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Conserved domains on  [gi|1002247752|ref|XP_015628043|]
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uncharacterized protein [Oryza sativa Japonica Group]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-GRF pfam06839
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 163-205 4.59e-11

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


:

Pssm-ID: 462017  Cd Length: 45  Bit Score: 57.41  E-value: 4.59e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1002247752 163 CPCGaGSCLVLTSN-TPRNPGRKFYRCPMRDNGGCNYFEWCDNP 205
Cdd:pfam06839   3 CPCG-QRAVLLTVRkTGPNPGRQFYKCPVGREKQCGFFQWADEV 45
zf-GRF super family cl46396
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 228-271 1.39e-10

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


The actual alignment was detected with superfamily member pfam06839:

Pssm-ID: 480736  Cd Length: 45  Bit Score: 55.87  E-value: 1.39e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002247752 228 LCPCGaGACLILTT-KTGKNVGRQFYRCPANQGGsSCGYFKWCDE 271
Cdd:pfam06839   2 LCPCG-QRAVLLTVrKTGPNPGRQFYKCPVGREK-QCGFFQWADE 44
PTZ00368 super family cl31762
universal minicircle sequence binding protein (UMSBP); Provisional
 297-367 8.81e-09

universal minicircle sequence binding protein (UMSBP); Provisional


The actual alignment was detected with superfamily member PTZ00368:

Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 54.04  E-value: 8.81e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002247752 297 PSKRSSSACFKCGQENHWAKDCPNqssdPYPDKGGRtftsasspdACFKCGKSGHWSRDCPTANCGSSTVS 367
Cdd:PTZ00368   22 AGAAKARPCYKCGEPGHLSRECPS----APGGRGER---------SCYNCGKTGHLSRECPEAPPGSGPRS 79
 
Name Accession Description Interval E-value
zf-GRF pfam06839
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 163-205 4.59e-11

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


Pssm-ID: 462017  Cd Length: 45  Bit Score: 57.41  E-value: 4.59e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1002247752 163 CPCGaGSCLVLTSN-TPRNPGRKFYRCPMRDNGGCNYFEWCDNP 205
Cdd:pfam06839   3 CPCG-QRAVLLTVRkTGPNPGRQFYKCPVGREKQCGFFQWADEV 45
zf-GRF pfam06839
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 228-271 1.39e-10

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


Pssm-ID: 462017  Cd Length: 45  Bit Score: 55.87  E-value: 1.39e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002247752 228 LCPCGaGACLILTT-KTGKNVGRQFYRCPANQGGsSCGYFKWCDE 271
Cdd:pfam06839   2 LCPCG-QRAVLLTVrKTGPNPGRQFYKCPVGREK-QCGFFQWADE 44
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 297-367 8.81e-09

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 54.04  E-value: 8.81e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002247752 297 PSKRSSSACFKCGQENHWAKDCPNqssdPYPDKGGRtftsasspdACFKCGKSGHWSRDCPTANCGSSTVS 367
Cdd:PTZ00368   22 AGAAKARPCYKCGEPGHLSRECPS----APGGRGER---------SCYNCGKTGHLSRECPEAPPGSGPRS 79
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 299-357 5.49e-05

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 43.69  E-value: 5.49e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1002247752 299 KRSSSACFKCGQENHWAKDCPnQSSDPYPDKGGRTFTSASSPDACFKCGKSGHWSRDCP 357
Cdd:COG5082    57 REENPVCFNCGQNGHLRRDCP-HSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCN 114
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 341-357 4.64e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 34.04  E-value: 4.64e-03
                          10
                  ....*....|....*..
gi 1002247752 341 DACFKCGKSGHWSRDCP 357
Cdd:pfam00098   1 GKCYNCGEPGHIARDCP 17
ZnF_C2HC smart00343
zinc finger;
343-357 6.18e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 33.96  E-value: 6.18e-03
                           10
                   ....*....|....*
gi 1002247752  343 CFKCGKSGHWSRDCP 357
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
 
Name Accession Description Interval E-value
zf-GRF pfam06839
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 163-205 4.59e-11

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


Pssm-ID: 462017  Cd Length: 45  Bit Score: 57.41  E-value: 4.59e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1002247752 163 CPCGaGSCLVLTSN-TPRNPGRKFYRCPMRDNGGCNYFEWCDNP 205
Cdd:pfam06839   3 CPCG-QRAVLLTVRkTGPNPGRQFYKCPVGREKQCGFFQWADEV 45
zf-GRF pfam06839
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ...
 228-271 1.39e-10

GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.


