NCBI Conserved Domain Search

NCBI

3D Macromolecular Structures

Conserved Domains

Conserved domains on [gi|1209600951|ref|NP_001339794|]

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suppression of tumorigenicity 18 protein isoform b [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

MYT1

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) ...

444-680

1.33e-108

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) of chordates. MYT1 contains C2HC zinc finger domains (pfam01530) and is expressed in developing neurons of the central nervous system where it is involved in the selection of neuronal precursor cells.

:

Pssm-ID: 462489 [Multi-domain] Cd Length: 237 Bit Score: 336.73 E-value: 1.33e-108

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  444 PSQAITSPRATVSKEQEKFGKVPFDYASFDAQVFGKRPLIQTVQGRKTPP--FPESKHFPNPVKFPNRLPSAGAHTQSPG 521
Cdd:pfam08474    3 NNVPTTTPRANLAKELEKYSKTSFDYASFDAQVFGKRTLAPKVQGQDTSPkgFDAKKYFCKPSSPSSSLTSSYAPSSSSS 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  522 RASSYSYGQCSEDTHIAAAAAiLNLSTRCREATDILSNKPQSLHAKGAEIEVDENGTLDLSMKKNRILDksapLTSSNTS 601
Cdd:pfam08474   83 SSSSYDYTHDMEAAHMAATAI-LNLSTRCREMPENLSTKPQDLSAKPDDIEVDENGTLDLSMKKNRPRG----VTSGSVL 157

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  602 IPTPSSSPFKTSSILvNAAFYQALCDQEGWDTPINYSKTHGKTEEEKE--KDPVSSLENLEEKKFPGEASIPSPKPKLHA 679
Cdd:pfam08474  158 TPLPPMSPQRQASLL-NSRCYQALCAQDCWDLPVDYTKIKRIDEEEKEepEDLDPFQELLEERKYPGEVTIPSPKPKYPP 236


                   .
gi 1209600951  680 R 680
Cdd:pfam08474  237 C 237

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

732-760

5.57e-17

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 74.88 E-value: 5.57e-17

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  732 KCPTPGCDGSGHVTGNYASHRSLSGCPRA 760
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

688-716

3.31e-16

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 72.95 E-value: 3.31e-16

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  688 TCPTPGCDGSGHVTGNYASHRSVSGCPLA 716
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

376-404

2.54e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.56 E-value: 2.54e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  376 KCPTPGCTGRGHVNSNRNTHRSLSGCPIA 404
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

780-808

2.77e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.17 E-value: 2.77e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  780 KCPVIGCDGQGHISGKYTSHRTASGCPLA 808
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

332-358

3.53e-13

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 64.09 E-value: 3.53e-13

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  332 KCPIPGCDGTGHVTGLYPHHRSLSGCP 358
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCP 27

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

834-860

2.75e-11

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

:

Pssm-ID: 460240 Cd Length: 29 Bit Score: 58.70 E-value: 2.75e-11

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  834 CPLPGCNGLGHVNNVFVTHRSLSGCPL 860
Cdd:pfam01530    2 CPTPGCDGSGHVSGKYATHRSLSGCPY 28

Com_YlbF super family

Control of competence regulator ComK, YlbF/YmcA; YlbF Is a family of short Gram-positive and ...

886-971

1.33e-04

Control of competence regulator ComK, YlbF/YmcA; YlbF Is a family of short Gram-positive and archaeal proteins that includes both YlbF and YmcA which may interact synergistically. The family is necessary for correct biofilm formation, as null mutants of ymcA and ylbF fail to form pellicles at air-liquid interfaces and grow on solid media as smooth, undifferentiated colonies. During development, YmcA, YlbF and YaaT, family PSPI, pfam04468, interact directly with one another forming a stable ternary complex, in vitro. All three proteins are required for competence, sporulation and the formation of biofilms. The YmcA-YlbF-YaaT complex affects the phosphotransfer between Spo0F and Spo0B, thus accelerating the production of Spo0A~P. The three processes of biofilm formation, mature spore formation and competence all require the active, phosphorylated form of Spo0A, as Spo0A-P.

