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Conserved domains on  [gi|209915570|ref|NP_001129601|]
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amyloid-beta precursor protein isoform e precursor [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
APP_E2 pfam12925
E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains ...
 235-417 1.37e-98

E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains of the amyloid precursor protein. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures.E 2 can reversibly dimerize in solution, and the dimerization occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulfate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface.


:

Pssm-ID: 463752  Cd Length: 190  Bit Score: 299.26  E-value: 1.37e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  235 TTAASTPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKAD-------KKAVIQHFQEK 307
Cdd:pfam12925   1 TTTPPPTDAVDPYFEHPDPRNEHESFKKAKKRLEEKHRERMTKVMKEWEEAEERYQNLPKADpkaaekfKKAMTARFQET 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  308 VESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQAVPPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMV 387
Cdd:pfam12925  81 VEALEEEAAAERQQLVETHQQRVEAHLNDRRRDALECYLQALQENPPNPHRILKALKKLLRAEQKDRRHTLRHYRHLLAS 160

                         170       180       190
                  ....*....|....*....|....*....|
gi 209915570  388 DPKKAAQIRSQVMTHLRVIYERMNQSLSLL 417
Cdd:pfam12925 161 DPEKAEQMKPQVLTHLRVIDRRMNQSLTLL 190
A4_EXTRA super family cl30964
amyloid A4; amyloid A4 precursor of Alzheimers disease
 19-132 2.70e-77

amyloid A4; amyloid A4 precursor of Alzheimers disease


The actual alignment was detected with superfamily member smart00006:

Pssm-ID: 128326 [Multi-domain]  Cd Length: 165  Bit Score: 243.18  E-value: 2.70e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570    19 EVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKFLHQERMDVCETHLHWHTVA 98
Cdd:smart00006  52 KAYPELQITNVVEASQPVTIQNWCRRGRSQCKTHHHFVIPFRCLVGEFVSDALLVPEGCQFLHQERMDQCETHQRWHQEA 131

                           90       100       110
                   ....*....|....*....|....*....|....
gi 209915570    99 KETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCP 132
Cdd:smart00006 132 KEACSEKGMILHSFGMLLPCGIDKFRGVEFVCCP 165
JMTM_Notch_APP super family cl41775
juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins; The ...
 562-636 4.89e-31

juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins; The substrates of gamma-secretase include amyloid precursor protein (APP) and the Notch receptor. APP, also called APPI, or Alzheimer disease amyloid protein (ABPP), or amyloid precursor protein, or amyloid-beta A4 protein, or cerebral vascular amyloid peptide (CVAP), or PreA4, or protease nexin-II (PN-II), functions as a cell surface receptor and performs physiological functions on the surface of neurons relevant to neurite growth, neuronal adhesion and axonogenesis. Notch proteins are a family of type-1 transmembrane proteins that form a core component of the Notch signaling pathway. They operate in a variety of different tissues and play a role in a variety of developmental processes by controlling cell fate decisions. Successive cleavage of the APP carboxyl-terminal fragment generates amyloid-beta (Abeta) peptides of varying lengths. Accumulation of Abeta peptides such as Abeta42 and Abeta43 leads to formation of amyloid plaques in the brain, a hallmark of Alzheimer's disease. Notch cleavage is involved in cell-fate determination during development and neurogenesis. The model corresponds to the juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins. It comprises a transmembrane helix (TM) with adjacent juxtamembrane (JM) regions. The JMTM domain is likely to be recognized by gamma-secretase in a similar fashion to both Notch and APP family proteins.


The actual alignment was detected with superfamily member cd21709:

Pssm-ID: 425406  Cd Length: 81  Bit Score: 115.79  E-value: 4.89e-31
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 209915570 562 EDVGSNKGAIIGLMVGGVVIATVIVITLVMLKKKQYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFEQ 636
Cdd:cd21709    7 DDFSFSSSALIGLLVIAVAIATVIVISLVLLRKRQYGTISHGIVEVDPMLTPEERHLNKMQNHGYENPTYKYLEQ 81
 
Name Accession Description Interval E-value
APP_E2 pfam12925
E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains ...
 235-417 1.37e-98

E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains of the amyloid precursor protein. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures.E 2 can reversibly dimerize in solution, and the dimerization occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulfate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface.


