NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1500006758|gb|RMW13636|]
View 

hypothetical protein ALO99_04009 [Pseudomonas coronafaciens pv. porri]

Protein Classification

DUF3830 family protein( domain architecture ID 1907350)

DUF3830 family protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Cyclophil_like super family cl42004
Cyclophilin-like; This domain has a cyclophilin-like fold, consisting of an eight-stranded ...
 4-141 2.80e-34

Cyclophilin-like; This domain has a cyclophilin-like fold, consisting of an eight-stranded beta-barrel with an alpha helix located between the beta-2 and beta-3 strands and a 310 helix located between the beta-7 and beta-8 strands. The catalytic site found in human cyclophilin is not conserved in this domain, suggesting a different function for this domain.


The actual alignment was detected with superfamily member pfam12903:

Pssm-ID: 477900  Cd Length: 144  Bit Score: 116.31  E-value: 2.80e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEANPD-APQTVEAFLKLLPYRQKFIHVRWSGEGCWVPLDDYQLklddKLIGFENATSHPSVGDILFY- 81
Cdd:pfam12903   1 ITLDKRGVTCTARLLDDkAPRTCAAVWEALPLSGDAMHAKYAGNEIYTLLPEFAA----PEPPRENHTVTPIPGDVLLFy 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1500006758  82 --------PGGYSETEIILAYGSCCFASKMGQLAGNHFLTITHGKENLRKLGVKTLWEGAQDVVFELA 141
Cdd:pfam12903  77 fsggdlgnPGYGYELAIFYGRGNLLFNGDAGWVPGNVFATIVEGLDEMAEACRDIWREGAKGETLSFS 144
 
Name Accession Description Interval E-value
DUF3830 pfam12903
Protein of unknown function (DUF3830); This is a family of bacterial and archaeal proteins, ...
 4-141 2.80e-34

Protein of unknown function (DUF3830); This is a family of bacterial and archaeal proteins, the structure for one of whose members has been characterized. PDB:3kop from Swiss:A0JVT3 probably adopts a new hexameric form compared to previous structures. The putative active is near the domain interface. 3kop is most closely related, structurally to PDB:1zx8, where the potential active site is located near residues E51 and Y53 (conserved in 1zx8). Beyond the two residues above, the other residues are not conserved. Also the shape of the active site differs from that of 1zx8. PDB:1zx8 belongs to family DUF369. pfam04126, which is part of the cyclophilin-like clan.


Pssm-ID: 432866  Cd Length: 144  Bit Score: 116.31  E-value: 2.80e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEANPD-APQTVEAFLKLLPYRQKFIHVRWSGEGCWVPLDDYQLklddKLIGFENATSHPSVGDILFY- 81
Cdd:pfam12903   1 ITLDKRGVTCTARLLDDkAPRTCAAVWEALPLSGDAMHAKYAGNEIYTLLPEFAA----PEPPRENHTVTPIPGDVLLFy 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1500006758  82 --------PGGYSETEIILAYGSCCFASKMGQLAGNHFLTITHGKENLRKLGVKTLWEGAQDVVFELA 141
Cdd:pfam12903  77 fsggdlgnPGYGYELAIFYGRGNLLFNGDAGWVPGNVFATIVEGLDEMAEACRDIWREGAKGETLSFS 144
COG2164 COG2164
Uncharacterized protein with cyclophilin fold, contains DUF369 domain [General function ...
 4-84 3.51e-03

Uncharacterized protein with cyclophilin fold, contains DUF369 domain [General function prediction only];


Pssm-ID: 441767  Cd Length: 122  Bit Score: 35.25  E-value: 3.51e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEAnpDAPQTVEAFLKLLPYRQKFihVRWSGE-GCWVPLDdyqLKLDdkligfENATSHPSVGDILFYP 82
Cdd:COG2164     3 IRITIGDVELEAEL--DDTPTARAIWDALPFESTA--NRWGDEiYFEIPVD---VPLE------ENAREVVEVGDIAYWP 69


