first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV non-structural protein 3 (Nsp3) and related proteins; This ubiquitin-like (Ubl) domain (Ubl1) is found at the N-terminus of coronavirus Nsp3, a large multi-functional multi-domain protein which is an essential component of the replication/transcription complex (RTC). The functions of Ubl1 in CoVs are related to single-stranded RNA (ssRNA) binding and to interacting with the nucleocapsid (N) protein. SARS-CoV Ubl1 has been shown to bind ssRNA having AUA patterns, and since the 5'-UTR of the SARS-CoV genome has a number of AUA repeats, it may bind there. In mouse hepatitis virus (MHV), this Ubl1 domain binds the cognate N protein. Adjacent to Ubl1 is a Glu-rich acidic region (also referred to as hypervariable region, HVR); Ubl1 together with HVR has been called Nsp3a. Currently, the function of HVR in CoVs is unknown. This model corresponds to one of two Ubl domains in Nsp3; the other is located N-terminal to the papain-like protease (PLpro) and is not represented by this model.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709 135 SRHINVFTNGRLFIPPAKIIIPKFSLSDWDIVLATIGEKVFP-LGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETFKY 213
Cdd:cd17154     1 SRTINVFTNGEVLVPPAKIIIPKFTLRSWENVLAMITEKAFLrTGGVFRLCTLNGHPVSDSTELEDNHYYVAVGSEKFKA 80

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2C (DCDC2C); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of a ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709 135 SRHINVFTNGRLFIPPAKIIIPKFSLSDWDIVLATIGEKVFP-LGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETFKY 213
Cdd:cd17154     1 SRTINVFTNGEVLVPPAKIIIPKFTLRSWENVLAMITEKAFLrTGGVFRLCTLNGHPVSDSTELEDNHYYVAVGSEKFKA 80

Domain in the Doublecortin (DCX) gene product; Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709   15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQV--DVPFGVRRLFTpTRGHRVLGLDALQAGGKYVAAGRERF 92
Cdd:smart00537   5 PKRIRFYRNGDRFFKGVRLVVNRKRFKSFEALLQDLTEVVklDLPHGVRKLYT-LDGKKVTSLDELEDGGSYVASGTEAF 83

                   ....*
gi 2217330709   93 KELDY 97
Cdd:smart00537  84 KKVDY 88

Doublecortin;

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709 154 IIPKFSLSDWDIVLATIGEKV--FPLGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETF 211
Cdd:pfam03607   1 VVNKRRFRSFDALLDELTEKVvkLPFGAVRKLYTLDGKRVTSLDELEDGGVYVAAGREKF 60

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2C (DCDC2C); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of a ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709 135 SRHINVFTNGRLFIPPAKIIIPKFSLSDWDIVLATIGEKVFP-LGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETFKY 213
Cdd:cd17154     1 SRTINVFTNGEVLVPPAKIIIPKFTLRSWENVLAMITEKAFLrTGGVFRLCTLNGHPVSDSTELEDNHYYVAVGSEKFKA 80

Dublecortin-like domain 1 found in doublecortin domain-containing protein 2 (DCDC2) and similar proteins; DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Microtubules are key components of the cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709  16 KTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQVDVPFG-VRRLFTPTRGHRVLGLDALQAGGKYVAAGRERFKE 94
Cdd:cd17071     1 KIIVVYKNGDPFFPGKKFVVNERQVRTFDAFLNEVTSGIKAPFGaVRSIYTPTGGHRVKDLDSLQNGGVYVAAGSERFKK 80

Dublecortin-like domain 1 found in doublecortin domain-containing protein 2B (DCDC2B); DCDC2 is a member of doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of ubiquitin-like tertiary fold. Microtubules are key components of the cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2217330709  16 KTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQVDVPFGVRRLFTPTRGHRVLGLDALQAGGKYVAAGRERFKE 94
Cdd:cd17150     1 KNVVVYRNGDPFFTGRKFVVNQRQFLTFEAFLNEVTSNIQAPVAVRNLYTPREGHRVTELGDLQNGGHYVAAGFERFKK 79

Domain in the Doublecortin (DCX) gene product; Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709   15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQV--DVPFGVRRLFTpTRGHRVLGLDALQAGGKYVAAGRERF 92
Cdd:smart00537   5 PKRIRFYRNGDRFFKGVRLVVNRKRFKSFEALLQDLTEVVklDLPHGVRKLYT-LDGKKVTSLDELEDGGSYVASGTEAF 83

                   ....*
gi 2217330709   93 KELDY 97
Cdd:smart00537  84 KKVDY 88

Doublecortin;