The actual alignment was detected with superfamily member PRK13676:

Pssm-ID: 455416 [Multi-domain] Cd Length: 114 Bit Score: 42.23 E-value: 1.33e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  886 ESDEEIRHLDE--EIKEL------NESNLKIEADMMKLQTQITSMESNLKTIEEE--------NKLIEQNneSLLKELAG 949
Cdd:PRK13676    11 ELERALRELPEykALKEAkeavkaDEEAKKLFDEFRALQLEIQQKQMTGQEITEEeqqkaqelGQKIQQN--ELLSKLME 88

                           90       100
                   ....*....|....*....|..
gi 1209600951  950 LSQALISSLADIQLPQMGPISE 971
Cdd:PRK13676    89 AEQRLSVYINDINKIIFKPLEE 110

Name

Accession

Description

Interval

E-value

MYT1

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) ...

444-680

1.33e-108

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) of chordates. MYT1 contains C2HC zinc finger domains (pfam01530) and is expressed in developing neurons of the central nervous system where it is involved in the selection of neuronal precursor cells.

Pssm-ID: 462489 [Multi-domain] Cd Length: 237 Bit Score: 336.73 E-value: 1.33e-108

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  444 PSQAITSPRATVSKEQEKFGKVPFDYASFDAQVFGKRPLIQTVQGRKTPP--FPESKHFPNPVKFPNRLPSAGAHTQSPG 521
Cdd:pfam08474    3 NNVPTTTPRANLAKELEKYSKTSFDYASFDAQVFGKRTLAPKVQGQDTSPkgFDAKKYFCKPSSPSSSLTSSYAPSSSSS 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  522 RASSYSYGQCSEDTHIAAAAAiLNLSTRCREATDILSNKPQSLHAKGAEIEVDENGTLDLSMKKNRILDksapLTSSNTS 601
Cdd:pfam08474   83 SSSSYDYTHDMEAAHMAATAI-LNLSTRCREMPENLSTKPQDLSAKPDDIEVDENGTLDLSMKKNRPRG----VTSGSVL 157

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  602 IPTPSSSPFKTSSILvNAAFYQALCDQEGWDTPINYSKTHGKTEEEKE--KDPVSSLENLEEKKFPGEASIPSPKPKLHA 679
Cdd:pfam08474  158 TPLPPMSPQRQASLL-NSRCYQALCAQDCWDLPVDYTKIKRIDEEEKEepEDLDPFQELLEERKYPGEVTIPSPKPKYPP 236


                   .
gi 1209600951  680 R 680
Cdd:pfam08474  237 C 237

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

732-760

5.57e-17

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 74.88 E-value: 5.57e-17

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  732 KCPTPGCDGSGHVTGNYASHRSLSGCPRA 760
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

688-716

3.31e-16

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 72.95 E-value: 3.31e-16

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  688 TCPTPGCDGSGHVTGNYASHRSVSGCPLA 716
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

376-404

2.54e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.56 E-value: 2.54e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  376 KCPTPGCTGRGHVNSNRNTHRSLSGCPIA 404
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

780-808

2.77e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.17 E-value: 2.77e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  780 KCPVIGCDGQGHISGKYTSHRTASGCPLA 808
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

332-358

3.53e-13

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 64.09 E-value: 3.53e-13

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  332 KCPIPGCDGTGHVTGLYPHHRSLSGCP 358
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCP 27

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

834-860

2.75e-11

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 58.70 E-value: 2.75e-11

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  834 CPLPGCNGLGHVNNVFVTHRSLSGCPL 860
Cdd:pfam01530    2 CPTPGCDGSGHVSGKYATHRSLSGCPY 28

PRK13676

YlbF/YmcA family competence regulator;

886-971

1.33e-04

YlbF/YmcA family competence regulator;

Pssm-ID: 237467 [Multi-domain] Cd Length: 114 Bit Score: 42.23 E-value: 1.33e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  886 ESDEEIRHLDE--EIKEL------NESNLKIEADMMKLQTQITSMESNLKTIEEE--------NKLIEQNneSLLKELAG 949
Cdd:PRK13676    11 ELERALRELPEykALKEAkeavkaDEEAKKLFDEFRALQLEIQQKQMTGQEITEEeqqkaqelGQKIQQN--ELLSKLME 88

                           90       100
                   ....*....|....*....|..
gi 1209600951  950 LSQALISSLADIQLPQMGPISE 971
Cdd:PRK13676    89 AEQRLSVYINDINKIIFKPLEE 110

Atg16_CCD

Coiled-coiled domain of autophagy-related 16 (Atg16) family proteins; The Atg16 family ...