Pssm-ID: 463752  Cd Length: 190  Bit Score: 299.26  E-value: 1.37e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  235 TTAASTPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKAD-------KKAVIQHFQEK 307
Cdd:pfam12925   1 TTTPPPTDAVDPYFEHPDPRNEHESFKKAKKRLEEKHRERMTKVMKEWEEAEERYQNLPKADpkaaekfKKAMTARFQET 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  308 VESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQAVPPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMV 387
Cdd:pfam12925  81 VEALEEEAAAERQQLVETHQQRVEAHLNDRRRDALECYLQALQENPPNPHRILKALKKLLRAEQKDRRHTLRHYRHLLAS 160

                         170       180       190
                  ....*....|....*....|....*....|
gi 209915570  388 DPKKAAQIRSQVMTHLRVIYERMNQSLSLL 417
Cdd:pfam12925 161 DPEKAEQMKPQVLTHLRVIDRRMNQSLTLL 190
A4_EXTRA smart00006
amyloid A4; amyloid A4 precursor of Alzheimers disease
 19-132 2.70e-77

amyloid A4; amyloid A4 precursor of Alzheimers disease


Pssm-ID: 128326 [Multi-domain]  Cd Length: 165  Bit Score: 243.18  E-value: 2.70e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570    19 EVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKFLHQERMDVCETHLHWHTVA 98
Cdd:smart00006  52 KAYPELQITNVVEASQPVTIQNWCRRGRSQCKTHHHFVIPFRCLVGEFVSDALLVPEGCQFLHQERMDQCETHQRWHQEA 131

                           90       100       110
                   ....*....|....*....|....*....|....
gi 209915570    99 KETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCP 132
Cdd:smart00006 132 KEACSEKGMILHSFGMLLPCGIDKFRGVEFVCCP 165
APP_N pfam02177
Amyloid A4 N-terminal heparin-binding; This N-terminal domain of APP, amyloid precursor ...
 19-75 1.14e-32

Amyloid A4 N-terminal heparin-binding; This N-terminal domain of APP, amyloid precursor protein, is the heparin-binding domain of the protein. this region is also responsible for stimulation of neurite outgrowth. The structure reveals both a highly charged basic surface that may interact with glycosaminoglycans in the brain and an abutting hydrophobic surface that is proposed to play an important functional role such as in dimerization or ligand-binding. Structural similarities with cysteine-rich growth factors, taken together with its known growth-promoting properties, suggest the APP N-terminal domain could function as a growth factor in vivo.


Pssm-ID: 460474  Cd Length: 100  Bit Score: 121.26  E-value: 1.14e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 209915570   19 EVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHpHFVIPYRCLVGEFVSDALLVPD 75
Cdd:pfam02177  45 KVYPELDITNIVEASQPVTIDNWCKKGRKKCKGH-HIVKPYRCLVGEFVSDALLVPE 100
JMTM_APLP2 cd21709
juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 2 (APLP-2) and ...
 562-636 4.89e-31

juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 2 (APLP-2) and similar proteins; Amyloid-like protein 2 (APLP-2), also called amyloid protein homolog (APPH), or CDEI box-binding protein (CDEBP), may play a role in the regulation of hemostasis. Its soluble form may have inhibitory properties towards coagulation factors. APLP-2 may bind to the DNA 5'-GTCACATG-3'(CDEI box). It inhibits trypsin, chymotrypsin, plasmin, factor XIA, and plasma and glandular kallikrein. This model corresponds to juxtamembrane and transmembrane (JMTM) domain of APLP-2, which consists of the intact transmembrane (TM) domain with adjacent N-terminal juxtamembrane (JM) region.


Pssm-ID: 411992  Cd Length: 81  Bit Score: 115.79  E-value: 4.89e-31
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 209915570 562 EDVGSNKGAIIGLMVGGVVIATVIVITLVMLKKKQYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFEQ 636
Cdd:cd21709    7 DDFSFSSSALIGLLVIAVAIATVIVISLVLLRKRQYGTISHGIVEVDPMLTPEERHLNKMQNHGYENPTYKYLEQ 81
APP_amyloid pfam10515
Beta-amyloid precursor protein C-terminus; This is the amyloid, C-terminal, protein of the ...
 585-635 7.79e-24

Beta-amyloid precursor protein C-terminus; This is the amyloid, C-terminal, protein of the beta-Amyloid precursor protein (APP) which is a conserved and ubiquitous transmembrane glycoprotein strongly implicated in the pathogenesis of Alzheimer's disease but whose normal biological function is unknown. The C-terminal 100 residues are released and aggregate into amyloid deposits which are strongly implicated in the pathology of Alzheimer's disease plaque-formation. The domain is associated with family A4_EXTRA, pfam02177, further towards the N-terminus.


