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Conserved domains on  [gi|1622959258|ref|XP_015000291|]
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macrophage scavenger receptor types I and II isoform X1 [Macaca mulatta]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SR smart00202
Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR ...
 350-450 1.54e-48

Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR domains that contain 6 conserved cysteines. May bind bacterial antigens in the protein MARCO.


:

Pssm-ID: 214555 [Multi-domain]  Cd Length: 101  Bit Score: 161.36  E-value: 1.54e-48
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  350 VRLVGGSGPHEGRVEILHSGQWGTICDDRWEVRVGQVICRSLGYPGVQAVHKAAHFGQGTGPIWLNEVYCFGRESSIEEC 429
Cdd:smart00202   1 VRLVGGGSPCEGRVEVYHNGQWGTVCDDGWDLRDANVVCRQLGFGGAVSASGSAYFGPGSGPIWLDNVRCSGTEASLSDC 80

                           90       100
                   ....*....|....*....|.
gi 1622959258  430 KIRQWGTRTCSHSEDAGVTCT 450
Cdd:smart00202  81 PHSGWGSHNCSHGEDAGVVCS 101
Macscav_rec pfam03523
Macrophage scavenger receptor;
121-169 1.83e-30

Macrophage scavenger receptor;


:

Pssm-ID: 460956  Cd Length: 49  Bit Score: 111.78  E-value: 1.83e-30
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1622959258 121 MEKRIQHISDMEANLIDAEHFQNFSMTTDQRFNDILLQLSTLFSSVQGH 169
Cdd:pfam03523   1 MEKRIQYISDSEANLIDSEHFQNFSMTTDQRFNDVLLQLNTLVSSVQEH 49
Collagen pfam01391
Collagen triple helix repeat (20 copies); Members of this family belong to the collagen ...
 280-334 7.55e-10

Collagen triple helix repeat (20 copies); Members of this family belong to the collagen superfamily. Collagens are generally extracellular structural proteins involved in formation of connective tissue structure. The alignment contains 20 copies of the G-X-Y repeat that forms a triple helix. The first position of the repeat is glycine, the second and third positions can be any residue but are frequently proline and hydroxy-proline. Collagens are post translationally modified by proline hydroxylase to form the hydroxy-proline residues. Defective hydroxylation is the cause of scurvy. Some members of the collagen superfamily are not involved in connective tissue structure but share the same triple helical structure. The family includes bacterial collagen-like triple-helix repeat proteins.


:

Pssm-ID: 460189 [Multi-domain]  Cd Length: 57  Bit Score: 54.42  E-value: 7.55e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 280 EKGDRGPTGEsgprgfpgpVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQ 334
Cdd:pfam01391  11 PPGPPGPPGP---------PGPPGPPGPPGEPGPPGPPGPPGPPGPPGAPGAPGP 56
gly_rich_SclB super family cl45768
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 200-339 1.40e-05

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


The actual alignment was detected with superfamily member NF038329:

Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 47.21  E-value: 1.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 200 KIQEKTFKQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIKGE---VKVLNNITNDLRLkDWEHSQtlrnitliQGPPG 276
Cdd:NF038329   56 TQQRKLQELREAFPRLEEIYKSTPLDDTTVNKIYKYLEERDKKLnsyLEELDEGLQQLKG-DGEKGE--------PGPAG 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1622959258 277 P------PGEKGDRGPTGESGPRGFPGPVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  127 PagpageQGPRGDRGETGPAGPAGPPGPQGERGEKGPAGPQGEAGPQGPAGKDGEAGAKGPAGEKGPQG 195
 
Name Accession Description Interval E-value
SR smart00202
Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR ...
 350-450 1.54e-48

Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR domains that contain 6 conserved cysteines. May bind bacterial antigens in the protein MARCO.


