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Conserved domains on  [gi|81175177|sp|Q15397|]
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RecName: Full=Pumilio homolog 3; AltName: Full=HBV X-transactivated gene 5 protein; AltName: Full=HBV XAg-transactivated protein 5; AltName: Full=Minor histocompatibility antigen HA-8; Short=HLA-HA8

Protein Classification

Pumilio-family RNA binding repeat-containing protein( domain architecture ID 20272285)

Pumilio-family RNA binding repeat-containing protein harbors PUF repeats, which mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio; it may function as a translational repressor in early embryonic development by binding to sequences in the 3' UTR of target mRNAs

CATH:  1.25.10.10
Gene Ontology:  GO:0003723
PubMed:  14584586|29385744|17003467|9404893
SCOP:  4003086

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CPL pfam08144
CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with ...
 434-571 1.22e-67

CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with Pumilio like repeats.


:

Pssm-ID: 462370  Cd Length: 140  Bit Score: 217.11  E-value: 1.22e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   434 NDKYGRKVLLYLLSPRDPAHTVREIIEVLQKGDGNA--HSKKDTEVRRRELLESISPALLSYLQEHAQEVVLDKSACVLV 511
Cdd:pfam08144   1 NDKYGRRVLLYLLSGRDPRYFSPEVIKLLKEGDENAetTSKKDPEVRRKELLEAISPALLSYIAENAEELLSDNLGSQFV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   512 SDILGSATGDVQPTMNAIASLAATGLHPGGKDGELHIAEHPAGHLVLKWLIEQDKKMKEN 571
Cdd:pfam08144  81 AEVLLSATGDKQEAIEAIAKLAAGDPVPGGIDEELHLIEHPFGHRVLKALIQGDKKKWNN 140
Pumilio super family cl46378
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 162-403 2.87e-11

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


The actual alignment was detected with superfamily member cd07920:

Pssm-ID: 480718 [Multi-domain]  Cd Length: 322  Bit Score: 65.31  E-value: 2.87e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 162 LQKLIQGKIKTIAFAHDSTRVIQCYIQYGNEEQRKQAFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGH 241
Cdd:cd07920   4 LQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGH 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 242 vrkmlrhaeasaIVEYAYN-----------DKAILEQRNMLTEELYGNTFQLYKSAD-HRTLDKVLE-VQPEKLELIMDE 308
Cdd:cd07920  84 ------------VVRLSLDmygcrviqkllESISEEQISLLVKELRGHVVELVKDQNgNHVIQKCIEkFPPEDLQFIIDA 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 309 MKQILTPMAqkeavikhslVHK----VFLDFFTYAPPKLRSEMIEAIREAVVYLAHTHDGARVAMHCLWHGTPKDRKVIV 384
Cdd:cd07920 152 FKGNCVALS----------THPygcrVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRII 221

                       250       260
                ....*....|....*....|
gi 81175177 385 KTMKTYVEKVANGQY-SHLV 403
Cdd:cd07920 222 EKLLGNIVQLSCHKFaSNVV 241
 
Name Accession Description Interval E-value
CPL pfam08144
CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with ...
 434-571 1.22e-67

CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with Pumilio like repeats.


Pssm-ID: 462370  Cd Length: 140  Bit Score: 217.11  E-value: 1.22e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   434 NDKYGRKVLLYLLSPRDPAHTVREIIEVLQKGDGNA--HSKKDTEVRRRELLESISPALLSYLQEHAQEVVLDKSACVLV 511
Cdd:pfam08144   1 NDKYGRRVLLYLLSGRDPRYFSPEVIKLLKEGDENAetTSKKDPEVRRKELLEAISPALLSYIAENAEELLSDNLGSQFV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   512 SDILGSATGDVQPTMNAIASLAATGLHPGGKDGELHIAEHPAGHLVLKWLIEQDKKMKEN 571
Cdd:pfam08144  81 AEVLLSATGDKQEAIEAIAKLAAGDPVPGGIDEELHLIEHPFGHRVLKALIQGDKKKWNN 140
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 162-403 2.87e-11

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 65.31  E-value: 2.87e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 162 LQKLIQGKIKTIAFAHDSTRVIQCYIQYGNEEQRKQAFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGH 241
Cdd:cd07920   4 LQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGH 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 242 vrkmlrhaeasaIVEYAYN-----------DKAILEQRNMLTEELYGNTFQLYKSAD-HRTLDKVLE-VQPEKLELIMDE 308
Cdd:cd07920  84 ------------VVRLSLDmygcrviqkllESISEEQISLLVKELRGHVVELVKDQNgNHVIQKCIEkFPPEDLQFIIDA 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 309 MKQILTPMAqkeavikhslVHK----VFLDFFTYAPPKLRSEMIEAIREAVVYLAHTHDGARVAMHCLWHGTPKDRKVIV 384
Cdd:cd07920 152 FKGNCVALS----------THPygcrVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRII 221

                       250       260
                ....*....|....*....|
gi 81175177 385 KTMKTYVEKVANGQY-SHLV 403
Cdd:cd07920 222 EKLLGNIVQLSCHKFaSNVV 241
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 184-404 2.26e-08

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 57.45  E-value: 2.26e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 184 QCYIQYGNEEQRKQ-----------AFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGHVRKMLRHAeas 252
Cdd:COG5099 446 SCKDQHGSRFLQKLldsnsspeievIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHK--- 522