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2217330709  34 VLSRRRAATFEALLEQLTEQVD-VPFG-VRRLFTPtRGHRVLGLDALQAGGKYVAAGRERF 92
Cdd:pfam03607   1 VVNKRRFRSFDALLDELTEKVVkLPFGaVRKLYTL-DGKRVTSLDELEDGGVYVAAGREKF 60

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2B (DCDC2B); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of a ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2217330709 138 INVFTNGRLFIPPAKIIIPKFSLSDWDIVLATIGEKV-FPLGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETFK 212
Cdd:cd17153     4 IHVFRNGDLLSPPFRLLIPKHMLQDWETILSLLTEKAnLRTGAVRKLCTLDGVPLSSGKELVSGQYYVAVGSEKFK 79

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2 (DCDC2); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with a stable ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2217330709 138 INVFTNGRLFIPPAKIIIPKFSLSDWDIVLATIGEKV-FPLGGVRKLFTMNGHLLGDSKDLQDNHFYVAVGLETFK 212
Cdd:cd17152     4 IFVVANGDLLNPAVRLLIPRKTLNQWEKILEMITEKVtLRTGAVRRLYTLDGKLINDGSELENGQFYVAVGREKFK 79

Dublecortin-like domain 1; Members of the doublecortin (DCX) gene family are microtubule-associated proteins (MAPs). Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. The DCX gene family consists of eleven paralogs in human and mouse, and its protein domains can occur in double tandem or single repeats. The family represents the first repeat of the DCX domain which has a stable ubiquitin-like tertiary fold. Proteins with DCX double tandem domains in general have roles in microtubule (MT) regulation and signal transduction such as X-linked doublecortin (DCX), retinitis pigmentosa-1 (RP1) and doublecortin-like kinase (DCLK).

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709  15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLT----EQVDVPFGVRRLFTPTRGHRVLGLDALQAGGKYVAAGRE 90
Cdd:cd16109     2 AKKVRFYRNGDRFFKGIVYAVSSERFRSFEALLADLTrslsDNVNLPQGVRTIFTIDGSRKITSLDELEDGESYVCASTD 81

                  ...
gi 2217330709  91 RFK 93
Cdd:cd16109    82 AFK 84

Dublecortin-like domain 1 found in doublecortin-like kinase 1 (DCLK1); DCLK1 is a member of doublecortin (DCX) protein superfamily that functions as a microtubule-associated protein (MAP), and contains two conserved tubulin binding domains. The DCX domain has a stable ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. In addition to microtubule-binding domains, DCLK encodes a serine/threonine kinase domain that is similar to Ca/calmodulin-dependent (Cam) protein kinases. DCLK1 appears to regulate cyclic AMP signaling and is involved in neuronal migration, retrograde transport, neuronal apoptosis and neurogenesis. Unlike DCX, this DCLK has varying levels of expression throughout embryonic and adult life.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709  15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLT----EQVDVPFGVRRLFTPTRGHRVLGLDALQAGGKYVAAGRE 90
Cdd:cd17140     2 AKKVRFYRNGDRYFKGIVYAISPDRFRSFEALLADLTrtlsDNVNLPQGVRTIYTIDGLKKISSLDQLVEGESYVCGSIE 81

                  ....*..
gi 2217330709  91 RFKELDY 97
Cdd:cd17140    82 PFKKLEY 88

Dublecortin-like domain 2 found in retinitis pigmentosa 1 (RP1)-like protein; RP1, also termed oxygen-regulated protein 1, is a member of doublecortin (DCX) superfamily that contains double tandem repeats of the DCX domains. RP1 is associated with retinitis pigmentosa, which is a type of inherited blindness. DCX is a microtubule-associated protein (MAP) with a stable ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. The RP1 protein is expressed in photoreceptors that is required for correct stacking of outer segment discs. RP1 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2217330709  16 KTIVVYRNGDPfYVGKKFVLSRRRAATFEALLEQLTEQVDVPfgVRRLFTpTRGHRVLGLDAL-QAGGKYVAAGRERFK 93
Cdd:cd17147     1 RKLIVFKNGDP-GFKHTLILNKKTTQSFEALLDHVSELMQFP--VVKLYT-TDGRRVDSLQALiLSSGAVVAAGREPFK 75