Pssm-ID: 214555 [Multi-domain]  Cd Length: 101  Bit Score: 161.36  E-value: 1.54e-48
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  350 VRLVGGSGPHEGRVEILHSGQWGTICDDRWEVRVGQVICRSLGYPGVQAVHKAAHFGQGTGPIWLNEVYCFGRESSIEEC 429
Cdd:smart00202   1 VRLVGGGSPCEGRVEVYHNGQWGTVCDDGWDLRDANVVCRQLGFGGAVSASGSAYFGPGSGPIWLDNVRCSGTEASLSDC 80

                           90       100
                   ....*....|....*....|.
gi 1622959258  430 KIRQWGTRTCSHSEDAGVTCT 450
Cdd:smart00202  81 PHSGWGSHNCSHGEDAGVVCS 101
SRCR pfam00530
Scavenger receptor cysteine-rich domain; These domains are disulphide rich extracellular ...
 355-450 1.72e-42

Scavenger receptor cysteine-rich domain; These domains are disulphide rich extracellular domains. These domains are found in several extracellular receptors and may be involved in protein-protein interactions.


Pssm-ID: 459844  Cd Length: 98  Bit Score: 145.21  E-value: 1.72e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 355 GSGPHEGRVEILHSGQWGTICDDRWEVRVGQVICRSLGYP-GVQAVHKAAHFGQG-TGPIWLNEVYCFGRESSIEECKIR 432
Cdd:pfam00530   1 GSSPCEGRVEVYHNGSWGTVCDDGWDLRDAHVVCRQLGCGgAVSAPSGCSYFGPGsTGPIWLDDVRCSGNETSLWQCPHR 80

                          90
                  ....*....|....*...
gi 1622959258 433 QWGTRTCSHSEDAGVTCT 450
Cdd:pfam00530  81 PWGNHNCSHSEDAGVICS 98
Macscav_rec pfam03523
Macrophage scavenger receptor;
121-169 1.83e-30

Macrophage scavenger receptor;


Pssm-ID: 460956  Cd Length: 49  Bit Score: 111.78  E-value: 1.83e-30
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1622959258 121 MEKRIQHISDMEANLIDAEHFQNFSMTTDQRFNDILLQLSTLFSSVQGH 169
Cdd:pfam03523   1 MEKRIQYISDSEANLIDSEHFQNFSMTTDQRFNDVLLQLNTLVSSVQEH 49
Collagen pfam01391
Collagen triple helix repeat (20 copies); Members of this family belong to the collagen ...
 280-334 7.55e-10

Collagen triple helix repeat (20 copies); Members of this family belong to the collagen superfamily. Collagens are generally extracellular structural proteins involved in formation of connective tissue structure. The alignment contains 20 copies of the G-X-Y repeat that forms a triple helix. The first position of the repeat is glycine, the second and third positions can be any residue but are frequently proline and hydroxy-proline. Collagens are post translationally modified by proline hydroxylase to form the hydroxy-proline residues. Defective hydroxylation is the cause of scurvy. Some members of the collagen superfamily are not involved in connective tissue structure but share the same triple helical structure. The family includes bacterial collagen-like triple-helix repeat proteins.


Pssm-ID: 460189 [Multi-domain]  Cd Length: 57  Bit Score: 54.42  E-value: 7.55e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 280 EKGDRGPTGEsgprgfpgpVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQ 334
Cdd:pfam01391  11 PPGPPGPPGP---------PGPPGPPGPPGEPGPPGPPGPPGPPGPPGAPGAPGP 56
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 200-339 1.40e-05

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 47.21  E-value: 1.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 200 KIQEKTFKQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIKGE---VKVLNNITNDLRLkDWEHSQtlrnitliQGPPG 276
Cdd:NF038329   56 TQQRKLQELREAFPRLEEIYKSTPLDDTTVNKIYKYLEERDKKLnsyLEELDEGLQQLKG-DGEKGE--------PGPAG 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1622959258 277 P------PGEKGDRGPTGESGPRGFPGPVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  127 PagpageQGPRGDRGETGPAGPAGPPGPQGERGEKGPAGPQGEAGPQGPAGKDGEAGAKGPAGEKGPQG 195
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 278-339 3.30e-04

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 42.97  E-value: 3.30e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1622959258 278 PGEKGDRGPTGEsgprgfpgpvgppglKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  173 QGPAGKDGEAGA---------------KGPAGEKGPQGPRGETGPAGEQGPAGPAGPDGEAG 219
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 116-249 7.68e-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: 41.97  E-value: 7.68e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  116 EHMSNMEKRIQHISDMEANLIDA-EHFQNFSMTTDQRFNDILLQLSTLFSSVQGHGNTIDEISKSLISLNTTLLDLQLNI 194
Cdd:TIGR02168  852 EDIESLAAEIEELEELIEELESElEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRL 931

