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Conserved domains on  [gi|327478528|sp|P60954|]
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RecName: Full=Nucleolar protein 4

Protein Classification

integrase zinc binding domain-containing protein( domain architecture ID 16053682)

integrase zinc binding domain-containing protein;

Gene Ontology:  GO:0008270
PubMed:  11774877|20118915

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Integrase_H2C2 pfam17921
Integrase zinc binding domain; This zinc binding domain is found in a wide variety of ...
 110-164 9.17e-05

Integrase zinc binding domain; This zinc binding domain is found in a wide variety of integrase proteins.


:

Pssm-ID: 465569 [Multi-domain]  Cd Length: 58  Bit Score: 40.31  E-value: 9.17e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 327478528  110 DIIYSMHVETGpngeqirkHAGQKRTYKAISESYaFLP--REAVTRFLMSCSECQKR 164
Cdd:pfam17921   8 EILKEAHDSGG--------HLGIEKTLARLRRRY-WWPgmRKDVKKYVKSCETCQRR 55
MSCRAMM_ClfA super family cl41352
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 208-369 2.54e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


The actual alignment was detected with superfamily member NF033609:

Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.66  E-value: 2.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 208 NSQQDEDESSiESDEFDMSDSTRMSAVNSDLSSNLEERMQSPQTVHGQQDDDSAAESSNGNETLGHSSAASGGAHGREPE 287
Cdd:NF033609 715 DSDSDSDSDS-DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 793

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 288 -DSSSDGKTGLEQEEQPLNLSDSPSSAQLTSEfriDDQGSDGKNKYKNLLISDLKMEREArENGSKSPAHSYSSYDSGKN 366
Cdd:NF033609 794 sDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD---SDSDSDSDSDSDSDSDSDSDSDSDS-DSDSDSESDSNSDSESGSN 869


                 ...
gi 327478528 367 ESV 369
Cdd:NF033609 870 NNV 872
 
Name Accession Description Interval E-value
Integrase_H2C2 pfam17921
Integrase zinc binding domain; This zinc binding domain is found in a wide variety of ...
 110-164 9.17e-05

Integrase zinc binding domain; This zinc binding domain is found in a wide variety of integrase proteins.


Pssm-ID: 465569 [Multi-domain]  Cd Length: 58  Bit Score: 40.31  E-value: 9.17e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 327478528  110 DIIYSMHVETGpngeqirkHAGQKRTYKAISESYaFLP--REAVTRFLMSCSECQKR 164
Cdd:pfam17921   8 EILKEAHDSGG--------HLGIEKTLARLRRRY-WWPgmRKDVKKYVKSCETCQRR 55
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 208-369 2.54e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.66  E-value: 2.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 208 NSQQDEDESSiESDEFDMSDSTRMSAVNSDLSSNLEERMQSPQTVHGQQDDDSAAESSNGNETLGHSSAASGGAHGREPE 287
Cdd:NF033609 715 DSDSDSDSDS-DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 793

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 288 -DSSSDGKTGLEQEEQPLNLSDSPSSAQLTSEfriDDQGSDGKNKYKNLLISDLKMEREArENGSKSPAHSYSSYDSGKN 366
Cdd:NF033609 794 sDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD---SDSDSDSDSDSDSDSDSDSDSDSDS-DSDSDSESDSNSDSESGSN 869


                 ...
gi 327478528 367 ESV 369
Cdd:NF033609 870 NNV 872
 
Name Accession Description Interval E-value
Integrase_H2C2 pfam17921
Integrase zinc binding domain; This zinc binding domain is found in a wide variety of ...
 110-164 9.17e-05

Integrase zinc binding domain; This zinc binding domain is found in a wide variety of integrase proteins.


Pssm-ID: 465569 [Multi-domain]  Cd Length: 58  Bit Score: 40.31  E-value: 9.17e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 327478528  110 DIIYSMHVETGpngeqirkHAGQKRTYKAISESYaFLP--REAVTRFLMSCSECQKR 164
Cdd:pfam17921   8 EILKEAHDSGG--------HLGIEKTLARLRRRY-WWPgmRKDVKKYVKSCETCQRR 55
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 208-369 2.54e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.66  E-value: 2.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 208 NSQQDEDESSiESDEFDMSDSTRMSAVNSDLSSNLEERMQSPQTVHGQQDDDSAAESSNGNETLGHSSAASGGAHGREPE 287
Cdd:NF033609 715 DSDSDSDSDS-DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 793

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 327478528 288 -DSSSDGKTGLEQEEQPLNLSDSPSSAQLTSEfriDDQGSDGKNKYKNLLISDLKMEREArENGSKSPAHSYSSYDSGKN 366
Cdd:NF033609 794 sDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD---SDSDSDSDSDSDSDSDSDSDSDSDS-DSDSDSESDSNSDSESGSN 869


                 ...
gi 327478528 367 ESV 369
Cdd:NF033609 870 NNV 872
 
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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