Pssm-ID: 463129  Cd Length: 52  Bit Score: 94.32  E-value: 7.79e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 209915570  585 IVITLVMLKKK-QYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFE 635
Cdd:pfam10515   1 IVVGMALLRRRaARSPSAHGFVEVDPNVTPEERHVANMQVNGYENPTYKYFE 52
PRK05035 PRK05035
electron transport complex protein RnfC; Provisional
 262-393 3.15e-03

electron transport complex protein RnfC; Provisional


Pssm-ID: 235334 [Multi-domain]  Cd Length: 695  Bit Score: 40.70  E-value: 3.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570 262 KAKERLEAKhRERMsqvmrEWEEAERQAK------NLPKADKKAViqhfQEKVESLEQEAANERQQLVETHMAR-----V 330
Cdd:PRK05035 450 EAKARFEAR-QARL-----EREKAAREARhkkaaeARAAKDKDAV----AAALARVKAKKAAATQPIVIKAGARpdnsaV 519

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 209915570 331 EAMLNDRRRLALENYITALQAVPPRPRhvfnmlKKYV-----RAEQKDRQHTLKHFEHVRMVDPKKAA 393
Cdd:PRK05035 520 IAAREARKAQARARQAEKQAAAAADPK------KAAVaaaiaRAKAKKAAQQAANAEAEEEVDPKKAA 581
 
Name Accession Description Interval E-value
APP_E2 pfam12925
E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains ...
 235-417 1.37e-98

E2 domain of amyloid precursor protein; The E2 domain is the largest of the conserved domains of the amyloid precursor protein. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures.E 2 can reversibly dimerize in solution, and the dimerization occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulfate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface.


Pssm-ID: 463752  Cd Length: 190  Bit Score: 299.26  E-value: 1.37e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  235 TTAASTPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKAD-------KKAVIQHFQEK 307
Cdd:pfam12925   1 TTTPPPTDAVDPYFEHPDPRNEHESFKKAKKRLEEKHRERMTKVMKEWEEAEERYQNLPKADpkaaekfKKAMTARFQET 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  308 VESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQAVPPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMV 387
Cdd:pfam12925  81 VEALEEEAAAERQQLVETHQQRVEAHLNDRRRDALECYLQALQENPPNPHRILKALKKLLRAEQKDRRHTLRHYRHLLAS 160

                         170       180       190
                  ....*....|....*....|....*....|
gi 209915570  388 DPKKAAQIRSQVMTHLRVIYERMNQSLSLL 417
Cdd:pfam12925 161 DPEKAEQMKPQVLTHLRVIDRRMNQSLTLL 190
A4_EXTRA smart00006
amyloid A4; amyloid A4 precursor of Alzheimers disease
 19-132 2.70e-77

amyloid A4; amyloid A4 precursor of Alzheimers disease


Pssm-ID: 128326 [Multi-domain]  Cd Length: 165  Bit Score: 243.18  E-value: 2.70e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570    19 EVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKFLHQERMDVCETHLHWHTVA 98
Cdd:smart00006  52 KAYPELQITNVVEASQPVTIQNWCRRGRSQCKTHHHFVIPFRCLVGEFVSDALLVPEGCQFLHQERMDQCETHQRWHQEA 131

                           90       100       110
                   ....*....|....*....|....*....|....
gi 209915570    99 KETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCP 132
Cdd:smart00006 132 KEACSEKGMILHSFGMLLPCGIDKFRGVEFVCCP 165
APP_N pfam02177
Amyloid A4 N-terminal heparin-binding; This N-terminal domain of APP, amyloid precursor ...
 19-75 1.14e-32

Amyloid A4 N-terminal heparin-binding; This N-terminal domain of APP, amyloid precursor protein, is the heparin-binding domain of the protein. this region is also responsible for stimulation of neurite outgrowth. The structure reveals both a highly charged basic surface that may interact with glycosaminoglycans in the brain and an abutting hydrophobic surface that is proposed to play an important functional role such as in dimerization or ligand-binding. Structural similarities with cysteine-rich growth factors, taken together with its known growth-promoting properties, suggest the APP N-terminal domain could function as a growth factor in vivo.


