NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|538916893|ref|NP_001269283|]
View 

integrin beta-6 isoform b precursor [Homo sapiens]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
vWFA super family cl00057
Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation ...
 21-359 0e+00

Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.


The actual alignment was detected with superfamily member smart00187:

Pssm-ID: 469594 [Multi-domain]  Cd Length: 423  Bit Score: 576.96  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893    21 GGAQTLQVHVRQTEDYPVDLYYLMDLSASMDDDLNTIKELGSRLSKEMSKLTSNFRLGFGSFVEKPVSPFVKTTPEEIAN 100
Cdd:smart00187  83 GEPQNFTLTVRQAEDYPVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTHPEKLEN 162

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   101 PCSSIPYFCLPTFGFKHILPLTNDAERFNEIVKNQKISANIDTPEGGFDAIMQAAVCKEKIGWRNDSLHLLVFVSDADSH 180
Cdd:smart00187 163 PCPNYNKTCEPPYGFKHVLSLTDDTDEFNEEVGKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFH 242

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   181 FGMDSKLAGIVIPNDGLCHLDSKNEYSMSTVLEYPTIGQLIDKLVQNNVLLIFAVTQEQVHLYENYAKLIPGATVGLLQK 260
Cdd:smart00187 243 FAGDGKLGGIVTPNDGQCHLDNNGEYTMSTTQDYPSIGQLAQKLAENNINPIFAVTKKQVSLYKELSALIPGSSVGELSE 322

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   261 DSGNILQLIISAYEELRSEVELEVLGDTEGLNLSFTAICNNGTLFQHQKKCSHMKVGDTASFSVTVNIPHC--ERRSRHI 338
Cdd:smart00187 323 DSSNVVELIKDAYNKISSRVELEDNALPEGVSVTYTSSCPGGVTGPGTRKCEGVKIGDTVSFEVTVTATKCppEDQEQSI 402

                          330       340
                   ....*....|....*....|.
gi 538916893   339 IIKPVGLGDALELLVSPECNC 359
Cdd:smart00187 403 RIRPVGFSETLEVEVTFLCDC 423
Integrin_B_tail pfam07965
Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are ...
 529-611 2.66e-20

Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are receptors which are involved in cell-cell and cell-extracellular matrix interactions.


:

Pssm-ID: 462325  Cd Length: 84  Bit Score: 85.79  E-value: 2.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  529 CNSKRSCIECHLSAAGQ-AREECVDKCKLAGATISEEEDFSKDGSVSCSLQGENECLITFLITTDNEGKTIIHSINEKDC 607
Cdd:pfam07965   1 CEEKKSCVECQAFKTGPlKEKNCSRNCKFEIILVEVLKEDEEPGAVLCSFKDEDDCWFTFTYYEDESGKYVVHVQKEREC 80


                  ....
gi 538916893  608 PKPP 611
Cdd:pfam07965  81 PPGP 84
Integrin_b_cyt pfam08725
Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which ...
 639-679 1.01e-17

Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which function as extracellular matrix receptors and in cell adhesion. Integrins are ubiquitously expressed and are heterodimeric, each composed of an alpha and beta subunit. Several variations of the the alpha and beta subunits exist, and association of different alpha and beta subunits can have different a different binding specificity. This domain corresponds to the cytoplasmic domain of the beta subunit.


:

Pssm-ID: 462580  Cd Length: 41  Bit Score: 76.83  E-value: 1.01e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 538916893  639 VSFHDRKEVAKFEAERSKAKWQTGTNPLYRGSTSTFKNVTY 679
Cdd:pfam08725   1 TTIHDRREYAKFEKERKNAKWTTGENPLYKSATTTFENPTY 41
I-EGF_1 pfam18372
Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in ...
 361-390 4.57e-08

Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in several integrin betas such as integrin beta 1-7. Structural analysis reveal an epidermal growth factor-like (I-EGF) domains 1 and 2. EGF1 lacks one disulfide (C2-C4) relative to the integrin EGF 2, 3, and 4 domains, this allows the C-terminal end of EGF1 to flex remarkably relative to its N-terminal end.


:

Pssm-ID: 465729  Cd Length: 29  Bit Score: 49.03  E-value: 4.57e-08
                          10        20        30
                  ....*....|....*....|....*....|
gi 538916893  361 CQKEVEVNSSKCHhGNGSFQCGVCACHPGH 390
Cdd:pfam18372   1 CEKQAEPNSPRCS-GNGTFVCGVCVCNPGY 29
 
Name Accession Description Interval E-value
INB smart00187
Integrin beta subunits (N-terminal portion of extracellular region); Portion of beta integrins ...
 21-359 0e+00

Integrin beta subunits (N-terminal portion of extracellular region); Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).


Pssm-ID: 197563 [Multi-domain]  Cd Length: 423  Bit Score: 576.96  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893    21 GGAQTLQVHVRQTEDYPVDLYYLMDLSASMDDDLNTIKELGSRLSKEMSKLTSNFRLGFGSFVEKPVSPFVKTTPEEIAN 100
Cdd:smart00187  83 GEPQNFTLTVRQAEDYPVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTHPEKLEN 162

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   101 PCSSIPYFCLPTFGFKHILPLTNDAERFNEIVKNQKISANIDTPEGGFDAIMQAAVCKEKIGWRNDSLHLLVFVSDADSH 180
Cdd:smart00187 163 PCPNYNKTCEPPYGFKHVLSLTDDTDEFNEEVGKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFH 242

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   181 FGMDSKLAGIVIPNDGLCHLDSKNEYSMSTVLEYPTIGQLIDKLVQNNVLLIFAVTQEQVHLYENYAKLIPGATVGLLQK 260
Cdd:smart00187 243 FAGDGKLGGIVTPNDGQCHLDNNGEYTMSTTQDYPSIGQLAQKLAENNINPIFAVTKKQVSLYKELSALIPGSSVGELSE 322

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   261 DSGNILQLIISAYEELRSEVELEVLGDTEGLNLSFTAICNNGTLFQHQKKCSHMKVGDTASFSVTVNIPHC--ERRSRHI 338
Cdd:smart00187 323 DSSNVVELIKDAYNKISSRVELEDNALPEGVSVTYTSSCPGGVTGPGTRKCEGVKIGDTVSFEVTVTATKCppEDQEQSI 402

                          330       340
                   ....*....|....*....|.
gi 538916893   339 IIKPVGLGDALELLVSPECNC 359
Cdd:smart00187 403 RIRPVGFSETLEVEVTFLCDC 423
Integrin_beta pfam00362
Integrin beta chain VWA domain; Integrins have been found in animals and their homologs have ...
 34-280 4.19e-168

Integrin beta chain VWA domain; Integrins have been found in animals and their homologs have also been found in cyanobacteria, probably due to horizontal gene transfer. This domain corresponds to the integrin beta VWA domain.


Pssm-ID: 459781  Cd Length: 248  Bit Score: 481.23  E-value: 4.19e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   34 EDYPVDLYYLMDLSASMDDDLNTIKELGSRLSKEMSKLTSNFRLGFGSFVEKPVSPFVKTTPEEIANPCSSIPYFCLPTF 113
Cdd:pfam00362   2 EDYPVDLYYLMDLSYSMKDDLDNLKKLGNDLAEEMRNITSNFRLGFGSFVDKPVMPYISTRPEKLKNPCPGENEQCDPPF 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  114 GFKHILPLTNDAERFNEIVKNQKISANIDTPEGGFDAIMQAAVCKEKIGWRNDSLHLLVFVSDADSHFGMDSKLAGIVIP 193
Cdd:pfam00362  82 GFRHVLSLTNDIEEFTEEVQKQRISGNLDAPEGGFDAIMQAAVCKDQIGWRNEARRLLVFSTDAGFHYAGDGKLAGIVTP 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  194 NDGLCHLDSKNEYSMSTVLEYPTIGQLIDKLVQNNVLLIFAVTQEQVHLYENYAKLIPGATVGLLQKDSGNILQLIISAY 273
Cdd:pfam00362 162 NDGQCHLDSNGEYTKSTEQDYPSLGQLVRKLSENNINPIFAVTEEQYSLYEKLSKLIPGSSVGVLSEDSSNIVQLIKEAY 241


                  ....*..
gi 538916893  274 EELRSEV 280
Cdd:pfam00362 242 EKIRSKV 248
Integrin_B_tail pfam07965
Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are ...
 529-611 2.66e-20

Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are receptors which are involved in cell-cell and cell-extracellular matrix interactions.


Pssm-ID: 462325  Cd Length: 84  Bit Score: 85.79  E-value: 2.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  529 CNSKRSCIECHLSAAGQ-AREECVDKCKLAGATISEEEDFSKDGSVSCSLQGENECLITFLITTDNEGKTIIHSINEKDC 607
Cdd:pfam07965   1 CEEKKSCVECQAFKTGPlKEKNCSRNCKFEIILVEVLKEDEEPGAVLCSFKDEDDCWFTFTYYEDESGKYVVHVQKEREC 80


                  ....
gi 538916893  608 PKPP 611
Cdd:pfam07965  81 PPGP 84
Integrin_b_cyt pfam08725
Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which ...
 639-679 1.01e-17

Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which function as extracellular matrix receptors and in cell adhesion. Integrins are ubiquitously expressed and are heterodimeric, each composed of an alpha and beta subunit. Several variations of the the alpha and beta subunits exist, and association of different alpha and beta subunits can have different a different binding specificity. This domain corresponds to the cytoplasmic domain of the beta subunit.


Pssm-ID: 462580  Cd Length: 41  Bit Score: 76.83  E-value: 1.01e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 538916893  639 VSFHDRKEVAKFEAERSKAKWQTGTNPLYRGSTSTFKNVTY 679
Cdd:pfam08725   1 TTIHDRREYAKFEKERKNAKWTTGENPLYKSATTTFENPTY 41
I-EGF_1 pfam18372
Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in ...
 361-390 4.57e-08

Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in several integrin betas such as integrin beta 1-7. Structural analysis reveal an epidermal growth factor-like (I-EGF) domains 1 and 2. EGF1 lacks one disulfide (C2-C4) relative to the integrin EGF 2, 3, and 4 domains, this allows the C-terminal end of EGF1 to flex remarkably relative to its N-terminal end.


Pssm-ID: 465729  Cd Length: 29  Bit Score: 49.03  E-value: 4.57e-08
                          10        20        30
                  ....*....|....*....|....*....|
gi 538916893  361 CQKEVEVNSSKCHhGNGSFQCGVCACHPGH 390
Cdd:pfam18372   1 CEKQAEPNSPRCS-GNGTFVCGVCVCNPGY 29
 
Name Accession Description Interval E-value
INB smart00187
Integrin beta subunits (N-terminal portion of extracellular region); Portion of beta integrins ...
 21-359 0e+00

Integrin beta subunits (N-terminal portion of extracellular region); Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).


Pssm-ID: 197563 [Multi-domain]  Cd Length: 423  Bit Score: 576.96  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893    21 GGAQTLQVHVRQTEDYPVDLYYLMDLSASMDDDLNTIKELGSRLSKEMSKLTSNFRLGFGSFVEKPVSPFVKTTPEEIAN 100
Cdd:smart00187  83 GEPQNFTLTVRQAEDYPVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTHPEKLEN 162

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   101 PCSSIPYFCLPTFGFKHILPLTNDAERFNEIVKNQKISANIDTPEGGFDAIMQAAVCKEKIGWRNDSLHLLVFVSDADSH 180
Cdd:smart00187 163 PCPNYNKTCEPPYGFKHVLSLTDDTDEFNEEVGKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFH 242

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   181 FGMDSKLAGIVIPNDGLCHLDSKNEYSMSTVLEYPTIGQLIDKLVQNNVLLIFAVTQEQVHLYENYAKLIPGATVGLLQK 260
Cdd:smart00187 243 FAGDGKLGGIVTPNDGQCHLDNNGEYTMSTTQDYPSIGQLAQKLAENNINPIFAVTKKQVSLYKELSALIPGSSVGELSE 322

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   261 DSGNILQLIISAYEELRSEVELEVLGDTEGLNLSFTAICNNGTLFQHQKKCSHMKVGDTASFSVTVNIPHC--ERRSRHI 338
Cdd:smart00187 323 DSSNVVELIKDAYNKISSRVELEDNALPEGVSVTYTSSCPGGVTGPGTRKCEGVKIGDTVSFEVTVTATKCppEDQEQSI 402

                          330       340
                   ....*....|....*....|.
gi 538916893   339 IIKPVGLGDALELLVSPECNC 359
Cdd:smart00187 403 RIRPVGFSETLEVEVTFLCDC 423
Integrin_beta pfam00362
Integrin beta chain VWA domain; Integrins have been found in animals and their homologs have ...
 34-280 4.19e-168

Integrin beta chain VWA domain; Integrins have been found in animals and their homologs have also been found in cyanobacteria, probably due to horizontal gene transfer. This domain corresponds to the integrin beta VWA domain.


Pssm-ID: 459781  Cd Length: 248  Bit Score: 481.23  E-value: 4.19e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893   34 EDYPVDLYYLMDLSASMDDDLNTIKELGSRLSKEMSKLTSNFRLGFGSFVEKPVSPFVKTTPEEIANPCSSIPYFCLPTF 113
Cdd:pfam00362   2 EDYPVDLYYLMDLSYSMKDDLDNLKKLGNDLAEEMRNITSNFRLGFGSFVDKPVMPYISTRPEKLKNPCPGENEQCDPPF 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  114 GFKHILPLTNDAERFNEIVKNQKISANIDTPEGGFDAIMQAAVCKEKIGWRNDSLHLLVFVSDADSHFGMDSKLAGIVIP 193
Cdd:pfam00362  82 GFRHVLSLTNDIEEFTEEVQKQRISGNLDAPEGGFDAIMQAAVCKDQIGWRNEARRLLVFSTDAGFHYAGDGKLAGIVTP 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  194 NDGLCHLDSKNEYSMSTVLEYPTIGQLIDKLVQNNVLLIFAVTQEQVHLYENYAKLIPGATVGLLQKDSGNILQLIISAY 273
Cdd:pfam00362 162 NDGQCHLDSNGEYTKSTEQDYPSLGQLVRKLSENNINPIFAVTEEQYSLYEKLSKLIPGSSVGVLSEDSSNIVQLIKEAY 241


                  ....*..
gi 538916893  274 EELRSEV 280
Cdd:pfam00362 242 EKIRSKV 248
Integrin_B_tail pfam07965
Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are ...
 529-611 2.66e-20

Integrin beta tail domain; This is the beta tail domain of the Integrin protein. Integrins are receptors which are involved in cell-cell and cell-extracellular matrix interactions.


Pssm-ID: 462325  Cd Length: 84  Bit Score: 85.79  E-value: 2.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 538916893  529 CNSKRSCIECHLSAAGQ-AREECVDKCKLAGATISEEEDFSKDGSVSCSLQGENECLITFLITTDNEGKTIIHSINEKDC 607
Cdd:pfam07965   1 CEEKKSCVECQAFKTGPlKEKNCSRNCKFEIILVEVLKEDEEPGAVLCSFKDEDDCWFTFTYYEDESGKYVVHVQKEREC 80


                  ....
gi 538916893  608 PKPP 611
Cdd:pfam07965  81 PPGP 84
Integrin_b_cyt pfam08725
Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which ...
 639-679 1.01e-17

Integrin beta cytoplasmic domain; Integrins are a group of transmembrane proteins which function as extracellular matrix receptors and in cell adhesion. Integrins are ubiquitously expressed and are heterodimeric, each composed of an alpha and beta subunit. Several variations of the the alpha and beta subunits exist, and association of different alpha and beta subunits can have different a different binding specificity. This domain corresponds to the cytoplasmic domain of the beta subunit.


Pssm-ID: 462580  Cd Length: 41  Bit Score: 76.83  E-value: 1.01e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 538916893  639 VSFHDRKEVAKFEAERSKAKWQTGTNPLYRGSTSTFKNVTY 679
Cdd:pfam08725   1 TTIHDRREYAKFEKERKNAKWTTGENPLYKSATTTFENPTY 41
I-EGF_1 pfam18372
Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in ...
 361-390 4.57e-08

Integrin beta epidermal growth factor like domain 1; This is the I-EGF 1 domain found in several integrin betas such as integrin beta 1-7. Structural analysis reveal an epidermal growth factor-like (I-EGF) domains 1 and 2. EGF1 lacks one disulfide (C2-C4) relative to the integrin EGF 2, 3, and 4 domains, this allows the C-terminal end of EGF1 to flex remarkably relative to its N-terminal end.


Pssm-ID: 465729  Cd Length: 29  Bit Score: 49.03  E-value: 4.57e-08
                          10        20        30
                  ....*....|....*....|....*....|
gi 538916893  361 CQKEVEVNSSKCHhGNGSFQCGVCACHPGH 390
Cdd:pfam18372   1 CEKQAEPNSPRCS-GNGTFVCGVCVCNPGY 29
 
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