888-937

3.03e-04

Coiled-coiled domain of autophagy-related 16 (Atg16) family proteins; The Atg16 family includes Saccharomyces cerevisiae Atg16 (also called cytoplasm to vacuole targeting protein 11, CVT11, or SAP18), human autophagy-related protein 16-1 (also called APG16-like 1, ATG16L1, or APG16L) and autophagy-related protein 16-2 (also called APG16-like 2, ATG16L2, WD repeat-containing protein 80 or WDR80), and similar proteins. Atg16 stabilizes the Atg5-Atg12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. The Atg5-Atg12/Atg16 complex is required for efficient promotion of Atg8-conjugation to phosphatidylethanolamine and Atg8 localization to the pre-autophagosomal structure (PAS). Similarly, human ATG16L1 plays an essential role in autophagy and acts as a molecular scaffold which mediates protein-protein interactions essential for autophagosome formation. ATG16L2, though structurally similar to ATG16L1 and able to form a complex with the autophagy proteins Atg5 and Atg12, is not essential for autophagy. Single-nucleotide polymorphisms in ATG16L1 is associated with an increased risk of developing Crohn disease. Saccharomyces cerevisiae Atg16 contains an N-terminal domain (NTD) that interacts with the Atg5-Atg12 protein conjugate and a coiled-coil domain (CCD) that dimerizes and mediates self-assembly. Human ATG16L1 and ATG16L2 also contains an N-terminal region that binds Atg5, a CCD homologous to the yeast CCD, and a WD40 domain that represents approximately 50% of the full-length protein. This model corresponds to the CCD of Atg16 family proteins.

Pssm-ID: 439196 [Multi-domain] Cd Length: 91 Bit Score: 40.63 E-value: 3.03e-04

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1209600951  888 DEEIRHLDEEIKELNESNLKIEADMMKLQTQITSMESNLKTIEEEN-KLIE 937
Cdd:cd22887     24 EEEIKDLEEELKEKNKANEILNDELIALQIENNLLEEKLRKLQEENdELVE 74

EnvC

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...

855-1010

3.52e-04

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];

Pssm-ID: 443969 [Multi-domain] Cd Length: 377 Bit Score: 43.98 E-value: 3.52e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  855 LSGCPLNAQVIKKGKVSEELMTIKlkatggiesdEEIRHLDEEIKELNESNLKIEADMMKLQTQITSMESNLKTIEEENK 934
Cdd:COG4942     10 LLALAAAAQADAAAEAEAELEQLQ----------QEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELA 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  935 LIEQNNESLLKELAGLSQALISSLADIQ-----LPQMGPISEQNFEAYVNTLTDMYSNLE--RDYSPECKALLESIKQAV 1007
Cdd:COG4942     80 ALEAELAELEKEIAELRAELEAQKEELAellraLYRLGRQPPLALLLSPEDFLDAVRRLQylKYLAPARREQAEELRADL 159


                   ...
gi 1209600951 1008 KGI 1010
Cdd:COG4942    160 AEL 162

Name

Accession

Description

Interval

E-value

MYT1

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) ...

444-680

1.33e-108

Myelin transcription factor 1; This domain is found in the myelin transcription factor 1 (MYT1) of chordates. MYT1 contains C2HC zinc finger domains (pfam01530) and is expressed in developing neurons of the central nervous system where it is involved in the selection of neuronal precursor cells.

Pssm-ID: 462489 [Multi-domain] Cd Length: 237 Bit Score: 336.73 E-value: 1.33e-108

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  444 PSQAITSPRATVSKEQEKFGKVPFDYASFDAQVFGKRPLIQTVQGRKTPP--FPESKHFPNPVKFPNRLPSAGAHTQSPG 521
Cdd:pfam08474    3 NNVPTTTPRANLAKELEKYSKTSFDYASFDAQVFGKRTLAPKVQGQDTSPkgFDAKKYFCKPSSPSSSLTSSYAPSSSSS 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  522 RASSYSYGQCSEDTHIAAAAAiLNLSTRCREATDILSNKPQSLHAKGAEIEVDENGTLDLSMKKNRILDksapLTSSNTS 601
Cdd:pfam08474   83 SSSSYDYTHDMEAAHMAATAI-LNLSTRCREMPENLSTKPQDLSAKPDDIEVDENGTLDLSMKKNRPRG----VTSGSVL 157

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  602 IPTPSSSPFKTSSILvNAAFYQALCDQEGWDTPINYSKTHGKTEEEKE--KDPVSSLENLEEKKFPGEASIPSPKPKLHA 679
Cdd:pfam08474  158 TPLPPMSPQRQASLL-NSRCYQALCAQDCWDLPVDYTKIKRIDEEEKEepEDLDPFQELLEERKYPGEVTIPSPKPKYPP 236