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622959258  195 EKLNGKIQEktfkQQEEISklEErvYNVSAE-IMAMKEEQVHLEQEIKGEVKVLNN 249
Cdd:TIGR02168  932 EGLEVRIDN----LQERLS--EE--YSLTLEeAEALENKIEDDEEEARRRLKRLEN 979
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 171-241 1.43e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 40.58  E-value: 1.43e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622959258 171 NTIDEISKSLISLNTTLLDLQLNIEKLNGKIQEKtfkqQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIK 241
Cdd:COG3883    23 KELSELQAELEAAQAELDALQAELEELNEEYNEL----QAELEALQAEIDKLQAEIAEAEAEIEERREELG 89
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 279-339 1.70e-03

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 40.66  E-value: 1.70e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622959258 279 GEKGDRGPTGESGPRGFPgpvgppglkGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  260 GPRGDRGEAGPDGPDGKD---------GERGPVGPAGKDGQNGKDGLPGKDGKDGQNGKDG 311
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 280-339 1.84e-03

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 40.66  E-value: 1.84e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 280 EKGDRGPTGESGPRGFpgpvgppglKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  246 EDGPQGPDGPAGKDGP---------RGDRGEAGPDGPDGKDGERGPVGPAGKDGQNGKDG 296
DUF16 pfam01519
Protein of unknown function DUF16; The function of this protein is unknown. It appears to only ...
 200-254 7.58e-03

Protein of unknown function DUF16; The function of this protein is unknown. It appears to only occur in Mycoplasma pneumoniae. The crystal structure revealed that this domain is composed of two separated homotrimeric coiled-coils.


Pssm-ID: 396208 [Multi-domain]  Cd Length: 95  Bit Score: 35.96  E-value: 7.58e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 200 KIQEKTFKQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIKGEVKVLNNITNDL 254
Cdd:pfam01519  29 KIETKVDKLGEQINKLEQKVDKQGEQIKELQVEQKAQGEQINAVGETLQLILETL 83
 
Name Accession Description Interval E-value
SR smart00202
Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR ...
 350-450 1.54e-48

Scavenger receptor Cys-rich; The sea urchin egg peptide speract contains 4 repeats of SR domains that contain 6 conserved cysteines. May bind bacterial antigens in the protein MARCO.


Pssm-ID: 214555 [Multi-domain]  Cd Length: 101  Bit Score: 161.36  E-value: 1.54e-48
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  350 VRLVGGSGPHEGRVEILHSGQWGTICDDRWEVRVGQVICRSLGYPGVQAVHKAAHFGQGTGPIWLNEVYCFGRESSIEEC 429
Cdd:smart00202   1 VRLVGGGSPCEGRVEVYHNGQWGTVCDDGWDLRDANVVCRQLGFGGAVSASGSAYFGPGSGPIWLDNVRCSGTEASLSDC 80

                           90       100
                   ....*....|....*....|.
gi 1622959258  430 KIRQWGTRTCSHSEDAGVTCT 450
Cdd:smart00202  81 PHSGWGSHNCSHGEDAGVVCS 101
SRCR pfam00530
Scavenger receptor cysteine-rich domain; These domains are disulphide rich extracellular ...
 355-450 1.72e-42

Scavenger receptor cysteine-rich domain; These domains are disulphide rich extracellular domains. These domains are found in several extracellular receptors and may be involved in protein-protein interactions.


Pssm-ID: 459844  Cd Length: 98  Bit Score: 145.21  E-value: 1.72e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 355 GSGPHEGRVEILHSGQWGTICDDRWEVRVGQVICRSLGYP-GVQAVHKAAHFGQG-TGPIWLNEVYCFGRESSIEECKIR 432
Cdd:pfam00530   1 GSSPCEGRVEVYHNGSWGTVCDDGWDLRDAHVVCRQLGCGgAVSAPSGCSYFGPGsTGPIWLDDVRCSGNETSLWQCPHR 80

                          90
                  ....*....|....*...
gi 1622959258 433 QWGTRTCSHSEDAGVTCT 450
Cdd:pfam00530  81 PWGNHNCSHSEDAGVICS 98
Macscav_rec pfam03523
Macrophage scavenger receptor;
121-169 1.83e-30

