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Conserved domains on  [gi|513179375|ref|XP_004935905|]
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nuclear GTPase SLIP-GC [Gallus gallus]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Dynamin_N super family cl47533
Dynamin family;
98-173 1.35e-05

Dynamin family;


The actual alignment was detected with superfamily member pfam00350:

Pssm-ID: 459775 [Multi-domain]  Cd Length: 168  Bit Score: 46.07  E-value: 1.35e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 513179375   98 IGLFGSSGAGKSTLLNTILGKRfFLPvSGTRTCTSCQVHVsvcRSKHYEAKIFLLSDEEWKEEVRNLVMLLENRHE 173
Cdd:pfam00350   1 IAVVGDQSSGKSSVLNALLGRD-ILP-RGPGPTTRRPTVL---RLGESPGASEGAVKVEYKDGEKKFEDFSELREE 71
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 279-443 4.31e-04

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd09912:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 180  Bit Score: 41.76  E-value: 4.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 279 EGVIFVDIPGTGDANKKRDEMWKESILQCTSIWIVADVERVSGAKAHEIMvqEAIKACQVGKcsdITFVITKMDKINEDE 358
Cdd:cd09912   46 KGVVLVDTPGLNSTIEHHTEITESFLPRADAVIFVLSADQPLTESEREFL--KEILKWSGKK---IFFVLNKIDLLSEEE 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 359 YLRShpgtsrdvskrdailgmkqDLKARKSRTLRERMKRNLPsdaevlqkqelVFPVSAQEYWNP----TVLRREDTEIV 434
Cdd:cd09912  121 LEEV-------------------LEYSREELGVLELGGGEPR-----------IFPVSAKEALEArlqgDEELLEQSGFE 170


                 ....*....
gi 513179375 435 ELRAHIRKL 443
Cdd:cd09912  171 ELEEHLEEF 179
 
Name Accession Description Interval E-value
Dynamin_N pfam00350
Dynamin family;
98-173 1.35e-05

Dynamin family;


Pssm-ID: 459775 [Multi-domain]  Cd Length: 168  Bit Score: 46.07  E-value: 1.35e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 513179375   98 IGLFGSSGAGKSTLLNTILGKRfFLPvSGTRTCTSCQVHVsvcRSKHYEAKIFLLSDEEWKEEVRNLVMLLENRHE 173
Cdd:pfam00350   1 IAVVGDQSSGKSSVLNALLGRD-ILP-RGPGPTTRRPTVL---RLGESPGASEGAVKVEYKDGEKKFEDFSELREE 71
CydD COG4988
ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease ...
 74-127 3.92e-04

ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 444012 [Multi-domain]  Cd Length: 563  Bit Score: 43.59  E-value: 3.92e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 513179375  74 PVHLTyLRD-RFTTLDSRPALEPL--------YIGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:COG4988  334 PPSIE-LEDvSFSYPGGRPALDGLsltippgeRVALVGPSGAGKSTLLNLLLG--FLPPYSGS 393
DLP_2 cd09912
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The ...
 279-443 4.31e-04

Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.


Pssm-ID: 206739 [Multi-domain]  Cd Length: 180  Bit Score: 41.76  E-value: 4.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 279 EGVIFVDIPGTGDANKKRDEMWKESILQCTSIWIVADVERVSGAKAHEIMvqEAIKACQVGKcsdITFVITKMDKINEDE 358
Cdd:cd09912   46 KGVVLVDTPGLNSTIEHHTEITESFLPRADAVIFVLSADQPLTESEREFL--KEILKWSGKK---IFFVLNKIDLLSEEE 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 359 YLRShpgtsrdvskrdailgmkqDLKARKSRTLRERMKRNLPsdaevlqkqelVFPVSAQEYWNP----TVLRREDTEIV 434
Cdd:cd09912  121 LEEV-------------------LEYSREELGVLELGGGEPR-----------IFPVSAKEALEArlqgDEELLEQSGFE 170


                 ....*....
gi 513179375 435 ELRAHIRKL 443
Cdd:cd09912  171 ELEEHLEEF 179
thiQ PRK10771
thiamine ABC transporter ATP-binding protein ThiQ;
76-127 6.89e-04

thiamine ABC transporter ATP-binding protein ThiQ;


