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Conserved domains on  [gi|149053590|gb|EDM05407|]
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similar to novel protein (predicted) [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK04195 super family cl35251
replication factor C large subunit; Provisional
 1045-1160 5.33e-14

replication factor C large subunit; Provisional


The actual alignment was detected with superfamily member PRK04195:

Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 76.50  E-value: 5.33e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149053590 1045 DMLWTEKYQPQNSNELVGNELAIKKLHSWLKDWKRraeleerqnlkgKRDEKeedlsdgtdfkgssddeeyrlcnTVLIT 1124
Cdd:PRK04195    1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLK------------GKPKK-----------------------ALLLY 45

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 149053590 1125 GPTGVGKTAAVYACAQELGFKIFEVNASSQRSGRQI 1160
Cdd:PRK04195   46 GPPGVGKTSLAHALANDYGWEVIELNASDQRTADVI 81
 
Name Accession Description Interval E-value
PRK04195 PRK04195
replication factor C large subunit; Provisional
 1045-1160 5.33e-14

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 76.50  E-value: 5.33e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149053590 1045 DMLWTEKYQPQNSNELVGNELAIKKLHSWLKDWKRraeleerqnlkgKRDEKeedlsdgtdfkgssddeeyrlcnTVLIT 1124
Cdd:PRK04195    1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLK------------GKPKK-----------------------ALLLY 45

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 149053590 1125 GPTGVGKTAAVYACAQELGFKIFEVNASSQRSGRQI 1160
Cdd:PRK04195   46 GPPGVGKTSLAHALANDYGWEVIELNASDQRTADVI 81
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 1121-1166 2.20e-06

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 48.74  E-value: 2.20e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 149053590  1121 VLITGPTGVGKTAAVYACAQELGFKIFEVNASSQRSG---------RQILSQLRE 1166
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKyvgesekrlRELFEAAKK 55
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 1119-1186 4.99e-05

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: 45.21  E-value: 4.99e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149053590 1119 NTVLITGPTGVGKTAAVYACAQEL---GFKIFEVNASSQRSGRQIlSQLREATQSHQVDKQGANSQKPCFF 1186
Cdd:cd00009    20 KNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVV-AELFGHFLVRLLFELAEKAKPGVLF 89
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
1119-1177 2.36e-03

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 42.53  E-value: 2.36e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 149053590 1119 NTVLITGPTGVGKTAAV---------YACAQELGFKIFEVNASSQRSGRQILSQL-REATQSHQVDKQG 1177
Cdd:COG1474    52 SNVLIYGPTGTGKTAVAkyvleeleeEAEERGVDVRVVYVNCRQASTRYRVLSRIlEELGSGEDIPSTG 120
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 1119-1157 3.13e-03

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: 40.05  E-value: 3.13e-03
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|..
gi 149053590   1119 NTVLITGPTGVGKTAAVYACAQEL---GFKIFEVNASSQRSG 1157
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEE 44
 
Name Accession Description Interval E-value
PRK04195 PRK04195
replication factor C large subunit; Provisional
 1045-1160 5.33e-14

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 76.50  E-value: 5.33e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149053590 1045 DMLWTEKYQPQNSNELVGNELAIKKLHSWLKDWKRraeleerqnlkgKRDEKeedlsdgtdfkgssddeeyrlcnTVLIT 1124
Cdd:PRK04195    1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLK------------GKPKK-----------------------ALLLY 45

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 149053590 1125 GPTGVGKTAAVYACAQELGFKIFEVNASSQRSGRQI 1160
Cdd:PRK04195   46 GPPGVGKTSLAHALANDYGWEVIELNASDQRTADVI 81
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 1121-1166 2.20e-06

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 48.74  E-value: 2.20e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 149053590  1121 VLITGPTGVGKTAAVYACAQELGFKIFEVNASSQRSG---------RQILSQLRE 1166
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKyvgesekrlRELFEAAKK 55
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 1119-1186 4.99e-05

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: 45.21  E-value: 4.99e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149053590 1119 NTVLITGPTGVGKTAAVYACAQEL---GFKIFEVNASSQRSGRQIlSQLREATQSHQVDKQGANSQKPCFF 1186
Cdd:cd00009    20 KNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVV-AELFGHFLVRLLFELAEKAKPGVLF 89
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
1119-1177 2.36e-03

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 42.53  E-value: 2.36e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 149053590 1119 NTVLITGPTGVGKTAAV---------YACAQELGFKIFEVNASSQRSGRQILSQL-REATQSHQVDKQG 1177
Cdd:COG1474    52 SNVLIYGPTGTGKTAVAkyvleeleeEAEERGVDVRVVYVNCRQASTRYRVLSRIlEELGSGEDIPSTG 120
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 1119-1157 3.13e-03

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: 40.05  E-value: 3.13e-03
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|..
gi 149053590   1119 NTVLITGPTGVGKTAAVYACAQEL---GFKIFEVNASSQRSG 1157
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEE 44
 
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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