate reductase small subunit( domain architecture ID 10791385)

ribonucleoside-diphosphate reductase small subunit catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN02492 PLN02492
ribonucleoside-diphosphate reductase
 1-335 0e+00

ribonucleoside-diphosphate reductase


:

Pssm-ID: 215272  Cd Length: 324  Bit Score: 627.46  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   1 EPICRtdEEGSRFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHKkLNPDERHFISMVLAFFAGADGIVVENLA 80
Cdd:PLN02492   1 EPLLA--ENPDRFCMFPIKYPQIWEMYKKAEASFWTAEEVDLSADLKDWEK-LTDDERHFISHVLAFFAASDGIVLENLA 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  81 ERFCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYIGSKASFAERLVA 160
Cdd:PLN02492  78 ARFMKEVQVPEARAFYGFQIAIENIHSEMYSLLLDTYIKDPKEKDRLFNAIETIPCVAKKADWALRWIDSSASFAERLVA 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 161 FAAVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLSQEEIQTIINEAVDVEKSFICDA 240
Cdd:PLN02492 158 FACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSLLKNKLSEERVKEIVCEAVEIEKEFVCDA 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGSKNPFDWMDMISLEGKTNFFEKRVGEYQKSGVMASLEGKSAEsss 320
Cdd:PLN02492 238 LPCALVGMNADLMSQYIEFVADRLLVALGYEKVYNVVNPFDWMELISLQGKTNFFEKRVGEYQKAGVMSSLNGGGAD--- 314

                        330
                 ....*....|....*
gi 224000239 321 sggvaAKELDFAADF 335
Cdd:PLN02492 315 -----NHVFSLDEDF 324
 
Name Accession Description Interval E-value
PLN02492 PLN02492
ribonucleoside-diphosphate reductase
 1-335 0e+00

ribonucleoside-diphosphate reductase


Pssm-ID: 215272  Cd Length: 324  Bit Score: 627.46  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   1 EPICRtdEEGSRFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHKkLNPDERHFISMVLAFFAGADGIVVENLA 80
Cdd:PLN02492   1 EPLLA--ENPDRFCMFPIKYPQIWEMYKKAEASFWTAEEVDLSADLKDWEK-LTDDERHFISHVLAFFAASDGIVLENLA 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  81 ERFCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYIGSKASFAERLVA 160
Cdd:PLN02492  78 ARFMKEVQVPEARAFYGFQIAIENIHSEMYSLLLDTYIKDPKEKDRLFNAIETIPCVAKKADWALRWIDSSASFAERLVA 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 161 FAAVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLSQEEIQTIINEAVDVEKSFICDA 240
Cdd:PLN02492 158 FACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSLLKNKLSEERVKEIVCEAVEIEKEFVCDA 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGSKNPFDWMDMISLEGKTNFFEKRVGEYQKSGVMASLEGKSAEsss 320
Cdd:PLN02492 238 LPCALVGMNADLMSQYIEFVADRLLVALGYEKVYNVVNPFDWMELISLQGKTNFFEKRVGEYQKAGVMSSLNGGGAD--- 314

                        330
                 ....*....|....*
gi 224000239 321 sggvaAKELDFAADF 335
Cdd:PLN02492 315 -----NHVFSLDEDF 324
Ribonuc_red_sm pfam00268
Ribonucleotide reductase, small chain;
12-279 9.20e-139

Ribonucleotide reductase, small chain;


Pssm-ID: 425568 [Multi-domain]  Cd Length: 276  Bit Score: 394.17  E-value: 9.20e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   12 RFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPE 91
Cdd:pfam00268   1 RFNLNPIKYPEIWEFYKKLEANFWTPEEIPLSKDIKDW-KKLSEDEREFIKRVLAFLALLDTLVNENLVERFSREVQTPE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   92 ARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYI-GSKASFAERLVAFAAVEGIFFS 170
Cdd:pfam00268  80 ARAFYGFQAFMENIHSESYSYILDTLGKDPEEIDELFNWIETNPALQKKAEWILKWYqDFDSDFLERLVAFAILEGIFFY 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  171 GSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKL-------SQEEIQTIINEAVDVEKSFICDALPV 243
Cdd:pfam00268 160 SGFAAILWLKRRGKMPGLAEIIELISRDEGLHGDFACLLFQHLKEENpeletkeLKEEVYDLIKEAVELEKEFLDDALPV 239