Pssm-ID: 182716 [Multi-domain]  Cd Length: 232  Bit Score: 41.88  E-value: 6.89e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 513179375  76 HLTYLRD----RFTtLDSRPAlEPLYIglFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:PRK10771   6 DITWLYHhlpmRFD-LTVERG-ERVAI--LGPSGAGKSTLLNLIAG--FLTPASGS 55
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 99-131 7.80e-04

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 40.90  E-value: 7.80e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 513179375  99 GLFGSSGAGKSTLLNTILGKRFFlPVSGTRTCT 131
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGGEVG-EVSDVPGTT 32
CydD TIGR02857
thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family ...
 88-127 5.78e-03

thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD


Pssm-ID: 274323 [Multi-domain]  Cd Length: 529  Bit Score: 39.96  E-value: 5.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 513179375   88 DSRPALEPL--------YIGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:TIGR02857 333 GRRPALRPVsftvppgeRVALVGPSGAGKSTLLNLLLG--FVDPTEGS 378
 
Name Accession Description Interval E-value
Dynamin_N pfam00350
Dynamin family;
98-173 1.35e-05

Dynamin family;


Pssm-ID: 459775 [Multi-domain]  Cd Length: 168  Bit Score: 46.07  E-value: 1.35e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 513179375   98 IGLFGSSGAGKSTLLNTILGKRfFLPvSGTRTCTSCQVHVsvcRSKHYEAKIFLLSDEEWKEEVRNLVMLLENRHE 173
Cdd:pfam00350   1 IAVVGDQSSGKSSVLNALLGRD-ILP-RGPGPTTRRPTVL---RLGESPGASEGAVKVEYKDGEKKFEDFSELREE 71
ABC_tran pfam00005
ABC transporter; ABC transporters for a large family of proteins responsible for translocation ...
 98-127 5.91e-05

ABC transporter; ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain pfam00664. These four domains may belong to a single polypeptide or belong in different polypeptide chains.


Pssm-ID: 394964 [Multi-domain]  Cd Length: 150  Bit Score: 43.79  E-value: 5.91e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 513179375   98 IGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:pfam00005  14 LALVGPNGAGKSTLLKLIAG--LLSPTEGT 41
CydD COG4988
ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease ...
 74-127 3.92e-04

ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 444012 [Multi-domain]  Cd Length: 563  Bit Score: 43.59  E-value: 3.92e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 513179375  74 PVHLTyLRD-RFTTLDSRPALEPL--------YIGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:COG4988  334 PPSIE-LEDvSFSYPGGRPALDGLsltippgeRVALVGPSGAGKSTLLNLLLG--FLPPYSGS 393
DLP_2 cd09912
Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The ...
 279-443 4.31e-04

Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.


Pssm-ID: 206739 [Multi-domain]  Cd Length: 180  Bit Score: 41.76  E-value: 4.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 279 EGVIFVDIPGTGDANKKRDEMWKESILQCTSIWIVADVERVSGAKAHEIMvqEAIKACQVGKcsdITFVITKMDKINEDE 358
Cdd:cd09912   46 KGVVLVDTPGLNSTIEHHTEITESFLPRADAVIFVLSADQPLTESEREFL--KEILKWSGKK---IFFVLNKIDLLSEEE 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375 359 YLRShpgtsrdvskrdailgmkqDLKARKSRTLRERMKRNLPsdaevlqkqelVFPVSAQEYWNP----TVLRREDTEIV 434
Cdd:cd09912  121 LEEV-------------------LEYSREELGVLELGGGEPR-----------IFPVSAKEALEArlqgDEELLEQSGFE 170


                 ....*....
gi 513179375 435 ELRAHIRKL 443
Cdd:cd09912  171 ELEEHLEEF 179
ZnuC COG1121
ABC-type Mn2+/Zn2+ transport system, ATPase component [Inorganic ion transport and metabolism]; ...
 86-127 4.31e-04

ABC-type Mn2+/Zn2+ transport system, ATPase component [Inorganic ion transport and metabolism];


Pssm-ID: 440738 [Multi-domain]  Cd Length: 245  Bit Score: 42.77  E-value: 4.31e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 513179375  86 TLDSRPALEPL--------YIGLFGSSGAGKSTLLNTILGkrfFL-PVSGT 127
Cdd:COG1121   15 SYGGRPVLEDVsltippgeFVAIVGPNGAGKSTLLKAILG---LLpPTSGT 62
thiQ PRK10771
thiamine ABC transporter ATP-binding protein ThiQ;
76-127 6.89e-04

thiamine ABC transporter ATP-binding protein ThiQ;