Pssm-ID: 460474  Cd Length: 100  Bit Score: 121.26  E-value: 1.14e-32
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 209915570   19 EVYPELQITNVVEANQPVTIQNWCKRGRKQCKTHpHFVIPYRCLVGEFVSDALLVPD 75
Cdd:pfam02177  45 KVYPELDITNIVEASQPVTIDNWCKKGRKKCKGH-HIVKPYRCLVGEFVSDALLVPE 100
APP_Cu_bd pfam12924
Copper-binding of amyloid precursor, CuBD; This short domain, part of the extra-cellular ...
 77-132 1.54e-31

Copper-binding of amyloid precursor, CuBD; This short domain, part of the extra-cellular N-terminus of the amyloid precursor protein, APP, can bind both copper and zinc, CuBD. The structure of Cu2+-bound CuBD reveals that the metal ligands are His147, His151, Tyr168 and two water molecules, which are arranged in a square pyramidal geometry. The structure of Cu+-bound CuBD is almost identical to the Cu2+-bound structure except for the loss of one of the water ligands. The geometry of the site is unfavourable for Cu+, thus providing a mechanism by which CuBD could readily transfer Cu ions to other proteins.


Pssm-ID: 463751  Cd Length: 56  Bit Score: 116.61  E-value: 1.54e-31
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 209915570   77 CKFLHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCP 132
Cdd:pfam12924   1 CKFDHKHNMDVCESHQHWHATAKEACAARGMVLHSFGMLLPCGIDLFTGVEFVCCP 56
JMTM_APLP2 cd21709
juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 2 (APLP-2) and ...
 562-636 4.89e-31

juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 2 (APLP-2) and similar proteins; Amyloid-like protein 2 (APLP-2), also called amyloid protein homolog (APPH), or CDEI box-binding protein (CDEBP), may play a role in the regulation of hemostasis. Its soluble form may have inhibitory properties towards coagulation factors. APLP-2 may bind to the DNA 5'-GTCACATG-3'(CDEI box). It inhibits trypsin, chymotrypsin, plasmin, factor XIA, and plasma and glandular kallikrein. This model corresponds to juxtamembrane and transmembrane (JMTM) domain of APLP-2, which consists of the intact transmembrane (TM) domain with adjacent N-terminal juxtamembrane (JM) region.


Pssm-ID: 411992  Cd Length: 81  Bit Score: 115.79  E-value: 4.89e-31
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 209915570 562 EDVGSNKGAIIGLMVGGVVIATVIVITLVMLKKKQYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFEQ 636
Cdd:cd21709    7 DDFSFSSSALIGLLVIAVAIATVIVISLVLLRKRQYGTISHGIVEVDPMLTPEERHLNKMQNHGYENPTYKYLEQ 81
JMTM_APLP1 cd21708
juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 1 (APLP-1) and ...
 564-636 1.12e-28

juxtamembrane and transmembrane (JMTM) domain found in amyloid-like protein 1 (APLP-1) and similar proteins; Amyloid-like protein 1 (APLP-1), also called APLP, may play a role in postsynaptic function. It couples to JIP signal transduction through C-terminal binding. APLP-1 may interact with cellular G-protein signaling pathways. It can regulate neurite outgrowth through binding to components of the extracellular matrix such as heparin and collagen I. This model corresponds to the juxtamembrane and transmembrane (JMTM) domain of APLP-1, which consists of the intact transmembrane (TM) domain with adjacent N-terminal juxtamembrane (JM) region.


Pssm-ID: 411991  Cd Length: 85  Bit Score: 109.53  E-value: 1.12e-28
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 209915570 564 VGSNKGAIIGLMVGGVVIATVIVITLVMLKKKQYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFEQ 636
Cdd:cd21708   13 VTFNRGALIGLLVVAVAVAMVIVISLLLVRRKPYGTISHGIVEVDPMLTPEERQLSKMQNHGYENPTYRFLEE 85
APP_amyloid pfam10515
Beta-amyloid precursor protein C-terminus; This is the amyloid, C-terminal, protein of the ...
 585-635 7.79e-24

Beta-amyloid precursor protein C-terminus; This is the amyloid, C-terminal, protein of the beta-Amyloid precursor protein (APP) which is a conserved and ubiquitous transmembrane glycoprotein strongly implicated in the pathogenesis of Alzheimer's disease but whose normal biological function is unknown. The C-terminal 100 residues are released and aggregate into amyloid deposits which are strongly implicated in the pathology of Alzheimer's disease plaque-formation. The domain is associated with family A4_EXTRA, pfam02177, further towards the N-terminus.