Dublecortin-like domain 1 found in neuronal migration protein doublecortin (DCX); DCX, also termed doublin or lissencephalin-X (Lis-XDCX), is a microtubule-associated protein (MAP). It belongs to the doublecortin (DCX) family, has double tandem DCX repeats, and is expressed in migrating neurons. Structure studies show that the N-terminal DCX domain has a stable ubiquitin-like fold. DCX is not only a unique MAP in terms of structure, it also interacts with multiple additional proteins. Mutations in the human DCX genes are associated with abnormal neuronal migration, epilepsy, and mental retardation.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709  15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLT----EQVDVPFGVRRLFTPTRGHRVLGLDALQAGGKYVAAGRE 90
Cdd:cd16112     2 AKKVRFYRNGDRYFKGIVYAVSSDRFRSFDALLADLTrslsDNINLPQGVRYIYTIDGSRKIGSMDELEEGESYVCSSDN 81

                  ....*..
gi 2217330709  91 RFKELDY 97
Cdd:cd16112    82 FFKKVEY 88

Dublecortin-like domain 2 found in retinitis pigmentosa (RP)-like protein; RP-like protein family is part of doublecortin (DCX) superfamily with double tandem DCX repeats that are associated with retinitis pigmentosa. DCX is a microtubule-associated protein (MAP) with a stable ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. RP-like proteins are colocalized to the photoreceptor and share a function in outer segment disc morphogenesis.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2217330709  16 KTIVVYRNGDPFyVGKKFVLSRRRAATFEALLEQLTEQVDVPfgVRRLFTpTRGHRVLGLDALQAG-GKYVAA 87
Cdd:cd17070     1 KVITVISNGDPH-SRHTILLNRRTTQSFEQVLQDLSELLKGP--VRKLYT-TDGKKVESLSALFHGpDEYVAA 69

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2 (DCDC2); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with a stable ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2217330709  17 TIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQVDVPFG-VRRLFTpTRGHRVLGLDALQAGGKYVAAGRERFKE 94
Cdd:cd17152     3 TIFVVANGDLLNPAVRLLIPRKTLNQWEKILEMITEKVTLRTGaVRRLYT-LDGKLINDGSELENGQFYVAVGREKFKK 80

Doublecortin-like domain 2 found in doublecortin domain-containing protein 2C (DCDC2C); DCDC2 is a member of the doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of a ubiquitin-like tertiary fold. Microtubules are key components of cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC2 genetic variation in humans is associated with reading disability, attention deficit hyperactivity disorder (ADHD), and difficulties in mathematics. A genetic variant of DCDC2 associates with dyslexia, a common neurobehavioral disorder of reading. DCDC2 protein interacts with many of the same cytoskeleton related proteins that other members of the DCX family interact with.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2217330709  15 AKTIVVYRNGDPFYVGKKFVLSRRRAATFEALLEQLTEQVDVPFG-VRRLFTpTRGHRVLGLDALQAGGKYVAAGRERFK 93
Cdd:cd17154     1 SRTINVFTNGEVLVPPAKIIIPKFTLRSWENVLAMITEKAFLRTGgVFRLCT-LNGHPVSDSTELEDNHYYVAVGSEKFK 79

Doublecortin-like domain 3 found in doublecortin domain-containing protein 5 (DCDC5); DCDC5 is a member of doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Microtubules are key components of the cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC5 is expressed during mitosis and involved in coordinating late cytokinesis. DCDC5 interacts with cytoplasmic dynein and Rab8, as well as with the Rab8 nucleotide exchange factor Rabin8.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2217330709  18 IVVYRNGDPFYVGKKFVLsrrrAATFEALLEQLTEQVDVPFGVRRLFT 65
Cdd:cd17158     3 ILAYKNGEGRLRDGVLII----GSTFPGLLDQCTHRLGLARAARRLYT 46

Doublecortin-like domain found in doublecortin domain-containing protein 5 (DCDC5) and similar proteins; DCDC5 is a member of doublecortin (DCX) family. It is a microtubule-associated protein (MAP) with stable double tandem DCX repeats of ubiquitin-like tertiary fold. Ubiquitin (Ub) is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Microtubules are key components of the cytoskeleton that are involved in cell movement, shape determination, division and transport. DCDC5 is expressed during mitosis and involved in coordinating late cytokinesis. DCDC5 interacts with cytoplasmic dynein and Rab8 as well as with the Rab8 nucleotide exchange factor Rabin8. This family also includes DCDC1, which is a hydrophilic intracellular protein that contains only one DCX repeat. Therefore, DCDC1 might only bind to microtubules without microtubule polymerization properties. DCDC1 is mainly expressed in adult testis.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2217330709  16 KTIVVYRNGDPFYvgKKFVLSRRRAATFEALLEQLTEQVDVPFGVRRLFTP 66
Cdd:cd17072     1 VRLRVLKNGERDL--ERAVYVVGPDLELQLFLDRCTERLNLPFAARRLFDE 49