Pssm-ID: 182716 [Multi-domain]  Cd Length: 232  Bit Score: 41.88  E-value: 6.89e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 513179375  76 HLTYLRD----RFTtLDSRPAlEPLYIglFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:PRK10771   6 DITWLYHhlpmRFD-LTVERG-ERVAI--LGPSGAGKSTLLNLIAG--FLTPASGS 55
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
 99-131 7.80e-04

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 40.90  E-value: 7.80e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 513179375  99 GLFGSSGAGKSTLLNTILGKRFFlPVSGTRTCT 131
Cdd:cd00882    1 VVVGRGGVGKSSLLNALLGGEVG-EVSDVPGTT 32
YjeQ_EngC cd01854
Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; ...
 90-118 1.32e-03

Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; YjeQ (YloQ in Bacillus subtilis) is a ribosomal small subunit-dependent GTPase; hence also known as RsgA. YjeQ is a late-stage ribosomal biogenesis factor involved in the 30S subunit maturation, and it represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain.


Pssm-ID: 206747 [Multi-domain]  Cd Length: 211  Bit Score: 40.84  E-value: 1.32e-03
                         10        20
                 ....*....|....*....|....*....
gi 513179375  90 RPALEPLYIGLFGSSGAGKSTLLNTILGK 118
Cdd:cd01854   80 RELLKGKTSVLVGQSGVGKSTLLNALLPE 108
ABCG_EPDR cd03213
Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette ...
 76-127 1.35e-03

Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.


Pssm-ID: 213180 [Multi-domain]  Cd Length: 194  Bit Score: 40.61  E-value: 1.35e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375  76 HLTYLRDRFTTLDSRPALEPLY--------IGLFGSSGAGKSTLLNTILGKRFFLPVSGT 127
Cdd:cd03213    8 NLTVTVKSSPSKSGKQLLKNVSgkakpgelTAIMGPSGAGKSTLLNALAGRRTGLGVSGE 67
AIG1 cd01852
AvrRpt2-Induced Gene 1 (AIG1); This group represents Arabidoposis protein AIG1 ...
 100-139 1.66e-03

AvrRpt2-Induced Gene 1 (AIG1); This group represents Arabidoposis protein AIG1 (avrRpt2-induced gene 1) that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).


Pssm-ID: 206651 [Multi-domain]  Cd Length: 201  Bit Score: 40.60  E-value: 1.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 513179375 100 LFGSSGAGKSTLLNTILG-KRFFLPVSGTRTCTSCQVHVSV 139
Cdd:cd01852    5 LVGKTGNGKSATGNTILGrKVFESKLSASGVTKTCQKESAV 45
PRK11174 PRK11174
cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
 98-126 1.76e-03

cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed


Pssm-ID: 236870 [Multi-domain]  Cd Length: 588  Bit Score: 41.75  E-value: 1.76e-03
                         10        20
                 ....*....|....*....|....*....
gi 513179375  98 IGLFGSSGAGKSTLLNTILGkrfFLPVSG 126
Cdd:PRK11174 379 IALVGPSGAGKTSLLNALLG---FLPYQG 404
YeeP COG3596
Predicted GTPase [General function prediction only];
90-131 1.81e-03

Predicted GTPase [General function prediction only];


Pssm-ID: 442815 [Multi-domain]  Cd Length: 318  Bit Score: 41.29  E-value: 1.81e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 513179375  90 RPALEPLYIGLFGSSGAGKSTLLNTILGKRFFlPVSGTRTCT 131
Cdd:COG3596   34 LVELPPPVIALVGKTGAGKSSLINALFGAEVA-EVGVGRPCT 74
PRK01889 PRK01889
GTPase RsgA; Reviewed
 98-117 2.38e-03

GTPase RsgA; Reviewed


Pssm-ID: 234988 [Multi-domain]  Cd Length: 356  Bit Score: 41.07  E-value: 2.38e-03
                         10        20
                 ....*....|....*....|
gi 513179375  98 IGLFGSSGAGKSTLLNTILG 117
Cdd:PRK01889 198 VALLGSSGVGKSTLVNALLG 217
ThiQ COG3840
ABC-type thiamine transport system, ATPase component ThiQ [Coenzyme transport and metabolism];
98-127 2.55e-03