                         250       260       270
                  ....*....|....*....|....*....|....*..
gi 224000239  244 SLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGS-KNP 279
Cdd:pfam00268 240 GLLGMNAEDVKQYIEYVADRRLMNLGYEKLYNVeVNP 276
RNRR2 cd01049
Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Ribonucleotide ...
 13-288 7.76e-130

Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-helical bundle; some have 2 addition beta strands. Yeast is unique in that it assembles both homodimers and heterodimers of RNRR2. The yeast heterodimer, Y2Y4, contains R2 (Y2) and a R2 homolog (Y4) that lacks the diiron center and is proposed to only assist in cofactor assembly, and perhaps stabilize R1 (Y1) in its active conformation.


Pssm-ID: 153108 [Multi-domain]  Cd Length: 288  Bit Score: 371.96  E-value: 7.76e-130
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  13 FSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPEA 92
Cdd:cd01049    1 FNLNPIKYPWAWELYKKAEANFWTPEEIDLSKDLKDW-EKLTEAERHFIKRVLAFLAALDSIVGENLVELFSRHVQIPEA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  93 RCFYGFQMAMESIHQETYCLLIDTYITDPKvRERLFSAHATVPSVERKASWAQRYI-----GSKASFAERLVAFAAVEGI 167
Cdd:cd01049   80 RAFYGFQAFMENIHSESYSYILDTLGKDEE-RDELFEAIETDPALKKKADWILRWYdnlddNTKESFAERLVAFAILEGI 158

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 168 FFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLK-------LSQEEIQTIINEAVDVEKSFICDA 240
Cdd:cd01049  159 FFYSGFAAIFWLARRGKMPGLAEIIELISRDESLHGDFACLLIRELLNEnpelfteEFKEEVYELIKEAVELEKEFARDL 238

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGS--KNPFDWMDMISL 288
Cdd:cd01049  239 LPDGILGLNKEDMKQYIEYVANRRLENLGLEKLFNVedKNPFDWMELISD 288
NrdB COG0208
Ribonucleotide reductase beta subunit, ferritin-like domain [Nucleotide transport and ...
 12-310 2.10e-114

Ribonucleotide reductase beta subunit, ferritin-like domain [Nucleotide transport and metabolism]; Ribonucleotide reductase beta subunit, ferritin-like domain is part of the Pathway/BioSystem: Pyrimidine salvage


Pssm-ID: 439978 [Multi-domain]  Cd Length: 326  Bit Score: 334.44  E-value: 2.10e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  12 RFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPE 91
Cdd:COG0208   13 RINWNPIKYPWAYELYKKQLANFWLPEEVPLSNDIKDW-KKLSDDERHLIKRVLGFLTLLDSIQGNNLVLALYPHVTAPE 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  92 ARCFYGFQMAMESIHQETYCLLIDTYITDPkvrERLFSAHATVPSVERKASWAQRYI------GSKASFAERLVAFAAVE 165
Cdd:COG0208   92 VRAVLSRQAFMEAIHAKSYSYILETLGLDI---DEIFNWIEENPALQKKAEFILKYYddlgtrETKKDLLKSLVASVFLE 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 166 GIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLS-------QEEIQTIINEAVDVEKSFIC 238
Cdd:COG0208  169 GIFFYSGFAYPLSLARRGKMKGTAEIIRLILRDESLHGNFGIYLINTIREENPelfteelKEEIYELLKEAVELEKEYAD 248

