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Conserved domains on  [gi|24668816|ref|NP_649430|]
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brother of Yb [Drosophila melanogaster]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tudor_SF super family cl02573
Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally ...
 531-663 6.30e-12

Tudor domain superfamily; The Tudor domain is a conserved structural domain, originally identified in the Tudor protein of Drosophila, that adopts a beta-barrel-like core structure containing four short beta-strands followed by an alpha-helical region. It binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions. Tudor domain-containing proteins may mediate protein-protein interactions required for various DNA-templated biological processes, such as RNA metabolism, as well as histone modification and the DNA damage response. Members of this superfamily contain one or more copies of the Tudor domain.


The actual alignment was detected with superfamily member cd20435:

Pssm-ID: 470623  Cd Length: 134  Bit Score: 63.81  E-value: 6.30e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  531 SPTHFCVRLLEHLPPKGTWRMMEYSAVQEFRMQLTQ-IKEP---RRYWPPVAGAIC-------MYHttftkeRVRVLKva 599
Cdd:cd20435    1 DATHYSARILEHRSSDGEVTKSMSSTYLKLSMKLNMyYSDPsnrILHGKVKVGDLCavedennLYH------RVKVLE-- 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24668816  600 aIKNTNIVQSDLTVKLQALDVDTRIFSTNCgKLFECPEALQQEAPLACDLRLPGWVPYFGERSW 663
Cdd:cd20435   73 -ITEKDDKTKPREVLVKFIDEGRVETVVVS-QLLELPEELKSLPPQAVEVFLCNVKPVDNDTEW 134
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 104-235 1.14e-04

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd17961:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 206  Bit Score: 44.50  E-value: 1.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  104 SGRTFAYIPPVCHAVsralmdftgqcedVEHDISQPDRYGPIALILVPDLRRVHQVSAMCLALLrkAHKNDSVTLaLNVS 183
Cdd:cd17961   42 SGKTAAYALPIIQKI-------------LKAKAESGEEQGTRALILVPTRELAQQVSKVLEQLT--AYCRKDVRV-VNLS 105

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 24668816  184 STKSSQFFLKLLNGV-GCLVATPAQLVWFWQEAPGLMRfPCLQFLVYDDVDLM 235
Cdd:cd17961  106 ASSSDSVQRALLAEKpDIVVSTPARLLSHLESGSLLLL-STLKYLVIDEADLV 157
PLN00203 super family cl33425
glutamyl-tRNA reductase
 659-749 1.78e-04

glutamyl-tRNA reductase


The actual alignment was detected with superfamily member PLN00203:

Pssm-ID: 215101 [Multi-domain]  Cd Length: 519  Bit Score: 45.51  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   659 GERSWTEENIRN---------VNLILTQLPKDHFLQAKILFVAAGTLfvQDLVaimyadqfkahVRHLsLARRLVEATLV 729
Cdd:PLN00203  231 GKRVRTETNIASgavsvssaaVELALMKLPESSHASARVLVIGAGKM--GKLL-----------VKHL-VSKGCTKMVVV 296

                          90       100
                  ....*....|....*....|
gi 24668816   730 KRSENAAEMIREFFAEVIIE 749
Cdd:PLN00203  297 NRSEERVAALREEFPDVEII 316
 
Name Accession Description Interval E-value
Tudor_TDRD12_rpt2 cd20435
second Tudor domain found in Tudor domain-containing protein 12 (TDRD12) and similar proteins; ...
 531-663 6.30e-12

second Tudor domain found in Tudor domain-containing protein 12 (TDRD12) and similar proteins; TDRD12, also called ES cell-associated transcript 8 protein (ECAT8), is a putative ATP-dependent DEAD-like RNA helicase that is essential for germ cell development and maintenance. It acts as a unique piRNA biogenesis factor essential for secondary PIWI interacting RNA (piRNA) biogenesis. TDRD12 contains two Tudor domains, one at the N-terminus and the other at the C-terminal end. The model corresponds to the second/C-terminal one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410506  Cd Length: 134  Bit Score: 63.81  E-value: 6.30e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  531 SPTHFCVRLLEHLPPKGTWRMMEYSAVQEFRMQLTQ-IKEP---RRYWPPVAGAIC-------MYHttftkeRVRVLKva 599
Cdd:cd20435    1 DATHYSARILEHRSSDGEVTKSMSSTYLKLSMKLNMyYSDPsnrILHGKVKVGDLCavedennLYH------RVKVLE-- 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24668816  600 aIKNTNIVQSDLTVKLQALDVDTRIFSTNCgKLFECPEALQQEAPLACDLRLPGWVPYFGERSW 663
Cdd:cd20435   73 -ITEKDDKTKPREVLVKFIDEGRVETVVVS-QLLELPEELKSLPPQAVEVFLCNVKPVDNDTEW 134
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 104-235 1.14e-04