ABC-type thiamine transport system, ATPase component ThiQ [Coenzyme transport and metabolism];


Pssm-ID: 443051 [Multi-domain]  Cd Length: 232  Bit Score: 40.12  E-value: 2.55e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 513179375  98 IGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:COG3840   28 VAILGPSGAGKSTLLNLIAG--FLPPDSGR 55
ABC_DR_subfamily_A cd03230
ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily ...
 98-127 3.46e-03

ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; This family of ATP-binding proteins belongs to a multi-subunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryotic systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213197 [Multi-domain]  Cd Length: 173  Bit Score: 38.92  E-value: 3.46e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 513179375  98 IGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:cd03230   29 YGLLGPNGAGKTTLIKIILG--LLKPDSGE 56
MMR_HSR1 pfam01926
50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete ...
 98-119 3.90e-03

50S ribosome-binding GTPase; The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide.


Pssm-ID: 460387 [Multi-domain]  Cd Length: 113  Bit Score: 37.60  E-value: 3.90e-03
                          10        20
                  ....*....|....*....|..
gi 513179375   98 IGLFGSSGAGKSTLLNTILGKR 119
Cdd:pfam01926   2 VALVGRPNVGKSTLINALTGAK 23
CydD TIGR02857
thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family ...
 88-127 5.78e-03

thiol reductant ABC exporter, CydD subunit; The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD


Pssm-ID: 274323 [Multi-domain]  Cd Length: 529  Bit Score: 39.96  E-value: 5.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 513179375   88 DSRPALEPL--------YIGLFGSSGAGKSTLLNTILGkrFFLPVSGT 127
Cdd:TIGR02857 333 GRRPALRPVsftvppgeRVALVGPSGAGKSTLLNLLLG--FVDPTEGS 378
MdlB COG1132
ABC-type multidrug transport system, ATPase and permease component [Defense mechanisms];
98-127 5.88e-03

ABC-type multidrug transport system, ATPase and permease component [Defense mechanisms];


Pssm-ID: 440747 [Multi-domain]  Cd Length: 579  Bit Score: 40.15  E-value: 5.88e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 513179375  98 IGLFGSSGAGKSTLLNTILgkRFFLPVSGT 127
Cdd:COG1132  369 VALVGPSGSGKSTLVNLLL--RFYDPTSGR 396
ABCC_MRP_Like cd03228
ATP-binding cassette domain of multidrug resistance protein-like transporters; The MRP ...
 98-127 6.26e-03

ATP-binding cassette domain of multidrug resistance protein-like transporters; The MRP (Multidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213195 [Multi-domain]  Cd Length: 171  Bit Score: 38.13  E-value: 6.26e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 513179375  98 IGLFGSSGAGKSTLLNTILgkRFFLPVSGT 127
Cdd:cd03228   31 VAIVGPSGSGKSTLLKLLL--RLYDPTSGE 58
PhnK COG1101
ABC-type uncharacterized transport system, ATPase component [General function prediction only]; ...
 102-127 6.69e-03

ABC-type uncharacterized transport system, ATPase component [General function prediction only];


Pssm-ID: 440718 [Multi-domain]  Cd Length: 264  Bit Score: 38.91  E-value: 6.69e-03
                         10        20
                 ....*....|....*....|....*.
gi 513179375 102 GSSGAGKSTLLNTILGKrfFLPVSGT 127
Cdd:COG1101   39 GSNGAGKSTLLNAIAGS--LPPDSGS 62
ABC_Metallic_Cations cd03235
ATP-binding cassette domain of the metal-type transporters; This family includes transporters ...
 86-128 6.88e-03

ATP-binding cassette domain of the metal-type transporters; This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.


Pssm-ID: 213202 [Multi-domain]  Cd Length: 213  Bit Score: 38.67  E-value: 6.88e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 513179375  86 TLDSRPALEPL--------YIGLFGSSGAGKSTLLNTILG---------KRFFLPVSGTR 128
Cdd:cd03235    8 SYGGHPVLEDVsfevkpgeFLAIVGPNGAGKSTLLKAILGllkptsgsiRVFGKPLEKER 67
 
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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