Conserved Protein Domain Family
CAP_ED

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cd00038: CAP_ED 
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effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of the structural integrity of the beta-barrel; CooA is a homodimeric transcription factor that belongs to CAP family; cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain; cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain; cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section; also found in vertebrate cyclic nucleotide-gated ion-channels
Statistics
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PSSM-Id: 237999
View PSSM: cd00038
Aligned: 292 rows
Threshold Bit Score: 43.0834
Threshold Setting Gi: 1075613
Created: 1-Nov-2000
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
Hierarchy
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ligand bindingflexible hinge
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:

cd00038 is part of a hierarchy of related CD models.
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cd00038 is a member of the superfamily cl00047.
cd00038:CAP_ED1FT9 A1564132712003193771020915602464117530816578031723203315896579765740113139201589478915791830116971715612794120623158889141347553717068817443952179875771202043989821567629432531961754490917546002584857113931585154126208073021322161250051202031347549312020516262801281710162630701240048985798217988035547824416264406159662411347318215888379134727401520794315600905156163044656007478360179390701626351914861869747001315674216168013021676375446274823387549800506156392531580586011754391RGS  62268721252201123098740012072719291109602810101711596393125222622558162255835531239126984421CX4 A6225584150820521764781517539608173804656225587282775440013026422967297611134636596633911223208415387729166099981CX4 A11997861764781540012011096028115963931252226225581134636212644234553123915132441269844296633911223208415387729158269987476595172302772976112642296175396081738046562255866225588400129171377707495764112309872492588161269351589067813471089746982015599898156399797303201488540772914722317391786567519863708749913524937491805259729132872930641753872617544220134728251149319111969109968699748826293666677469671995572810443349152329918096577212967374458938896129421842156240027488024656237599557301100898583078150816936434751703069417542862152263701008650196651476969231748911015225983152259858131898132366661524229115239581171364547531135175554163992534504831163229956331348167584367512004730230259019146306501363661915077826765726116755887666566914917076172285301588983515964225746983013998561RUN A11464161161156171816528161414581468172277917448400744839979061015639083152080671075613161256611754902615595472162630317657401142857734661191798929214348602161256592501686113591827657401142857731755691716126410158433497477551250168817229523172295231723105074707576491809158411311560706115641304156403281559842974691417445972172317311723333117230168158073531722811474697861589417117432538811933216263110158896654585802458579915595724611808817231946162630001404119615890603145810215605964143491191567544588945405804936156739855804934120356834703016802795746975117549187134735891798635115966955158900111580665014279988748152415618214158351241723331834704374815451FT9 A1564132712003193771020915602464117530816578031723203315896579765740113139201589478915791830116971715612794120623158889141347553717068817443952179875771202043989821567629432531961754490917546002584857113931585154126208073021322161250051202031347549312020516262801281710162630701240048985798217988035547824416264406159662411347318215888379134727401520794315600905156163044656007478360179390701626351914861869747001315674216168013021676375446274823387549800506156392531580586011754391RGS  