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 224000239 239 DALPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMY-GSKNPFDWMD-MISLEGKTNFFEKRVGEYQKSGVMAS 310
Cdd:COG0208  249 DLFPDGILGLNAEDVKQYIRYIANKRLMNLGLEPLFeGDVNPFPWMSeGLDLNKKTDFFETRVTEYQKGGVEST 322
 
Name Accession Description Interval E-value
PLN02492 PLN02492
ribonucleoside-diphosphate reductase
 1-335 0e+00

ribonucleoside-diphosphate reductase


Pssm-ID: 215272  Cd Length: 324  Bit Score: 627.46  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   1 EPICRtdEEGSRFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHKkLNPDERHFISMVLAFFAGADGIVVENLA 80
Cdd:PLN02492   1 EPLLA--ENPDRFCMFPIKYPQIWEMYKKAEASFWTAEEVDLSADLKDWEK-LTDDERHFISHVLAFFAASDGIVLENLA 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  81 ERFCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYIGSKASFAERLVA 160
Cdd:PLN02492  78 ARFMKEVQVPEARAFYGFQIAIENIHSEMYSLLLDTYIKDPKEKDRLFNAIETIPCVAKKADWALRWIDSSASFAERLVA 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 161 FAAVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLSQEEIQTIINEAVDVEKSFICDA 240
Cdd:PLN02492 158 FACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSLLKNKLSEERVKEIVCEAVEIEKEFVCDA 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGSKNPFDWMDMISLEGKTNFFEKRVGEYQKSGVMASLEGKSAEsss 320
Cdd:PLN02492 238 LPCALVGMNADLMSQYIEFVADRLLVALGYEKVYNVVNPFDWMELISLQGKTNFFEKRVGEYQKAGVMSSLNGGGAD--- 314

                        330
                 ....*....|....*
gi 224000239 321 sggvaAKELDFAADF 335
Cdd:PLN02492 315 -----NHVFSLDEDF 324
PTZ00211 PTZ00211
ribonucleoside-diphosphate reductase small subunit; Provisional
 1-314 0e+00

ribonucleoside-diphosphate reductase small subunit; Provisional


Pssm-ID: 240315 [Multi-domain]  Cd Length: 330  Bit Score: 559.39  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   1 EPICRtdEEGSRFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHKkLNPDERHFISMVLAFFAGADGIVVENLA 80
Cdd:PTZ00211  12 EPLLK--ENPDRFVLFPIKYPDIWRMYKKAEASFWTAEEIDLGNDLKDWEK-LNDGERHFIKHVLAFFAASDGIVLENLA 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  81 ERFCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYIGSKASFAERLVA 160
Cdd:PTZ00211  89 QRFMREVQVPEARCFYGFQIAMENIHSETYSLLIDTYITDEEEKDRLFHAIETIPAIKKKAEWAAKWINSSNSFAERLVA 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 161 FAAVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLSQEEIQTIINEAVDVEKSFICDA 240
Cdd:PTZ00211 169 FAAVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHTDFACLLYSHLKNKLPRERVQEIIKEAVEIEREFICDA 248

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGSKNPFDWMDMISLEGKTNFFEKRVGEYQKSGVMASLEGK 314
Cdd:PTZ00211 249 LPVDLIGMNSRLMAQYIEFVADRLLVALGVPKIYNSKNPFDWMDMISLQGKTNFFEKRVGEYQKAGVMAERTSK 322
Ribonuc_red_sm pfam00268
Ribonucleotide reductase, small chain;
12-279 9.20e-139

Ribonucleotide reductase, small chain;