                   .
gi 1209600951  680 R 680
Cdd:pfam08474  237 C 237

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

732-760

5.57e-17

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 74.88 E-value: 5.57e-17

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  732 KCPTPGCDGSGHVTGNYASHRSLSGCPRA 760
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

688-716

3.31e-16

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 72.95 E-value: 3.31e-16

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  688 TCPTPGCDGSGHVTGNYASHRSVSGCPLA 716
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

376-404

2.54e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.56 E-value: 2.54e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  376 KCPTPGCTGRGHVNSNRNTHRSLSGCPIA 404
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

780-808

2.77e-14

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 67.17 E-value: 2.77e-14

                           10        20
                   ....*....|....*....|....*....
gi 1209600951  780 KCPVIGCDGQGHISGKYTSHRTASGCPLA 808
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCPYA 29

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

332-358

3.53e-13

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 64.09 E-value: 3.53e-13

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  332 KCPIPGCDGTGHVTGLYPHHRSLSGCP 358
Cdd:pfam01530    1 KCPTPGCDGSGHVSGKYATHRSLSGCP 27

zf-C2HC

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

834-860

2.75e-11

Zinc finger, C2HC type; This is a DNA binding zinc finger domain.

Pssm-ID: 460240 Cd Length: 29 Bit Score: 58.70 E-value: 2.75e-11

                           10        20
                   ....*....|....*....|....*..
gi 1209600951  834 CPLPGCNGLGHVNNVFVTHRSLSGCPL 860
Cdd:pfam01530    2 CPTPGCDGSGHVSGKYATHRSLSGCPY 28

PRK13676

YlbF/YmcA family competence regulator;

886-971

1.33e-04

YlbF/YmcA family competence regulator;

Pssm-ID: 237467 [Multi-domain] Cd Length: 114 Bit Score: 42.23 E-value: 1.33e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  886 ESDEEIRHLDE--EIKEL------NESNLKIEADMMKLQTQITSMESNLKTIEEE--------NKLIEQNneSLLKELAG 949
Cdd:PRK13676    11 ELERALRELPEykALKEAkeavkaDEEAKKLFDEFRALQLEIQQKQMTGQEITEEeqqkaqelGQKIQQN--ELLSKLME 88

                           90       100
                   ....*....|....*....|..
gi 1209600951  950 LSQALISSLADIQLPQMGPISE 971
Cdd:PRK13676    89 AEQRLSVYINDINKIIFKPLEE 110

Atg16_CCD

Coiled-coiled domain of autophagy-related 16 (Atg16) family proteins; The Atg16 family ...

888-937

3.03e-04

Coiled-coiled domain of autophagy-related 16 (Atg16) family proteins; The Atg16 family includes Saccharomyces cerevisiae Atg16 (also called cytoplasm to vacuole targeting protein 11, CVT11, or SAP18), human autophagy-related protein 16-1 (also called APG16-like 1, ATG16L1, or APG16L) and autophagy-related protein 16-2 (also called APG16-like 2, ATG16L2, WD repeat-containing protein 80 or WDR80), and similar proteins. Atg16 stabilizes the Atg5-Atg12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. The Atg5-Atg12/Atg16 complex is required for efficient promotion of Atg8-conjugation to phosphatidylethanolamine and Atg8 localization to the pre-autophagosomal structure (PAS). Similarly, human ATG16L1 plays an essential role in autophagy and acts as a molecular scaffold which mediates protein-protein interactions essential for autophagosome formation. ATG16L2, though structurally similar to ATG16L1 and able to form a complex with the autophagy proteins Atg5 and Atg12, is not essential for autophagy. Single-nucleotide polymorphisms in ATG16L1 is associated with an increased risk of developing Crohn disease. Saccharomyces cerevisiae Atg16 contains an N-terminal domain (NTD) that interacts with the Atg5-Atg12 protein conjugate and a coiled-coil domain (CCD) that dimerizes and mediates self-assembly. Human ATG16L1 and ATG16L2 also contains an N-terminal region that binds Atg5, a CCD homologous to the yeast CCD, and a WD40 domain that represents approximately 50% of the full-length protein. This model corresponds to the CCD of Atg16 family proteins.

Pssm-ID: 439196 [Multi-domain] Cd Length: 91 Bit Score: 40.63 E-value: 3.03e-04

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1209600951  888 DEEIRHLDEEIKELNESNLKIEADMMKLQTQITSMESNLKTIEEEN-KLIE 937
Cdd:cd22887     24 EEEIKDLEEELKEKNKANEILNDELIALQIENNLLEEKLRKLQEENdELVE 74

EnvC

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...

