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Conserved domains on  [gi|1952662980|ref|NP_001376543|]
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neuron navigator 1 isoform 6 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IS21_help_AAA super family cl41901
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 1066-1203 4.99e-05

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


The actual alignment was detected with superfamily member NF038214:

Pssm-ID: 439516  Cd Length: 232  Bit Score: 46.31  E-value: 4.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1066 KCVDSLVFETL--IPKPMMQHYISL--LLKHRRLVLSGPSGTGKTYLTNRLAEYLVERSGRevtegiVSTFNMHqqsckD 1141
Cdd:NF038214    60 KTLEDFDFTAApgLDKAQIRELATLdfIERAENVLLLGPPGTGKTHLAIALGYAACRQGYR------VRFTTAA-----D 128

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1952662980 1142 L--QLYLSNLANQIDRE-TGIGDVPLVIlLDDL-------SEAGSISELVNgaltCKYHKCPYIIgTTNQPV 1203
Cdd:NF038214   129 LveQLAQARADGRLGRLlRRLARYDLLI-IDELgylpfsrEGANLLFELIA----DRYERGSTII-TSNLPF 194
SMC_prok_B super family cl37069
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 626-707 2.23e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


The actual alignment was detected with superfamily member TIGR02168:

Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 45.82  E-value: 2.23e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANLVAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKKNSEAQAVIQ 705
Cdd:TIGR02168  853 DIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLE 932


                   ..
gi 1952662980  706 GA 707
Cdd:TIGR02168  933 GL 934
 
Name Accession Description Interval E-value
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 1066-1203 4.99e-05

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 46.31  E-value: 4.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1066 KCVDSLVFETL--IPKPMMQHYISL--LLKHRRLVLSGPSGTGKTYLTNRLAEYLVERSGRevtegiVSTFNMHqqsckD 1141
Cdd:NF038214    60 KTLEDFDFTAApgLDKAQIRELATLdfIERAENVLLLGPPGTGKTHLAIALGYAACRQGYR------VRFTTAA-----D 128

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1952662980 1142 L--QLYLSNLANQIDRE-TGIGDVPLVIlLDDL-------SEAGSISELVNgaltCKYHKCPYIIgTTNQPV 1203
Cdd:NF038214   129 LveQLAQARADGRLGRLlRRLARYDLLI-IDELgylpfsrEGANLLFELIA----DRYERGSTII-TSNLPF 194
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 1091-1202 9.38e-05

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 44.29  E-value: 9.38e-05
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  1091 KHRRLVLSGPSGTGKTYLTNRLAEYLVERSGREVTegIVSTFNMHQQSCKDLQLYLSNLANQIDRETGIGDV-------- 1162
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIY--IDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLAlalarklk 78

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*....
gi 1952662980  1163 PLVILLDDLSEAGS---------ISELVNGALTCKYHKCPyIIGTTNQP 1202
Cdd:smart00382   79 PDVLILDEITSLLDaeqeallllLEELRLLLLLKSEKNLT-VILTTNDE 126
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 626-707 2.23e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 45.82  E-value: 2.23e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANLVAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKKNSEAQAVIQ 705
Cdd:TIGR02168  853 DIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLE 932


                   ..
gi 1952662980  706 GA 707
Cdd:TIGR02168  933 GL 934
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 1086-1116 3.03e-04

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 45.15  E-value: 3.03e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1952662980 1086 ISLLLKHRRLV-LSGPSGTGKTYLTNRLAEYL 1116
Cdd:COG1401    214 FLAALKTKKNViLAGPPGTGKTYLARRLAEAL 245
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 1095-1202 3.95e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 42.52  E-value: 3.95e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1095 LVLSGPSGTGKTYLTNRLAEYLVERSGRevtegiVSTFNMHQqscKDLQLYLSNLANQIDRETGIGDV----PLVILLDd 1170
Cdd:cd00009     22 LLLYGPPGTGKTTLARAIANELFRPGAP------FLYLNASD---LLEGLVVAELFGHFLVRLLFELAekakPGVLFID- 91

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1952662980 1171 lsEAGSISELVNGAL----------TCKYHKCPyIIGTTNQP 1202
Cdd:cd00009     92 --EIDSLSRGAQNALlrvletlndlRIDRENVR-VIGATNRP 130
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
 626-723 1.25e-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: 42.22  E-value: 1.25e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANL---------VAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKK 696
Cdd:COG1579     60 EIKRLELEIEEVEARIKKYEEQLGNVRNNkeyealqkeIESLKRRISDLEDEILELMERIEELEEELAELEAELAELEAE 139

                           90       100
                   ....*....|....*....|....*..
gi 1952662980  697 NSEAQAVIQGALNASETTPKELRIKRQ 723
Cdd:COG1579    140 LEEKKAELDEELAELEAELEELEAERE 166
AAA_28 pfam13521
AAA domain;
1094-1126 2.00e-03

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 40.33  E-value: 2.00e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1952662980 1094 RLVLSGPSGTGKTYLTNRLAEYL----VERSGREVTE 1126
Cdd:pfam13521    1 RIVITGGPSTGKTTLAEALAARFgypvVPEAAREILE 37
 
Name Accession Description Interval E-value
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 1066-1203 4.99e-05

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 46.31  E-value: 4.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1066 KCVDSLVFETL--IPKPMMQHYISL--LLKHRRLVLSGPSGTGKTYLTNRLAEYLVERSGRevtegiVSTFNMHqqsckD 1141
Cdd:NF038214    60 KTLEDFDFTAApgLDKAQIRELATLdfIERAENVLLLGPPGTGKTHLAIALGYAACRQGYR------VRFTTAA-----D 128