Pssm-ID: 425568 [Multi-domain]  Cd Length: 276  Bit Score: 394.17  E-value: 9.20e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   12 RFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPE 91
Cdd:pfam00268   1 RFNLNPIKYPEIWEFYKKLEANFWTPEEIPLSKDIKDW-KKLSEDEREFIKRVLAFLALLDTLVNENLVERFSREVQTPE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   92 ARCFYGFQMAMESIHQETYCLLIDTYITDPKVRERLFSAHATVPSVERKASWAQRYI-GSKASFAERLVAFAAVEGIFFS 170
Cdd:pfam00268  80 ARAFYGFQAFMENIHSESYSYILDTLGKDPEEIDELFNWIETNPALQKKAEWILKWYqDFDSDFLERLVAFAILEGIFFY 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  171 GSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKL-------SQEEIQTIINEAVDVEKSFICDALPV 243
Cdd:pfam00268 160 SGFAAILWLKRRGKMPGLAEIIELISRDEGLHGDFACLLFQHLKEENpeletkeLKEEVYDLIKEAVELEKEFLDDALPV 239

                         250       260       270
                  ....*....|....*....|....*....|....*..
gi 224000239  244 SLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGS-KNP 279
Cdd:pfam00268 240 GLLGMNAEDVKQYIEYVADRRLMNLGYEKLYNVeVNP 276
RNRR2 cd01049
Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Ribonucleotide ...
 13-288 7.76e-130

Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-helical bundle; some have 2 addition beta strands. Yeast is unique in that it assembles both homodimers and heterodimers of RNRR2. The yeast heterodimer, Y2Y4, contains R2 (Y2) and a R2 homolog (Y4) that lacks the diiron center and is proposed to only assist in cofactor assembly, and perhaps stabilize R1 (Y1) in its active conformation.


Pssm-ID: 153108 [Multi-domain]  Cd Length: 288  Bit Score: 371.96  E-value: 7.76e-130
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  13 FSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPEA 92
Cdd:cd01049    1 FNLNPIKYPWAWELYKKAEANFWTPEEIDLSKDLKDW-EKLTEAERHFIKRVLAFLAALDSIVGENLVELFSRHVQIPEA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  93 RCFYGFQMAMESIHQETYCLLIDTYITDPKvRERLFSAHATVPSVERKASWAQRYI-----GSKASFAERLVAFAAVEGI 167
Cdd:cd01049   80 RAFYGFQAFMENIHSESYSYILDTLGKDEE-RDELFEAIETDPALKKKADWILRWYdnlddNTKESFAERLVAFAILEGI 158

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 168 FFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLK-------LSQEEIQTIINEAVDVEKSFICDA 240
Cdd:cd01049  159 FFYSGFAAIFWLARRGKMPGLAEIIELISRDESLHGDFACLLIRELLNEnpelfteEFKEEVYELIKEAVELEKEFARDL 238

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 224000239 241 LPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMYGS--KNPFDWMDMISL 288
Cdd:cd01049  239 LPDGILGLNKEDMKQYIEYVANRRLENLGLEKLFNVedKNPFDWMELISD 288
NrdB COG0208
Ribonucleotide reductase beta subunit, ferritin-like domain [Nucleotide transport and ...
 12-310 2.10e-114

Ribonucleotide reductase beta subunit, ferritin-like domain [Nucleotide transport and metabolism]; Ribonucleotide reductase beta subunit, ferritin-like domain is part of the Pathway/BioSystem: Pyrimidine salvage


Pssm-ID: 439978 [Multi-domain]  Cd Length: 326  Bit Score: 334.44  E-value: 2.10e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  12 RFSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPE 91
Cdd:COG0208   13 RINWNPIKYPWAYELYKKQLANFWLPEEVPLSNDIKDW-KKLSDDERHLIKRVLGFLTLLDSIQGNNLVLALYPHVTAPE 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  92 ARCFYGFQMAMESIHQETYCLLIDTYITDPkvrERLFSAHATVPSVERKASWAQRYI------GSKASFAERLVAFAAVE 165
Cdd:COG0208   92 VRAVLSRQAFMEAIHAKSYSYILETLGLDI---DEIFNWIEENPALQKKAEFILKYYddlgtrETKKDLLKSLVASVFLE 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 166 GIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLS-------QEEIQTIINEAVDVEKSFIC 238
Cdd:COG0208  169 GIFFYSGFAYPLSLARRGKMKGTAEIIRLILRDESLHGNFGIYLINTIREENPelfteelKEEIYELLKEAVELEKEYAD 248