                  ..
gi 1500006758  83 GG 84
Cdd:COG2164    70 PG 71
 
Name Accession Description Interval E-value
DUF3830 pfam12903
Protein of unknown function (DUF3830); This is a family of bacterial and archaeal proteins, ...
 4-141 2.80e-34

Protein of unknown function (DUF3830); This is a family of bacterial and archaeal proteins, the structure for one of whose members has been characterized. PDB:3kop from Swiss:A0JVT3 probably adopts a new hexameric form compared to previous structures. The putative active is near the domain interface. 3kop is most closely related, structurally to PDB:1zx8, where the potential active site is located near residues E51 and Y53 (conserved in 1zx8). Beyond the two residues above, the other residues are not conserved. Also the shape of the active site differs from that of 1zx8. PDB:1zx8 belongs to family DUF369. pfam04126, which is part of the cyclophilin-like clan.


Pssm-ID: 432866  Cd Length: 144  Bit Score: 116.31  E-value: 2.80e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEANPD-APQTVEAFLKLLPYRQKFIHVRWSGEGCWVPLDDYQLklddKLIGFENATSHPSVGDILFY- 81
Cdd:pfam12903   1 ITLDKRGVTCTARLLDDkAPRTCAAVWEALPLSGDAMHAKYAGNEIYTLLPEFAA----PEPPRENHTVTPIPGDVLLFy 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1500006758  82 --------PGGYSETEIILAYGSCCFASKMGQLAGNHFLTITHGKENLRKLGVKTLWEGAQDVVFELA 141
Cdd:pfam12903  77 fsggdlgnPGYGYELAIFYGRGNLLFNGDAGWVPGNVFATIVEGLDEMAEACRDIWREGAKGETLSFS 144
Cyclophil_like pfam04126
Cyclophilin-like; This domain has a cyclophilin-like fold, consisting of an eight-stranded ...
 4-124 2.43e-03

Cyclophilin-like; This domain has a cyclophilin-like fold, consisting of an eight-stranded beta-barrel with an alpha helix located between the beta-2 and beta-3 strands and a 310 helix located between the beta-7 and beta-8 strands. The catalytic site found in human cyclophilin is not conserved in this domain, suggesting a different function for this domain.


Pssm-ID: 309308  Cd Length: 119  Bit Score: 35.41  E-value: 2.43e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEAnpDAPQTVEAFLKLLPYRQKFihVRWSGEGCW-VPLDdyqLKLDdkligfENATSHPSVGDILFYP 82
Cdd:pfam04126   3 IRIDFGSGELEAEL--DDTETARAIVAALPIESRA--NTWGDEIYFsTPVD---LGLE------ENAREVVEAGDIAYWP 69

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1500006758  83 GGYSeteIILAYGSCCFASKMGQLAG--NHFLTITHGKENLRKL 124
Cdd:pfam04126  70 PGKA---LCIFFGPTPMSGDEIRPASpvNVIGRIVGDLERLKSV 110
COG2164 COG2164
Uncharacterized protein with cyclophilin fold, contains DUF369 domain [General function ...
 4-84 3.51e-03

Uncharacterized protein with cyclophilin fold, contains DUF369 domain [General function prediction only];


Pssm-ID: 441767  Cd Length: 122  Bit Score: 35.25  E-value: 3.51e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1500006758   4 IRITAGGYEFLAEAnpDAPQTVEAFLKLLPYRQKFihVRWSGE-GCWVPLDdyqLKLDdkligfENATSHPSVGDILFYP 82
Cdd:COG2164     3 IRITIGDVELEAEL--DDTPTARAIWDALPFESTA--NRWGDEiYFEIPVD---VPLE------ENAREVVEVGDIAYWP 69


                  ..
gi 1500006758  83 GG 84
Cdd:COG2164    70 PG 71
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH