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Conserved domains on  [gi|933680648|gb|ALG83352|]
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bacterioferritin [Gordonia phthalatica]

Protein Classification

ferritin( domain architecture ID 10003944)

non-heme ferritin is an iron-storage protein that displays ferroxidase activity, catalyzing the oxidation of Fe(2+) ions into Fe(3+) ions, that can then be deposited as a ferric-oxide mineral core within the central cavity of the protein complex

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FtnA COG1528
Ferritin [Inorganic ion transport and metabolism];
7-158 1.68e-59

Ferritin [Inorganic ion transport and metabolism];


:

Pssm-ID: 441137  Cd Length: 158  Bit Score: 182.64  E-value: 1.68e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648   7 TTFQQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTAFDDY 86
Cdd:COG1528    4 EKMEKALNEQINLEFYSSYLYLAMAAWCDEKGLPGFANFFRVQAQEERTHAMKFFDYLNDRGGRVELPAIDAPPNEFESL 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 933680648  87 RAPIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTLQAIAARADGN---IFDLENFV 158
Cdd:COG1528   84 LEVFEAALEHEQKVTKSINELVDLAREEKDYATENFLQWFVKEQVEEEALARTILDKLKLAGDDgsgLFMLDKEL 158
 
Name Accession Description Interval E-value
FtnA COG1528
Ferritin [Inorganic ion transport and metabolism];
7-158 1.68e-59

Ferritin [Inorganic ion transport and metabolism];


Pssm-ID: 441137  Cd Length: 158  Bit Score: 182.64  E-value: 1.68e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648   7 TTFQQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTAFDDY 86
Cdd:COG1528    4 EKMEKALNEQINLEFYSSYLYLAMAAWCDEKGLPGFANFFRVQAQEERTHAMKFFDYLNDRGGRVELPAIDAPPNEFESL 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 933680648  87 RAPIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTLQAIAARADGN---IFDLENFV 158
Cdd:COG1528   84 LEVFEAALEHEQKVTKSINELVDLAREEKDYATENFLQWFVKEQVEEEALARTILDKLKLAGDDgsgLFMLDKEL 158
Nonheme_Ferritin cd01055
nonheme-containing ferritins; Nonheme Ferritin domain, found in archaea and bacteria, is a ...
 10-158 3.03e-47

nonheme-containing ferritins; Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.


Pssm-ID: 153113  Cd Length: 156  Bit Score: 151.49  E-value: 3.03e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  10 QQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTAFDDYRAP 89
Cdd:cd01055    5 EKALNEQINLELYSSYLYLAMAAWFDSKGLDGFANFFRVQAQEEREHAMKFFDYLNDRGGRVELPAIEAPPSEFESLLEV 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 933680648  90 IELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTLQAIAARAD---GNIFDLENFV 158
Cdd:cd01055   85 FEAALEHEQKVTESINNLVDLALEEKDYATFNFLQWFVKEQVEEEALARDILDKLKLAGddgGGLYMLDKEL 156
Ferritin pfam00210
Ferritin-like domain; This family contains ferritins and other ferritin-like proteins such as ...
 10-140 1.75e-29

Ferritin-like domain; This family contains ferritins and other ferritin-like proteins such as members of the DPS family and bacterioferritins.


Pssm-ID: 459712  Cd Length: 141  Bit Score: 105.83  E-value: 1.75e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648   10 QQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRD-----LDVEIPAAAAPvTAFD 84
Cdd:pfam00210   1 IAALNEQLADELTASYQYLQMHWYVKGPGFEGLHEFFDEQAEEEREHADKLAERILDLGgtpngTRVELLAIEAP-PSFG 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 933680648   85 DYRAPIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTL 140
Cdd:pfam00210  80 SVLEVLEAALEHEKKVTKSLRELIELAEEEGDYATADFLQWFLDEQEEHEWFLEAL 135
PRK10304 PRK10304
non-heme ferritin;
13-133 4.48e-08

non-heme ferritin;


Pssm-ID: 182367  Cd Length: 165  Bit Score: 50.43  E-value: 4.48e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  13 LHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPvtaFDDYRAPIEL 92
Cdd:PRK10304  10 LNEQMNLELYSSLLYQQMSAWCSYHTFEGAAAFLRRHAQEEMTHMQRLFDYLTDTGNLPRINTVESP---FAEYSSLDEL 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 933680648  93 ALAQEKH---VTEQIVALARAARDDGDYLGEQFMQWFLKEQVEE 133
Cdd:PRK10304  87 FQETYKHeqlITQKINELAHAAMTNQDYPTFNFLQWYVSEQHEE 130
 