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 224000239 239 DALPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMY-GSKNPFDWMD-MISLEGKTNFFEKRVGEYQKSGVMAS 310
Cdd:COG0208  249 DLFPDGILGLNAEDVKQYIRYIANKRLMNLGLEPLFeGDVNPFPWMSeGLDLNKKTDFFETRVTEYQKGGVEST 322
PRK07209 PRK07209
ribonucleotide-diphosphate reductase subunit beta; Validated
 4-308 2.44e-59

ribonucleotide-diphosphate reductase subunit beta; Validated


Pssm-ID: 235968  Cd Length: 369  Bit Score: 194.83  E-value: 2.44e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   4 CRTDEEgsrfSLFPIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHKK--LNPDERHFISMVLAFFAGADGIVVENLAE 81
Cdd:PRK07209  44 CRADVN----QLVPFKYKWAWEKYLAGCANHWMPQEVNMSRDIALWKSPngLTEDERRIVKRNLGFFSTADSLVANNIVL 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  82 RFCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYITDPkvrERLFSAHATVPSVERKASWAQRYIGSKA--------- 152
Cdd:PRK07209 120 AIYRHITNPECRQYLLRQAFEEAIHTHAYQYIVESLGLDE---GEIFNMYHEVPSIRAKDEFLIPFTRSLTdpnfktgtp 196

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 153 ----SFAERLVAFAAV-EGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCSFACQLYSKLKLKLS-------QE 220
Cdd:PRK07209 197 endqKLLRNLIAFYCImEGIFFYVGFTQILSLGRQNKMTGIAEQYQYILRDESMHLNFGIDLINQIKLENPhlwtaefQA 276

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 221 EIQTIINEAVDVEKSFICDALPVSLIGMNSRLMAQYIEFVADRMLTDLGYQAMY-GSKNPFDWM-DMISLEGKTNFFEKR 298
Cdd:PRK07209 277 EIRELIKEAVELEYRYARDTMPRGVLGLNASMFKDYLRFIANRRLQQIGLKPQYpGTENPFPWMsEMIDLKKEKNFFETR 356

                        330
                 ....*....|
gi 224000239 299 VGEYQKSGVM 308
Cdd:PRK07209 357 VIEYQTGGAL 366
nrdF PRK09614
ribonucleotide-diphosphate reductase subunit beta; Reviewed
 17-305 2.50e-49

ribonucleotide-diphosphate reductase subunit beta; Reviewed


Pssm-ID: 236591 [Multi-domain]  Cd Length: 324  Bit Score: 167.31  E-value: 2.50e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  17 PIAYPDLWSMYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPEARCFY 96
Cdd:PRK09614  16 KIEDPWDYEAWKRLTANFWLPEEVPLSNDLKDW-KKLSDEEKNLYTRVFGGLTLLDTLQNNNGMPNLMPDITTPEEEAVL 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  97 GFQMAMESIHQETYCLLIDTyITDPKVRERLFSAHATVPSVERKASWAQR-YIGSKASFAERLVAFAAV-EGIFFSGSFC 174
Cdd:PRK09614  95 ANIAFMEAVHAKSYSYIFST-LCSPEEIDEAFEWAEENPYLQKKADIIQDfYEPLKKKILRKAAVASVFlEGFLFYSGFY 173

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 175 AIFWLKKRGLMPGltfSNELIS---RDEGLHCSFACQLYSKLKLKLS-------QEEIQTIINEAVDVEKSFICDALPVs 244
Cdd:PRK09614 174 YPLYLARQGKMTG---TAQIIRliiRDESLHGYYIGYLFQEGLEELPeleqeelKDEIYDLLYELYENEEAYTELLYDI- 249