Macrophage scavenger receptor;


Pssm-ID: 460956  Cd Length: 49  Bit Score: 111.78  E-value: 1.83e-30
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1622959258 121 MEKRIQHISDMEANLIDAEHFQNFSMTTDQRFNDILLQLSTLFSSVQGH 169
Cdd:pfam03523   1 MEKRIQYISDSEANLIDSEHFQNFSMTTDQRFNDVLLQLNTLVSSVQEH 49
Collagen pfam01391
Collagen triple helix repeat (20 copies); Members of this family belong to the collagen ...
 280-334 7.55e-10

Collagen triple helix repeat (20 copies); Members of this family belong to the collagen superfamily. Collagens are generally extracellular structural proteins involved in formation of connective tissue structure. The alignment contains 20 copies of the G-X-Y repeat that forms a triple helix. The first position of the repeat is glycine, the second and third positions can be any residue but are frequently proline and hydroxy-proline. Collagens are post translationally modified by proline hydroxylase to form the hydroxy-proline residues. Defective hydroxylation is the cause of scurvy. Some members of the collagen superfamily are not involved in connective tissue structure but share the same triple helical structure. The family includes bacterial collagen-like triple-helix repeat proteins.


Pssm-ID: 460189 [Multi-domain]  Cd Length: 57  Bit Score: 54.42  E-value: 7.55e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 280 EKGDRGPTGEsgprgfpgpVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQ 334
Cdd:pfam01391  11 PPGPPGPPGP---------PGPPGPPGPPGEPGPPGPPGPPGPPGPPGAPGAPGP 56
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 200-339 1.40e-05

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 47.21  E-value: 1.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 200 KIQEKTFKQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIKGE---VKVLNNITNDLRLkDWEHSQtlrnitliQGPPG 276
Cdd:NF038329   56 TQQRKLQELREAFPRLEEIYKSTPLDDTTVNKIYKYLEERDKKLnsyLEELDEGLQQLKG-DGEKGE--------PGPAG 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1622959258 277 P------PGEKGDRGPTGESGPRGFPGPVGPPGLKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  127 PagpageQGPRGDRGETGPAGPAGPPGPQGERGEKGPAGPQGEAGPQGPAGKDGEAGAKGPAGEKGPQG 195
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 278-339 3.30e-04

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 42.97  E-value: 3.30e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1622959258 278 PGEKGDRGPTGEsgprgfpgpvgppglKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  173 QGPAGKDGEAGA---------------KGPAGEKGPQGPRGETGPAGEQGPAGPAGPDGEAG 219
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 116-249 7.68e-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: 41.97  E-value: 7.68e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  116 EHMSNMEKRIQHISDMEANLIDA-EHFQNFSMTTDQRFNDILLQLSTLFSSVQGHGNTIDEISKSLISLNTTLLDLQLNI 194
Cdd:TIGR02168  852 EDIESLAAEIEELEELIEELESElEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRL 931

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622959258  195 EKLNGKIQEktfkQQEEISklEErvYNVSAE-IMAMKEEQVHLEQEIKGEVKVLNN 249
Cdd:TIGR02168  932 EGLEVRIDN----LQERLS--EE--YSLTLEeAEALENKIEDDEEEARRRLKRLEN 979
Collagen pfam01391
Collagen triple helix repeat (20 copies); Members of this family belong to the collagen ...
 285-339 8.39e-04

Collagen triple helix repeat (20 copies); Members of this family belong to the collagen superfamily. Collagens are generally extracellular structural proteins involved in formation of connective tissue structure. The alignment contains 20 copies of the G-X-Y repeat that forms a triple helix. The first position of the repeat is glycine, the second and third positions can be any residue but are frequently proline and hydroxy-proline. Collagens are post translationally modified by proline hydroxylase to form the hydroxy-proline residues. Defective hydroxylation is the cause of scurvy. Some members of the collagen superfamily are not involved in connective tissue structure but share the same triple helical structure. The family includes bacterial collagen-like triple-helix repeat proteins.