Name Accession Description Interval E-value
FtnA COG1528
Ferritin [Inorganic ion transport and metabolism];
7-158 1.68e-59

Ferritin [Inorganic ion transport and metabolism];


Pssm-ID: 441137  Cd Length: 158  Bit Score: 182.64  E-value: 1.68e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648   7 TTFQQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTAFDDY 86
Cdd:COG1528    4 EKMEKALNEQINLEFYSSYLYLAMAAWCDEKGLPGFANFFRVQAQEERTHAMKFFDYLNDRGGRVELPAIDAPPNEFESL 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 933680648  87 RAPIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTLQAIAARADGN---IFDLENFV 158
Cdd:COG1528   84 LEVFEAALEHEQKVTKSINELVDLAREEKDYATENFLQWFVKEQVEEEALARTILDKLKLAGDDgsgLFMLDKEL 158
Nonheme_Ferritin cd01055
nonheme-containing ferritins; Nonheme Ferritin domain, found in archaea and bacteria, is a ...
 10-158 3.03e-47

nonheme-containing ferritins; Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.


Pssm-ID: 153113  Cd Length: 156  Bit Score: 151.49  E-value: 3.03e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  10 QQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTAFDDYRAP 89
Cdd:cd01055    5 EKALNEQINLELYSSYLYLAMAAWFDSKGLDGFANFFRVQAQEEREHAMKFFDYLNDRGGRVELPAIEAPPSEFESLLEV 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 933680648  90 IELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTLQAIAARAD---GNIFDLENFV 158
Cdd:cd01055   85 FEAALEHEQKVTESINNLVDLALEEKDYATFNFLQWFVKEQVEEEALARDILDKLKLAGddgGGLYMLDKEL 156
Ferritin pfam00210
Ferritin-like domain; This family contains ferritins and other ferritin-like proteins such as ...
 10-140 1.75e-29

Ferritin-like domain; This family contains ferritins and other ferritin-like proteins such as members of the DPS family and bacterioferritins.


Pssm-ID: 459712  Cd Length: 141  Bit Score: 105.83  E-value: 1.75e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648   10 QQLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRD-----LDVEIPAAAAPvTAFD 84
Cdd:pfam00210   1 IAALNEQLADELTASYQYLQMHWYVKGPGFEGLHEFFDEQAEEEREHADKLAERILDLGgtpngTRVELLAIEAP-PSFG 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 933680648   85 DYRAPIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEQVEEVSTMTTL 140
Cdd:pfam00210  80 SVLEVLEAALEHEKKVTKSLRELIELAEEEGDYATADFLQWFLDEQEEHEWFLEAL 135
Euk_Ferritin cd01056
eukaryotic ferritins; Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary ...
 10-153 1.83e-20

eukaryotic ferritins; Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged residues on the protein shell inner surface of the L subunits promote ferrihydrite nucleation. Most plant ferritins combine both oxidase and nucleation functions in one chain: they have four interior glutamate residues as well as seven ferroxidase center residues.


Pssm-ID: 153114  Cd Length: 161  Bit Score: 82.98  E-value: 1.83e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  10 QQLLHDQISNEFTASQQYIALAVYYDNHDM--PQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPV-TAFDDY 86
Cdd:cd01056    5 EAALNKQINLELNASYVYLSMAAYFDRDDValPGFAKFFRKLSDEEREHAEKLIKYQNKRGGRVVLQDIKKPEkDEWGSG 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 933680648  87 RAPIELALAQEKHVTEQIVALARAARDDGDYlgeQFMQW----FLKEQVEEVSTM----TTLQAIAARADGN---IFD 153
Cdd:cd01056   85 LEALELALDLEKLVNQSLLDLHKLASEHNDP---HLADFleseFLEEQVESIKKLagyiTNLKRVGKPQSGLgeyLFD 159
Ferritin cd00904
Ferritin iron storage proteins; Ferritins are the primary iron storage proteins of most living ...
 13-149 3.47e-10

Ferritin iron storage proteins; Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Bacterial non-heme ferritins are composed only of H chains. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged residues on the protein shell inner surface of the L subunits promote ferrihydrite nucleation. Most plant ferritins combine both oxidase and nucleation functions in one chain: they have four interior glutamate residues as well as seven ferroxidase center residues.