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 44.50  E-value: 1.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  104 SGRTFAYIPPVCHAVsralmdftgqcedVEHDISQPDRYGPIALILVPDLRRVHQVSAMCLALLrkAHKNDSVTLaLNVS 183
Cdd:cd17961   42 SGKTAAYALPIIQKI-------------LKAKAESGEEQGTRALILVPTRELAQQVSKVLEQLT--AYCRKDVRV-VNLS 105

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 24668816  184 STKSSQFFLKLLNGV-GCLVATPAQLVWFWQEAPGLMRfPCLQFLVYDDVDLM 235
Cdd:cd17961  106 ASSSDSVQRALLAEKpDIVVSTPARLLSHLESGSLLLL-STLKYLVIDEADLV 157
PTZ00110 PTZ00110
helicase; Provisional
 51-235 1.70e-04

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 45.53  E-value: 1.70e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816    51 RPVRRFAEVSLlPD-ILETMRNLGLNRLLRLQSYTWPhlAGGSGHGAMIVGSPASGRTFAYI-PPVCHAVSRALMdftgq 128
Cdd:PTZ00110  127 KPVVSFEYTSF-PDyILKSLKNAGFTEPTPIQVQGWP--IALSGRDMIGIAETGSGKTLAFLlPAIVHINAQPLL----- 198

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   129 cedvehdisqpdRYG--PIALILVPDLRRVHQVSAMCLALLRKAHKNDSVTLAlnvSSTKSSQFFlKLLNGVGCLVATPA 206
Cdd:PTZ00110  199 ------------RYGdgPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYG---GVPKRGQIY-ALRRGVEILIACPG 262

                         170       180       190
                  ....*....|....*....|....*....|
gi 24668816   207 QLVWFWQE-APGLMRfpcLQFLVYDDVDLM 235
Cdd:PTZ00110  263 RLIDFLESnVTNLRR---VTYLVLDEADRM 289
PLN00203 PLN00203
glutamyl-tRNA reductase
 659-749 1.78e-04

glutamyl-tRNA reductase


Pssm-ID: 215101 [Multi-domain]  Cd Length: 519  Bit Score: 45.51  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   659 GERSWTEENIRN---------VNLILTQLPKDHFLQAKILFVAAGTLfvQDLVaimyadqfkahVRHLsLARRLVEATLV 729
Cdd:PLN00203  231 GKRVRTETNIASgavsvssaaVELALMKLPESSHASARVLVIGAGKM--GKLL-----------VKHL-VSKGCTKMVVV 296

                          90       100
                  ....*....|....*....|
gi 24668816   730 KRSENAAEMIREFFAEVIIE 749
Cdd:PLN00203  297 NRSEERVAALREEFPDVEII 316
 
Name Accession Description Interval E-value
Tudor_TDRD12_rpt2 cd20435
second Tudor domain found in Tudor domain-containing protein 12 (TDRD12) and similar proteins; ...
 531-663 6.30e-12

second Tudor domain found in Tudor domain-containing protein 12 (TDRD12) and similar proteins; TDRD12, also called ES cell-associated transcript 8 protein (ECAT8), is a putative ATP-dependent DEAD-like RNA helicase that is essential for germ cell development and maintenance. It acts as a unique piRNA biogenesis factor essential for secondary PIWI interacting RNA (piRNA) biogenesis. TDRD12 contains two Tudor domains, one at the N-terminus and the other at the C-terminal end. The model corresponds to the second/C-terminal one. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.