Pssm-ID: 460189 [Multi-domain]  Cd Length: 57  Bit Score: 37.47  E-value: 8.39e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 285 GPTGESgprgfpgpvgppglkGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:pfam01391   1 GPPGPP---------------GPPGPPGPPGPPGPPGPPGPPGPPGEPGPPGPPG 40
CwlO1 COG3883
Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function ...
 171-241 1.43e-03

Uncharacterized N-terminal coiled-coil domain of peptidoglycan hydrolase CwlO [Function unknown];


Pssm-ID: 443091 [Multi-domain]  Cd Length: 379  Bit Score: 40.58  E-value: 1.43e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622959258 171 NTIDEISKSLISLNTTLLDLQLNIEKLNGKIQEKtfkqQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIK 241
Cdd:COG3883    23 KELSELQAELEAAQAELDALQAELEELNEEYNEL----QAELEALQAEIDKLQAEIAEAEAEIEERREELG 89
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 105-240 1.68e-03

chromosome segregation protein SMC, primarily archaeal 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. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 40.82  E-value: 1.68e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258  105 EVETRFKEVFMEHMSNMEKriqhisdmeanLIDAEHFQNFSMTTDQRFNDILLQLStlfSSVQGHGNTIDEISKSLISLN 184
Cdd:TIGR02169  375 EVDKEFAETRDELKDYREK-----------LEKLKREINELKRELDRLQEELQRLS---EELADLNAAIAGIEAKINELE 440

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622959258  185 TTLLDLQLNIEKLNGKIQEktfkQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEI 240
Cdd:TIGR02169  441 EEKEDKALEIKKQEWKLEQ----LAADLSKYEQELYDLKEEYDRVEKELSKLQREL 492
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 279-339 1.70e-03

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 40.66  E-value: 1.70e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622959258 279 GEKGDRGPTGESGPRGFPgpvgppglkGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  260 GPRGDRGEAGPDGPDGKD---------GERGPVGPAGKDGQNGKDGLPGKDGKDGQNGKDG 311
gly_rich_SclB NF038329
LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like ...
 280-339 1.84e-03

LPXTG-anchored collagen-like adhesin Scl2/SclB; SclB (or Scl2 - streptococcal collagen-like protein 2) is an LPXTG-anchored surface-anchored adhesin with a variable-length region of triple helix-forming collagen-like Gly-Xaa-Xaa repeats.


Pssm-ID: 468478 [Multi-domain]  Cd Length: 440  Bit Score: 40.66  E-value: 1.84e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622959258 280 EKGDRGPTGESGPRGFpgpvgppglKGDRGAIGFPGSRGLPGYAGRPGNSGPKGQKGEKG 339
Cdd:NF038329  246 EDGPQGPDGPAGKDGP---------RGDRGEAGPDGPDGKDGERGPVGPAGKDGQNGKDG 296
SRCR_2 pfam15494
Scavenger receptor cysteine-rich domain; SRCR_2 is a scavenger receptor cysteine-rich domain ...
 362-393 5.77e-03

Scavenger receptor cysteine-rich domain; SRCR_2 is a scavenger receptor cysteine-rich domain family found largely on vertebrate sequences up-stream of the trypsin-like transmembrane serine protease, Spinesin.


Pssm-ID: 464747  Cd Length: 99  Bit Score: 36.15  E-value: 5.77e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1622959258 362 RVEILHSGQWGTICDDRWEVRVGQVICRSLGY 393
Cdd:pfam15494   7 QVYSSARPSWLPVCSDDWNPAYGRAACQQLGY 38
DUF16 pfam01519
Protein of unknown function DUF16; The function of this protein is unknown. It appears to only ...
 200-254 7.58e-03

Protein of unknown function DUF16; The function of this protein is unknown. It appears to only occur in Mycoplasma pneumoniae. The crystal structure revealed that this domain is composed of two separated homotrimeric coiled-coils.


Pssm-ID: 396208 [Multi-domain]  Cd Length: 95  Bit Score: 35.96  E-value: 7.58e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1622959258 200 KIQEKTFKQQEEISKLEERVYNVSAEIMAMKEEQVHLEQEIKGEVKVLNNITNDL 254
Cdd:pfam01519  29 KIETKVDKLGEQINKLEQKVDKQGEQIKELQVEQKAQGEQINAVGETLQLILETL 83
 
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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