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 224000239 245 lIGmNSRLMAQYIEFVADRMLTDLGYQAMYGS--KNPFDWMDMISLEG--KTNFFEKRVGEYQKS 305
Cdd:PRK09614 250 -VG-LAEDVKKYIRYNANKRLMNLGLEPLFPEeeEVNPIWLNGLSNNAdeNHDFFEGKGTSYVKG 312
PRK12759 PRK12759
bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
 9-310 1.03e-26

bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional


Pssm-ID: 139206 [Multi-domain]  Cd Length: 410  Bit Score: 108.96  E-value: 1.03e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239   9 EGSRFSLF-----PIAYPDLWSMYKQHVASFWTADEIDLSADLSDWHK-KLNPDERHFISMVLAFFAGADGIVVENLAER 82
Cdd:PRK12759  89 KGSSLTTFsktykPFNYPWAVDLTVKHEKAHWIEDEIDLSEDVTDWKNgKITKVEKEYITNILRLFTQSDVAVGQNYYDQ 168

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  83 FCREVTVPEARCFYGFQMAMESIHQETYCLLIDTYitdpkvrerlfsahaTVPSVERKASWAQRYIGSKASF-------A 155
Cdd:PRK12759 169 FIPLFKNNEIRNMLGSFAAREGIHQRAYALLNDTL---------------GLPDSEYHAFLEYKAMTDKIDFmmdadptT 233

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 156 ERLVAFAAVEGIFFSG-----SFCAIFWLKKRGLMPGLTFSNELISRDEGLHCS-------FACQLYSKLKLKLSQEEIQ 223
Cdd:PRK12759 234 RRGLGLCLAKTVFNEGvalfaSFAMLLNFQRFGKMKGMGKVVEWSIRDESMHVEgnaalfrIYCQENPYIVDNEFKKEIY 313

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 224 TIINEAVDVEKSFICDALPVSLI-GMNSRLMAQYIEFVADRMLTDLGYQAMYG-SKNPFDWMDMIsLEG--KTNFFEKRV 299
Cdd:PRK12759 314 LMASKAVELEDRFIELAYELGTIeGLKADEVKQYIRHITDRRLNQLGLKEIYNiEKNPLTWLEWI-LNGadHTNFFENRV 392

                        330
                 ....*....|.
gi 224000239 300 GEYQKSGVMAS 310
Cdd:PRK12759 393 TEYEVAGLTGS 403
nrdF2 PRK13966
ribonucleotide-diphosphate reductase subunit beta; Provisional
 26-274 5.05e-09

ribonucleotide-diphosphate reductase subunit beta; Provisional


Pssm-ID: 140022  Cd Length: 324  Bit Score: 56.65  E-value: 5.05e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  26 MYKQHVASFWTADEIDLSADLSDWHKkLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPEARCFYGFQMAMESI 105
Cdd:PRK13966  27 VWDRLTGNFWLPEKVPVSNDIPSWGT-LTAGEKQLTMRVFTGLTMLDTIQGTVGAVSLIPDALTPHEEAVLTNIAFMESV 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 106 HQETYCLLIDTYITDPKVRERlFSAHATVPSVERKASWAQRYIGSKASFAERLVAFAAVEGIFFSGSFCAIFWlKKRGLM 185
Cdd:PRK13966 106 HAKSYSQIFSTLCSTAEIDDA-FRWSEENRNLQRKAEIVLQYYRGDEPLKRKVASTLLESFLFYSGFYLPMYW-SSRAKL 183

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 186 PGLTFSNELISRDEGLHCSFACQLYSKLKLKLSQEEIQTIIN-------EAVDVEKSFICDALpvSLIGMNSRLmAQYIE 258
Cdd:PRK13966 184 TNTADMIRLIIRDEAVHGYYIGYKFQRGLALVDDVTRAELKDytyellfELYDNEVEYTQDLY--DEVGLTEDV-KKFLR 260