Pssm-ID: 463129  Cd Length: 52  Bit Score: 94.32  E-value: 7.79e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 209915570  585 IVITLVMLKKK-QYTSIHHGVVEVDAAVTPEERHLSKMQQNGYENPTYKFFE 635
Cdd:pfam10515   1 IVVGMALLRRRaARSPSAHGFVEVDPNVTPEERHVANMQVNGYENPTYKYFE 52
JMTM_APP cd21707
juxtamembrane and transmembrane (JMTM) domain found in amyloid-beta precursor protein (APP) ...
 556-595 2.22e-17

juxtamembrane and transmembrane (JMTM) domain found in amyloid-beta precursor protein (APP) and similar proteins; Amyloid-beta precursor protein (APP), also called APPI, ABPP, Alzheimer disease amyloid protein, amyloid precursor protein, amyloid-beta A4 protein, cerebral vascular amyloid peptide (CVAP), PreA4, or protease nexin-II (PN-II), functions as a cell surface receptor and performs physiological functions on the surface of neurons relevant to neurite growth, neuronal adhesion and axonogenesis. Amyloid-beta peptides are lipophilic metal chelators with metal-reducing activity; they bind transient metals such as copper, zinc and iron. This model corresponds to juxtamembrane and transmembrane (JMTM) domain of APP, which consists of the intact transmembrane (TM) domain with adjacent N-terminal juxtamembrane (JM) region. More than half of all familial APP mutations of Alzheimer's disease are seen in its JMTM domain region.


Pssm-ID: 411990  Cd Length: 40  Bit Score: 75.76  E-value: 2.22e-17
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 209915570 556 KLVFFAEDVGSNKGAIIGLMVGGVVIATVIVITLVMLKKK 595
Cdd:cd21707    1 KLVFFAEDVGSNKGAIIGLMVGGVVIATVIVITLVMLKKK 40
Beta-APP pfam03494
Beta-amyloid peptide (beta-APP);
545-582 1.97e-16

Beta-amyloid peptide (beta-APP);


Pssm-ID: 427335  Cd Length: 39  Bit Score: 72.95  E-value: 1.97e-16
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 209915570  545 RHDSGYEVHHQKLVFFAEDVGSNKGAIIGLMVGGVVIA 582
Cdd:pfam03494   2 RQSAGYEVYHEKLVFLAEDMGSNKGAIIGLMVGGVVIA 39
JMTM_APP_like cd21699
juxtamembrane and transmembrane (JMTM) domain found in the amyloid-beta precursor protein (APP) ...
 556-595 5.87e-10

juxtamembrane and transmembrane (JMTM) domain found in the amyloid-beta precursor protein (APP) family; The amyloid-beta precursor protein (APP) family includes amyloid-like proteins APLP-1 and APLP-2. APP (also called ABPP, APPI, Alzheimer disease (AD) amyloid protein, amyloid precursor protein, amyloid-beta A4 protein, cerebral vascular amyloid peptide (CVAP), PreA4, or protease nexin-II (PN-II)) functions as a cell surface receptor and performs physiological functions on the surface of neurons relevant to neurite growth, neuronal adhesion and axonogenesis. Amyloid-beta peptides are lipophilic metal chelators with metal-reducing activity; they bind transient metals such as copper, zinc and iron. APLP-1, also called APLP, may play a role in postsynaptic function. It couples to JIP signal transduction through C-terminal binding. APLP-1 may interact with cellular G-protein signaling pathways. It can regulate neurite outgrowth through binding to components of the extracellular matrix such as heparin and collagen I. APLP-2 (also called amyloid protein homolog (APPH), or CDEI box-binding protein (CDEBP)) may play a role in the regulation of hemostasis. Its soluble form may have inhibitory properties towards coagulation factors. APLP-2 may bind to the DNA 5'-GTCACATG-3'(CDEI box). It inhibits trypsin, chymotrypsin, plasmin, factor XIA, and plasma and glandular kallikrein. This model corresponds to juxtamembrane and transmembrane (JMTM) domain of APP, which consists of the intact transmembrane (TM) domain with adjacent N-terminal juxtamembrane (JM) region. More than half of all familial APP mutations of Alzheimer's disease are seen in its JMTM domain region.