Pssm-ID: 410506  Cd Length: 134  Bit Score: 63.81  E-value: 6.30e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  531 SPTHFCVRLLEHLPPKGTWRMMEYSAVQEFRMQLTQ-IKEP---RRYWPPVAGAIC-------MYHttftkeRVRVLKva 599
Cdd:cd20435    1 DATHYSARILEHRSSDGEVTKSMSSTYLKLSMKLNMyYSDPsnrILHGKVKVGDLCavedennLYH------RVKVLE-- 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24668816  600 aIKNTNIVQSDLTVKLQALDVDTRIFSTNCgKLFECPEALQQEAPLACDLRLPGWVPYFGERSW 663
Cdd:cd20435   73 -ITEKDDKTKPREVLVKFIDEGRVETVVVS-QLLELPEELKSLPPQAVEVFLCNVKPVDNDTEW 134
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 104-235 1.14e-04

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 44.50  E-value: 1.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  104 SGRTFAYIPPVCHAVsralmdftgqcedVEHDISQPDRYGPIALILVPDLRRVHQVSAMCLALLrkAHKNDSVTLaLNVS 183
Cdd:cd17961   42 SGKTAAYALPIIQKI-------------LKAKAESGEEQGTRALILVPTRELAQQVSKVLEQLT--AYCRKDVRV-VNLS 105

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 24668816  184 STKSSQFFLKLLNGV-GCLVATPAQLVWFWQEAPGLMRfPCLQFLVYDDVDLM 235
Cdd:cd17961  106 ASSSDSVQRALLAEKpDIVVSTPARLLSHLESGSLLLL-STLKYLVIDEADLV 157
PTZ00110 PTZ00110
helicase; Provisional
 51-235 1.70e-04

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 45.53  E-value: 1.70e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816    51 RPVRRFAEVSLlPD-ILETMRNLGLNRLLRLQSYTWPhlAGGSGHGAMIVGSPASGRTFAYI-PPVCHAVSRALMdftgq 128
Cdd:PTZ00110  127 KPVVSFEYTSF-PDyILKSLKNAGFTEPTPIQVQGWP--IALSGRDMIGIAETGSGKTLAFLlPAIVHINAQPLL----- 198

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   129 cedvehdisqpdRYG--PIALILVPDLRRVHQVSAMCLALLRKAHKNDSVTLAlnvSSTKSSQFFlKLLNGVGCLVATPA 206
Cdd:PTZ00110  199 ------------RYGdgPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYG---GVPKRGQIY-ALRRGVEILIACPG 262

                         170       180       190
                  ....*....|....*....|....*....|
gi 24668816   207 QLVWFWQE-APGLMRfpcLQFLVYDDVDLM 235
Cdd:PTZ00110  263 RLIDFLESnVTNLRR---VTYLVLDEADRM 289
PLN00203 PLN00203
glutamyl-tRNA reductase
 659-749 1.78e-04

glutamyl-tRNA reductase


Pssm-ID: 215101 [Multi-domain]  Cd Length: 519  Bit Score: 45.51  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   659 GERSWTEENIRN---------VNLILTQLPKDHFLQAKILFVAAGTLfvQDLVaimyadqfkahVRHLsLARRLVEATLV 729
Cdd:PLN00203  231 GKRVRTETNIASgavsvssaaVELALMKLPESSHASARVLVIGAGKM--GKLL-----------VKHL-VSKGCTKMVVV 296

                          90       100
                  ....*....|....*....|
gi 24668816   730 KRSENAAEMIREFFAEVIIE 749
Cdd:PLN00203  297 NRSEERVAALREEFPDVEII 316
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 81-235 3.90e-04

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 42.81  E-value: 3.90e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816   81 QSYTWPH-LAGGSghgaMIVGSPA-SGRTFAYIPPVCHAVSRALMDFTGqcedvehdisqpdryGPIALILVPdlRR--- 155
Cdd:cd00268   17 QAQAIPLiLSGRD----VIGQAQTgSGKTLAFLLPILEKLLPEPKKKGR---------------GPQALVLAP--TRela 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24668816  156 --VHQVsamclalLRKAHKNDSVTLALNVSSTKSSQFFLKLLNGVGCLVATPAQLVWFWQEapGLMRFPCLQFLVYDDVD 233
Cdd:cd00268   76 mqIAEV-------ARKLGKGTGLKVAAIYGGAPIKKQIEALKKGPDIVVGTPGRLLDLIER--GKLDLSNVKYLVLDEAD 146


                 ..
gi 24668816  234 LM 235
Cdd:cd00268  147 RM 148
 
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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