                        250
                 ....*....|....*.
gi 224000239 259 FVADRMLTDLGYQAMY 274
Cdd:PRK13966 261 YNANKALMNLGYEALF 276
nrdF1 PRK13967
ribonucleotide-diphosphate reductase subunit beta; Provisional
 26-274 4.00e-06

ribonucleotide-diphosphate reductase subunit beta; Provisional


Pssm-ID: 140023  Cd Length: 322  Bit Score: 47.80  E-value: 4.00e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  26 MYKQHVASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAERFCREVTVPEARCFYGFQMAMESI 105
Cdd:PRK13967  25 VWERLTGNFWLPEKIPLSNDLASW-QTLSSTEQQTTIRVFTGLTLLDTAQATVGAVAMIDDAVTPHEEAVLTNMAFMESV 103

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 106 HQETYCLLIDTYITDPKVRERlFSAHATVPSVERKASWAQRYIGSKASFAERLVAFAAVEGIFFSGSFCAIFWlKKRGLM 185
Cdd:PRK13967 104 HAKSYSSIFSTLCSTKQIDDA-FDWSEQNPYLQRKAQIIVDYYRGDDALKRKASSVMLESFLFYSGFYLPMYW-SSRGKL 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239 186 PGLTFSNELISRDEGLH---CSFACQL------------YSKLKLKLSQEEIQTIINEAVDV--EKSFICDALPvsligm 248
Cdd:PRK13967 182 TNTADLIRLIIRDEAVHgyyIGYKCQRgladltdaeradHREYTCELLHTLYANEIDYAHDLydELGWTDDVLP------ 255

                        250       260
                 ....*....|....*....|....*.
gi 224000239 249 nsrlmaqYIEFVADRMLTDLGYQAMY 274
Cdd:PRK13967 256 -------YMRYNANKALANLGYQPAF 274
PRK08326 PRK08326
R2-like ligand-binding oxidase;
32-205 8.96e-06

R2-like ligand-binding oxidase;


Pssm-ID: 236242  Cd Length: 311  Bit Score: 46.53  E-value: 8.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  32 ASFWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLA------------------ERFCREvtvpEAR 93
Cdd:PRK08326  36 AKFWNPADIDFSRDAEDW-EKLSDEERDYATRLCAQFIAGEEAVTLDIQplisamaaegrledemylTQFAFE----EAK 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  94 CFYGFQMAMES--IHQETYCLLIDtyitDPKVReRLFsaHATVPSverkASWAQRYIGSKASFAERLVAF-AAVEGIFFS 170
Cdd:PRK08326 111 HTEAFRRWFDAvgVTEDLSVYTDD----NPSYR-QIF--YEELPA----ALNRLSTDPSPENQVRASVTYnHVVEGVLAE 179

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 224000239 171 GSFCAIFWL-KKRGLMPGLTFSNELISRDEGLHCSF 205
Cdd:PRK08326 180 TGYYAWRKIcVTRGILPGLQELVRRIGDDERRHIAW 215
RNRR2_Rv0233_like cd07911
Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Rv0233 is a Mycobacterium ...
 34-205 2.98e-04

Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.


Pssm-ID: 153120  Cd Length: 280  Bit Score: 41.94  E-value: 2.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  34 FWTADEIDLSADLSDWhKKLNPDERHFISMVLAFFAGADGIVVENLAE------------------RFCREvtvpEARCF 95
Cdd:cd07911   21 FWNPADIDFSQDREDW-EQLSEEERDLALRLCAGFIAGEEAVTLDLLPlmmamaaegrleeemyltQFLFE----EAKHT 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224000239  96 YGFQMAMESIHQETyclLIDTYITDPKVR---ERLFSAH---ATVPSVERKASWAQRYIGSkasfaerlvafaaVEGIFF 169
Cdd:cd07911   96 DFFRRWLDAVGVSD---DLSDLHTAVYREpfyEALPYAElrlYLDASPAAQVRASVTYNMI-------------VEGVLA 159

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 224000239 170 SGSFCAIF-WLKKRGLMPGLTFSNELISRDEGLHCSF 205
Cdd:cd07911  160 ETGYYAWRtICEKRGILPGMQEGIRRLGDDESRHIAW 196
 
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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