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Conserved domains on  [gi|71043606|ref|NP_001020859|]
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palmdelphin [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
MYO6_MIU_linker super family cl46503
MIU-linker domain found in unconventional myosin-VI; Myosins are actin-based motor molecules ...
17-452 3.23e-27

MIU-linker domain found in unconventional myosin-VI; Myosins are actin-based motor molecules with ATPase activity. Unconventional myosins function in intracellular movements. Myosin-VI, also called unconventional myosin-6 (MYO6), is a reverse-direction motor protein that moves towards the minus-end of actin filaments. It is required for the structural integrity of the Golgi apparatus via the p53-dependent pro-survival pathway. It appears to be involved in a very early step of clathrin-mediated endocytosis in polarized epithelial cells. It modulates RNA polymerase II-dependent transcription. As part of the DISP complex, Myosin-VI may regulate the association of septins with actin and thereby regulate the actin cytoskeleton. Myosin-VI is encoded by the MYO6 gene, the human homologue of the gene responsible for deafness in Snell's waltzer mice. It is mutated in autosomal dominant nonsyndromic hearing loss. This model corresponds to a conserved region of myosin-VI, which consist of three helices: MIU (Motif Interacting with Ubiquitin), a common linker helix (linker-alpha1) and an isoform-specific helix (linker-alpha2).


The actual alignment was detected with superfamily member pfam03285:

Pssm-ID: 480843  Cd Length: 301  Bit Score: 111.76  E-value: 3.23e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    17 KRKIQEEISQKRLKIEEEKLKHQHLKKKALREKWLLDGIGSGK--EHDEMKKQNQQDQHQTQVLEQSILRLEKEIQDLEK 94
Cdd:pfam03285   3 KRKRQTEIENKRRQLEDDRRQLQHLKSKALRERWLLEGPPSSAseEDEARRRQEEEDEQKKKLLEEIIRRLEEEIELLEE 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    95 AELQISANEEVILKKLksierttediirsvkvekeeipeesiediyanipdlpssyipsrlrkerneesddeqnrkalya 174
Cdd:pfam03285  83 ESSISAKKENLAEKLL---------------------------------------------------------------- 98
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   175 mEIKVEKDLKTGESVVLSSIPLPSDDFKSTGIKVYEDRQKSVYAVSSNQNTAYNGTDGLAPVEVEDLLRQASERNSKSPT 254
Cdd:pfam03285  99 -EITVEKDKVTGETRVLSSTTLLPDDVQPQGVKVYDDETKVVHEVSGGDGTEENGVHPLSSSEVEELIHKADEVTLGEGG 177
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   255 eyhepvyanpfcrPMTPQRERVISPGPNSQErmvmmkangldhhesesvhgmtdglserrsnglahtsPTRPTPQPRSKv 334
Cdd:pfam03285 178 -------------STAAPEVRGTADGGDVSP-------------------------------------KEEMTPKRAKL- 206
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   335 qqveEMVHTQQKRmpspweessirqneyEVSPRTELSPSRASPGKSGPQCSspicqeeadvrynivhslppdvdDTEPVT 414
Cdd:pfam03285 207 ----EMVHKPRKD---------------HEITGVEAQPGETTSEPPGAAAS-----------------------AEPPVT 244
                         410       420       430
                  ....*....|....*....|....*....|....*...
gi 71043606   415 MIFMGYQQADEnEEEKKLLTGYDGVIHAELVVIDDEAE 452
Cdd:pfam03285 245 MIFMGYQNVED-EEETKKVLGLETTIKAELVVIEDDEE 281
 
Name Accession Description Interval E-value
Paralemmin pfam03285
Paralemmin;
17-452 3.23e-27

Paralemmin;


Pssm-ID: 460875  Cd Length: 301  Bit Score: 111.76  E-value: 3.23e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    17 KRKIQEEISQKRLKIEEEKLKHQHLKKKALREKWLLDGIGSGK--EHDEMKKQNQQDQHQTQVLEQSILRLEKEIQDLEK 94
Cdd:pfam03285   3 KRKRQTEIENKRRQLEDDRRQLQHLKSKALRERWLLEGPPSSAseEDEARRRQEEEDEQKKKLLEEIIRRLEEEIELLEE 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    95 AELQISANEEVILKKLksierttediirsvkvekeeipeesiediyanipdlpssyipsrlrkerneesddeqnrkalya 174
Cdd:pfam03285  83 ESSISAKKENLAEKLL---------------------------------------------------------------- 98
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   175 mEIKVEKDLKTGESVVLSSIPLPSDDFKSTGIKVYEDRQKSVYAVSSNQNTAYNGTDGLAPVEVEDLLRQASERNSKSPT 254
Cdd:pfam03285  99 -EITVEKDKVTGETRVLSSTTLLPDDVQPQGVKVYDDETKVVHEVSGGDGTEENGVHPLSSSEVEELIHKADEVTLGEGG 177
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   255 eyhepvyanpfcrPMTPQRERVISPGPNSQErmvmmkangldhhesesvhgmtdglserrsnglahtsPTRPTPQPRSKv 334
Cdd:pfam03285 178 -------------STAAPEVRGTADGGDVSP-------------------------------------KEEMTPKRAKL- 206
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   335 qqveEMVHTQQKRmpspweessirqneyEVSPRTELSPSRASPGKSGPQCSspicqeeadvrynivhslppdvdDTEPVT 414
Cdd:pfam03285 207 ----EMVHKPRKD---------------HEITGVEAQPGETTSEPPGAAAS-----------------------AEPPVT 244
                         410       420       430
                  ....*....|....*....|....*....|....*...
gi 71043606   415 MIFMGYQQADEnEEEKKLLTGYDGVIHAELVVIDDEAE 452
Cdd:pfam03285 245 MIFMGYQNVED-EEETKKVLGLETTIKAELVVIEDDEE 281
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
2-160 1.84e-03

Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General function prediction only];


Pssm-ID: 441187 [Multi-domain]  Cd Length: 236  Bit Score: 40.29  E-value: 1.84e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   2 EEAELVKGRLQAI-TDKRKIQEEISQKRLKIEEEKlkhqhlkkkALREKW--LLDGIGSGKEHDEMKKQNQQDQHQTQVL 78
Cdd:COG1579  38 DELAALEARLEAAkTELEDLEKEIKRLELEIEEVE---------ARIKKYeeQLGNVRNNKEYEALQKEIESLKRRISDL 108
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606  79 EQSILRLEKEIQDLEKAELQISANEEVILKKLKSIERTTEDIIRSVKVEKEEIpEESIEDIYANIP-DLPSSYipSRLRK 157
Cdd:COG1579 109 EDEILELMERIEELEEELAELEAELAELEAELEEKKAELDEELAELEAELEEL-EAEREELAAKIPpELLALY--ERIRK 185

                ...
gi 71043606 158 ERN 160
Cdd:COG1579 186 RKN 188
 
Name Accession Description Interval E-value
Paralemmin pfam03285
Paralemmin;
17-452 3.23e-27

Paralemmin;


Pssm-ID: 460875  Cd Length: 301  Bit Score: 111.76  E-value: 3.23e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    17 KRKIQEEISQKRLKIEEEKLKHQHLKKKALREKWLLDGIGSGK--EHDEMKKQNQQDQHQTQVLEQSILRLEKEIQDLEK 94
Cdd:pfam03285   3 KRKRQTEIENKRRQLEDDRRQLQHLKSKALRERWLLEGPPSSAseEDEARRRQEEEDEQKKKLLEEIIRRLEEEIELLEE 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606    95 AELQISANEEVILKKLksierttediirsvkvekeeipeesiediyanipdlpssyipsrlrkerneesddeqnrkalya 174
Cdd:pfam03285  83 ESSISAKKENLAEKLL---------------------------------------------------------------- 98
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   175 mEIKVEKDLKTGESVVLSSIPLPSDDFKSTGIKVYEDRQKSVYAVSSNQNTAYNGTDGLAPVEVEDLLRQASERNSKSPT 254
Cdd:pfam03285  99 -EITVEKDKVTGETRVLSSTTLLPDDVQPQGVKVYDDETKVVHEVSGGDGTEENGVHPLSSSEVEELIHKADEVTLGEGG 177
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   255 eyhepvyanpfcrPMTPQRERVISPGPNSQErmvmmkangldhhesesvhgmtdglserrsnglahtsPTRPTPQPRSKv 334
Cdd:pfam03285 178 -------------STAAPEVRGTADGGDVSP-------------------------------------KEEMTPKRAKL- 206
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   335 qqveEMVHTQQKRmpspweessirqneyEVSPRTELSPSRASPGKSGPQCSspicqeeadvrynivhslppdvdDTEPVT 414
Cdd:pfam03285 207 ----EMVHKPRKD---------------HEITGVEAQPGETTSEPPGAAAS-----------------------AEPPVT 244
                         410       420       430
                  ....*....|....*....|....*....|....*...
gi 71043606   415 MIFMGYQQADEnEEEKKLLTGYDGVIHAELVVIDDEAE 452
Cdd:pfam03285 245 MIFMGYQNVED-EEETKKVLGLETTIKAELVVIEDDEE 281
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
2-160 1.84e-03

Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General function prediction only];


Pssm-ID: 441187 [Multi-domain]  Cd Length: 236  Bit Score: 40.29  E-value: 1.84e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606   2 EEAELVKGRLQAI-TDKRKIQEEISQKRLKIEEEKlkhqhlkkkALREKW--LLDGIGSGKEHDEMKKQNQQDQHQTQVL 78
Cdd:COG1579  38 DELAALEARLEAAkTELEDLEKEIKRLELEIEEVE---------ARIKKYeeQLGNVRNNKEYEALQKEIESLKRRISDL 108
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71043606  79 EQSILRLEKEIQDLEKAELQISANEEVILKKLKSIERTTEDIIRSVKVEKEEIpEESIEDIYANIP-DLPSSYipSRLRK 157
Cdd:COG1579 109 EDEILELMERIEELEEELAELEAELAELEAELEEKKAELDEELAELEAELEEL-EAEREELAAKIPpELLALY--ERIRK 185

                ...
gi 71043606 158 ERN 160
Cdd:COG1579 186 RKN 188
 
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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