62268721252201123098740012072719291109602810101711596393125222622558162255835531239126984421CX4 A6225584150820521764781517539608173804656225587282775440013026422967297611134636596633911223208415387729166099981CX4 A11997861764781540012011096028115963931252226225581134636212644234553123915132441269844296633911223208415387729158269987476595172302772976112642296175396081738046562255866225588400129171377707495764112309872492588161269351589067813471089746982015599898156399797303201488540772914722317391786567519863708749913524937491805259729132872930641753872617544220134728251149319111969109968699748826293666677469671995572810443349152329918096577212967374458938896129421842156240027488024656237599557301100898583078150816936434751703069417542862152263701008650196651476969231748911015225983152259858131898132366661524229115239581171364547531135175554163992534504831163229956331348167584367512004730230259019146306501363661915077826765726116755887666566914917076172285301588983515964225746983013998561RUN A1146416116115617181652816141458146817227791744840074483997906101563908315208067107561316125661175490261559547216263031765740114285773466119179892921434860216125659250168611359182765740114285773175569171612641015843349747755125016881722952317229523172310507470757649180915841131156070611564130415640328155984297469141744597217231731172333311723016815807353172281147469786158941711743253881193321626311015889665458580245857991559572461180881723194616263000140411961589060314581021560596414349119156754458894540580493615673985580493412035683470301680279574697511754918713473589179863511596695515890011158066501427998874815241561821415835124172333183470437481545
cd00038 Sequence Cluster
cd00038 Sequence Cluster
Sub-family Hierarchy
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CD Hierarchy
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                              ##       
1RGS        162 ILESLdkweRLTVAdalePVQFEDGQKIVVQGEp-GDEFFIILEGSAAVLQrrseneefveVGRLGPSDYFGEiall-mn 239
1RUN_A        2 LGKPQtdptLEWFLshchIHKYPSKSTLIHQGEk-AETLYYIVKGSVAVLIkdeeg-kemiLSYLNQGDFIGElglfeeg 79
gi 15607061  14 PFSSLppssLENLSkvikVKYYPKGSEIFKKDEkpLEYLYVIRKGNVSLRSdg------veIDFLSEGDSFGFisli-td 86
gi 15890678 350 ILSRLtraeREKLAqsgsEREYRQGEVIVVEGQa-LPSMMIIRTGVVSMQHge------qeKRRLSPGDFFGEtgll-ag 421
gi 13471089 235 LFSALtdqeREALAetalVRTYRKGEILVREGEm-LQSLMIVRSGVVVRQRgeea--hpqeIGHLAPGDFFGEtgll-ag 310
gi 8347043    7 LLNALplpqRARLMelaqEVSFPEDDRIFEAGGr-ADRFWVIRSGAVSLTQqvtsl-qrvtVASLGVGDLLGWswlf-pp 83
gi 7469141   17 PYDTLprdeLAEVArsfrRMEFCAQALIYVHQTp-LGGLYLIKQGAVEITDgng-----glVSLLGPRNSFGErgll-rd 89
gi 15641304  25 PFDALpnerLPEIAqqieIAYFRKDTPIIGYKQa-ISDLYLVRSGAVEVYRrhg-----elYNRLTEGSLFGQmgll-tr 97
gi 17230168  30 PFNLLstaaIEQLTqkaqLLRYRMGQTIVVKETm-PAHVAILYEGQARLIGysynsaipdtIELLQPGAILGWvsll--r 106
gi 15640328  11 PFNRLtaeqQHQLRsaldVAYFRQRDVLIDAQHp-VTHLHILIKGTVEERSpdg----kevFAHYANDDLFDVramf--e 83
                        90       100       110
                ....*....|....*....|....*....|....*...
Feature 1         ###                                 
1RGS        240 rpRAATVVArgPLKCVKLDrPRFERVLgpcSDILKRNI 277
1RUN_A       80 qeRSAWVRAktACEVAEISyKKFRQLIqvnPDILMRLS 117
gi 15607061  87 spPSSTAVAetDVILYLIPkEVFKQLMekyPEFRNYFT 124
gi 15890678 422 mgEAYTLLAltRVTAYEIDqKSFARLIadrPAIAEEVT 459
gi 13471089 311 yrEPLTLRAvtQVVAYEIDqQSFAPLLlsrPEMAEELA 348
gi 8347043   84 yeWDFGAEAfsPVRAYEFEaASVLDLCerdPQLGIVLV 121
gi 7469141   90 glAATQARAtaQTVCLVLPtPSFKRLIetyPAFERFFN 127
gi 15641304  98 nqVSFAVTAieDTLLYCLPeALFHRLHqefDSFADFVE 135
gi 17230168 107 gvGCETAIAstEAVFLTIPsVIFQTLLkkeKAFNDALT 144
gi 15640328  84 elSKHQYMAleDTLSYLLPkSIFLQLYeqnGEFAAYFD 121

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