855-1010

3.52e-04

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];

Pssm-ID: 443969 [Multi-domain] Cd Length: 377 Bit Score: 43.98 E-value: 3.52e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  855 LSGCPLNAQVIKKGKVSEELMTIKlkatggiesdEEIRHLDEEIKELNESNLKIEADMMKLQTQITSMESNLKTIEEENK 934
Cdd:COG4942     10 LLALAAAAQADAAAEAEAELEQLQ----------QEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELA 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  935 LIEQNNESLLKELAGLSQALISSLADIQ-----LPQMGPISEQNFEAYVNTLTDMYSNLE--RDYSPECKALLESIKQAV 1007
Cdd:COG4942     80 ALEAELAELEKEIAELRAELEAQKEELAellraLYRLGRQPPLALLLSPEDFLDAVRRLQylKYLAPARREQAEELRADL 159


                   ...
gi 1209600951 1008 KGI 1010
Cdd:COG4942    160 AEL 162

COG4372

Uncharacterized protein, contains DUF3084 domain [Function unknown];

860-965

8.42e-04

Uncharacterized protein, contains DUF3084 domain [Function unknown];

Pssm-ID: 443500 [Multi-domain] Cd Length: 370 Bit Score: 42.97 E-value: 8.42e-04

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1209600951  860 LNAQVIKKGKVSEELMTIKLKATggiESDEEIRHLDEEIKELNESNLKIEADMMKLQTQITSMESNLKTIEEENKLIEQN 939
Cdd:COG4372     89 LQAAQAELAQAQEELESLQEEAE---ELQEELEELQKERQDLEQQRKQLEAQIAELQSEIAEREEELKELEEQLESLQEE 165

                           90       100
                   ....*....|....*....|....*.
gi 1209600951  940 NESLLKELAGLSQALISSLADIQLPQ 965
Cdd:COG4372    166 LAALEQELQALSEAEAEQALDELLKE 191

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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of the residues that compose this conserved feature have been mapped to the query sequence.

Click on the triangle to view details about the feature, including a multiple sequence alignment of your query sequence and the protein sequences used to curate the domain model, where hash marks (#) above the aligned sequences show the location of the conserved feature residues.

The thumbnail image, if present, provides an approximate view of the feature's location in 3 dimensions. Click on the triangle for interactive 3D structure viewing options.

Functional characterization of the conserved domain architecture found on the query. Click here to see more details.

This image shows a graphical summary of conserved domains identified on the query sequence. The Show Concise/Full Display button at the top of the page can be used to select the desired level of detail: only top scoring hits (labeled illustration) or all hits (labeled illustration).
Domains are color coded according to superfamilies to which they have been assigned. Hits with scores that pass a domain-specific threshold (specific hits) are drawn in bright colors. Others (non-specific hits) and superfamily placeholders are drawn in pastel colors.
if a domain or superfamily has been annotated with functional sites (conserved features), they are mapped to the query sequence and indicated through sets of triangles with the same color and shade of the domain or superfamily that provides the annotation.
Mouse over the colored bars or triangles to see descriptions of the domains and features. click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.

The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores. Click on the domain model's accession number to view the multiple sequence alignment of the proteins used to develop the corresponding domain model.

To view your query sequence embedded in that multiple sequence alignment, click on the colored bars in the Graphical Summary portion of the search results page, or click on the triangles, if present, that represent functional sites (conserved features) mapped to the query sequence.

Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence. (labeled illustration)
Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence. (labeled illustration)
Full Display shows all domain models, in each hit category below, that meet or exceed the RPS-BLAST threshold for statistical significance. (labeled illustration)
Four types of hits can be shown, as available, for each region on the query sequence:

specific hits meet or exceed a domain-specific e-value threshold (illustrated example) and represent a very high confidence that the query sequence belongs to the same protein family as the sequences use to create the domain model
non-specific hits meet or exceed the RPS-BLAST threshold for statistical significance (default E-value cutoff of 0.01, or an E-value selected by user via the advanced search options)
the domain superfamily to which the specific and non-specific hits belong
multi-domain models that were computationally detected and are likely to contain multiple single domains

The CD-Search help document provides more detail about the tool and its features.

Retrieve proteins that contain one or more of the domains present in the query sequence, using the Conserved Domain Architecture Retrieval Tool (CDART).

Modify your query to search against a different database and/or use advanced search options