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 253 aiveyayndkaileqrnmlteelYGnTFQLYKSADHrtldkVLEvqPEKLELIMDEMKQILTPMAQKEAviKHSLVHKVF 332
Cdd:COG5099 523 -----------------------YG-TRVLQKAIDI-----VST--DIQISLLVEELRPYCLQLIKDQN--GNHVIQKCI 569

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 81175177 333 LDFftyaPPKLRSEMIEAIREAVVYLAHTHDGARVAMHCLWHGTPKDRKVIVKTMKTYVEKVANGQYSHLVL 404
Cdd:COG5099 570 EKF----NKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVV 637
 
Name Accession Description Interval E-value
CPL pfam08144
CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with ...
 434-571 1.22e-67

CPL (NUC119) domain; This C-terminal domain is found in Penguin-like proteins associated with Pumilio like repeats.


Pssm-ID: 462370  Cd Length: 140  Bit Score: 217.11  E-value: 1.22e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   434 NDKYGRKVLLYLLSPRDPAHTVREIIEVLQKGDGNA--HSKKDTEVRRRELLESISPALLSYLQEHAQEVVLDKSACVLV 511
Cdd:pfam08144   1 NDKYGRRVLLYLLSGRDPRYFSPEVIKLLKEGDENAetTSKKDPEVRRKELLEAISPALLSYIAENAEELLSDNLGSQFV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177   512 SDILGSATGDVQPTMNAIASLAATGLHPGGKDGELHIAEHPAGHLVLKWLIEQDKKMKEN 571
Cdd:pfam08144  81 AEVLLSATGDKQEAIEAIAKLAAGDPVPGGIDEELHLIEHPFGHRVLKALIQGDKKKWNN 140
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 162-403 2.87e-11

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 65.31  E-value: 2.87e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 162 LQKLIQGKIKTIAFAHDSTRVIQCYIQYGNEEQRKQAFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGH 241
Cdd:cd07920   4 LQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGH 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 242 vrkmlrhaeasaIVEYAYN-----------DKAILEQRNMLTEELYGNTFQLYKSAD-HRTLDKVLE-VQPEKLELIMDE 308
Cdd:cd07920  84 ------------VVRLSLDmygcrviqkllESISEEQISLLVKELRGHVVELVKDQNgNHVIQKCIEkFPPEDLQFIIDA 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 309 MKQILTPMAqkeavikhslVHK----VFLDFFTYAPPKLRSEMIEAIREAVVYLAHTHDGARVAMHCLWHGTPKDRKVIV 384
Cdd:cd07920 152 FKGNCVALS----------THPygcrVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRII 221

                       250       260
                ....*....|....*....|
gi 81175177 385 KTMKTYVEKVANGQY-SHLV 403
Cdd:cd07920 222 EKLLGNIVQLSCHKFaSNVV 241
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 182-387 3.54e-11

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 64.92  E-value: 3.54e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 182 VIQCYIQYGNEEQRKQAFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGHVRKMLRHAEASAIVEyaynd 261
Cdd:cd07920  60 VIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQ----- 134

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 262 KAI----LEQRNMLTEELYGNTFQLyksADH----RTLDKVLE-VQPEKLELIMDEMKQILTPMAQKE---AVIKHSLVH 329
Cdd:cd07920 135 KCIekfpPEDLQFIIDAFKGNCVAL---STHpygcRVIQRCLEhCSEEQREPLLEEILEHALELVQDQfgnYVVQHVLEL 211

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 81175177 330 KvfldfftyaPPKLRSEMIEAIREAVVYLAhTHD-GARVAMHCLWHGTPKDRKVIVKTM 387
Cdd:cd07920 212 G---------DPDDTSRIIEKLLGNIVQLS-CHKfASNVVEKCLKHASKEERELIIDEI 260
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 184-404 2.26e-08

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 57.45  E-value: 2.26e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 184 QCYIQYGNEEQRKQ-----------AFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSFKGHVRKMLRHAeas 252
Cdd:COG5099 446 SCKDQHGSRFLQKLldsnsspeievIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHK--- 522

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 253 aiveyayndkaileqrnmlteelYGnTFQLYKSADHrtldkVLEvqPEKLELIMDEMKQILTPMAQKEAviKHSLVHKVF 332
Cdd:COG5099 523 -----------------------YG-TRVLQKAIDI-----VST--DIQISLLVEELRPYCLQLIKDQN--GNHVIQKCI 569

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 81175177 333 LDFftyaPPKLRSEMIEAIREAVVYLAHTHDGARVAMHCLWHGTPKDRKVIVKTMKTYVEKVANGQYSHLVL 404
Cdd:COG5099 570 EKF----NKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVV 637
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 182-273 9.01e-07

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 51.44  E-value: 9.01e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81175177 182 VIQCYIQYGNEEQRKQAFEELRDDLVELSKAKYSRNIVKKFLMYGSKPQIAEIIRSF------KGHVRKMLRHAEASAIV 255
Cdd:cd07920 204 VVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEERELIIDEIlasgneTSALDTLMKDQYGNYVI 283

                        90
                ....*....|....*...
gi 81175177 256 EYAYNDKAIlEQRNMLTE 273
Cdd:cd07920 284 QTALDVAKE-EQRELLVE 300
 
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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