Pssm-ID: 411982  Cd Length: 41  Bit Score: 54.60  E-value: 5.87e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 209915570 556 KLVFFAEDVG-SNKGAIIGLMVGGVVIATVIVITLVMLKKK 595
Cdd:cd21699    1 ERVFLAEDSSnSSFGAVIGLAVGGVAVAIVIVVAVVMLRRR 41
JMTM_Notch_APP cd21700
juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins; The ...
 557-595 1.05e-06

juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins; The substrates of gamma-secretase include amyloid precursor protein (APP) and the Notch receptor. APP, also called APPI, or Alzheimer disease amyloid protein (ABPP), or amyloid precursor protein, or amyloid-beta A4 protein, or cerebral vascular amyloid peptide (CVAP), or PreA4, or protease nexin-II (PN-II), functions as a cell surface receptor and performs physiological functions on the surface of neurons relevant to neurite growth, neuronal adhesion and axonogenesis. Notch proteins are a family of type-1 transmembrane proteins that form a core component of the Notch signaling pathway. They operate in a variety of different tissues and play a role in a variety of developmental processes by controlling cell fate decisions. Successive cleavage of the APP carboxyl-terminal fragment generates amyloid-beta (Abeta) peptides of varying lengths. Accumulation of Abeta peptides such as Abeta42 and Abeta43 leads to formation of amyloid plaques in the brain, a hallmark of Alzheimer's disease. Notch cleavage is involved in cell-fate determination during development and neurogenesis. The model corresponds to the juxtamembrane and transmembrane (JMTM) domain found in Notch and APP family proteins. It comprises a transmembrane helix (TM) with adjacent juxtamembrane (JM) regions. The JMTM domain is likely to be recognized by gamma-secretase in a similar fashion to both Notch and APP family proteins.


Pssm-ID: 411983  Cd Length: 41  Bit Score: 45.47  E-value: 1.05e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 209915570 557 LVFFAEDVGSNKGAIIGLMVGGVVIATVIVITL--VMLKKK 595
Cdd:cd21700    1 LPFFALDDGSGKGAIIGLLVGAVVILLVFVITGglVAARKK 41
PRK05035 PRK05035
electron transport complex protein RnfC; Provisional
 262-393 3.15e-03

electron transport complex protein RnfC; Provisional


Pssm-ID: 235334 [Multi-domain]  Cd Length: 695  Bit Score: 40.70  E-value: 3.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570 262 KAKERLEAKhRERMsqvmrEWEEAERQAK------NLPKADKKAViqhfQEKVESLEQEAANERQQLVETHMAR-----V 330
Cdd:PRK05035 450 EAKARFEAR-QARL-----EREKAAREARhkkaaeARAAKDKDAV----AAALARVKAKKAAATQPIVIKAGARpdnsaV 519

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 209915570 331 EAMLNDRRRLALENYITALQAVPPRPRhvfnmlKKYV-----RAEQKDRQHTLKHFEHVRMVDPKKAA 393
Cdd:PRK05035 520 IAAREARKAQARARQAEKQAAAAADPK------KAAVaaaiaRAKAKKAAQQAANAEAEEEVDPKKAA 581
PRK14475 PRK14475
F0F1 ATP synthase subunit B; Provisional
 265-332 5.17e-03

F0F1 ATP synthase subunit B; Provisional


Pssm-ID: 184697 [Multi-domain]  Cd Length: 167  Bit Score: 38.38  E-value: 5.17e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 209915570 265 ERLEAKHRERMSQVMREWEEAERQAKNLPKADKKAVIQHFQEKVESLEqEAANERQQLVETHMARVEA 332
Cdd:PRK14475  54 QRLREEAQALLADVKAEREEAERQAAAMLAAAKADARRMEAEAKEKLE-EQIKRRAEMAERKIAQAEA 120
TPH pfam13868
Trichohyalin-plectin-homology domain; This family is a mixtrue of two different families of ...
 253-343 8.88e-03

Trichohyalin-plectin-homology domain; This family is a mixtrue of two different families of eukaryotic proteins. Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). The family is in the trichohyalin-plectin-homology domain.


Pssm-ID: 464007 [Multi-domain]  Cd Length: 341  Bit Score: 38.75  E-value: 8.88e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 209915570  253 DENEHAHFQKAKERLEAKHRERMS------QVMREWEEAERQAKNLPKADKKAVIQHFQEKVEsLEQEAANERQQLVETH 326
Cdd:pfam13868 213 EEQERKERQKEREEAEKKARQRQElqqareEQIELKERRLAEEAEREEEEFERMLRKQAEDEE-IEQEEAEKRRMKRLEH 291

                          90
                  ....*....|....*..
gi 209915570  327 MARVEAMLNDRRRLALE 343
Cdd:pfam13868 292 RRELEKQIEEREEQRAA 308
 
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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