Pssm-ID: 462017  Cd Length: 45  Bit Score: 55.87  E-value: 1.39e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1002247752 228 LCPCGaGACLILTT-KTGKNVGRQFYRCPANQGGsSCGYFKWCDE 271
Cdd:pfam06839   2 LCPCG-QRAVLLTVrKTGPNPGRQFYKCPVGREK-QCGFFQWADE 44
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 297-367 8.81e-09

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 54.04  E-value: 8.81e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002247752 297 PSKRSSSACFKCGQENHWAKDCPNqssdPYPDKGGRtftsasspdACFKCGKSGHWSRDCPTANCGSSTVS 367
Cdd:PTZ00368   22 AGAAKARPCYKCGEPGHLSRECPS----APGGRGER---------SCYNCGKTGHLSRECPEAPPGSGPRS 79
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 304-359 5.12e-08

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 51.73  E-value: 5.12e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1002247752 304 ACFKCGQENHWAKDCPNQSSDPYPDKggrtftsasspdACFKCGKSGHWSRDCPTA 359
Cdd:PTZ00368  105 ACYNCGGEGHISRDCPNAGKRPGGDK------------TCYNCGQTGHLSRDCPDK 148
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 305-367 1.89e-06

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 47.11  E-value: 1.89e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1002247752 305 CFKCGQENHWAKDCPNqsSDPYPDKGGRTftsasspdaCFKCGKSGHWSRDCPTANCGSSTVS 367
Cdd:PTZ00368    3 CYRCGGVGHQSRECPN--SAPAGAAKARP---------CYKCGEPGHLSRECPSAPGGRGERS 54
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 295-359 5.06e-06

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 45.95  E-value: 5.06e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1002247752 295 QIPSKRSSSACFKCGQENHWAKDCPNqssdpyPDKGGRTFTsasspdACFKCGKSGHWSRDCPTA 359
Cdd:PTZ00368   70 EAPPGSGPRSCYNCGQTGHISRECPN------RAKGGAARR------ACYNCGGEGHISRDCPNA 122
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 297-357 2.21e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 44.03  E-value: 2.21e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002247752 297 PSKRSSSACFKCGQENHWAKDCPNQssdpyPDKGGrtftsassPDACFKCGKSGHWSRDCP 357
Cdd:PTZ00368   47 PGGRGERSCYNCGKTGHLSRECPEA-----PPGSG--------PRSCYNCGQTGHISRECP 94
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 299-357 5.49e-05

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 43.69  E-value: 5.49e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1002247752 299 KRSSSACFKCGQENHWAKDCPnQSSDPYPDKGGRTFTSASSPDACFKCGKSGHWSRDCP 357
Cdd:COG5082    57 REENPVCFNCGQNGHLRRDCP-HSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCN 114
COG5222 COG5222
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
285-358 7.76e-04

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


Pssm-ID: 227547 [Multi-domain]  Cd Length: 427  Bit Score: 41.27  E-value: 7.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002247752 285 QYHTDVASSGQIPSKRSSSACFKCGQENHWAKDCPNQSSDPYPDKGGRTFTSASSPDA-------CFKCGKSGHWSRDCP 357
Cdd:COG5222   114 APITSGELNSQSSSEDAAIQQMFQVSSDQWRETQDKMSSATPIYKPNQHRIGAQKHNKppppgyvCYRCGQKGHWIQNCP 193


                  .
gi 1002247752 358 T 358
Cdd:COG5222   194 T 194
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 341-357 4.64e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 34.04  E-value: 4.64e-03
                          10
                  ....*....|....*..
gi 1002247752 341 DACFKCGKSGHWSRDCP 357
Cdd:pfam00098   1 GKCYNCGEPGHIARDCP 17
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 304-320 5.64e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 34.04  E-value: 5.64e-03
                          10
                  ....*....|....*..
gi 1002247752 304 ACFKCGQENHWAKDCPN 320
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
343-357 6.18e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 33.96  E-value: 6.18e-03
                           10
                   ....*....|....*
gi 1002247752  343 CFKCGKSGHWSRDCP 357
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
ZnF_C2HC smart00343
zinc finger;
305-320 7.59e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 33.57  E-value: 7.59e-03
                           10
                   ....*....|....*.
gi 1002247752  305 CFKCGQENHWAKDCPN 320
Cdd:smart00343   2 CYNCGKEGHIARDCPS 17
 
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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