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1952662980 1142 L--QLYLSNLANQIDRE-TGIGDVPLVIlLDDL-------SEAGSISELVNgaltCKYHKCPYIIgTTNQPV 1203
Cdd:NF038214   129 LveQLAQARADGRLGRLlRRLARYDLLI-IDELgylpfsrEGANLLFELIA----DRYERGSTII-TSNLPF 194
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 1091-1202 9.38e-05

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 44.29  E-value: 9.38e-05
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  1091 KHRRLVLSGPSGTGKTYLTNRLAEYLVERSGREVTegIVSTFNMHQQSCKDLQLYLSNLANQIDRETGIGDV-------- 1162
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIY--IDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLAlalarklk 78

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*....
gi 1952662980  1163 PLVILLDDLSEAGS---------ISELVNGALTCKYHKCPyIIGTTNQP 1202
Cdd:smart00382   79 PDVLILDEITSLLDaeqeallllLEELRLLLLLKSEKNLT-VILTTNDE 126
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 626-707 2.23e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 45.82  E-value: 2.23e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANLVAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKKNSEAQAVIQ 705
Cdd:TIGR02168  853 DIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLE 932


                   ..
gi 1952662980  706 GA 707
Cdd:TIGR02168  933 GL 934
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 1086-1116 3.03e-04

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 45.15  E-value: 3.03e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 1952662980 1086 ISLLLKHRRLV-LSGPSGTGKTYLTNRLAEYL 1116
Cdd:COG1401    214 FLAALKTKKNViLAGPPGTGKTYLARRLAEAL 245
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 1095-1202 3.95e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 42.52  E-value: 3.95e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1095 LVLSGPSGTGKTYLTNRLAEYLVERSGRevtegiVSTFNMHQqscKDLQLYLSNLANQIDRETGIGDV----PLVILLDd 1170
Cdd:cd00009     22 LLLYGPPGTGKTTLARAIANELFRPGAP------FLYLNASD---LLEGLVVAELFGHFLVRLLFELAekakPGVLFID- 91

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 1952662980 1171 lsEAGSISELVNGAL----------TCKYHKCPyIIGTTNQP 1202
Cdd:cd00009     92 --EIDSLSRGAQNALlrvletlndlRIDRENVR-VIGATNRP 130
DR0291 COG1579
Predicted nucleic acid-binding protein DR0291, contains C4-type Zn-ribbon domain [General ...
 626-723 1.25e-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: 42.22  E-value: 1.25e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANL---------VAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKK 696
Cdd:COG1579     60 EIKRLELEIEEVEARIKKYEEQLGNVRNNkeyealqkeIESLKRRISDLEDEILELMERIEELEEELAELEAELAELEAE 139

                           90       100
                   ....*....|....*....|....*..
gi 1952662980  697 NSEAQAVIQGALNASETTPKELRIKRQ 723
Cdd:COG1579    140 LEEKKAELDEELAELEAELEELEAERE 166
AAA_28 pfam13521
AAA domain;
1094-1126 2.00e-03

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 40.33  E-value: 2.00e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1952662980 1094 RLVLSGPSGTGKTYLTNRLAEYL----VERSGREVTE 1126
Cdd:pfam13521    1 RIVITGGPSTGKTTLAEALAARFgypvVPEAAREILE 37
COG4372 COG4372
Uncharacterized protein, contains DUF3084 domain [Function unknown];
626-705 2.12e-03

Uncharacterized protein, contains DUF3084 domain [Function unknown];


Pssm-ID: 443500 [Multi-domain]  Cd Length: 370  Bit Score: 42.20  E-value: 2.12e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980  626 QIRKLRRELESSQEKVATLTSQLSANANLVAAFEQSLVNMTSRLRHLAETAEEKDTELLDLRETIDFLKKKNSEAQAVIQ 705
Cdd:COG4372     67 ELEQARSELEQLEEELEELNEQLQAAQAELAQAQEELESLQEEAEELQEELEELQKERQDLEQQRKQLEAQIAELQSEIA 146
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 1093-1126 7.45e-03

Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis


Pssm-ID: 442405 [Multi-domain]  Cd Length: 178  Bit Score: 39.03  E-value: 7.45e-03
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 1952662980 1093 RRLVLSGPSGTGKTYLTNRLAEYL----VERSGREVTE 1126
Cdd:COG3172      9 KKIVLLGAESTGKTTLARALAAHYntpwVPEYGREYLE 46
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
1066-1204 8.31e-03

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 39.76  E-value: 8.31e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952662980 1066 KCVDSLVFETL--IPKPMMQHYISL--LLKHRRLVLSGPSGTGKTYLTNRLAEYLVERsgrevteGI-VSTFNMHqqsck 1140
Cdd:COG1484     69 KTLEDFDFDAQpgLDRRQILELATLdfIERGENLILLGPPGTGKTHLAIALGHEACRA-------GYrVRFTTAP----- 136

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1952662980 1141 DL--QLYLSNLANQIDRE-TGIGDVPLVIlLDDL-----SEAGS------ISELvngaltckYHKCPYIIgTTNQPVK 1204
Cdd:COG1484    137 DLvnELKEARADGRLERLlKRLAKVDLLI-LDELgylplDAEGAellfelISDR--------YERRSTII-TSNLPFS 204
 
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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