Pssm-ID: 153098  Cd Length: 160  Bit Score: 56.12  E-value: 3.47e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  13 LHDQISNEFTASQQYIALAVYYDNHD--MPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPVTA-FDDYRAP 89
Cdd:cd00904    8 VNRQLNLELYASYTYLSMATYFDRDDvaLKGVAHFFKEQAQEEREHAEKFYKYQNERGGRVELQDIEKPPSDeWGGTLDA 87

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 933680648  90 IELALAQEKHVTEQIVALARAARDDGDYLGEQFMQW-FLKEQVEEVSTMTTLQAIAARADG 149
Cdd:cd00904   88 MEAALKLEKFVNQALLDLHELASEEKDPHLCDFLEShFLDEQVKEIKQVGDILTNLERLNG 148
Bfr COG2193
Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism];
11-133 2.57e-08

Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism];


Pssm-ID: 441796  Cd Length: 152  Bit Score: 50.58  E-value: 2.57e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  11 QLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIkyflDRDLDVE-IP--AAAAPVTAFDDYR 87
Cdd:COG2193    7 ELLNKALANELTAINQYFLHARMLKNWGLEKLAEKFYEESIEEMKHADKLI----ERILFLGgLPnlQDLGKLRIGEDVE 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 933680648  88 APIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEqvEE 133
Cdd:COG2193   83 EMLECDLALELEAIALYREAIALCEEVGDYVSRDLLEEILED--EE 126
PRK10304 PRK10304
non-heme ferritin;
13-133 4.48e-08

non-heme ferritin;


Pssm-ID: 182367  Cd Length: 165  Bit Score: 50.43  E-value: 4.48e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  13 LHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIKYFLDRDLDVEIPAAAAPvtaFDDYRAPIEL 92
Cdd:PRK10304  10 LNEQMNLELYSSLLYQQMSAWCSYHTFEGAAAFLRRHAQEEMTHMQRLFDYLTDTGNLPRINTVESP---FAEYSSLDEL 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 933680648  93 ALAQEKH---VTEQIVALARAARDDGDYLGEQFMQWFLKEQVEE 133
Cdd:PRK10304  87 FQETYKHeqlITQKINELAHAAMTNQDYPTFNFLQWYVSEQHEE 130
Bacterioferritin cd00907
Bacterioferritin, ferritin-like diiron-binding domain; Bacterioferritins, also known as ...
 11-133 4.66e-08

Bacterioferritin, ferritin-like diiron-binding domain; Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) bestowing ferroxidase activity.


Pssm-ID: 153099  Cd Length: 153  Bit Score: 49.85  E-value: 4.66e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  11 QLLHDQISNEFTASQQYIALAVYYDNHDMPQLAKHFYGQSVEERNHAMMIIK--YFLDRDLDVeipAAAAPVTAFDDYRA 88
Cdd:cd00907    8 EALNKALTGELTAINQYFLHARMLEDWGLEKLAERFRKESIEEMKHADKLIEriLFLEGLPNL---QRLGKLRIGEDVPE 84

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 933680648  89 PIELALAQEKHVTEQIVALARAARDDGDYLGEQFMQWFLKEqvEE 133
Cdd:cd00907   85 MLENDLALEYEAIAALNEAIALCEEVGDYVSRDLLEEILED--EE 127
Ferritin_like cd00657
Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Ferritin-like, ...
 12-115 2.09e-03

Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyubiquinone hydroxylases (DMQH), DNA protecting proteins (DPS), and ubiquinol oxidases (AOX), and the aerobic cyclase system, Fe-containing subunit (ACSF).


Pssm-ID: 153097  Cd Length: 130  Bit Score: 36.71  E-value: 2.09e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 933680648  12 LLHDQISNEFTASQQYIALAVYYDNhdmPQLAKHFYGQSVEERNHAMMIIKYFldRDLDVEIPAAAAPVTAF-------D 84
Cdd:cd00657    2 LLNDALAGEYAAIIAYGQLAARAPD---PDLKDELLEIADEERRHADALAERL--RELGGTPPLPPAHLLAAyalpktsD 76

                         90       100       110
                 ....*....|....*....|....*....|.
gi 933680648  85 DYRAPIELALAQEKHVTEQIVALARAARDDG 115
Cdd:cd00657   77 DPAEALRAALEVEARAIAAYRELIEQADDPE 107
 
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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